Papers that used NIH HPC (Biowulf) resources

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2025 to date (125 papers)

A Dataset of Medical Questions Paired with Automatically Generated Answers and Evidence-supported References Gupta, D; Bartels, D; Demner-Fushman, D; , Sci Data, DOI://10.1038/s41597-025-05233-z (2025)
EzSEA: an interactive web interface for enzyme sequence evolution analysis Jiang, AK; Zhao, J; Jiang, X; , Bioinform Adv, DOI://10.1093/bioadv/vbaf118 (2025)
Material properties of biomolecular condensates emerge from nanoscale dynamics Galvanetto, N; Ivanović, MT; Del Grosso, SA et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2424135122 (2025)
Tevenvirinae phages encode a family of LSm-like fold proteins Kim, J; Tai, CH; Livingston, NK et al. Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2025.05.028 (2025)
Optimization of the PROTAC linker region of the proteasome substrate receptor hRpn13 rationalized by structural modeling with molecular dynamics Lu, X; Sabbasani, VR; Hassan, B et al. J Biol Chem, DOI://10.1016/j.jbc.2025.108520 (2025)
SECONDGRAM: Self-conditioned diffusion with gradient manipulation for longitudinal MRI imputation Theodorou, B; Dadu, A; Nalls, M et al. Patterns (N Y), DOI://10.1016/j.patter.2025.101212 (2025)
Three Loci Affecting Variance of Body Mass Index in African Americans and Sub-Saharan Africans Shriner, D; Bentley, AR; Doumatey, AP et al. Genet Epidemiol, DOI://10.1002/gepi.70009 (2025)
TERT c.3150 G > C (p.K1050N): a founder Ashkenazi Jewish variant associated with telomere biology disorders de Andrade, KC; Pinto, EM; Zhao, T et al. NPJ Genom Med, DOI://10.1038/s41525-025-00501-8 (2025)
Differential tractography: an imaging marker for tissue degeneration in neurodegenerative diseases Lewis, CJ; Vardar, Z; Kühn, AL et al. Brain Commun, DOI://10.1093/braincomms/fcaf198 (2025)
apoCHARMM: High-performance molecular dynamics simulations on GPUs for advanced simulation methods Prasad, S; Aviat, F; Gonzales, JE; Brooks, BR; , J Chem Phys, DOI://10.1063/5.0264937 (2025)
An insight into the salivary gland content of the human body louse, Pediculus humanus Bland, DM; Lu, S; Mahmood, S; Ribeiro, JMC; , Sci Rep, DOI://10.1038/s41598-025-01412-5 (2025)
Germline PARN Variants in Telomere Biology Disorders and Challenges in Variant Curation Nurelegne, HT; Thompson, MB; de Andrade, KC et al. Mol Genet Genomic Med, DOI://10.1002/mgg3.70107 (2025)
Selective interactions at pre-replication complexes categorize baseline and dormant origins Thakur, BL; Redon, CE; Fu, H et al. Nat Commun, DOI://10.1038/s41467-025-59509-4 (2025)
SPP1 + macrophages cause exhaustion of tumor-specific T cells in liver metastases Trehan, R; Huang, P; Zhu, XB et al. Nat Commun, DOI://10.1038/s41467-025-59529-0 (2025)
APOBEC affects tumor evolution and age at onset of lung cancer in smokers Zhang, T; Sang, J; Hoang, PH et al. Nat Commun, DOI://10.1038/s41467-025-59923-8 (2025)
Structural Features of Glypicans and their Impact on Wnt Signaling in Cancer Tsao, HE; Ho, M; , Proteoglycan Res, DOI://10.1002/pgr2.70029 (2025)
Genetic risk for treatment resistant schizophrenia and corresponding variation in dopamine synthesis capacity and D2/3 receptor availability in healthy individuals Eisenberg, DP; Blackman, RK; Tietcheu, MG et al. Mol Psychiatry, DOI://10.1038/s41380-024-02873-2 (2025)
Transcriptional Heterogeneity and Differential Response of Rod Photoreceptor Pathway Uncovered by Single-Cell RNA Sequencing of the Aging Mouse Retina Campello, L; Brooks, MJ; Fadl, BR et al. Aging Cell, DOI://10.1111/acel.70001 (2025)
Mutations in the microexon splicing regulator srrm4 have minor phenotypic effects on zebrafish neural development Gupta, T; Margolin, G; Burgess, HA; , G3 (Bethesda), DOI://10.1093/g3journal/jkaf052 (2025)
Assessing DNA methylation detection for primary human tissue using Nanopore sequencing Genner, R; Akeson, S; Meredith, M et al. Genome Res, DOI://10.1101/gr.279159.124 (2025)
Activin A activation of Smad3 mitigates innate inflammation in mouse models of psoriasis and sepsis Gauthier, T; Lim, YJ; Jin, W et al. J Clin Invest, DOI://10.1172/JCI187063 (2025)
Brain functional connectivity and anatomical features as predictors of cognitive behavioral therapy outcome for anxiety in youths Zugman, A; Ringlein, GV; Finn, ES et al. Psychol Med, DOI://10.1017/S0033291724003131 (2025)
Topoisomerase 3b facilitates piRNA biogenesis to promote transposon silencing and germ cell development Lee, SK; Shen, W; Wen, W et al. Cell Rep, DOI://10.1016/j.celrep.2025.115495 (2025)
Deep learning analysis of hematoxylin and eosin-stained benign breast biopsies to predict future invasive breast cancer Saha, M; Abubakar, M; Pfeiffer, RM et al. JNCI Cancer Spectr, DOI://10.1093/jncics/pkaf037 (2025)
Lineage-specific CDK activity dynamics characterize early mammalian development Saykali, B; Tran, AD; Cornwell, JA et al. Cell Rep, DOI://10.1016/j.celrep.2025.115558 (2025)
mTOR Variants Activation Discovers PI3K-like Cryptic Pocket, Expanding Allosteric, Mutant-Selective Inhibitor Designs Liu, Y; Zhang, W; Jang, H; Nussinov, R; , J Chem Inf Model, DOI://10.1021/acs.jcim.4c02022 (2025)
Comprehensive genomic and evolutionary analysis of biofilm matrix clusters and proteins in the Vibrio genus Yang, Y; Yan, J; Olson, R; Jiang, X; , mSystems, DOI://10.1128/msystems.00060-25 (2025)
Nucleosome dynamics render heterochromatin accessible in living human cells Prajapati, HK; Xu, Z; Eriksson, PR; Clark, DJ; , Nat Commun, DOI://10.1038/s41467-025-59994-7 (2025)
Parp1 deletion rescues cerebellar hypotrophy in xrcc1 mutant zebrafish Semenova, SA; Nammi, D; Garrett, GB et al. Sci Rep, DOI://10.1038/s41598-025-01870-x (2025)
Hemifusomes and interacting proteolipid nanodroplets mediate multi-vesicular body formation Tavakoli, A; Hu, S; Ebrahim, S; Kachar, B; , Nat Commun, DOI://10.1038/s41467-025-59887-9 (2025)
Is Gauchian genotyping of GBA1 variants reliable? Tayebi, N; Lichtenberg, J; Hertz, E; Sidransky, E; , Commun Biol, DOI://10.1038/s42003-025-08059-y (2025)
Maternal asthma and newborn DNA methylation Pedersen, CT; Hoang, TT; Jin, J et al. Clin Epigenetics, DOI://10.1186/s13148-025-01858-4 (2025)
Hepatic immune environment differences among common mouse strains in models of MASH and liver cancer Huang, P; Rodriguez-Matos, FJ; Qi, J et al. JHEP Rep, DOI://10.1016/j.jhepr.2025.101380 (2025)
Complete sequencing of ape genomes Yoo, D; Rhie, A; Hebbar, P et al. Nature, DOI://10.1038/s41586-025-08816-3 (2025)
Allelic effects on KLHL17 expression underlie a pancreatic cancer genome-wide association signal at chr1p36.33 Connelly, KE; Hullin, K; Abdolalizadeh, E et al. Nat Commun, DOI://10.1038/s41467-025-59109-2 (2025)
Assessing large language model performance related to aging in genetic conditions Othman, AA; Flaharty, KA; Ledgister Hanchard, SE et al. NPJ Aging, DOI://10.1038/s41514-025-00226-z (2025)
The ESCRT protein CHMP5 promotes T cell leukemia by enabling BRD4-p300-dependent transcription Umphred-Wilson, K; Ratnayake, S; Tang, Q et al. Nat Commun, DOI://10.1038/s41467-025-59504-9 (2025)
iSoMAs: Finding isoform expression and somatic mutation associations in human cancers Tan, H; Gotea, V; Jaiswal, SK et al. PLoS Comput Biol, DOI://10.1371/journal.pcbi.1012847 (2025)
Sex-differentiated placental methylation and gene expression regulation has implications for neonatal traits and adult diseases Tekola-Ayele, F; Biedrzycki, RJ; Habtewold, TD et al. Nat Commun, DOI://10.1038/s41467-025-58128-3 (2025)
MYCN and KAT2A form a feedforward loop to drive an oncogenic transcriptional program in neuroblastoma Liu, Z; Hong, JJ; Zhang, X et al. Oncogenesis, DOI://10.1038/s41389-025-00557-2 (2025)
White matter integrity and motor function: a link between cerebral myelination and longitudinal changes in gait speed in aging Gong, Z; Faulkner, ME; Akhonda, MABS et al. Geroscience, DOI://10.1007/s11357-024-01392-w (2025)
Late-onset GM2 gangliosidosis: magnetic resonance imaging, diffusion tensor imaging, and correlational fiber tractography differentiate Tay-Sachs and Sandhoff diseases Lewis, CJ; Chipman, SI; Johnston, JM et al. J Neurol, DOI://10.1007/s00415-025-13091-3 (2025)
Defining essential charged residues in fibril formation of a lysosomal derived N-terminal α-synuclein truncation McGlinchey, RP; Ramos, S; Dimitriadis, EK et al. Nat Commun, DOI://10.1038/s41467-025-58899-9 (2025)
A Super Enhancer-Derived Enhancer RNA Acts Together with CTCF/Cohesin in Trans to Regulate Erythropoiesis Xie, B; Dean, A; , Genes (Basel), DOI://10.3390/genes16040389 (2025)
A Case for Automated Segmentation of MRI Data in Neurodegenerative Diseases: Type II GM1 Gangliosidosis Lewis, CJ; Johnston, JM; D'Souza, P et al. NeuroSci, DOI://10.3390/neurosci6020031 (2025)
Structural dissection of ergosterol metabolism reveals a pathway optimized for membrane phase separation Juarez-Contreras, I; Lopes, LJS; Holt, J et al. Sci Adv, DOI://10.1126/sciadv.adu7190 (2025)
Simulation and Quantitative Analysis of Spatial Centromere Distribution Patterns Keikhosravi, A; Guin, K; Pegoraro, G; Misteli, T; , Cells, DOI://10.3390/cells14070491 (2025)
STAT5B leukemic mutations, altering SH2 tyrosine 665, have opposing impacts on immune gene programs Lee, HK; Chen, J; Philips, RL et al. Life Sci Alliance, DOI://10.26508/lsa.202503222 (2025)
Prioritizing Parkinson's disease risk genes in genome-wide association loci Lange, LM; Cerquera-Cleves, C; Schipper, M et al. NPJ Parkinsons Dis, DOI://10.1038/s41531-025-00933-0 (2025)
Molecular basis of pyruvate transport and inhibition of the human mitochondrial pyruvate carrier Sichrovsky, M; Lacabanne, D; Ruprecht, JJ et al. Sci Adv, DOI://10.1126/sciadv.adw1489 (2025)
Noncanonical circRNA biogenesis driven by alpha and gamma herpesviruses Dremel, SE; Koparde, VN; Arbuckle, JH et al. EMBO J, DOI://10.1038/s44318-025-00398-0 (2025)
Analysis of polyclonal and monoclonal antibody to the influenza virus nucleoprotein in different oligomeric states Myers, ML; Conlon, MT; Gallagher, JR et al. Virus Res, DOI://10.1016/j.virusres.2025.199563 (2025)
Whole Genome Sequence of the gut commensal protist Tritrichomonas musculus isolated from laboratory mice Alves-Ferreira, EVC; Galac, MR; Lorenzi, HA et al. Sci Data, DOI://10.1038/s41597-025-04921-0 (2025)
Sex-specific attenuation of photoreceptor degeneration by reserpine in a rhodopsin P23H rat model of autosomal dominant retinitis pigmentosa Song, HB; Campello, L; Mondal, A et al. Elife, DOI://10.7554/eLife.103888 (2025)
Insights into the renal pathophysiology in Hermansky-Pudlak syndrome-1 from urinary extracellular vesicle proteomics and a new mouse model Maynard, DM; Gochuico, BR; Pri Chen, H et al. FEBS Lett, DOI://10.1002/1873-3468.15088 (2025)
Germline Pathogenic DROSHA Variants Are Linked to Pineoblastoma and Wilms Tumor Predisposition Fiorica, PN; Golmard, L; Kim, J et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-24-2785 (2025)
Diffuse astrocytoma, AYA-type, frequently MAPK-altered: report of 45 patients Singh, O; Dampier, C; Abdullaev, Z et al. Acta Neuropathol, DOI://10.1007/s00401-025-02873-8 (2025)
Investigating the association between human brainstem microstructural integrity and hypertension using magnetic resonance relaxometry Laporte, JP; Akhonda, MABS; Cortina, LE et al. Hypertens Res, DOI://10.1038/s41440-025-02114-1 (2025)
Role of charges in a dynamic disordered complex between an IDP and a folded domain Bugge, K; Sottini, A; Ivanović, MT et al. Nat Commun, DOI://10.1038/s41467-025-58374-5 (2025)
Spatial transcriptomics of the aging mouse brain reveals origins of inflammation in the white matter Wang, L; Cui, CY; Lee, CT et al. Nat Commun, DOI://10.1038/s41467-025-58466-2 (2025)
Finding Multiple Optimal Solutions to an Integer Linear Program by Random Perturbations of Its Objective Function Schulhof, N; Sukprasert, P; Ruppin, E et al. Algorithms, DOI://10.3390/a18030140 (2025)
Fast and accurate peak skin dose estimation method for interventional fluoroscopy patients Han, H; Streitmatter, SW; Kitahara, CM; Lee, C; , Med Phys, DOI://10.1002/mp.17667 (2025)
Hot beverage intake and oesophageal cancer in the UK Biobank: prospective cohort study Inoue-Choi, M; Ramirez, Y; O'Connell, C et al. Br J Cancer, DOI://10.1038/s41416-025-02953-2 (2025)
Disease-Associated Mutations of the STAT5B SH2 Domain Regulate Cytokine-Driven Enhancer Function and Mammary Development Lee, HK; Jankowski, J; Liu, C; Hennighausen, L; , J Mammary Gland Biol Neoplasia, DOI://10.1007/s10911-025-09582-8 (2025)
Comparative phenotypic and genotypic antimicrobial susceptibility surveillance in Achromobacter spp. through whole genome sequencing Ray, S; Flemming, LK; Scudder, CJ et al. Microbiol Spectr, DOI://10.1128/spectrum.02527-24 (2025)
Cognitive predictors and genetic moderators of employment outcomes in people with schizophrenia Blackman, RK; Dickinson, D; Gregory, MD et al. Schizophr Res Cogn, DOI://10.1016/j.scog.2025.100356 (2025)
AlphaFold2's training set powers its predictions of some fold-switched conformations Schafer, JW; Porter, LL; , Protein Sci, DOI://10.1002/pro.70105 (2025)
Brain asymmetry and its association with inattention and heritability during neurodevelopment Tomasi, D; Volkow, ND; , Transl Psychiatry, DOI://10.1038/s41398-025-03327-1 (2025)
Regulatory Plasticity of the Human Genome Srivastava, J; Ovcharenko, I; , Mol Biol Evol, DOI://10.1093/molbev/msaf050 (2025)
A sequence-specific RNA acetylation catalyst Thalalla Gamage, S; Howpay Manage, S; Sas-Chen, A et al. Nucleic Acids Res, DOI://10.1093/nar/gkaf217 (2025)
Mutations in the Staphylococcus aureus Global Regulator CodY confer tolerance to an interspecies redox-active antimicrobial Martini, AM; Alexander, SA; Khare, A; , PLoS Genet, DOI://10.1371/journal.pgen.1011610 (2025)
Noncoding function of super enhancer derived Cpox pre-mRNA in modulating neighbouring gene expression and chromatin interactions Xie, B; Dean, A; , RNA Biol, DOI://10.1080/15476286.2025.2475421 (2025)
Yeast poly(A)-binding protein (Pab1) controls translation initiation in vivo primarily by blocking mRNA decapping and decay Poonia, P; Valabhoju, V; Li, T et al. Nucleic Acids Res, DOI://10.1093/nar/gkaf143 (2025)
Retrospective assessment of clinical global impression of severity and change in GM1 gangliosidosis: a tool to score natural history data in rare disease cohorts Lewis, CJ; Johnston, JM; Zaragoza Domingo, S et al. Orphanet J Rare Dis, DOI://10.1186/s13023-025-03614-6 (2025)
Interleukin 35-producing B cells prolong the survival of GVHD mice by secreting exosomes with membrane-bound IL-35 and upregulating PD-1/LAG-3 checkpoint proteins Choi, JK; Mbanefo, EC; Yadav, MK et al. Theranostics, DOI://10.7150/thno.105069 (2025)
A statistical framework for analysis of trial-level temporal dynamics in fiber photometry experiments Loewinger, G; Cui, E; Lovinger, D; Pereira, F; , Elife, DOI://10.7554/eLife.95802 (2025)
A deep insight into the sialome of the house fly, Musca domestica, infected with the salivary gland hypertrophy virus (MdSGHV) Lu, S; Miller, N; Wilson, A et al. Sci Rep, DOI://10.1038/s41598-025-92569-6 (2025)
Molecular differences between young and mature stria vascularis from organotypic explants and transcriptomics Thulasiram, MR; Yamamoto, R; Olszewski, RT et al. iScience, DOI://10.1016/j.isci.2025.111832 (2025)
The Utility of Long-Read Sequencing in Diagnosing Early Onset Parkinson's Disease Daida, K; Yoshino, H; Malik, L et al. Ann Neurol, DOI://10.1002/ana.27155 (2025)
The Relations Among Anxiety, Movie-Watching, and in-Scanner Motion Kirk, PA; Qamar, P; Zugman, A et al. Hum Brain Mapp, DOI://10.1002/hbm.70163 (2025)
Cross-species and mammal-to-mammal transmission of clade 2.3.4.4b highly pathogenic avian influenza A/H5N1 with PB2 adaptations Pardo-Roa, C; Nelson, MI; Ariyama, N et al. Nat Commun, DOI://10.1038/s41467-025-57338-z (2025)
Sequence clustering confounds AlphaFold2 Schafer, JW; Lee, M; Chakravarty, D et al. Nature, DOI://10.1038/s41586-024-08267-2 (2025)
Transcriptional diversification in a human-adapting zoonotic pathogen drives niche-specific evolution Ghosh, S; Wu, CJ; Moller, AG et al. Nat Commun, DOI://10.1038/s41467-025-57331-6 (2025)
CRISPR screening identifies regulators of enhancer-mediated androgen receptor transcription in advanced prostate cancer Xiang, RR; Lee, SA; Tyndall, CF et al. Cell Rep, DOI://10.1016/j.celrep.2025.115312 (2025)
Structure of blood cell-specific tubulin and demonstration of dimer spacing compaction in a single protofilament Montecinos, F; Eren, E; Watts, NR et al. J Biol Chem, DOI://10.1016/j.jbc.2024.108132 (2025)
N-terminal fragment shedding contributes to signaling of the full-length adhesion receptor ADGRL3 Perry-Hauser, NA; Du Rand, JR; Lee, KH et al. J Biol Chem, DOI://10.1016/j.jbc.2025.108174 (2025)
RNA Pol-II transcripts in nucleolar associated domains of cancer cell nucleoli Chowdhury, SR; Shilpi, A; Felsenfeld, G; , Nucleus, DOI://10.1080/19491034.2025.2468597 (2025)
The c.119-123dup5bp mutation in human γC-crystallin destabilizes the protein and activates the unfolded protein response to cause highly variable cataracts Shah, MH; Vendra, VPR; Ostrowski, C et al. Sci Rep, DOI://10.1038/s41598-025-90977-2 (2025)
Nitric oxide inhibits ten-eleven translocation DNA demethylases to regulate 5mC and 5hmC across the genome Palczewski, MB; Kuschman, HP; Hoffman, BM et al. Nat Commun, DOI://10.1038/s41467-025-56928-1 (2025)
Gut microbiome shifts in adolescents after sleeve gastrectomy with increased oral-associated taxa and pro-inflammatory potential Akagbosu, CO; McCauley, KE; Namasivayam, S et al. Gut Microbes, DOI://10.1080/19490976.2025.2467833 (2025)
ProtPipe: A Multifunctional Data Analysis Pipeline for Proteomics and Peptidomics Li, Z; Weller, CA; Shah, S et al. Genomics Proteomics Bioinformatics, DOI://10.1093/gpbjnl/qzae083 (2025)
Tumor and blood B-cell abundance outperforms established immune checkpoint blockade response prediction signatures in head and neck cancer Chang, TG; Spathis, A; Schäffer, AA et al. Ann Oncol, DOI://10.1016/j.annonc.2024.11.008 (2025)
Estimation of mosaic loss of Y chromosome cell fraction with genotyping arrays lacking coverage in the pseudoautosomal region Zhou, W; Huang, WY; Freedman, ND; Machiela, M; , BMC Bioinformatics, DOI://10.1186/s12859-025-06076-6 (2025)
Exome sequencing in Asian populations identifies low-frequency and rare coding variation influencing Parkinson's disease risk Chew, EG; Liu, Z; Li, Z et al. Nat Aging, DOI://10.1038/s43587-024-00760-7 (2025)
The yeast genome is globally accessible in living cells Prajapati, HK; Eriksson, PR; Elizalde, PA et al. Nat Struct Mol Biol, DOI://10.1038/s41594-024-01318-2 (2025)
The ZFHX3 GGC Repeat Expansion Underlying Spinocerebellar Ataxia Type 4 has a Common Ancestral Founder Chen, Z; Alvarez Jerez, P; Anderson, C et al. Mov Disord, DOI://10.1002/mds.30077 (2025)
Next-Generation Sequencing-Based MSI Scoring Predicts Benefit in Mismatch Repair-Deficient Tumors Treated with Nivolumab: Follow-up on NCI-MATCH Arm Z1D Schoenfeld, JD; Azad, NS; Gross, J et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-24-0427 (2025)
Genetic regulation of TERT splicing affects cancer risk by altering cellular longevity and replicative potential Florez-Vargas, O; Ho, M; Hogshead, MH et al. Nat Commun, DOI://10.1038/s41467-025-56947-y (2025)
Acanthamoeba Infection in a Hematopoietic Cell Transplant Recipient: Challenges in Diagnosis, Management, and Source Identification Banerjee, CT; Conlan, S; Mostaghim, A et al. Transpl Infect Dis, DOI://10.1111/tid.14425 (2025)
Somatic copy number deletion of chromosome 22q in papillary thyroid carcinoma Lee, OW; Karyadi, DM; Hartley, SW et al. Eur Thyroid J, DOI://10.1530/ETJ-24-0235 (2025)
The intestinal microbiome and metabolome discern disease severity in cytotoxic T-lymphocyte-associated protein 4 deficiency Chandrasekaran, P; Krausz, M; Han, Y et al. Microbiome, DOI://10.1186/s40168-025-02028-7 (2025)
Measurable residual FLT3 tyrosine kinase domain mutations before allogeneic transplant for acute myeloid leukemia Hegde, PS; Andrew, G; Gui, G et al. Bone Marrow Transplant, DOI://10.1038/s41409-024-02444-7 (2025)
Measurable residual mutated IDH2 before allogeneic transplant for acute myeloid leukemia Gui, G; Ravindra, N; Hegde, PS et al. Bone Marrow Transplant, DOI://10.1038/s41409-024-02449-2 (2025)
Realistic extension of partial-body pediatric CT for whole-body organ dose estimation in radiotherapy patients Rafet, SM; Lee, C; Griffin, KT et al. Radiat Phys Chem Oxf Engl 1993, DOI://10.1016/j.radphyschem.2024.112194 (2025)
Determining structures of RNA conformers using AFM and deep neural networks Degenhardt, MFS; Degenhardt, HF; Bhandari, YR et al. Nature, DOI://10.1038/s41586-024-07559-x (2025)
Proteins with alternative folds reveal blind spots in AlphaFold-based protein structure prediction Chakravarty, D; Lee, M; Porter, LL; , Curr Opin Struct Biol, DOI://10.1016/j.sbi.2024.102973 (2025)
Cryo-electron tomography pipeline for plasma membranes Sun, WW; Michalak, DJ; Sochacki, KA et al. Nat Commun, DOI://10.1038/s41467-025-56045-z (2025)
Longitudinal maternal glycemia during pregnancy and placental epigenetic age acceleration Habtewold, TD; Wijesiriwardhana, P; Biedrzycki, RJ et al. Clin Epigenetics, DOI://10.1186/s13148-025-01825-z (2025)
Female germline expression of OVO transcription factor bridges Drosophila generations Benner, L; Muron, S; Wingfield, CL; Oliver, B; , G3 (Bethesda), DOI://10.1093/g3journal/jkae252 (2025)
Genome-first determination of the prevalence and penetrance of eight germline myeloid malignancy predisposition genes: a study of two population-based cohorts Hendricks, RM; Kim, J; Haley, JS et al. Leukemia, DOI://10.1038/s41375-024-02436-y (2025)
DNA methylation patterns are influenced by Pax3::Foxo1 expression and developmental lineage in rhabdomyosarcoma tumours forming in genetically engineered mouse models Sun, W; Hewitt, SM; Wright, H et al. J Pathol, DOI://10.1002/path.6386 (2025)
Nipah Virus-Associated Neuropathology in African Green Monkeys During Acute Disease and Convalescence Goldin, K; Liu, Y; Rosenke, R et al. J Infect Dis, DOI://10.1093/infdis/jiae300 (2025)
Convergent evolution of oxidized sugar metabolism in commensal and pathogenic microbes in the inflamed gut Levy, S; Jiang, AK; Grant, MR et al. Nat Commun, DOI://10.1038/s41467-025-56332-9 (2025)
Activity of the mammalian DNA transposon piggyBat from Myotis lucifugus is restricted by its own transposon ends Hickman, AB; Lannes, L; Furman, CM et al. Nat Commun, DOI://10.1038/s41467-024-55784-9 (2025)
Allosteric modulation of NF1 GAP: Differential distributions of catalytically competent populations in loss-of-function and gain-of-function mutants Xu, L; Jang, H; Nussinov, R; , Protein Sci, DOI://10.1002/pro.70042 (2025)
Abundant repressor binding sites in human enhancers are associated with the fine-tuning of gene regulation Song, W; Ovcharenko, I; , iScience, DOI://10.1016/j.isci.2024.111658 (2025)
A Comparative Genomic Analysis of Parathyroid Adenomas and Carcinomas Harboring Heterozygous Germline CDC73 Mutations Li, Y; Simonds, WF; Chen, H; , J Clin Endocrinol Metab, DOI://10.1210/clinem/dgae506 (2025)
Sherlock-Genome: an R Shiny application for genomic analysis and visualization Klein, A; Zhong, J; Landi, MT; Zhang, T; , BMC Genomics, DOI://10.1186/s12864-024-11147-8 (2025)
An orally available P1'-5-fluorinated Mpro inhibitor blocks SARS-CoV-2 replication without booster and exhibits high genetic barrier Higashi-Kuwata, N; Bulut, H; Hayashi, H et al. PNAS Nexus, DOI://10.1093/pnasnexus/pgae578 (2025)
High-resolution analysis of human centromeric chromatin Melters, DP; Bui, M; Rakshit, T et al. Life Sci Alliance, DOI://10.26508/lsa.202402819 (2025)
CRISPR-based dissection of miRNA binding sites using isogenic cell lines is hampered by pervasive noise Prajapat, MK; Maria, AG; Vidigal, JA; , Nucleic Acids Res, DOI://10.1093/nar/gkae1138 (2025)
Miniscope Imaging of Nucleus Accumbens Neural Activity in Freely Behaving Rats: Virus Injection, Gradient Index Lens Implantation, Recording Strategies, and Analytical Methods Beacher, NJ; Wang, MW; Broomer, MC et al. Curr Protoc, DOI://10.1002/cpz1.70090 (2025)
Hepatitis B virus genotypes A1 and A2 have distinct replication phenotypes due to polymorphisms in the HBx gene Zhang, M; Mouzannar, K; Zhang, Z et al. PLoS Pathog, DOI://10.1371/journal.ppat.1012803 (2025)
PhpCNF-Y transcription factor infiltrates heterochromatin to generate cryptic intron-containing transcripts crucial for small RNA production Srivastav, MK; Folco, HD; Nathanailidou, P et al. Nat Commun, DOI://10.1038/s41467-024-55736-3 (2025)
Sickle Trait and Alpha Thalassemia Increase NOS-Dependent Vasodilation of Human Arteries Through Disruption of Endothelial Hemoglobin-eNOS Interactions Brooks, SD; Ruhl, AP; Zeng, X et al. Circulation, DOI://10.1161/CIRCULATIONAHA.123.066003 (2025)

2024 (503 papers)

GBA1 rs3115534 Is Associated with REM Sleep Behavior Disorder in Parkinson's Disease in Nigerians Ojo, OO; Bandres-Ciga, S; Makarious, MB et al. Mov Disord, DOI://10.1002/mds.29753 (2024)
Genomes and epigenomes of matched normal and tumor breast tissue reveal diverse evolutionary trajectories and tumor-host interactions Zhu, B; Tapinos, A; Koka, H et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2024.10.005 (2024)
Comparison of Novel Proteomic Expression Profiles for Radiation Exposure in Male and Female C57BL6 Mice Sproull, M; Fan, Y; Chen, Q et al. Radiat Res, DOI://10.1667/RADE-23-00180.1 (2024)
CD34+ cell yield among healthy donors: Large-scale model development and validation Alswied, A; Daniel, D; Chen, LN et al. J Clin Apher, DOI://10.1002/jca.22135 (2024)
MAPT H2 haplotype and risk of Pick's disease in the Pick's disease International Consortium: a genetic association study Valentino, RR; Scotton, WJ; Roemer, SF et al. Lancet Neurol, DOI://10.1016/S1474-4422(24)00083-8 (2024)
Prenatal exposure to air pollutant mixtures and birthweight in the upstate KIDS cohort Trees, IR; Saha, A; Putnick, DL et al. Environ Int, DOI://10.1016/j.envint.2024.108692 (2024)
Genome-Wide Analysis to Assess if Heavy Alcohol Consumption Modifies the Association between SNPs and Pancreatic Cancer Risk Ni, Z; Kundu, P; McKean, DF et al. Cancer Epidemiol Biomarkers Prev, DOI://10.1158/1055-9965.EPI-24-0096 (2024)
Schizophrenia risk-associated SNPs affect expression of microRNA 137 host gene: a postmortem study Feng, N; Mandal, A; Jambhale, A et al. Hum Mol Genet, DOI://10.1093/hmg/ddae130 (2024)
Multiomics Profiling Distinguishes Sebaceous Carcinoma from Benign Sebaceous Neoplasms and Provides Insight into the Genetic Evolution of Sebaceous Carcinogenesis Starrett, GJ; Baikie, BC; Stoff, BK et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-24-1327 (2024)
Comprehensive deletion scan of anti-CRISPR AcrIIA4 reveals essential and dispensable domains for Cas9 inhibition Iturralde, AB; Weller, CA; Giovanetti, SM; Sadhu, MJ; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2413743121 (2024)
Toward Relieving Clinician Burden by Automatically Generating Progress Notes using Interim Hospital Data Soni, S; Demner-Fushman, D; , AMIA Annu Symp Proc, 1942-597X (2024)
Automating assignment of HIV+ patients into phenogroups from demography bound phenotype attack rates Williams, N AMIA Annu Symp Proc, 1942-597X (2024)
Capturing Autoinhibited PDK1 Reveals the Linker's Regulatory Role, Informing Innovative Inhibitor Design Xu, L; Jang, H; Nussinov, R; , J Chem Inf Model, DOI://10.1021/acs.jcim.4c01392 (2024)
Gapless assembly of complete human and plant chromosomes using only nanopore sequencing Koren, S; Bao, Z; Guarracino, A et al. Genome Res, DOI://10.1101/gr.279334.124 (2024)
Chromosome 7 Gain Compensates for Chromosome 10 Loss in Glioma Nair, NU; Schäffer, AA; Gertz, EM et al. Cancer Res, DOI://10.1158/0008-5472.CAN-24-1366 (2024)
Bacterial spore surface nanoenvironment requires a AAA+ ATPase to promote MurG function Delerue, T; Updegrove, TB; Chareyre, S et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2414737121 (2024)
Interspecies surfactants serve as public goods enabling surface motility in Pseudomonas aeruginosa Warrell, DL; Zarrella, TM; Machalek, C; Khare, A; , J Bacteriol, DOI://10.1128/jb.00281-24 (2024)
Unraveling Activation-Related Rearrangements and Intrinsic Divergence from Ligand-Specific Conformational Changes of the Dopamine D3 and D2 Receptors Lee, KH; Shi, L; , J Chem Inf Model, DOI://10.1021/acs.jcim.3c01956 (2024)
Identification of Potent ADCK3 Inhibitors through Structure-Based Virtual Screening Gao, P; Tambe, M; Chen, CZ et al. J Chem Inf Model, DOI://10.1021/acs.jcim.4c00530 (2024)
Evaluating large language models on medical, lay-language, and self-reported descriptions of genetic conditions Flaharty, KA; Hu, P; Hanchard, SL et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2024.07.011 (2024)
Gcn2 structurally mimics and functionally repurposes the HisRS enzyme for the integrated stress response Bou-Nader, C; Gaikwad, S; Bahmanjah, S et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2409628121 (2024)
Fast and scalable ensemble learning method for versatile polygenic risk prediction Chen, T; Zhang, H; Mazumder, R; Lin, X; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2403210121 (2024)
Obesity modulates NK cell activity via LDL and DUSP1 signaling for populations with adverse social determinants Baumer, Y; Singh, K; Saurabh, A et al. JCI Insight, DOI://10.1172/jci.insight.180606 (2024)
A genetic and transcriptomic assessment of the KTN1 gene in Parkinson's disease risk Moore, A; Crea, PW; Makarious, M et al. Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2023.11.001 (2024)
Individual differences in prelimbic neural representation of food and cocaine seeking Glanzberg, JT; Denman, AJ; Beacher, NJ et al. Cell Rep, DOI://10.1016/j.celrep.2024.115022 (2024)
High-throughput characterization of functional variants highlights heterogeneity and polygenicity underlying lung cancer susceptibility Long, E; Patel, H; Golden, A et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2024.05.021 (2024)
MicroRNAs secreted by the parasitic nematode Brugia malayi disrupt lymphatic endothelial cell integrity Johnson, H; Banakis, S; Chung, M et al. PLoS Negl Trop Dis, DOI://10.1371/journal.pntd.0012803 (2024)
Test-Retest Reliability of Functional Connectivity in Adolescents With Depression Camp, CC; Noble, S; Scheinost, D et al. Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2023.09.002 (2024)
Placental accelerated aging in antenatal depression Saeed, H; Wu, J; Tesfaye, M et al. Am J Obstet Gynecol MFM, DOI://10.1016/j.ajogmf.2023.101237 (2024)
Reprogramming of epidermal keratinocytes by PITX1 transforms the cutaneous cellular landscape and promotes wound healing Overmiller, AM; Uchiyama, A; Hope, ED et al. JCI Insight, DOI://10.1172/jci.insight.182844 (2024)
Bilirubin reductase shows host-specific associations in animal large intestines Dufault-Thompson, K; Levy, S; Hall, B; Jiang, X; , ISME J, DOI://10.1093/ismejo/wrae242 (2024)
Structural mechanism of CB1R binding to peripheral and biased inverse agonists Kumari, P; Dvorácskó, S; Enos, MD et al. Nat Commun, DOI://10.1038/s41467-024-54206-0 (2024)
Cerebral white matter myelination is associated with longitudinal changes in processing speed across the adult lifespan Gong, Z; Bilgel, M; An, Y et al. Brain Commun, DOI://10.1093/braincomms/fcae412 (2024)
Imaging distinct neuronal populations with a dual channel miniscope Barbera, G; Thapa, R; Adhikari, N et al. Front Neurosci, DOI://10.3389/fnins.2024.1445020 (2024)
The Rhipicephalus sanguineus group: updated list of species, geographical distribution, and vector competence Dantas-Torres, F; de Sousa-Paula, LC; Otranto, D; , Parasit Vectors, DOI://10.1186/s13071-024-06572-3 (2024)
Identifying Sequence Effects on Chain Dimensions of Disordered Proteins by Integrating Experiments and Simulations Holla, A; Martin, EW; Dannenhoffer-Lafage, T et al. JACS Au, DOI://10.1021/jacsau.4c00673 (2024)
The protein structurome of Orthornavirae and its dark matter Mutz, P; Camargo, AP; Sahakyan, H et al. mBio, DOI://10.1128/mbio.03200-24 (2024)
Temporal genomic analysis of homogeneous tumor models reveals key regulators of immune evasion in melanoma Cohen Shvefel, S; Pai, JA; Cao, Y et al. Cancer Discov, DOI://10.1158/2159-8290.CD-23-1422 (2024)
Excess shed mesothelin disrupts pancreatic cancer cell clustering to impair peritoneal colonization Ewa, T; Panchwagh, N; Tai, CH et al. FASEB J, DOI://10.1096/fj.202400446R (2024)
SLC26A4-AP-2 mu2 interaction regulates SLC26A4 plasma membrane abundance in the endolymphatic sac Lee, HJ; Fenollar-Ferrer, C; Isgrig, K et al. Sci Adv, DOI://10.1126/sciadv.adm8663 (2024)
African ancestry neurodegeneration risk variant disrupts an intronic branchpoint in GBA1 Álvarez Jerez, P; Wild Crea, P; Ramos, DM et al. Nat Struct Mol Biol, DOI://10.1038/s41594-024-01423-2 (2024)
A genome-first approach to characterize DICER1 pathogenic variant prevalence, penetrance and cancer, thyroid, and other phenotypes in 2 population-scale cohorts Kim, J; Haley, J; Hatton, JN et al. Genet Med Open, DOI://10.1016/j.gimo.2024.101846 (2024)
Increased frequency of CHEK2 germline pathogenic variants among individuals with dermatofibrosarcoma protuberans Sargen, MR; Kim, J; Haley, JS et al. Genet Med Open, DOI://10.1016/j.gimo.2024.101895 (2024)
Doxorubicin resistance involves modulation of interferon signaling, transcriptional bursting, and gene co-expression patterns of U-ISGF3-related genes Trzaskoma, P; Jung, S; Kanno, Y et al. Neoplasia, DOI://10.1016/j.neo.2024.101071 (2024)
HIV-1-envelope trimer transitions from prefusion-closed to CD4-bound-open conformations through an occluded-intermediate state Lee, M; Lu, M; Zhang, B et al. Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2024.11.020 (2024)
Charting the transcriptomic landscape of primary and metastatic cancers in relation to their origin and target normal tissues Sanghvi, N; Calvo-Alcañiz, C; Rajagopal, PS et al. Sci Adv, DOI://10.1126/sciadv.adn0220 (2024)
Blood-brain barrier disruption and increased free water are associated with worse cognitive performance in patients with chronic cerebrovascular disease Kern, KC; Zagzoug, MS; Gottesman, RF et al. Neuroimage Clin, DOI://10.1016/j.nicl.2024.103706 (2024)
Hierarchical individual variation and socioeconomic impact on personalized functional network topography in children Zhao, S; Su, H; Cong, J et al. BMC Med, DOI://10.1186/s12916-024-03784-3 (2024)
Environmental fungi target thiol homeostasis to compete with Mycobacterium tuberculosis Malhotra, N; Oh, S; Finin, P et al. PLoS Biol, DOI://10.1371/journal.pbio.3002852 (2024)
Broadly conserved FlgV controls flagellar assembly and Borrelia burgdorferi dissemination in mice Zamba-Campero, M; Soliman, D; Yu, H et al. Nat Commun, DOI://10.1038/s41467-024-54806-w (2024)
Mechanism-free repurposing of drugs for C9orf72-related ALS/FTD using large-scale genomic data Saez-Atienzar, S; Souza, CDS; Chia, R et al. Cell Genom, DOI://10.1016/j.xgen.2024.100679 (2024)
Novel polyomavirus in the endangered garden dormouse Eliomys quercinus Vasiliūnaitė, E; Repšytė, M; Kramer, EM et al. Virol J, DOI://10.1186/s12985-024-02581-x (2024)
Vaccine-elicited and naturally elicited antibodies differ in their recognition of the HIV-1 fusion peptide Reveiz, M; Xu, K; Lee, M et al. Front Immunol, DOI://10.3389/fimmu.2024.1484029 (2024)
Does Remdesivir Lower COVID-19 Mortality? A Subgroup Analysis of Hospitalized Adults Receiving Supplemental Oxygen Potter, GE; Proschan, MA; , Stat Med, DOI://10.1002/sim.10241 (2024)
The glucocorticoid receptor potentiates aldosterone-induced transcription by the mineralocorticoid receptor Johnson, TA; Fettweis, G; Wagh, K et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2413737121 (2024)
Processing, evaluating, and understanding FMRI data with afni_proc.py Reynolds, RC; Glen, DR; Chen, G et al. Imaging Neurosci (Camb), DOI://10.1162/imag_a_00347 (2024)
Balance between asymmetric allocation and repair of somatic damage in unicellular life forms as an ancient form of r/K selection Biba, DA; Wolf, YI; Koonin, EV; Rochman, ND; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2400008121 (2024)
Phosphorylation by JNK switches BRD4 functions Devaiah, BN; Singh, AK; Mu, J et al. Mol Cell, DOI://10.1016/j.molcel.2024.09.030 (2024)
The endometrial cancer A230V-ALK5 (TGFBR1) mutant attenuates TGF-β signaling and exhibits reduced in vitro sensitivity to ALK5 inhibitors Yu, EJ; Bell, DW; , PLoS One, DOI://10.1371/journal.pone.0312806 (2024)
On the role of native contact cooperativity in protein folding Wang, D; Frechette, LB; Best, RB; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2319249121 (2024)
Genomic analysis of the early COVID-19 pandemic in Haiti reveals Caribbean-specific variant dynamics Mushegian, A; Kreitman, A; Nelson, MI et al. PLOS Glob Public Health, DOI://10.1371/journal.pgph.0003536 (2024)
Glycocalyx Interactions Modulate the Cellular Uptake of Albumin-Coated Nanoparticles Olivieri, PH; Assis, IF; Lima, AF et al. ACS Appl Bio Mater, DOI://10.1021/acsabm.4c01012 (2024)
Epidemiological data of an influenza A/H5N1 outbreak in elephant seals in Argentina indicates mammal-to-mammal transmission Uhart, MM; Vanstreels, RET; Nelson, MI et al. Nat Commun, DOI://10.1038/s41467-024-53766-5 (2024)
Systematic genetic characterization of the human PKR kinase domain highlights its functional malleability to escape a poxvirus substrate mimic Chambers, MJ; Scobell, SB; Sadhu, MJ; , Elife, DOI://10.7554/eLife.99575 (2024)
Functional characteristics and computational model of abundant hyperactive loci in the human genome Hudaiberdiev, S; Ovcharenko, I; , Elife, DOI://10.7554/eLife.95170 (2024)
Cellular-resolution optogenetics reveals attenuation-by-suppression in visual cortical neurons LaFosse, PK; Zhou, Z; O'Rawe, JF et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2318837121 (2024)
Structural basis for α-tubulin-specific and modification state-dependent glutamylation Mahalingan, KK; Grotjahn, DA; Li, Y et al. Nat Chem Biol, DOI://10.1038/s41589-024-01599-0 (2024)
Exploring the longitudinal expression dynamics of midguts in adult female Amblyomma americanum ticks Lu, S; de Sousa-Paula, LC; Ribeiro, JMC; Tirloni, L; , BMC Genomics, DOI://10.1186/s12864-024-10905-y (2024)
RNA helicase D1PAS1 resolves R-loops and forms a complex for mouse pachytene piRNA biogenesis required for male fertility Choi, H; Zhou, L; Zhao, Y; Dean, J; , Nucleic Acids Res, DOI://10.1093/nar/gkae712 (2024)
Cryo-EM structure of a natural prion: chronic wasting disease fibrils from deer Alam, P; Hoyt, F; Artikis, E et al. Acta Neuropathol, DOI://10.1007/s00401-024-02813-y (2024)
The Bor1 elevator transport cycle is subject to autoinhibition and activation Jiang, Y; Jiang, J; , Nat Commun, DOI://10.1038/s41467-024-53411-1 (2024)
MYB/MYBL1-altered gliomas frequently harbor truncations and non-productive fusions in the MYB and MYBL1 genes Chung, HJ; Rajan, S; Wu, Z et al. Acta Neuropathol, DOI://10.1007/s00401-024-02803-0 (2024)
Altruistic feeding and cell-cell signaling during bacterial differentiation actively enhance phenotypic heterogeneity Updegrove, TB; Delerue, T; Anantharaman, V et al. Sci Adv, DOI://10.1126/sciadv.adq0791 (2024)
The Myc-associated zinc finger protein epigenetically controls expression of interferon-γ-stimulated genes by recruiting STAT1 to chromatin Xiao, T; Li, X; Felsenfeld, G; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2320938121 (2024)
Targeting SWI/SNF ATPases reduces neuroblastoma cell plasticity Xu, M; Hong, JJ; Zhang, X et al. EMBO J, DOI://10.1038/s44318-024-00206-1 (2024)
A machine learning model reveals expansive downregulation of ligand-receptor interactions that enhance lymphocyte infiltration in melanoma with developed resistance to immune checkpoint blockade Sahni, S; Wang, B; Wu, D et al. Nat Commun, DOI://10.1038/s41467-024-52555-4 (2024)
SMARCD1 is an essential expression-restricted metastasis modifier Ross, C; Gong, LY; Jenkins, LM et al. Commun Biol, DOI://10.1038/s42003-024-07018-3 (2024)
Highly efficient generation of self-renewing trophoblast from human pluripotent stem cells Slamecka, J; Ryu, S; Tristan, CA et al. iScience, DOI://10.1016/j.isci.2024.110874 (2024)
Unsupervised Multi-parametric MRI Registration Using Neural Optimal Transport Kim, B; Mathai, TS; Summers, RM; , Proc SPIE Int Soc Opt Eng, DOI://10.1117/12.3006289 (2024)
Early Detection of Malignant and Premalignant Peripheral Nerve Tumors Using Cell-Free DNA Fragmentomics Sundby, RT; Szymanski, JJ; Pan, AC et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-24-0797 (2024)
Mutational signatures in 175 Chinese gastric cancer patients Liu, F; Hu, N; Jiang, K et al. BMC Cancer, DOI://10.1186/s12885-024-12968-2 (2024)
Automated Classification of Multi-parametric Body MRI Series Kim B, Mathai TS, Helm K, Summers RM IEEE International Symposium on Biomedical Imaging, https://doi.org/10.1109/ISBI56570.2024.10635686 (2024)
Normalization of Fronto-Parietal Activation by Cognitive-Behavioral Therapy in Unmedicated Pediatric Patients With Anxiety Disorders Haller, SP; Linke, JO; Grassie, HL et al. Am J Psychiatry, DOI://10.1176/appi.ajp.20220449 (2024)
PARP-1 selectively impairs KRAS-driven phenotypic and molecular features in intrahepatic cholangiocarcinoma Keggenhoff, FL; Castven, D; Becker, D et al. Gut, DOI://10.1136/gutjnl-2023-331237 (2024)
Structure of Amyloid Peptide Ribbons Characterized by Electron Microscopy, Atomic Force Microscopy, and Solid-State Nuclear Magnetic Resonance Thurber, KR; Yau, WM; Tycko, R; , J Phys Chem B, DOI://10.1021/acs.jpcb.3c07867 (2024)
Disease flares with baricitinib dose reductions and development of flare criteria in patients with CANDLE/PRAAS Cetin Gedik, K; Ortega-Villa, AM; Materne, G et al. Ann Rheum Dis, DOI://10.1136/ard-2023-225463 (2024)
A deep-learning framework to predict cancer treatment response from histopathology images through imputed transcriptomics Hoang, DT; Dinstag, G; Shulman, ED et al. Nat Cancer, DOI://10.1038/s43018-024-00793-2 (2024)
A Multiomic Analysis to Identify Drivers of Subclinical Vascular Disease in Systemic Lupus Erythematosus Oliveira, C; Temesgen-Oyelakin, Y; Naqi, M et al. Arthritis Rheumatol, DOI://10.1002/art.42925 (2024)
Enrichment of Rare Variants of Hemophagocytic Lymphohistiocytosis Genes in Systemic Juvenile Idiopathic Arthritis Correia Marques, M; Rubin, D; Shuldiner, EG et al. Arthritis Rheumatol, DOI://10.1002/art.42938 (2024)
Improving 3D edge detection for visual inspection of MRI coregistration and alignment Rorden, C; Hanayik, T; Glen, DR et al. J Neurosci Methods, DOI://10.1016/j.jneumeth.2024.110112 (2024)
Neuroimaging Findings in US Government Personnel and Their Family Members Involved in Anomalous Health Incidents Pierpaoli, C; Nayak, A; Hafiz, R et al. JAMA, DOI://10.1001/jama.2024.2424 (2024)

OVO positively regulates essential maternal pathways by binding near the transcriptional start sites in the Drosophila female germline Benner, L; Muron, S; Gomez, JG; Oliver, B; , Elife, DOI://10.7554/eLife.94631 (2024)
Impact of HLA class I functional divergence on HIV control Viard, M; O'hUigin, C; Yuki, Y et al. Science, DOI://10.1126/science.adk0777 (2024)
Segmentation of mediastinal lymph nodes in CT with anatomical priors Mathai, TS; Liu, B; Summers, RM; , Int J Comput Assist Radiol Surg, DOI://10.1007/s11548-024-03165-4 (2024)
Enhanced muscle and fat segmentation for CT-based body composition analysis: a comparative study Hou, B; Mathai, TS; Liu, J et al. Int J Comput Assist Radiol Surg, DOI://10.1007/s11548-024-03167-2 (2024)
Emergence of transmissible SARS-CoV-2 variants with decreased sensitivity to antivirals in immunocompromised patients with persistent infections Nooruzzaman, M; Johnson, KEE; Rani, R et al. Nat Commun, DOI://10.1038/s41467-024-51924-3 (2024)
LIM-domain-only 4 (LMO4) enhances CD8+ T-cell stemness and tumor rejection by boosting IL-21-STAT3 signaling Schelker, RC; Fioravanti, J; Mastrogiovanni, F et al. Signal Transduct Target Ther, DOI://10.1038/s41392-024-01915-z (2024)
Adoptive transfer of personalized neoantigen-reactive TCR-transduced T cells in metastatic colorectal cancer: phase 2 trial interim results Parkhurst, M; Goff, SL; Lowery, FJ et al. Nat Med, DOI://10.1038/s41591-024-03109-0 (2024)
On the role of the UMLS in supporting diagnosis generation proposed by Large Language Models Afshar, M; Gao, Y; Gupta, D et al. J Biomed Inform, DOI://10.1016/j.jbi.2024.104707 (2024)
Cell type- and transcription-independent spatial proximity between enhancers and promoters Mian, Y; Wang, L; Keikhosravi, A et al. Mol Biol Cell, DOI://10.1091/mbc.E24-02-0082 (2024)
In vivo mapping of the mouse Galnt3-specific O-glycoproteome Dalal, K; Yang, W; Tian, E et al. J Biol Chem, DOI://10.1016/j.jbc.2024.107628 (2024)
HOXD12 defines an age-related aggressive subtype of oligodendroglioma Nuechterlein, N; Cimino, S; Shelbourn, A et al. Acta Neuropathol, DOI://10.1007/s00401-024-02802-1 (2024)
Context-aware single-cell multiomics approach identifies cell-type-specific lung cancer susceptibility genes Long, E; Yin, J; Shin, JH et al. Nat Commun, DOI://10.1038/s41467-024-52356-9 (2024)

Sexually dimorphic renal expression of mouse Klotho is directed by a kidney-specific distal enhancer responsive to HNF1b Jankowski, J; Lee, HK; Liu, C et al. Commun Biol, DOI://10.1038/s42003-024-06855-6 (2024)
A Set of FMRI Quality Control Tools in AFNI: Systematic, in-depth, and interactive QC with afni_proc.py and more Taylor, PA; Glen, DR; Chen, G et al. Imaging Neurosci (Camb), DOI://10.1162/imag_a_00246 (2024)
A sex-stratified analysis of the genetic architecture of human brain anatomy Shafee, R; Moraczewski, D; Liu, S et al. Nat Commun, DOI://10.1038/s41467-024-52244-2 (2024)
Thermodynamics-inspired explanations of artificial intelligence Mehdi, S; Tiwary, P; , Nat Commun, DOI://10.1038/s41467-024-51970-x (2024)
Bromodomain protein BRD4 directs mitotic cell division of mouse fibroblasts by inhibiting DNA damage Wu, T; Hou, H; Dey, A et al. iScience, DOI://10.1016/j.isci.2024.109797 (2024)
PKR activation-induced mitochondrial dysfunction in HIV-transgenic mice with nephropathy Yoshida, T; Latt, KZ; Rosenberg, AZ et al. Elife, DOI://10.7554/eLife.91260 (2024)

Genomic approach to determine sources of neonatal Staphylococcus aureus infection from carriage in the Gambia Bojang, A; Chung, M; Camara, B et al. BMC Infect Dis, DOI://10.1186/s12879-024-09837-5 (2024)
Estimation of inbreeding and kinship coefficients via latent identity-by-descent states Guan, Y; Levy, D; , Bioinformatics, DOI://10.1093/bioinformatics/btae082 (2024)
Generation of antitumor chimeric antigen receptors incorporating T cell signaling motifs Balagopalan, L; Moreno, T; Qin, H et al. Sci Signal, DOI://10.1126/scisignal.adp8569 (2024)
De Novo Genome Assemblies From Two Indigenous Americans from Arizona Identify New Polymorphisms in Non-Reference Sequences Köroğlu, Ç; Chen, P; Traurig, M et al. Genome Biol Evol, DOI://10.1093/gbe/evae188 (2024)
Innate protection against intrarectal SIV acquisition by a live SHIV vaccine Sui, Y; Meyer, TJ; Fennessey, CM et al. JCI Insight, DOI://10.1172/jci.insight.175800 (2024)
Highly sensitive mapping of in vitro type II topoisomerase DNA cleavage sites with SHAN-seq Morgan, IL; McKie, SJ; Kim, R et al. Nucleic Acids Res, DOI://10.1093/nar/gkae638 (2024)

Genome-Wide and Transcriptome-Wide Association Studies on Northern New England and Ohio Amyotrophic Lateral Sclerosis Cohorts Li, S; Gui, J; Passarelli, MN et al. Neurol Genet, DOI://10.1212/NXG.0000000000200188 (2024)
Germline pathogenic variants in neuroblastoma patients are enriched in BARD1 and predict worse survival Kim, J; Vaksman, Z; Egolf, LE et al. J Natl Cancer Inst, DOI://10.1093/jnci/djad183 (2024)
The association of GNB5 with Alzheimer disease revealed by genomic analysis restricted to variants impacting gene function Zhang, J; Pandey, M; Awe, A et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2024.01.005 (2024)
Insights into the mechanisms and structure of breakage-fusion-bridge cycles in cervical cancer using long-read sequencing Rodriguez, I; Rossi, NM; Keskus, AG et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2024.01.002 (2024)
Inferring Characteristics of the Tumor Immune Microenvironment of Patients with HNSCC from Single-Cell Transcriptomics of Peripheral Blood Cao, Y; Chang, T; Schischlik, F et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-24-0092 (2024)
Softening in Two-Component Lipid Mixtures by Spontaneous Curvature Variance Hossein, A; Beaven, AH; Sapp, K; Sodt, AJ; , J Phys Chem B, DOI://10.1021/acs.jpcb.3c08117 (2024)
Salivary Gland Tissue Recombination Can Modify Cell Fate Sekiguchi, R; Martin, D; Doyle, AD et al. J Dent Res, DOI://10.1177/00220345241247484 (2024)
Gα13 restricts nutrient driven proliferation in mucosal germinal centers Nguyen, HT; Li, M; Vadakath, R et al. Nat Immunol, DOI://10.1038/s41590-024-01910-0 (2024)
An enhancer RNA recruits KMT2A to regulate transcription of Myb Kim, J; Diaz, LF; Miller, MJ et al. Cell Rep, DOI://10.1016/j.celrep.2024.114378 (2024)
Crystal structure and mechanistic studies of the PPM1D serine/threonine phosphatase catalytic domain Kumar, JP; Kosek, D; Durell, SR et al. J Biol Chem, DOI://10.1016/j.jbc.2024.107561 (2024)
Weakly supervised detection of pheochromocytomas and paragangliomas in CT using noisy data Oluigbo, D; Mathai, TS; Santra, B et al. Comput Med Imaging Graph, DOI://10.1016/j.compmedimag.2024.102419 (2024)
Deep learning and direct sequencing of labeled RNA captures transcriptome dynamics Martinek, V; Martin, J; Belair, C et al. NAR Genom Bioinform, DOI://10.1093/nargab/lqae116 (2024)

Specific 3-O-sulfated heparan sulfate domains regulate salivary gland basement membrane metabolism and epithelial differentiation Patel, VN; Aure, MH; Choi, SH et al. Nat Commun, DOI://10.1038/s41467-024-51862-0 (2024)
CD28 hinge used in chimeric antigen receptor (CAR) T-cells exhibits local structure and conformational exchange amidst global disorder Folimonova, V; Chen, X; Negi, H et al. Commun Biol, DOI://10.1038/s42003-024-06770-w (2024)
Paralogue-Selective Degradation of the Lysine Acetyltransferase EP300 Chen, X; Crawford, MC; Xiong, Y et al. JACS Au, DOI://10.1021/jacsau.4c00442 (2024)
Evidence of association between higher cardiorespiratory fitness and higher cerebral myelination in aging Faulkner, ME; Gong, Z; Bilgel, M et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2402813121 (2024)
Identification and functional validation of rare coding variants in genes linked to monogenic obesity Köroğlu, Ç; Traurig, M; Muller, YL et al. Obesity (Silver Spring), DOI://10.1002/oby.24101 (2024)
The immune factors involved in the rapid clearance of bacteria from the midgut of the tick Ixodes ricinus Guizzo, MG; Frantová, H; Lu, S et al. Front Cell Infect Microbiol, DOI://10.3389/fcimb.2024.1450353 (2024)

Tyrosine phosphorylation of both STAT5A and STAT5B is necessary for maximal IL-2 signaling and T cell proliferation Lin, JX; Ge, M; Liu, CY et al. Nat Commun, DOI://10.1038/s41467-024-50925-6 (2024)
Unbiased discovery of cancer pathways and therapeutics using Pathway Ensemble Tool and Benchmark Wang, L; Pattnaik, A; Sahoo, SS et al. Nat Commun, DOI://10.1038/s41467-024-51859-9 (2024)
An ANXA11 P93S variant dysregulates TDP-43 and causes corticobasal syndrome Snyder, A; Ryan, VH; Hawrot, J et al. Alzheimers Dement, DOI://10.1002/alz.13915 (2024)
Time- and cell-specific activation of BMP signaling restrains chondrocyte hypertrophy Gadomski, SJ; Mui, BWH; Gorodetsky, R et al. iScience, DOI://10.1016/j.isci.2024.110537 (2024)
Endogenous EWSR1 Exists in Two Visual Modalities That Reflect Its Associations with Nucleic Acids and Concentration at Sites of Active Transcription Sundara Rajan, S; Ebegboni, VJ; Pichling, P et al. Mol Cell Biol, DOI://10.1080/10985549.2024.2315425 (2024)
POU4F3 Is Necessary for Normal Merkel Cell Formation, whereas POU4F1 Is Dispensable Jarvis, JE; Miao, L; Hallaert, P et al. J Invest Dermatol, DOI://10.1016/j.jid.2024.06.1284 (2024)
Staufen1 Represses the FOXA1-Regulated Transcriptome by Destabilizing FOXA1 mRNA in Colorectal Cancer Cells Pasterczyk, KR; Li, XL; Singh, R et al. Mol Cell Biol, DOI://10.1080/10985549.2024.2307574 (2024)
AlphaFold predictions of fold-switched conformations are driven by structure memorization Chakravarty, D; Schafer, JW; Chen, EA et al. Nat Commun, DOI://10.1038/s41467-024-51801-z (2024)
Detection of ac4C in human mRNA is preserved upon data reassessment Beiki, H; Sturgill, D; Arango, D et al. Mol Cell, DOI://10.1016/j.molcel.2024.03.018 (2024)
DNA polymerase swapping in Caudoviricetes bacteriophages Yutin, N; Tolstoy, I; Mutz, P et al. Virol J, DOI://10.1186/s12985-024-02482-z (2024)
Taurine-conjugated bile acids and their link to hepatic S1PR2 play a significant role in hepatitis C-related liver disease Ali, RO; Haddad, JA; Quinn, GM et al. Hepatol Commun, DOI://10.1097/HC9.0000000000000478 (2024)
The Time-Dependent Association Between Irritable Bowel Syndrome and All-Cause and Cause-Specific Mortality: A Prospective Cohort Study Within the UK Biobank Li, F; Yano, Y; Étiévant, L et al. Am J Gastroenterol, DOI://10.14309/ajg.0000000000002675 (2024)
Genomic Underpinnings of Cytoplasmic Incompatibility: CIF Gene-Neighborhood Diversification Through Extensive Lateral Transfers and Recombination in Wolbachia Tan, Y; Aravind, L; Zhang, D; , Genome Biol Evol, DOI://10.1093/gbe/evae171 (2024)
Childhood obesity's effect on cognition and brain connectivity worsens with low family income Tomasi, D; Volkow, ND; , JCI Insight, DOI://10.1172/jci.insight.181690 (2024)
Immunosuppressive CD29+ Treg accumulation in the liver in mice on checkpoint inhibitor therapy Green, BL; Myojin, Y; Ma, C et al. Gut, DOI://10.1136/gutjnl-2023-330024 (2024)
Tumor-derived RHOA mutants interact with effectors in the GDP-bound state Lin, Y; Ramelot, TA; Senyuz, S et al. Nat Commun, DOI://10.1038/s41467-024-51445-z (2024)
PLCG2-associated immune dysregulation (PLAID) comprises broad and distinct clinical presentations related to functional classes of genetic variants Baysac, K; Sun, G; Nakano, H et al. J Allergy Clin Immunol, DOI://10.1016/j.jaci.2023.08.036 (2024)
Pharmacologic ascorbate induces transient hypoxia sensitizing pancreatic ductal adenocarcinoma to a hypoxia activated prodrug Kishimoto, S; Crooks, DR; Yasunori, O et al. Free Radic Biol Med, DOI://10.1016/j.freeradbiomed.2024.07.008 (2024)
Mutant mice with rod-specific VPS35 deletion exhibit retinal α-synuclein pathology-associated degeneration Fu, C; Yang, N; Chuang, JZ et al. Nat Commun, DOI://10.1038/s41467-024-50189-0 (2024)
CAR T-cells targeting FGFR4 and CD276 simultaneously show potent antitumor effect against childhood rhabdomyosarcoma Tian, M; Wei, JS; Cheuk, AT et al. Nat Commun, DOI://10.1038/s41467-024-50251-x (2024)
Exome copy number variant detection, analysis, and classification in a large cohort of families with undiagnosed rare genetic disease Lemire, G; Sanchis-Juan, A; Russell, K et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2024.03.008 (2024)
Deep Learning Segmentation of Ascites on Abdominal CT Scans for Automatic Volume Quantification Hou, B; Lee, S; Lee, JM et al. Radiol Artif Intell, DOI://10.1148/ryai.230601 (2024)
Retracing the evolution of Pneumocystis species, with a focus on the human pathogen Pneumocystis jirovecii Cissé, OH; Ma, L; Kovacs, JA; , Microbiol Mol Biol Rev, DOI://10.1128/mmbr.00202-22 (2024)
Structure and repair of replication-coupled DNA breaks Pavani, R; Tripathi, V; Vrtis, KB et al. Science, DOI://10.1126/science.ado3867 (2024)

The recovery of parabolic avalanches in spatially subsampled neuronal networks at criticality Srinivasan, K; Ribeiro, TL; Kells, P; Plenz, D; , Sci Rep, DOI://10.1038/s41598-024-70014-4 (2024)
Comprehensive Proteomics Analysis of the Hemolymph Composition of Sugar-Fed Aedes aegypti Female and Male Mosquitoes Alvarenga, PH; Alves E Silva, TL; Suzuki, M et al. J Proteome Res, DOI://10.1021/acs.jproteome.3c00918 (2024)
Novel signals and polygenic score for height are associated with pubertal growth traits in Southwestern American Indians Ramírez-Luzuriaga, MJ; Kobes, S; Hsueh, WC et al. Hum Mol Genet, DOI://10.1093/hmg/ddae030 (2024)
The landscape of etiological patterns of hepatocellular carcinoma and intrahepatic cholangiocarcinoma in Thailand Pupacdi, B; Loffredo, CA; Budhu, A et al. Int J Cancer, DOI://10.1002/ijc.35034 (2024)
Emergency Myelopoiesis Distinguishes Multisystem Inflammatory Syndrome in Children From Pediatric Severe Coronavirus Disease 2019 Roznik, K; Andargie, TE; Johnston, TS et al. J Infect Dis, DOI://10.1093/infdis/jiae032 (2024)
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD Seddighi, S; Qi, YA; Brown, AL et al. Sci Transl Med, DOI://10.1126/scitranslmed.adg7162 (2024)
ETS1, a Target Gene of the EWSR1::FLI1 Fusion Oncoprotein, Regulates the Expression of the Focal Adhesion Protein TENSIN3 Ebegboni, VJ; Jones, TL; Brownmiller, T et al. Mol Cancer Res, DOI://10.1158/1541-7786.MCR-23-1090 (2024)
Maternal age is related to offspring DNA methylation: A meta-analysis of results from the PACE consortium Yeung, E; Biedrzycki, RJ; Gómez Herrera, LC et al. Aging Cell, DOI://10.1111/acel.14194 (2024)
ModDotPlot-rapid and interactive visualization of tandem repeats Sweeten, AP; Schatz, MC; Phillippy, AM; , Bioinformatics, DOI://10.1093/bioinformatics/btae493 (2024)
Comparative Evaluation of LLMs in Clinical Oncology Rydzewski, NR; Dinakaran, D; Zhao, SG et al. NEJM AI, DOI://10.1056/aioa2300151 (2024)
TGF-β neutralization attenuates tumor residency of activated T cells to enhance systemic immunity in mice Fay, M; Sievers, C; Robbins, Y et al. iScience, DOI://10.1016/j.isci.2024.110520 (2024)
Molecular Characterization of Metastatic Oncocytoma With Exceptional Response to Treatment: A Case Report Webster, BR; Ricketts, CJ; Vocke, CD et al. JCO Precis Oncol, DOI://10.1200/PO.24.00188 (2024)
Predicting Survival in Mucinous Adenocarcinoma of the Appendix: Demographics, Disease Presentation, and Treatment Methodology McClelland, PH; Gregory, SN; Nah, SK et al. Ann Surg Oncol, DOI://10.1245/s10434-024-15526-z (2024)
The Role of Interferon-γ in Autoimmune Polyendocrine Syndrome Type 1 Oikonomou, V; Smith, G; Constantine, GM et al. N Engl J Med, DOI://10.1056/NEJMoa2312665 (2024)
Slower CDK4 and faster CDK2 activation in the cell cycle Zhang, W; Liu, Y; Jang, H; Nussinov, R; , Structure, DOI://10.1016/j.str.2024.04.012 (2024)
Lack of genetic evidence for NLRP3 inflammasome involvement in Parkinson's disease pathogenesis Senkevich, K; Liu, L; Alvarado, CX et al. NPJ Parkinsons Dis, DOI://10.1038/s41531-024-00744-9 (2024)
High-throughput image processing software for the study of nuclear architecture and gene expression Keikhosravi, A; Almansour, F; Bohrer, CH et al. Sci Rep, DOI://10.1038/s41598-024-66600-1 (2024)
Combination Targeted Therapy in Relapsed Diffuse Large B-Cell Lymphoma Melani, C; Lakhotia, R; Pittaluga, S et al. N Engl J Med, DOI://10.1056/NEJMoa2401532 (2024)
Renal Mitochondrial ATP Transporter Ablation Ameliorates Obesity-Induced CKD Permyakova, A; Hamad, S; Hinden, L et al. J Am Soc Nephrol, DOI://10.1681/ASN.0000000000000294 (2024)
3D chromatin architecture, BRD4, and Mediator have distinct roles in regulating genome-wide transcriptional bursting and gene network Trzaskoma, P; Jung, S; Pękowska, A et al. Sci Adv, DOI://10.1126/sciadv.adl4893 (2024)
Motive and opportunity: MYC rearrangements in high-grade B-cell lymphoma with MYC and BCL2 rearrangements (an LLMPP study) Hilton, LK; Collinge, B; Ben-Neriah, S et al. Blood, DOI://10.1182/blood.2024024251 (2024)
Acceptors stability modulates the efficiency of post-translational protein N-glycosylation Couto, PM; Guardia, CMA; Couto, FL et al. FASEB J, DOI://10.1096/fj.202302267R (2024)
New discoveries in the genetics and genomics of systemic juvenile idiopathic arthritis Correia Marques, M; Ombrello, MJ; Schulert, GS; , Expert Rev Clin Immunol, DOI://10.1080/1744666X.2024.2345868 (2024)
Loss of tumor suppressors promotes inflammatory tumor microenvironment and enhances LAG3+T cell mediated immune suppression Zahraeifard, S; Xiao, Z; So, JY et al. Nat Commun, DOI://10.1038/s41467-024-50262-8 (2024)
Long-term health outcomes associated with hydration status Dmitrieva, NI; Boehm, M; Yancey, PH; Enhörning, S; , Nat Rev Nephrol, DOI://10.1038/s41581-024-00817-1 (2024)
Single-Cell Characterization of the Tumor Ecosystem in Liver Cancer Wang, L; Revsine, M; Wang, XW; Ma, L; , Methods Mol Biol, DOI://10.1007/978-1-0716-3694-7_12 (2024)
EncoMPASS: An encyclopedia of membrane proteins analyzed by structure and symmetry Aleksandrova, AA; Sarti, E; Forrest, LR; , Structure, DOI://10.1016/j.str.2024.01.011 (2024)
Genome-Wide Analysis Identifies Nuclear Factor 1C as a Novel Transcription Factor and Potential Therapeutic Target in SCLC Shukla, V; Wang, H; Varticovski, L et al. J Thorac Oncol, DOI://10.1016/j.jtho.2024.03.023 (2024)
A CTCF-binding site in the Mdm1-Il22-Ifng locus shapes cytokine expression profiles and plays a critical role in early Th1 cell fate specification Liu, C; Nagashima, H; Fernando, N et al. Immunity, DOI://10.1016/j.immuni.2024.04.007 (2024)
The Aconitate Decarboxylase 1/Itaconate Pathway Modulates Immune Dysregulation and Associates with Cardiovascular Disease Markers and Disease Activity in Systemic Lupus Erythematosus Patiño-Martinez, E; Nakabo, S; Jiang, K et al. J Immunol, DOI://10.4049/jimmunol.2400241 (2024)
In vitro identification of neutralizing epitopes of Rhipicephalus microplus serpin 17 (RmS-17) de Albuquerque, PMM; Kotál, J; Juliano, MA et al. Vaccine, DOI://10.1016/j.vaccine.2024.126161 (2024)
An AI-generated proteome-scale dataset of predicted protein structures for the ctenophore Mnemiopsis leidyi Moreland, RT; Zhang, S; Barreira, SN et al. Proteomics, DOI://10.1002/pmic.202300397 (2024)
The DNA Methyltransferase Inhibitor 5-Aza-4'-thio-2'-Deoxycytidine Induces C>G Transversions and Acute Lymphoid Leukemia Development Bertoli, RM; Chung, YJ; Difilippantonio, MJ et al. Cancer Res, DOI://10.1158/0008-5472.CAN-23-2785 (2024)
Single-cell profiling identifies a CD8bright CD244bright Natural Killer cell subset that reflects disease activity in HLA-A29-positive birdshot chorioretinopathy Nath, PR; Maclean, M; Nagarajan, V et al. Nat Commun, DOI://10.1038/s41467-024-50472-0 (2024)
Transcription factor Tox2 is required for metabolic adaptation and tissue residency of ILC3 in the gut Das, A; Martinez-Ruiz, GU; Bouladoux, N et al. Immunity, DOI://10.1016/j.immuni.2024.04.001 (2024)
OTMorph: Unsupervised Multi-domain Abdominal Medical Image Registration Using Neural Optimal Transport Kim, B; Zhuang, Y; Mathai, TS; Summers, RM; , IEEE Trans Med Imaging, DOI://10.1109/TMI.2024.3437295 (2024)
IRF4 requires ARID1A to establish plasma cell identity in multiple myeloma Bolomsky, A; Ceribelli, M; Scheich, S et al. Cancer Cell, DOI://10.1016/j.ccell.2024.05.026 (2024)
Reproducible preclinical models of androgen receptor driven human prostate cancer bone metastasis Yin, J; Daryanani, A; Lu, F et al. Prostate, DOI://10.1002/pros.24718 (2024)
The modification landscape of Pseudomonas aeruginosa tRNAs Mandler, MD; Maligireddy, SS; Guiblet, WM et al. RNA, DOI://10.1261/rna.080004.124 (2024)
Harnessing diversity to study Alzheimer's disease: A new iPSC resource from the NIH CARD and ADNI Screven, LA; Pantazis, CB; Andersh, KM et al. Neuron, DOI://10.1016/j.neuron.2024.01.026 (2024)
Chemoreactive 2,5-Diketopiperazines from a Penicillium sp., Structure Revision of Reported Analogues and Proposed Facile Transformation Pathways Khong, QT; Smith, EA; Wendt, KL et al. J Nat Prod, DOI://10.1021/acs.jnatprod.4c00478 (2024)
Genetic and environmental interactions contribute to immune variation in rewilded mice Oyesola, O; Downie, AE; Howard, N et al. Nat Immunol, DOI://10.1038/s41590-024-01862-5 (2024)
Cell-Free DNA Maps Tissue Injury and Correlates with Disease Severity in Lung Transplant Candidates Balasubramanian, S; Richert, ME; Kong, H et al. Am J Respir Crit Care Med, DOI://10.1164/rccm.202306-1064OC (2024)
Exploring the midgut physiology of the non-haematophagous mosquito Toxorhynchites theobaldi Barbosa, RC; Godoy, RSM; Ferreira, PG et al. Open Biol, DOI://10.1098/rsob.230437 (2024)
Cryo-EM structures of membrane-bound dynamin in a post-hydrolysis state primed for membrane fission Jimah, JR; Kundu, N; Stanton, AE et al. Dev Cell, DOI://10.1016/j.devcel.2024.04.008 (2024)
Gene body DNA hydroxymethylation restricts the magnitude of transcriptional changes during aging Occean, JR; Yang, N; Sun, Y et al. Nat Commun, DOI://10.1038/s41467-024-50725-y (2024)
Hippo pathway-mediated YAP1/TAZ inhibition is essential for proper pancreatic endocrine specification and differentiation Wu, Y; Qin, K; Xu, Y et al. Elife, DOI://10.7554/eLife.84532 (2024)
Metabolism-focused CRISPR screen unveils mitochondrial pyruvate carrier 1 as a critical driver for PARP inhibitor resistance in lung cancer Furusawa, T; Cavero, R; Liu, Y et al. Mol Carcinog, DOI://10.1002/mc.23705 (2024)
Brain Functional Connectome Defines a Transdiagnostic Dimension Shared by Cognitive Function and Psychopathology in Preadolescents Xiao, X; Hammond, C; Salmeron, BJ et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2023.08.028 (2024)
The three-sided right-handed β-helix is a versatile fold for glycan interactions Burnim, AA; Dufault-Thompson, K; Jiang, X; , Glycobiology, DOI://10.1093/glycob/cwae037 (2024)
Allosteric Activation of RhoA Complexed with p115-RhoGEF Deciphered by Conformational Dynamics Haspel, N; Jang, H; Nussinov, R; , J Chem Inf Model, DOI://10.1021/acs.jcim.3c01412 (2024)
Tubulin code eraser CCP5 binds branch glutamates by substrate deformation Chen, J; Zehr, EA; Gruschus, JM et al. Nature, DOI://10.1038/s41586-024-07699-0 (2024)
Lipid Trolling to Optimize A3 Adenosine Receptor-Positive Allosteric Modulators (PAMs) Pradhan, B; Pavan, M; Fisher, CL et al. J Med Chem, DOI://10.1021/acs.jmedchem.4c00944 (2024)
Specialized replication of heterochromatin domains ensures self-templated chromatin assembly and epigenetic inheritance Nathanailidou, P; Dhakshnamoorthy, J; Xiao, H et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2315596121 (2024)

Deafness DFNB128 Associated with a Recessive Variant of Human MAP3K1 Recapitulates Hearing Loss of Map3k1-Deficient Mice Faridi, R; Yousaf, R; Inagaki, S et al. Genes (Basel), DOI://10.3390/genes15070845 (2024)
A whole-genome CRISPR screen identifies the spindle accessory checkpoint as a locus of nab-paclitaxel resistance in a pancreatic cancer cell line Mondal, P; Alyateem, G; Mitchell, AV; Gottesman, MM; , Sci Rep, DOI://10.1038/s41598-024-66244-1 (2024)
An IDR-dependent mechanism for nuclear receptor control of Mediator interaction with RNA polymerase II Zhao, H; Li, J; Xiang, Y et al. Mol Cell, DOI://10.1016/j.molcel.2024.06.006 (2024)
Human neuroimaging and antipsychotic neurobiology at millisecond temporal resolution Eisenberg, DP; Berman, KF; , Neuropsychopharmacology, DOI://10.1038/s41386-024-01933-z (2024)
Sickle cell allele HBB-rs334(T) is associated with decreased risk of childhood Burkitt lymphoma in East Africa Hong, HG; Gouveia, MH; Ogwang, MD et al. Am J Hematol, DOI://10.1002/ajh.27149 (2024)
Genetic distance and ancestry proportion modify the association between maternal genetic risk score of type 2 diabetes and fetal growth Habtewold, TD; Wijesiriwardhana, P; Biedrzycki, RJ; Tekola-Ayele, F; , Hum Genomics, DOI://10.1186/s40246-024-00645-1 (2024)

Host obesity impacts genetic variation in influenza A viral populations Knoll, M; Honce, R; Meliopoulos, V et al. J Virol, DOI://10.1128/jvi.01778-23 (2024)
Enhanced Internal Dosimetry for Alimentary Tract Organs in Nuclear Medicine based on the ICRP Mesh-Type Reference Phantoms Kwon, TE; Han, H; Choi, C et al. Radiat Phys Chem Oxf Engl 1993, DOI://10.1016/j.radphyschem.2024.112009 (2024)
SIV infection and ARV treatment reshape the transcriptional and epigenetic profile of naïve and memory T cells in vivo Rahmberg, AR; Markowitz, TE; Mudd, JC et al. J Virol, DOI://10.1128/jvi.00283-24 (2024)
Weakly-Supervised Detection of Bone Lesions in CT Sheng, T; Mathai, TS; Shieh, A; Summers, RM; , Proc SPIE Int Soc Opt Eng, DOI://10.1117/12.3008823 (2024)
The landscape of rare genetic variants in familial Waldenström macroglobulinemia Pemov, A; Kim, J; Luo, W et al. Blood Neoplasia, DOI://10.1016/j.bneo.2024.100013 (2024)
Response to Bruton's tyrosine kinase inhibitors in aggressive lymphomas linked to chronic selective autophagy Phelan, JD; Scheich, S; Choi, J et al. Cancer Cell, DOI://10.1016/j.ccell.2023.12.019 (2024)

Epigenetic Age Mediates the Association of Life's Essential 8 With Cardiovascular Disease and Mortality Carbonneau, M; Li, Y; Prescott, B et al. J Am Heart Assoc, DOI://10.1161/JAHA.123.032743 (2024)
Plasma Extracellular MicroRNAs Associated With Cardiovascular Disease Risk Factors in Middle-Aged and Older Adults Karlin, H; Sooda, M; Larson, M et al. J Am Heart Assoc, DOI://10.1161/JAHA.123.033674 (2024)
Identification and structural characterization of a mutant KRAS-G12V specific TCR restricted by HLA-A3 Sim, MJW; Hanada, KI; Stotz, Z et al. Eur J Immunol, DOI://10.1002/eji.202451079 (2024)
Whole-genome sequence of Mucor velutinosus NIH1002, a strain associated with disseminated disease Conlan, S; Subramanian, P; Plata Barril, B et al. Microbiol Resour Announc, DOI://10.1128/mra.00062-24 (2024)
Mriyaviruses: small relatives of giant viruses Yutin, N; Mutz, P; Krupovic, M; Koonin, EV; , mBio, DOI://10.1128/mbio.01035-24 (2024)
Transkingdom Network Analysis (TkNA): a systems framework for inferring causal factors underlying host-microbiota and other multi-omic interactions Newman, NK; Macovsky, MS; Rodrigues, RR et al. Nat Protoc, DOI://10.1038/s41596-024-00960-w (2024)

Papillary tumor of the pineal region: analysis of DNA methylation profiles and clinical outcomes in 76 cases Wu, Z; Dazelle, K; Abdullaev, Z et al. Acta Neuropathol Commun, DOI://10.1186/s40478-024-01781-4 (2024)
2-Substituted (N)-Methanocarba A3 Adenosine Receptor Agonists: In Silico, In Vitro, and In Vivo Characterization Tosh, DK; Pavan, M; Cronin, C et al. ACS Pharmacol Transl Sci, DOI://10.1021/acsptsci.4c00223 (2024)
Epigenome-wide association study of lung cancer among never smokers in two prospective cohorts in Shanghai, China Rahman, ML; Breeze, CE; Shu, XO et al. Thorax, DOI://10.1136/thorax-2023-220352 (2024)
K128 ubiquitination constrains RAS activity by expanding its binding interface with GAP proteins Magits, W; Steklov, M; Jang, H et al. EMBO J, DOI://10.1038/s44318-024-00146-w (2024)
Chronic Alcohol Intake Compromises Lung Immunity by Altering Immunometabolism in Humans and Mouse Models Pommerolle, L; Arif, M; Behee, M et al. Am J Respir Cell Mol Biol, DOI://10.1165/rcmb.2024-0086OC (2024)
Inhibition of JAK-STAT pathway corrects salivary gland inflammation and interferon driven immune activation in Sjögren's disease Gupta, S; Yamada, E; Nakamura, H et al. Ann Rheum Dis, DOI://10.1136/ard-2023-224842 (2024)

Whole-exome sequencing of Nigerian benign prostatic hyperplasia reveals increased alterations in apoptotic pathways White, JA; Kaninjing, ET; Adeniji, KA et al. Prostate, DOI://10.1002/pros.24662 (2024)
Pleiotropic effects of an eQTL in the CELSR2/PSRC1/SORT1 cluster that associates with LDL-C and resting metabolic rate Bandesh, K; Freeland, K; Traurig, M et al. J Clin Endocrinol Metab, DOI://10.1210/clinem/dgae498 (2024)
Genome-scale exon perturbation screens uncover exons critical for cell fitness Xiao, MS; Damodaran, AP; Kumari, B et al. Mol Cell, DOI://10.1016/j.molcel.2024.05.024 (2024)
Preclinical Therapeutic Efficacy of RAF/MEK/ERK and IGF1R/AKT/mTOR Inhibition in Neuroblastoma Stauffer, S; Roth, JS; Hernandez, ER et al. Cancers (Basel), DOI://10.3390/cancers16132320 (2024)
Single-cell transcriptomic profiling of human pancreatic islets reveals genes responsive to glucose exposure over 24 h Grenko, CM; Taylor, HJ; Bonnycastle, LL et al. Diabetologia, DOI://10.1007/s00125-024-06214-4 (2024)
Characterization of tumor evolution by functional clonality and phylogenetics in hepatocellular carcinoma Kacar, Z; Slud, E; Levy, D et al. Commun Biol, DOI://10.1038/s42003-024-06040-9 (2024)

Evaluation of the Therapeutic Potential of Sulfonyl Urea Derivatives as Soluble Epoxide Hydrolase (sEH) Inhibitors Kundu, B; Dvorácskó, S; Basu, A et al. Molecules, DOI://10.3390/molecules29133036 (2024)
Diagnosing Progression in Glioblastoma-Tackling a Neuro-Oncology Problem Using Artificial-Intelligence-Derived Volumetric Change over Time on Magnetic Resonance Imaging to Examine Progression-Free Survival in Glioblastoma Belue, MJ; Harmon, SA; Chappidi, S et al. Diagnostics (Basel), DOI://10.3390/diagnostics14131374 (2024)
The gut-brain axis in individuals with alcohol use disorder: An exploratory study of associations among clinical symptoms, brain morphometry, and the gut microbiome Maki, KA; Wallen, GR; Bastiaanssen, TFS et al. Alcohol Clin Exp Res (Hoboken), DOI://10.1111/acer.15346 (2024)
The phage shock protein (PSP) envelope stress response: discovery of novel partners and evolutionary history Ravi, J; Anantharaman, V; Chen, SZ et al. mSystems, DOI://10.1128/msystems.00847-23 (2024)
Protein phosphatase 6 activates NF-κB to confer sensitivity to MAPK pathway inhibitors in KRAS- and BRAF-mutant cancer cells Zhang, H; Read, A; Cataisson, C et al. Sci Signal, DOI://10.1126/scisignal.add5073 (2024)
Endogenous retroviruses are dysregulated in ALS Pasternack, N; Doucet-O'Hare, T; Johnson, K et al. iScience, DOI://10.1016/j.isci.2024.110147 (2024)

Microenvironment shapes small-cell lung cancer neuroendocrine states and presents therapeutic opportunities Desai, P; Takahashi, N; Kumar, R et al. Cell Rep Med, DOI://10.1016/j.xcrm.2024.101610 (2024)
The contribution of silencer variants to human diseases Huang, D; Ovcharenko, I; , Genome Biol, DOI://10.1186/s13059-024-03328-1 (2024)
Allele-level visualization of transcription and chromatin by high-throughput imaging Almansour, F; Keikhosravi, A; Pegoraro, G; Misteli, T; , Histochem Cell Biol, DOI://10.1007/s00418-024-02289-7 (2024)
The homeobox transcription factor DUXBL controls exit from totipotency Vega-Sendino, M; Lüttmann, FF; Olbrich, T et al. Nat Genet, DOI://10.1038/s41588-024-01692-z (2024)
Distinct uptake and elimination profiles for trastuzumab, human IgG, and biocytin-TMR in experimental HER2+ brain metastases of breast cancer Silvestri, VL; Tran, AD; Chung, M et al. Neuro Oncol, DOI://10.1093/neuonc/noae025 (2024)
Transcriptional Heterogeneity Overcomes Super-Enhancer Disrupting Drug Combinations in Multiple Myeloma Welsh, SJ; Barwick, BG; Meermeier, EW et al. Blood Cancer Discov, DOI://10.1158/2643-3230.BCD-23-0062 (2024)
Chromosome segregation during spermatogenesis occurs through a unique center-kinetic mechanism in holocentric moth species Hockens, C; Lorenzi, H; Wang, TT et al. PLoS Genet, DOI://10.1371/journal.pgen.1011329 (2024)
The Methyltransferases METTL7A and METTL7B Confer Resistance to Thiol-Based Histone Deacetylase Inhibitors Robey, RW; Fitzsimmons, CM; Guiblet, WM et al. Mol Cancer Ther, DOI://10.1158/1535-7163.MCT-23-0144 (2024)
Untargeted metabolomic profiling reveals molecular signatures associated with type 2 diabetes in Nigerians Doumatey, AP; Shriner, D; Zhou, J et al. Genome Med, DOI://10.1186/s13073-024-01308-5 (2024)
PubTator 3.0: an AI-powered literature resource for unlocking biomedical knowledge Wei, CH; Allot, A; Lai, PT et al. Nucleic Acids Res, DOI://10.1093/nar/gkae235 (2024)
Potential association between suicide risk, aggression, impulsivity, and the somatosensory system Lee, Y; Gilbert, JR; Waldman, LR et al. Soc Cogn Affect Neurosci, DOI://10.1093/scan/nsae041 (2024)
Modulation of biophysical properties of nucleocapsid protein in the mutant spectrum of SARS-CoV-2 Nguyen, A; Zhao, H; Myagmarsuren, D et al. Elife, DOI://10.7554/eLife.94836 (2024)

Identification of intracellular bacteria from multiple single-cell RNA-seq platforms using CSI-Microbes Robinson, W; Stone, JK; Schischlik, F et al. Sci Adv, DOI://10.1126/sciadv.adj7402 (2024)
A selective CutMix approach improves generalizability of deep learning-based grading and risk assessment of prostate cancer Patkar, S; Harmon, S; Sesterhenn, I et al. J Pathol Inform, DOI://10.1016/j.jpi.2024.100381 (2024)
FASN Gene Methylation is Associated with Fatty Acid Synthase Expression and Clinical-genomic Features of Prostate Cancer Dairo, O; DePaula Oliveira, L; Schaffer, E et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-23-0248 (2024)
Genetic Risk Factors for Early-Onset Merkel Cell Carcinoma Mohsin, N; Hunt, D; Yan, J et al. JAMA Dermatol, DOI://10.1001/jamadermatol.2023.5362 (2024)
Enhanced ac4C detection in RNA via chemical reduction and cDNA synthesis with modified dNTPs Relier, S; Schiffers, S; Beiki, H; Oberdoerffer, S; , RNA, DOI://10.1261/rna.079863.123 (2024)
Structural basis of MALAT1 RNA maturation and mascRNA biogenesis Skeparnias, I; Bou-Nader, C; Anastasakis, DG et al. Nat Struct Mol Biol, DOI://10.1038/s41594-024-01340-4 (2024)
The oxidation of the [4Fe-4S] cluster of DNA primase alters the binding energies with DNA and RNA primers Amin, M; Brooks, BR; , Biophys J, DOI://10.1016/j.bpj.2024.05.007 (2024)
Trans-ancestral genome-wide association study of longitudinal pubertal height growth and shared heritability with adult health outcomes Bradfield, JP; Kember, RL; Ulrich, A et al. Genome Biol, DOI://10.1186/s13059-023-03136-z (2024)
Approximating facial expression effects on diagnostic accuracy via generative AI in medical genetics Patel, T; Othman, AA; Sümer, Ö et al. Bioinformatics, DOI://10.1093/bioinformatics/btae239 (2024)
Dynamic Elevation of Aromatic Amino Acids in Hepatitis C Virus-Induced Cirrhosis After a Standard Meal Hill, KL; Haddad, JA; Ali, RO et al. Clin Transl Gastroenterol, DOI://10.14309/ctg.0000000000000666 (2024)
A Comparison of CT-Based Pancreatic Segmentation Deep Learning Models Suri, A; Mukherjee, P; Pickhardt, PJ; Summers, RM; , Acad Radiol, DOI://10.1016/j.acra.2024.06.015 (2024)
Hub stability in the calcium calmodulin-dependent protein kinase II Chien, CT; Puhl, H; Vogel, SS et al. Commun Biol, DOI://10.1038/s42003-024-06423-y (2024)

A Camelid-Derived STAT-Specific Nanobody Inhibits Neuroinflammation and Ameliorates Experimental Autoimmune Encephalomyelitis (EAE) Mbanefo, EC; Seifert, A; Yadav, MK et al. Cells, DOI://10.3390/cells13121042 (2024)
Most Fanconi anemia heterozygotes are not at increased cancer risk: A genome-first DiscovEHR cohort population study Deng, J; Altintas, B; Haley, JS et al. Genet Med, DOI://10.1016/j.gim.2023.101042 (2024)
An Integrative Transcriptome Subtraction Strategy to Identify Human lncRNAs That Specifically Play a Role in Activation of Human Hepatic Stellate Cells Ma, Y; Harris, J; Li, P et al. Noncoding RNA, DOI://10.3390/ncrna10030034 (2024)
Diversity, origin, and evolution of the ESCRT systems Makarova, KS; Tobiasson, V; Wolf, YI et al. mBio, DOI://10.1128/mbio.00335-24 (2024)
CAR-T cell expansion platforms yield distinct T cell differentiation states Song, HW; Prochazkova, M; Shao, L et al. Cytotherapy, DOI://10.1016/j.jcyt.2024.03.003 (2024)
Three-dimensional chromatin reorganization regulates B cell development during ageing Ma, F; Cao, Y; Du, H et al. Nat Cell Biol, DOI://10.1038/s41556-024-01424-9 (2024)

A replication-deficient gammaherpesvirus vaccine protects mice from lytic disease and reduces latency establishment Bland, WA; Mitra, D; Owens, S et al. NPJ Vaccines, DOI://10.1038/s41541-024-00908-x (2024)
The Structural Basis of the Activity Cliff in Modafinil-Based Dopamine Transporter Inhibitors Lee, KH; Camacho-Hernandez, GA; Newman, AH; Shi, L; , Biomolecules, DOI://10.3390/biom14060713 (2024)
Perfluorinated Iridium Catalyst for Signal Amplification by Reversible Exchange Provides Metal-Free Aqueous Hyperpolarized [1-13C]-Pyruvate Ettedgui, J; Blackman, B; Raju, N et al. J Am Chem Soc, DOI://10.1021/jacs.3c11499 (2024)
PERCEPTION predicts patient response and resistance to treatment using single-cell transcriptomics of their tumors Sinha, S; Vegesna, R; Mukherjee, S et al. Nat Cancer, DOI://10.1038/s43018-024-00756-7 (2024)
Evaluation of somatic copy number variation detection by NGS technologies and bioinformatics tools on a hyper-diploid cancer genome Masood, D; Ren, L; Nguyen, C et al. Genome Biol, DOI://10.1186/s13059-024-03294-8 (2024)
Canine meningiomas are comprised of 3 DNA methylation groups that resemble the molecular characteristics of human meningiomas Zakimi, N; Mazcko, CN; Toedebusch, C et al. Acta Neuropathol, DOI://10.1007/s00401-024-02693-2 (2024)
Competitive Microarray Screening Reveals Functional Ligands for the DHX15 RNA G-Quadruplex Prestwood, PR; Yang, M; Lewis, GV et al. ACS Med Chem Lett, DOI://10.1021/acsmedchemlett.3c00574 (2024)
Long noncoding RNA GATA2AS influences human erythropoiesis by transcription factor and chromatin landscape modulation Liu, G; Kim, J; Nguyen, N et al. Blood, DOI://10.1182/blood.2023021287 (2024)
Comparative analysis and classification of highly divergent mouse rDNA units based on their intergenic spacer (IGS) variability Kim, JH; Nagaraja, R; Ogurtsov, AY et al. NAR Genom Bioinform, DOI://10.1093/nargab/lqae070 (2024)
Effects of Xylanase A double mutation on substrate specificity and structural dynamics MacDonald, ME; Wells, NGM; Hassan, BA et al. J Struct Biol, DOI://10.1016/j.jsb.2024.108082 (2024)
Genomic characterization of cervical lymph node metastases in papillary thyroid carcinoma following the Chornobyl accident Morton, LM; Lee, OW; Karyadi, DM et al. Nat Commun, DOI://10.1038/s41467-024-49292-z (2024)
ASXLs binding to the PHD2/3 fingers of MLL4 provides a mechanism for the recruitment of BAP1 to active enhancers Zhang, Y; Xie, G; Lee, JE et al. Nat Commun, DOI://10.1038/s41467-024-49391-x (2024)
Stem cell dynamics and cellular heterogeneity across lineage subtypes of castrate-resistant prostate cancer Beshiri, ML; Capaldo, BJ; Lake, R et al. Stem Cells, DOI://10.1093/stmcls/sxae025 (2024)
Linearly Amplified Single-Stranded RNA-Derived Transcriptome Sequencing (LAST-seq) Lyu, J; Chen, C; , Bio Protoc, DOI://10.21769/BioProtoc.4998 (2024)
Anti-idiotype isolation of a broad and potent influenza A virus-neutralizing human antibody Olia, AS; Prabhakaran, M; Harris, DR et al. Front Immunol, DOI://10.3389/fimmu.2024.1399960 (2024)
Protective human monoclonal antibodies target conserved sites of vulnerability on the underside of influenza virus neuraminidase Lederhofer, J; Tsybovsky, Y; Nguyen, L et al. Immunity, DOI://10.1016/j.immuni.2024.02.003 (2024)
Racial Differences in Donor-Derived Cell-Free DNA and Mitochondrial DNA After Heart Transplantation, on Behalf of the GRAfT Investigators Shah, P; Agbor-Enoh, S; Lee, S et al. Circ Heart Fail, DOI://10.1161/CIRCHEARTFAILURE.123.011160 (2024)
Epstein-Barr virus gp42 antibodies reveal sites of vulnerability for receptor binding and fusion to B cells Bu, W; Kumar, A; Board, NL et al. Immunity, DOI://10.1016/j.immuni.2024.02.008 (2024)
Hemophagocytic Lymphohistiocytosis Gene Variants in Severe Aplastic Anemia and Their Impact on Hematopoietic Cell Transplantation Outcomes Rafati, M; McReynolds, LJ; Wang, Y et al. Transplant Cell Ther, DOI://10.1016/j.jtct.2024.05.017 (2024)
KDM3B inhibitors disrupt the oncogenic activity of PAX3-FOXO1 in fusion-positive rhabdomyosarcoma Kim, YY; Gryder, BE; Sinniah, R et al. Nat Commun, DOI://10.1038/s41467-024-45902-y (2024)
Molecular targets of glucocorticoids that elucidate their therapeutic efficacy in aggressive lymphomas Choi, J; Ceribelli, M; Phelan, JD et al. Cancer Cell, DOI://10.1016/j.ccell.2024.04.007 (2024)
Differentiating neural sensitivity and bias during face-emotion processing in youth: a computational approach Haller, SP; Stoddard, J; Cardenas, SI et al. Soc Cogn Affect Neurosci, DOI://10.1093/scan/nsae034 (2024)
The complete sequence and comparative analysis of ape sex chromosomes Makova, KD; Pickett, BD; Harris, RS et al. Nature, DOI://10.1038/s41586-024-07473-2 (2024)
De novo TLK1 and MDM1 mutations in a patient with a neurodevelopmental disorder and immunodeficiency Villamor-Payà, M; Sanchiz-Calvo, M; Smak, J et al. iScience, DOI://10.1016/j.isci.2024.109984 (2024)

Sarcoma_CellminerCDB: A tool to interrogate the genomic and functional characteristics of a comprehensive collection of sarcoma cell lines Tlemsani, C; Heske, CM; Elloumi, F et al. iScience, DOI://10.1016/j.isci.2024.109781 (2024)
Messenger RNA transport on lysosomal vesicles maintains axonal mitochondrial homeostasis and prevents axonal degeneration De Pace, R; Ghosh, S; Ryan, VH et al. Nat Neurosci, DOI://10.1038/s41593-024-01619-1 (2024)
Systematic Assessment of Deep Learning-Based Predictors of Fragmentation Intensity Profiles Hamaneh, MB; Ogurtsov, AY; Obolensky, OI; Yu, YK; , J Proteome Res, DOI://10.1021/acs.jproteome.3c00857 (2024)
DNAJC9 prevents CENP-A mislocalization and chromosomal instability by maintaining the fidelity of histone supply chains Balachandra, V; Shrestha, RL; Hammond, CM et al. EMBO J, DOI://10.1038/s44318-024-00093-6 (2024)
Catalytic residues of microRNA Argonautes play a modest role in microRNA star strand destabilization in C. elegans Kotagama, K; Grimme, AL; Braviner, L et al. Nucleic Acids Res, DOI://10.1093/nar/gkae170 (2024)
Germline findings in cancer predisposing genes from a small cohort of chordoma patients Raygada, M; John, L; Liu, A et al. J Cancer Res Clin Oncol, DOI://10.1007/s00432-024-05706-5 (2024)
hRpn13 shapes the proteome and transcriptome through epigenetic factors HDAC8, PADI4, and transcription factor NF-κB p50 Osei-Amponsa, V; Chandravanshi, M; Lu, X et al. Mol Cell, DOI://10.1016/j.molcel.2023.11.035 (2024)
Multiplexing the Identification of Microorganisms via Tandem Mass Tag Labeling Augmented by Interference Removal through a Novel Modification of the Expectation Maximization Algorithm Alves, G; Ogurtsov, AY; Porterfield, H et al. J Am Soc Mass Spectrom, DOI://10.1021/jasms.3c00445 (2024)
Spatial proximity of tumor-immune interactions predicts patient outcome in hepatocellular carcinoma Maestri, E; Kedei, N; Khatib, S et al. Hepatology, DOI://10.1097/HEP.0000000000000600 (2024)
Adding Fuel to the Fire? The Skin Microbiome in Atopic Dermatitis Saheb Kashaf, S; Kong, HH; , J Invest Dermatol, DOI://10.1016/j.jid.2024.01.011 (2024)
Abrogation of the G2/M checkpoint as a chemosensitization approach for alkylating agents Lang, F; Cornwell, JA; Kaur, K et al. Neuro Oncol, DOI://10.1093/neuonc/noad252 (2024)
Sleep and Risk of Pancreatic Cancer in the UK Biobank Freeman, JR; Saint-Maurice, PF; Zhang, T et al. Cancer Epidemiol Biomarkers Prev, DOI://10.1158/1055-9965.EPI-23-0983 (2024)

Decoupling the correlation between cytotoxic and exhausted T lymphocyte states enhances melanoma immunotherapy response prediction Wang, B; Wang, K; Wu, D et al. iScience, DOI://10.1016/j.isci.2024.109926 (2024)
Automated detection of incidental abdominal aortic aneurysms on computed tomography Chatterjee, D; Shen, TC; Mukherjee, P et al. Abdom Radiol (NY), DOI://10.1007/s00261-023-04119-1 (2024)
Acute depletion of BRG1 reveals its primary function as an activator of transcription Ren, G; Ku, WL; Ge, G et al. Nat Commun, DOI://10.1038/s41467-024-48911-z (2024)
SHP2-EGFR States in Dephosphorylation Can Inform Selective SHP2 Inhibitors, Dampening RasGAP Action Liu, Y; Jang, H; Nussinov, R; , J Phys Chem B, DOI://10.1021/acs.jpcb.4c00873 (2024)
Exploring the transcriptome of immature stages of Ornithodoros hermsi, the soft-tick vector of tick-borne relapsing fever de Sousa-Paula, LC; Berger, M; Talyuli, OAC et al. Sci Rep, DOI://10.1038/s41598-024-62732-6 (2024)
Conformations of Bcs1L undergoing ATP hydrolysis suggest a concerted translocation mechanism for folded iron-sulfur protein substrate Zhan, J; Zeher, A; Huang, R et al. Nat Commun, DOI://10.1038/s41467-024-49029-y (2024)

Exome sequencing implicates ancestry-related Mendelian variation at SYNE1 in childhood-onset essential hypertension Copeland, I; Wonkam-Tingang, E; Gupta-Malhotra, M et al. JCI Insight, DOI://10.1172/jci.insight.172152 (2024)
Neoantigen-specific stimulation of tumor-infiltrating lymphocytes enables effective TCR isolation and expansion while preserving stem-like memory phenotypes Levin, N; Kim, SP; Marquardt, CA et al. J Immunother Cancer, DOI://10.1136/jitc-2023-008645 (2024)
LORIS robustly predicts patient outcomes with immune checkpoint blockade therapy using common clinical, pathologic and genomic features Chang, TG; Cao, Y; Sfreddo, HJ et al. Nat Cancer, DOI://10.1038/s43018-024-00772-7 (2024)
Biomimetic Vesicles with Designer Phospholipids Can Sense Environmental Redox Cues Erguven, H; Wang, L; Gutierrez, B et al. JACS Au, DOI://10.1021/jacsau.4c00041 (2024)
CDK2 and CDK4: Cell Cycle Functions Evolve Distinct, Catalysis-Competent Conformations, Offering Drug Targets Zhang, W; Liu, Y; Jang, H; Nussinov, R; , JACS Au, DOI://10.1021/jacsau.4c00138 (2024)
GPCR Screening Reveals that the Metabolite Receptor HCAR3 Regulates Epithelial Proliferation, Migration, and Cellular Respiration Pedro, MP; Lund, K; Kang, SWS et al. J Invest Dermatol, DOI://10.1016/j.jid.2023.12.002 (2024)
A molecular switch controls assembly of bacterial focal adhesions Attia, B; My, L; Castaing, JP et al. Sci Adv, DOI://10.1126/sciadv.adn2789 (2024)
Mechanism of complement inhibition by a mosquito protein revealed through cryo-EM Andersen, JF; Lei, H; Strayer, EC et al. Commun Biol, DOI://10.1038/s42003-024-06351-x (2024)
Pathogenic CANVAS (AAGGG)n repeats stall DNA replication due to the formation of alternative DNA structures Hisey, JA; Radchenko, EA; Mandel, NH et al. Nucleic Acids Res, DOI://10.1093/nar/gkae124 (2024)
Resf1 is a compound G4 quadruplex-associated tumor suppressor for triple negative breast cancer Majocha, MR; Jackson, DE; Ha, NH et al. PLoS Genet, DOI://10.1371/journal.pgen.1011236 (2024)
The reference genome of Macropodus opercularis (the paradise fish) Fodor, E; Okendo, J; Szabó, N et al. Sci Data, DOI://10.1038/s41597-024-03277-1 (2024)
Profiling complex repeat expansions in RFC1 in Parkinson's disease Alvarez Jerez, P; Daida, K; Miano-Burkhardt, A et al. NPJ Parkinsons Dis, DOI://10.1038/s41531-024-00723-0 (2024)
Single-Shot 3D Reconstruction via Nonlinear Fringe Transformation: Supervised and Unsupervised Learning Approaches Nguyen, AH; Wang, Z; , Sensors (Basel), DOI://10.3390/s24103246 (2024)
Dory: Computation of persistence diagrams up to dimension two for Vietoris-Rips filtrations of large data sets Aggarwal, M; Periwal, V; , J Comput Sci, DOI://10.1016/j.jocs.2024.102290 (2024)
UPF1 ATPase autoinhibition and activation modulate RNA binding kinetics and NMD efficiency Chapman, JH; Youle, AM; Grimme, AL et al. Nucleic Acids Res, DOI://10.1093/nar/gkae136 (2024)
Examining chromatin heterogeneity through PacBio long-read sequencing of M.EcoGII methylated genomes: an m6A detection efficiency and calling bias correcting pipeline Dennis, AF; Xu, Z; Clark, DJ; , Nucleic Acids Res, DOI://10.1093/nar/gkae288 (2024)
Genome-wide analyses reveals an association between invasive urothelial carcinoma in the Shetland sheepdog and NIPAL1 Parker, HG; Harris, AC; Plassais, J et al. NPJ Precis Oncol, DOI://10.1038/s41698-024-00591-0 (2024)
CoCoNuTs are a diverse subclass of Type IV restriction systems predicted to target RNA Bell, RT; Sahakyan, H; Makarova, KS et al. Elife, DOI://10.7554/eLife.94800 (2024)

Identification of the potassium-binding site in serotonin transporter Hellsberg, E; Boytsov, D; Chen, Q et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2319384121 (2024)
Germline pathogenic variants associated with triple-negative breast cancer in US Hispanic and Guatemalan women using hospital and community-based recruitment strategies Godinez Paredes, JM; Rodriguez, I; Ren, M et al. Breast Cancer Res Treat, DOI://10.1007/s10549-024-07300-2 (2024)
Detection of abdominopelvic lymph nodes in multi-parametric MRI Mathai, TS; Shen, TC; Elton, DC et al. Comput Med Imaging Graph, DOI://10.1016/j.compmedimag.2024.102363 (2024)
Segmentation of pelvic structures in T2 MRI via MR-to-CT synthesis Zhuang, Y; Mathai, TS; Mukherjee, P; Summers, RM; , Comput Med Imaging Graph, DOI://10.1016/j.compmedimag.2024.102335 (2024)
MGMT ProFWise: Unlocking a New Application for Combined Feature Selection and the Rank-Based Weighting Method to Link MGMT Methylation Status to Serum Protein Expression in Patients with Glioblastoma Tasci, E; Shah, Y; Jagasia, S et al. Int J Mol Sci, DOI://10.3390/ijms25074082 (2024)
Shared and distinct mechanisms of UBA1 inactivation across different diseases Collins, JC; Magaziner, SJ; English, M et al. EMBO J, DOI://10.1038/s44318-024-00046-z (2024)

Correlation of protein binding pocket properties with hits' chemistries used in generation of ultra-large virtual libraries Song, RX; Nicklaus, MC; Tarasova, NI; , J Comput Aided Mol Des, DOI://10.1007/s10822-024-00562-4 (2024)
Impacts of human mobility on the citywide transmission dynamics of 18 respiratory viruses in pre- and post-COVID-19 pandemic years Perofsky, AC; Hansen, CL; Burstein, R et al. Nat Commun, DOI://10.1038/s41467-024-48528-2 (2024)
Regulation of T helper cell differentiation by the interplay between histone modification and chromatin interaction Liu, S; Cao, Y; Cui, K et al. Immunity, DOI://10.1016/j.immuni.2024.03.018 (2024)
Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-Specific Transcriptome and Molecular Subtype Bahrambeigi, V; Lee, JJ; Branchi, V et al. Cancer Res, DOI://10.1158/0008-5472.CAN-23-4070 (2024)
Structural Relationships to Efficacy for Prazole-Derived Antivirals Nyenhuis, DA; Watanabe, S; Bernstein, R et al. Adv Sci (Weinh), DOI://10.1002/advs.202308312 (2024)
Fecal transplant from vaginally seeded infants decreases intraabdominal adiposity in mice Namasivayam, S; Tilves, C; Ding, H et al. Gut Microbes, DOI://10.1080/19490976.2024.2353394 (2024)

Sex-difference in the association between social drinking, structural brain aging and cognitive function in older individuals free of cognitive impairment Abulseoud, OA; Caparelli, EC; Krell-Roesch, J et al. Front Psychiatry, DOI://10.3389/fpsyt.2024.1235171 (2024)
The variation and evolution of complete human centromeres Logsdon, GA; Rozanski, AN; Ryabov, F et al. Nature, DOI://10.1038/s41586-024-07278-3 (2024)
Defence systems and horizontal gene transfer in bacteria Kogay, R; Wolf, YI; Koonin, EV; , Environ Microbiol, DOI://10.1111/1462-2920.16630 (2024)
Vitamin D regulates microbiome-dependent cancer immunity Giampazolias, E; Pereira da Costa, M; Lam, KC et al. Science, DOI://10.1126/science.adh7954 (2024)
Programming a Ferroptosis-to-Apoptosis Transition Landscape Revealed Ferroptosis Biomarkers and Repressors for Cancer Therapy Vinik, Y; Maimon, A; Dubey, V et al. Adv Sci (Weinh), DOI://10.1002/advs.202307263 (2024)
HPV oncogenes expressed from only one of multiple integrated HPV DNA copies drive clonal cell expansion in cervical cancer Yu, L; Majerciak, V; Lobanov, A et al. mBio, DOI://10.1128/mbio.00729-24 (2024)
Functionally diverse thymic medullary epithelial cells interplay to direct central tolerance Ushio, A; Matsuda-Lennikov, M; Kalle-Youngoue, F et al. Cell Rep, DOI://10.1016/j.celrep.2024.114072 (2024)
Magnolol derivatives as specific and noncytotoxic inhibitors of breast cancer resistance protein (BCRP/ABCG2) da Silva Zanzarini, I; Henrique Kita, D; Scheiffer, G et al. Bioorg Chem, DOI://10.1016/j.bioorg.2024.107283 (2024)
Contrasting neurofunctional correlates of face- and visuospatial-processing in children and adolescents with Williams syndrome: convergent results from four fMRI paradigms Garvey, MH; Nash, T; Kippenhan, JS et al. Sci Rep, DOI://10.1038/s41598-024-60460-5 (2024)
A Toxoplasma gondii O-glycosyltransferase that modulates bradyzoite cyst wall rigidity is distinct from host homologues Kumar, P; Tomita, T; Gerken, TA et al. Nat Commun, DOI://10.1038/s41467-024-48253-w (2024)
Lessons learned from an fMRI-guided rTMS study on performance in a numerical Stroop task Beynel, L; Gura, H; Rezaee, Z et al. PLoS One, DOI://10.1371/journal.pone.0302660 (2024)
Biallelic BORCS8 variants cause an infantile-onset neurodegenerative disorder with altered lysosome dynamics De Pace, R; Maroofian, R; Paimboeuf, A et al. Brain, DOI://10.1093/brain/awad427 (2024)
An Ixodes persulcatus Inhibitor of Plasmin and Thrombin Hinders Keratinocyte Migration, Blood Coagulation, and Endothelial Permeability Berger, M; Rosa da Mata, S; Pizzolatti, NM et al. J Invest Dermatol, DOI://10.1016/j.jid.2023.10.026 (2024)
Universal detection and segmentation of lymph nodes in multi-parametric MRI Mathai, TS; Lee, S; Shen, TC et al. Int J Comput Assist Radiol Surg, DOI://10.1007/s11548-023-02954-7 (2024)
Protocol for the genomic analysis of salt-fractionated chromatin from frozen murine liver Yang, N; Sikder, S; Dalal, Y; Sen, P; , STAR Protoc, DOI://10.1016/j.xpro.2024.103043 (2024)
Conformational free-energy landscapes of a Na+/Ca2+ exchanger explain its alternating-access mechanism and functional specificity Marinelli, F; Faraldo-Gómez, JD; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2318009121 (2024)
Polycomb protein binding and looping in the ON transcriptional state Brown, JL; Zhang, L; Rocha, PP et al. Sci Adv, DOI://10.1126/sciadv.adn1837 (2024)
The genome of the colonial hydroid Hydractinia reveals that their stem cells use a toolkit of evolutionarily shared genes with all animals Schnitzler, CE; Chang, ES; Waletich, J et al. Genome Res, DOI://10.1101/gr.278382.123 (2024)

Network-based approach elucidates critical genes in BRCA subtypes and chemotherapy response in triple negative breast cancer Agrawal, P; Jain, N; Gopalan, V et al. iScience, DOI://10.1016/j.isci.2024.109752 (2024)
Multi-omic profiling of follicular lymphoma reveals changes in tissue architecture and enhanced stromal remodeling in high-risk patients Radtke, AJ; Postovalova, E; Varlamova, A et al. Cancer Cell, DOI://10.1016/j.ccell.2024.02.001 (2024)
Dopamine signaling enriched striatal gene set predicts striatal dopamine synthesis and physiological activity in vivo Sportelli, L; Eisenberg, DP; Passiatore, R et al. Nat Commun, DOI://10.1038/s41467-024-47456-5 (2024)
Cortico-striatal differences in the epigenome in attention-deficit/ hyperactivity disorder Shastri, GG; Sudre, G; Ahn, K et al. Transl Psychiatry, DOI://10.1038/s41398-024-02896-x (2024)
Large-scale genomic survey with deep learning-based method reveals strain-level phage specificity determinants Yang, Y; Dufault-Thompson, K; Yan, W et al. Gigascience, DOI://10.1093/gigascience/giae017 (2024)
Altered pubertal timing in 7q11.23 copy number variations and associated genetic mechanisms Wei, SM; Gregory, MD; Nash, T et al. iScience, DOI://10.1016/j.isci.2024.109113 (2024)
Cooperative Armoring of CAR and TCR T Cells by T Cell-Restricted IL15 and IL21 Universally Enhances Solid Tumor Efficacy Nguyen, R; Doubrovina, E; Mousset, CM et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-23-1872 (2024)
Immune determinants of CAR-T cell expansion in solid tumor patients receiving GD2 CAR-T cell therapy Kaczanowska, S; Murty, T; Alimadadi, A et al. Cancer Cell, DOI://10.1016/j.ccell.2023.11.011 (2024)
A Unifying Model for Discordant and Concordant Results in Human Neuroimaging Studies of Facial Viewpoint Selectivity Revsine, C; Gonzalez-Castillo, J; Merriam, EP et al. J Neurosci, DOI://10.1523/JNEUROSCI.0296-23.2024 (2024)
Lineage specific transcription factor waves reprogram neuroblastoma from self-renewal to differentiation Banerjee, D; Bagchi, S; Liu, Z et al. Nat Commun, DOI://10.1038/s41467-024-47166-y (2024)
Light affects the prefrontal cortex via intrinsically photosensitive retinal ganglion cells Lazzerini Ospri, L; Zhan, JJ; Thomsen, MB et al. Sci Adv, DOI://10.1126/sciadv.adh9251 (2024)
Estimating the overall fraction of phenotypic variance attributed to high-dimensional predictors measured with error Mandal, S; Kim, DH; Hua, X et al. Biostatistics, DOI://10.1093/biostatistics/kxad001 (2024)

Revealing speckle obscured living human retinal cells with artificial intelligence assisted adaptive optics optical coherence tomography Das, V; Zhang, F; Bower, AJ et al. Commun Med (Lond), DOI://10.1038/s43856-024-00483-1 (2024)
MUSSEL: Enhanced Bayesian polygenic risk prediction leveraging information across multiple ancestry groups Jin, J; Zhan, J; Zhang, J et al. Cell Genom, DOI://10.1016/j.xgen.2024.100539 (2024)
rWTC-MBTA Vaccine Induces Potent Adaptive Immune Responses Against Glioblastomas via Dynamic Activation of Dendritic Cells Wang, H; Medina, R; Ye, J et al. Adv Sci (Weinh), DOI://10.1002/advs.202308280 (2024)
Cell-type-specific mRNA transcription and degradation kinetics in zebrafish embryogenesis from metabolically labeled single-cell RNA-seq Fishman, L; Modak, A; Nechooshtan, G et al. Nat Commun, DOI://10.1038/s41467-024-47290-9 (2024)
Homeodomain-only protein suppresses proliferation and contributes to differentiation- and age-related reduced CD8+ T cell expansion Yang, Q; Patrick, M; Lu, J et al. Front Immunol, DOI://10.3389/fimmu.2024.1360229 (2024)
The small protein MntS evolved from a signal peptide and acquired a novel function regulating manganese homeostasis in Escherichia coli Wright, Z; Seymour, M; Paszczak, K et al. Mol Microbiol, DOI://10.1111/mmi.15206 (2024)
Transcriptome-wide analysis of the function of Ded1 in translation preinitiation complex assembly in a reconstituted in vitro system Zhou, F; Bocetti, JM; Hou, M et al. Elife, DOI://10.7554/eLife.93255 (2024)
Establishment and Characterization of Amitrole-Induced Mouse Thyroid Adenomatous Nodule-Derived Cell Lines Shirai, YT; Hoshi, N; Ward, JM et al. Thyroid, DOI://10.1089/thy.2023.0341 (2024)
Inhibition of MEK Signaling Attenuates Cancer Stem Cell Activity in Anaplastic Thyroid Cancer Kimura, T; Doolittle, WKL; Kruhlak, M et al. Thyroid, DOI://10.1089/thy.2023.0521 (2024)
Disruption of Ca2+/calmodulin:KSR1 interaction lowers ERK activation Thines, L; Jang, H; Li, Z et al. Protein Sci, DOI://10.1002/pro.4982 (2024)
MYCN drives oncogenesis by cooperating with the histone methyltransferase G9a and the WDR5 adaptor to orchestrate global gene transcription Liu, Z; Zhang, X; Xu, M et al. PLoS Biol, DOI://10.1371/journal.pbio.3002240 (2024)
Impact of CRISPR/HDR editing versus lentiviral transduction on long-term engraftment and clonal dynamics of HSPCs in rhesus macaques Lee, BC; Gin, A; Wu, C et al. Cell Stem Cell, DOI://10.1016/j.stem.2024.02.010 (2024)
IKAROS gain of function disease: Allogeneic hematopoietic cell transplantation experience and expanded clinical phenotypes Klangkalya, N; Stoddard, J; Niemela, J et al. Clin Immunol, DOI://10.1016/j.clim.2024.109922 (2024)
Point mutations in Arf1 reveal cooperative effects of the N-terminal extension and myristate for GTPase-activating protein catalytic activity Rosenberg, EM; Jian, X; Soubias, O et al. PLoS One, DOI://10.1371/journal.pone.0295103 (2024)
Electric Field Characteristics of Rotating Permanent Magnet Stimulation Robins, PL; Makaroff, SN; Dib, M et al. Bioengineering (Basel), DOI://10.3390/bioengineering11030258 (2024)
Clinical, behavioral, and electrophysiological profiles along a continuum of suicide risk: evidence from an implicit association task Lamontagne, SJ; Gilbert, JR; Zabala, PK et al. Psychol Med, DOI://10.1017/S0033291723003331 (2024)
Conserved Noncoding Elements Evolve Around the Same Genes Throughout Metazoan Evolution Gonzalez, P; Hauck, QC; Baxevanis, AD; , Genome Biol Evol, DOI://10.1093/gbe/evae052 (2024)
Questionnaire-based exposome-wide association studies for common diseases in the Personalized Environment and Genes Study Lloyd, D; House, JS; Akhtari, FS et al. Exposome, DOI://10.1093/exposome/osae002 (2024)

Nucleosome reorganisation in breast cancer tissues Jacob, DR; Guiblet, WM; Mamayusupova, H et al. Clin Epigenetics, DOI://10.1186/s13148-024-01656-4 (2024)
Flipped C-Terminal Ends of APOA1 Promote ABCA1-Dependent Cholesterol Efflux by Small HDLs He, Y; Pavanello, C; Hutchins, PM et al. Circulation, DOI://10.1161/CIRCULATIONAHA.123.065959 (2024)
Cox model inference for relative hazard and pure risk from stratified weight-calibrated case-cohort data Etievant, L; Gail, MH; , Lifetime Data Anal, DOI://10.1007/s10985-024-09621-2 (2024)
A structure-based designed small molecule depletes hRpn13Pru and a select group of KEN box proteins Lu, X; Chandravanshi, M; Sabbasani, VR et al. Nat Commun, DOI://10.1038/s41467-024-46644-7 (2024)
Syntaxin1A overexpression and pain insensitivity in individuals with 7q11.23 duplication syndrome Iadarola, MJ; Sapio, MR; Loydpierson, AJ et al. JCI Insight, DOI://10.1172/jci.insight.176147 (2024)
Defining biology and recurrence risk in prostate cancers treated by neoadjuvant chemohormonal therapy Wilkinson, S; Sowalsky, AG; , J Natl Cancer Inst, DOI://10.1093/jnci/djad192 (2024)
Corrigendum: Glioblastoma survival is associated with distinct proteomic alteration signatures post chemoirradiation in a large-scale proteomic panel Krauze, AV; Sierk, M; Nguyen, T et al. Front Oncol, DOI://10.3389/fonc.2024.1348105 (2024)
Trial-by-trial variability in cortical responses exhibits scaling of spatial correlations predicted from critical dynamics Ribeiro, TL; Jendrichovsky, P; Yu, S et al. Cell Rep, DOI://10.1016/j.celrep.2024.113762 (2024)
Outcome differences by sex in oncology clinical trials Kammula, AV; Schäffer, AA; Rajagopal, PS et al. Nat Commun, DOI://10.1038/s41467-024-46945-x (2024)
Caspase-1 activates gasdermin A in non-mammals Billman, ZP; Kovacs, SB; Wei, B et al. Elife, DOI://10.7554/eLife.92362 (2024)
Yeast eIF2A has a minimal role in translation initiation and uORF-mediated translational control in vivo Gaikwad, S; Ghobakhlou, F; Zhang, H; Hinnebusch, AG; , Elife, DOI://10.7554/eLife.92916 (2024)
Transcriptional control of leukemogenesis by the chromatin reader SGF29 Barbosa, K; Deshpande, A; Perales, M et al. Blood, DOI://10.1182/blood.2023021234 (2024)
AutoGVP: a dockerized workflow integrating ClinVar and InterVar germline sequence variant classification Kim, J; Naqvi, AS; Corbett, RJ et al. Bioinformatics, DOI://10.1093/bioinformatics/btae114 (2024)
Recruitment and Maintenance of CX3CR1+CD4+ T Cells during Helminth Infection Loredan, DG; Devlin, JC; Khanna, KM; Loke, P; , J Immunol, DOI://10.4049/jimmunol.2300451 (2024)
Comparative neuroimaging of sex differences in human and mouse brain anatomy Guma, E; Beauchamp, A; Liu, S et al. Elife, DOI://10.7554/eLife.92200 (2024)
Leucine-rich repeat kinase 2 limits dopamine D1 receptor signaling in striatum and biases against heavy persistent alcohol drinking da Silva, D; Matsui, A; Murray, EM et al. Neuropsychopharmacology, DOI://10.1038/s41386-023-01731-z (2024)
Annotating microbial functions with ProkFunFind Dufault-Thompson, K; Jiang, X; , mSystems, DOI://10.1128/msystems.00036-24 (2024)
Molecular and clinicopathologic characteristics of CNS embryonal tumors with BRD4::LEUTX fusion Andreiuolo, F; Ferrone, CK; Rajan, S et al. Acta Neuropathol Commun, DOI://10.1186/s40478-024-01746-7 (2024)
A longitudinal transcriptomic analysis of Rhipicephalus microplus midgut upon feeding Lu, S; Waldman, J; Parizi, LF et al. Ticks Tick Borne Dis, DOI://10.1016/j.ttbdis.2023.102304 (2024)
Reprogramming of cardiac phosphoproteome, proteome, and transcriptome confers resilience to chronic adenylyl cyclase-driven stress Qu, JH; Chakir, K; Tarasov, KV et al. Elife, DOI://10.7554/eLife.88732 (2024)
Degradation and translation of maternal mRNA for embryogenesis Yang, G; Xin, Q; Dean, J; , Trends Genet, DOI://10.1016/j.tig.2023.12.008 (2024)
Comprehensive gene profiling of the metabolic landscape of humanized livers in mice Jiang, C; Li, P; Ma, Y et al. J Hepatol, DOI://10.1016/j.jhep.2023.11.020 (2024)
Developmental conversion of thymocyte-attracting cells into self-antigen-displaying cells in embryonic thymus medulla epithelium Ohigashi, I; White, AJ; Yang, MT et al. Elife, DOI://10.7554/eLife.92552 (2024)
QTL mapping of human retina DNA methylation identifies 87 gene-epigenome interactions in age-related macular degeneration Advani, J; Mehta, PA; Hamel, AR et al. Nat Commun, DOI://10.1038/s41467-024-46063-8 (2024)

FRETpredict: a Python package for FRET efficiency predictions using rotamer libraries Montepietra, D; Tesei, G; Martins, JM et al. Commun Biol, DOI://10.1038/s42003-024-05910-6 (2024)
Mycophenolate mofetil inhibits Merkel cell carcinoma growth Garman, KA; Thoreson, N; Strong, J et al. Br J Dermatol, DOI://10.1093/bjd/ljae018 (2024)
Author Correction: ATR inhibition augments the efficacy of lurbinectedin in small-cell lung cancer Schultz, CW; Zhang, Y; Elmeskini, R et al. EMBO Mol Med, DOI://10.1038/s44321-024-00029-x (2024)
Interferon induced circRNAs escape herpesvirus host shutoff and suppress lytic infection Dremel, SE; Tagawa, T; Koparde, VN et al. EMBO Rep, DOI://10.1038/s44319-023-00051-z (2024)
Regional centromere configuration in the fungal pathogens of the Pneumocystis genus Cissé, OH; Curran, SJ; Folco, HD et al. mBio, DOI://10.1128/mbio.03185-23 (2024)
Comparison of clinical geneticist and computer visual attention in assessing genetic conditions Duong, D; Johny, AR; Ledgister Hanchard, S et al. PLoS Genet, DOI://10.1371/journal.pgen.1011168 (2024)
Complete genome sequence of a novel papillomavirus in Siamese fighting fish (Betta splendens) from Trinidad and Tobago Blake, L; Phillips Savage, AC; Soto, E et al. Microbiol Resour Announc, DOI://10.1128/mra.00999-23 (2024)
Formation of Trideuteromethylated Artifacts of Pyrrole-Containing Natural Products Orfanoudaki, M; Akee, RK; Martínez-Fructuoso, L et al. J Nat Prod, DOI://10.1021/acs.jnatprod.3c01113 (2024)
A spatial map of hepatic mitochondria uncovers functional heterogeneity shaped by nutrient-sensing signaling Kang, SWS; Cunningham, RP; Miller, CB et al. Nat Commun, DOI://10.1038/s41467-024-45751-9 (2024)
Neopetrotaurines A-C, Isoquinoline Alkaloids with an Unprecedented Taurine Bridge from the Sponge Neopetrosia sp Wang, D; Jiang, W; Churiwal, M et al. J Nat Prod, DOI://10.1021/acs.jnatprod.3c01041 (2024)
Tdrd3-null mice show post-transcriptional and behavioral impairments associated with neurogenesis and synaptic plasticity Zhu, X; Joo, Y; Bossi, S et al. Prog Neurobiol, DOI://10.1016/j.pneurobio.2024.102568 (2024)
Biological aging markers in blood and brain tissue indicate age acceleration in alcohol use disorder Zillich, L; Cetin, M; Hummel, EM et al. Alcohol Clin Exp Res (Hoboken), DOI://10.1111/acer.15241 (2024)
Gut-liver axis calibrates intestinal stem cell fitness Kim, G; Chen, Z; Li, J et al. Cell, DOI://10.1016/j.cell.2024.01.001 (2024)
Actigraphy-derived measures of sleep and risk of prostate cancer in the UK Biobank Freeman, JR; Saint-Maurice, PF; Watts, EL et al. J Natl Cancer Inst, DOI://10.1093/jnci/djad210 (2024)
Geographic Distribution of Human Infections with Zoonotic Ancylostoma ceylanicum and Anthropophilic Hookworms in Ecuador: A Retrospective Analysis of Archived Stool Samples Aguilar-Rodríguez, D; Seco-Hidalgo, V; Lopez, A et al. Am J Trop Med Hyg, DOI://10.4269/ajtmh.23-0469 (2024)
Lineage and ecology define liver tumor evolution in response to treatment Revsine, M; Wang, L; Forgues, M et al. Cell Rep Med, DOI://10.1016/j.xcrm.2024.101394 (2024)
Stromal Pbrm1 mediates chromatin remodeling necessary for embryo implantation in the mouse uterus Xin, Q; Feng, I; Yu, G; Dean, J; , J Clin Invest, DOI://10.1172/JCI174194 (2024)
Combined immune checkpoint inhibition with durvalumab and tremelimumab with and without radiofrequency ablation in patients with advanced biliary tract carcinoma Monge, C; Xie, C; Myojin, Y et al. Cancer Med, DOI://10.1002/cam4.6912 (2024)
Extrahelical Binding Site for a 1 H-Imidazo[4,5-c]quinolin-4-amine A3 Adenosine Receptor Positive Allosteric Modulator on Helix 8 and Distal Portions of Transmembrane Domains 1 and 7 Fisher, CL; Pavan, M; Salmaso, V et al. Mol Pharmacol, DOI://10.1124/molpharm.123.000784 (2024)
Interactive data sharing for multiple questionnaire-based exposome-wide association studies and exposome correlations in the Personalized Environment and Genes Study Lloyd, D; House, JS; Akhtari, FS et al. Exposome, DOI://10.1093/exposome/osae003 (2024)
The mineralocorticoid receptor forms higher order oligomers upon DNA binding Fettweis, G; Johnson, TA; Almeida-Prieto, B et al. Protein Sci, DOI://10.1002/pro.4890 (2024)
Long-term survivors of glioblastoma: Tumor molecular, clinical, and imaging findings Briceno, N; Vera, E; Komlodi-Pasztor, E et al. Neurooncol Adv, DOI://10.1093/noajnl/vdae019 (2024)
An unusual dual sugar-binding lectin domain controls the substrate specificity of a mucin-type O-glycosyltransferase Collette, AM; Hassan, SA; Schmidt, SI et al. Sci Adv, DOI://10.1126/sciadv.adj8829 (2024)
Loss of Ezh2 in the medial ganglionic eminence alters interneuron fate, cell morphology and gene expression profiles Rhodes, CT; Asokumar, D; Sohn, M et al. Front Cell Neurosci, DOI://10.3389/fncel.2024.1334244 (2024)
B. subtilis MutS2 splits stalled ribosomes into subunits without mRNA cleavage Park, EN; Mackens-Kiani, T; Berhane, R et al. EMBO J, DOI://10.1038/s44318-023-00010-3 (2024)
The cysteine-rich domain in CENP-A chaperone Scm3HJURP ensures centromere targeting and kinetochore integrity Folco, HD; Xiao, H; Wheeler, D et al. Nucleic Acids Res, DOI://10.1093/nar/gkad1182 (2024)
Identification of two novel heterodimeric ABC transporters in melanoma: ABCB5β/B6 and ABCB5β/B9 Gerard, L; Duvivier, L; Fourrez, M et al. J Biol Chem, DOI://10.1016/j.jbc.2023.105594 (2024)
ATOH1, TFAP2B, and CEACAM6 as Immunohistochemical Markers to Distinguish Merkel Cell Carcinoma and Small Cell Lung Cancer Vilasi, SM; Nguyen, J; Wang, CJ et al. Cancers (Basel), DOI://10.3390/cancers16040788 (2024)
Lithium response in bipolar disorder is associated with focal adhesion and PI3K-Akt networks: a multi-omics replication study Ou, AH; Rosenthal, SB; Adli, M et al. Transl Psychiatry, DOI://10.1038/s41398-024-02811-4 (2024)
Mitochondrial Cytochrome bc1 Complex as Validated Drug Target: A Structural Perspective Esser, L; Xia, D; , Trop Med Infect Dis, DOI://10.3390/tropicalmed9020039 (2024)
Comparative evolution of influenza A virus H1 and H3 head and stalk domains across host species Trovão, NS; Khan, SM; Lemey, P et al. mBio, DOI://10.1128/mbio.02649-23 (2024)
Deep phenotyping of post-infectious myalgic encephalomyelitis/chronic fatigue syndrome Walitt, B; Singh, K; LaMunion, SR et al. Nat Commun, DOI://10.1038/s41467-024-45107-3 (2024)
Genetic analysis of the X chromosome in people with Lewy body dementia nominates new risk loci Bayram, E; Reho, P; Litvan, I et al. NPJ Parkinsons Dis, DOI://10.1038/s41531-024-00649-7 (2024)
EXO1 protects BRCA1-deficient cells against toxic DNA lesions van de Kooij, B; Schreuder, A; Pavani, R et al. Mol Cell, DOI://10.1016/j.molcel.2023.12.039 (2024)
Multifaceted roles for STAT3 in gammaherpesvirus latency revealed through in vivo B cell knockout models Hogan, CH; Owens, SM; Reynoso, GV et al. mBio, DOI://10.1128/mbio.02998-23 (2024)
Association of cardiovascular disease management drugs with Lewy body dementia: a case-control study Scholz, SW; Moroz, BE; Saez-Atienzar, S et al. Brain Commun, DOI://10.1093/braincomms/fcad346 (2024)
Native FISH: A low- and high-throughput assay to analyze the alternative lengthening of telomere (ALT) pathway Azeroglu, B; Ozbun, L; Pegoraro, G; Lazzerini Denchi, E; , Methods Cell Biol, DOI://10.1016/bs.mcb.2022.10.010 (2024)
Transgenic Tg(Kcnj10-ZsGreen) fluorescent reporter mice allow visualization of intermediate cells in the stria vascularis Strepay, D; Olszewski, RT; Nixon, S et al. Sci Rep, DOI://10.1038/s41598-024-52663-7 (2024)
Trends in Patient Transfers From Overall and Caseload-Strained US Hospitals During the COVID-19 Pandemic Sarzynski, SH; Mancera, AG; Yek, C et al. JAMA Netw Open, DOI://10.1001/jamanetworkopen.2023.56174 (2024)
The Variegation of Human Brain Vulnerability to Rare Genetic Disorders and Convergence With Behaviorally Defined Disorders Levitis, E; Liu, S; Whitman, ET et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2023.07.008 (2024)
Author Correction: Structural basis for pre-tRNA recognition and processing by the human tRNA splicing endonuclease complex Hayne, CK; Butay, KJU; Stewart, ZD et al. Nat Struct Mol Biol, DOI://10.1038/s41594-024-01213-w (2024)
A deep learning adversarial autoencoder with dynamic batching displays high performance in denoising and ordering scRNA-seq data Ko, KD; Sartorelli, V; , iScience, DOI://10.1016/j.isci.2024.109027 (2024)
Diffuse Pediatric-type High-grade Glioma Arising in an Ovarian Mature Cystic Teratoma Elmuti, L; Amundson, J; Oberman, E et al. Int J Gynecol Pathol, DOI://10.1097/PGP.0000000000000954 (2024)
Identification of Fibroinflammatory and Fibrotic Transcriptomic Subsets of Human Cutaneous Sclerotic Chronic Graft-Versus-Host Disease Rosenstein, RK; Rose, JJ; Brooks, SR et al. JID Innov, DOI://10.1016/j.xjidi.2023.100246 (2024)
Computational analysis of genes with lethal knockout phenotype and prediction of essential genes in archaea Makarova, KS; Zhang, C; Wolf, YI et al. mBio, DOI://10.1128/mbio.03092-23 (2024)
Rapid anti-myeloma activity by T cells expressing an anti-BCMA CAR with a human heavy-chain-only antigen-binding domain Mikkilineni, L; Natrakul, DA; Lam, N et al. Mol Ther, DOI://10.1016/j.ymthe.2023.12.018 (2024)
Reappraisal of the DNA phosphorothioate modification machinery: uncovering neglected functional modalities and identification of new counter-invader defense systems Rakesh, S; Aravind, L; Krishnan, A; , Nucleic Acids Res, DOI://10.1093/nar/gkad1213 (2024)
Observational and genetic associations between cardiorespiratory fitness and cancer: a UK Biobank and international consortia study Watts, EL; Gonzales, TI; Strain, T et al. Br J Cancer, DOI://10.1038/s41416-023-02489-3 (2024)
Mapping the Oxygens in the Oxygen-Evolving Complex of Photosystem II by Their Nucleophilicity Using Quantum Descriptors Amin, M; Kaur, D; Brudvig, GW; Brooks, BR; , J Chem Theory Comput, DOI://10.1021/acs.jctc.3c00926 (2024)
CHCHD4-TRIAP1 regulation of innate immune signaling mediates skeletal muscle adaptation to exercise Ma, J; Wang, PY; Zhuang, J et al. Cell Rep, DOI://10.1016/j.celrep.2023.113626 (2024)
PancrESS - a meta-analysis resource for understanding cell-type specific expression in the human pancreas Sturgill, D; Wang, L; Arda, HE; , BMC Genomics, DOI://10.1186/s12864-024-09964-y (2024)
Selective transcriptomic dysregulation of metabolic pathways in liver and retina by short- and long-term dietary hyperglycemia Mondal, AK; Brock, DC; Rowan, S et al. iScience, DOI://10.1016/j.isci.2024.108979 (2024)
Rewiring of RNA methylation by the oncometabolite fumarate in renal cell carcinoma Fitzsimmons, CM; Mandler, MD; Lunger, JC et al. NAR Cancer, DOI://10.1093/narcan/zcae004 (2024)
Variants in the WDR44 WD40-repeat domain cause a spectrum of ciliopathy by impairing ciliogenesis initiation Accogli, A; Shakya, S; Yang, T et al. Nat Commun, DOI://10.1038/s41467-023-44611-2 (2024)

Multi-ancestry genome-wide association meta-analysis of Parkinson's disease Kim, JJ; Vitale, D; Otani, DV et al. Nat Genet, DOI://10.1038/s41588-023-01584-8 (2024)
The allosteric mechanism of mTOR activation can inform bitopic inhibitor optimization Liu, Y; Zhang, M; Jang, H; Nussinov, R; , Chem Sci, DOI://10.1039/d3sc04690g (2024)
Ongoing production of tissue-resident macrophages from hematopoietic stem cells in healthy adult macaques Rahmberg, AR; Wu, C; Shin, T et al. Blood Adv, DOI://10.1182/bloodadvances.2023011499 (2024)
Genomic landscape of patients with germline RUNX1 variants and familial platelet disorder with myeloid malignancy Yu, K; Deuitch, N; Merguerian, M et al. Blood Adv, DOI://10.1182/bloodadvances.2023011165 (2024)
Vasopressin V2 receptor, tolvaptan, and ERK1/2 phosphorylation in the renal collecting duct Khan, S; Raghuram, V; Chen, L et al. Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00124.2023 (2024)
TGFβ prevents IgE-mediated allergic disease by restraining T follicular helper 2 differentiation Haque, TT; Weissler, KA; Schmiechen, Z et al. Sci Immunol, DOI://10.1126/sciimmunol.adg8691 (2024)
Whole genome sequencing of 4,787 individuals identifies gene-based rare variants in age-related macular degeneration Kwong, A; Zawistowski, M; Fritsche, LG et al. Hum Mol Genet, DOI://10.1093/hmg/ddad189 (2024)
Evaluation of a deuterated triarylmethyl spin probe for in vivo R2 ∗-based EPR oximetric imaging with enhanced dynamic range Kishimoto, S; Devasahayam, N; Chandramouli, GVR et al. Magn Reson Med, DOI://10.1002/mrm.29811 (2024)
Changes in saliva protein profile throughout Rhipicephalus microplus blood feeding da Silva Vaz Junior, I; Lu, S; Pinto, AFM et al. Parasit Vectors, DOI://10.1186/s13071-024-06136-5 (2024)
From the fat body to the hemolymph: Profiling tick immune and storage proteins through transcriptomics and proteomics Urbanová, V; Lu, S; Kalinová, E et al. Insect Biochem Mol Biol, DOI://10.1016/j.ibmb.2024.104072 (2024)
BORIS/CTCFL epigenetically reprograms clustered CTCF binding sites into alternative transcriptional start sites Pugacheva, EM; Bhatt, DN; Rivero-Hinojosa, S et al. Genome Biol, DOI://10.1186/s13059-024-03175-0 (2024)
omicSynth: An open multi-omic community resource for identifying druggable targets across neurodegenerative diseases Alvarado, CX; Makarious, MB; Weller, CA et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2023.12.006 (2024)

RNA-binding protein Nocte regulates Drosophila development by promoting translation reinitiation on mRNAs with long upstream open reading frames Zhang, T; Xue, Y; Su, S et al. Nucleic Acids Res, DOI://10.1093/nar/gkad1122 (2024)
TGF-β and BMP signaling are associated with the transformation of glioblastoma to gliosarcoma and then osteosarcoma Li, A; Hancock, JC; Quezado, M et al. Neurooncol Adv, DOI://10.1093/noajnl/vdad164 (2024)
Matrisome and Immune Pathways Contribute to Extreme Vascular Outcomes in Williams-Beuren Syndrome Liu, D; Billington, CJ; Raja, N et al. J Am Heart Assoc, DOI://10.1161/JAHA.123.031377 (2024)
Towards a structural and functional analysis of the immunoglobulin-fold proteome Tawfeeq, C; Song, J; Khaniya, U et al. Adv Protein Chem Struct Biol, DOI://10.1016/bs.apcsb.2023.11.002 (2024)
A systematic analysis of the landscape of synthetic lethality-driven precision oncology Schäffer, AA; Chung, Y; Kammula, AV et al. Med, DOI://10.1016/j.medj.2023.12.009 (2024)
Inhibition of vertebrate complement system by hematophagous arthropods: inhibitory molecules, mechanisms, physiological roles, and applications Sant'Anna, MRV; Pereira-Filho, AA; Mendes-Sousa, AF et al. Insect Sci, DOI://10.1111/1744-7917.13317 (2024)
Mock community taxonomic classification performance of publicly available shotgun metagenomics pipelines Valencia, EM; Maki, KA; Dootz, JN; Barb, JJ; , Sci Data, DOI://10.1038/s41597-023-02877-7 (2024)
Ultra-rare genetic variation in relapsing polychondritis: a whole-exome sequencing study Luo, Y; Ferrada, MA; Sikora, KA et al. Ann Rheum Dis, DOI://10.1136/ard-2023-224732 (2024)
GTax: improving de novo transcriptome assembly by removing foreign RNA contamination Alvarez, RV; Landsman, D; , Genome Biol, DOI://10.1186/s13059-023-03141-2 (2024)
Analysis of rare Parkinson's disease variants in millions of people Pitz, V; Makarious, MB; Bandres-Ciga, S et al. NPJ Parkinsons Dis, DOI://10.1038/s41531-023-00608-8 (2024)
BilR is a gut microbial enzyme that reduces bilirubin to urobilinogen Hall, B; Levy, S; Dufault-Thompson, K et al. Nat Microbiol, DOI://10.1038/s41564-023-01549-x (2024)
Differential methylation analysis in neuropathologically confirmed dementia with Lewy bodies Reho, P; Saez-Atienzar, S; Ruffo, P et al. Commun Biol, DOI://10.1038/s42003-023-05725-x (2024)

Human leukocyte antigen-DQA1*04:01 and rs2040406 variants are associated with elevated risk of childhood Burkitt lymphoma Liu, Z; Luo, Y; Kirimunda, S et al. Commun Biol, DOI://10.1038/s42003-023-05701-5 (2024)
Cell-free DNA reveals distinct pathology of multisystem inflammatory syndrome in children Andargie, TE; Roznik, K; Redekar, N et al. J Clin Invest, DOI://10.1172/JCI178008 (2024)
C-DARL: Contrastive diffusion adversarial representation learning for label-free blood vessel segmentation Kim, B; Oh, Y; Wood, BJ et al. Med Image Anal, DOI://10.1016/j.media.2023.103022 (2024)
Brain Imaging and Registration in Larval Zebrafish Bhandiwad, AA; Gupta, T; Subedi, A et al. Methods Mol Biol, DOI://10.1007/978-1-0716-3401-1_9 (2024)

2023 (639 papers)

Predicting gene expression changes upon epigenomic drug treatment Agrawal, P; Gopalan, V; Rumi, MA; Hannenhalli, S; , F1000Res, DOI://10.12688/f1000research.140273.3 (2023)
Excitation creates a distributed pattern of cortical suppression due to varied recurrent input O'Rawe, JF; Zhou, Z; Li, AJ et al. Neuron, DOI://10.1016/j.neuron.2023.09.010 (2023)
Long-Read Sequencing Resolves a Complex Structural Variant in PRKN Parkinson's Disease Daida, K; Funayama, M; Billingsley, KJ et al. Mov Disord, DOI://10.1002/mds.29610 (2023)
Inter-subject correlation during long narratives reveals widespread neural correlates of reading ability Jangraw, DC; Finn, ES; Bandettini, PA et al. Neuroimage, DOI://10.1016/j.neuroimage.2023.120390 (2023)
Investigation of Two Zr-p-NO2Bn-DOTA Isomers via NMR and Quantum Chemical Studies Lee, YS; O'Connor, RD; Vasalatiy, O; , Eur J Inorg Chem, DOI://10.1002/ejic.202300439 (2023)
Monocyte-derived IL-6 programs microglia to rebuild damaged brain vasculature Choi, BR; Johnson, KR; Maric, D; McGavern, DB; , Nat Immunol, DOI://10.1038/s41590-023-01521-1 (2023)
A comparison of Illumina and PacBio methods to build tick salivary gland transcriptomes confirms large expression of lipocalins and other salivary protein families that are not represented in available tick genomes Guizzo, MG; Mans, B; Pienaar, R; Ribeiro, JMC; , Ticks Tick Borne Dis, DOI://10.1016/j.ttbdis.2023.102209 (2023)
U-shaped association between sleep duration and the risk of respiratory diseases mortality: a large prospective cohort study from UK Biobank Du, M; Liu, M; Liu, J; , J Clin Sleep Med, DOI://10.5664/jcsm.10732 (2023)
Identification of genetic risk loci and causal insights associated with Parkinson's disease in African and African admixed populations: a genome-wide association study Rizig, M; Bandres-Ciga, S; Makarious, MB et al. Lancet Neurol, DOI://10.1016/S1474-4422(23)00283-1 (2023)
Genome-Wide Meta-Analysis of Cerebrospinal Fluid Biomarkers in Alzheimer's Disease and Parkinson's Disease Cohorts Ta, M; Blauwendraat, C; Antar, T et al. Mov Disord, DOI://10.1002/mds.29511 (2023)
Structural basis of microtubule depolymerization by the kinesin-like activity of HIV-1 Rev Eren, E; Watts, NR; Randazzo, D et al. Structure, DOI://10.1016/j.str.2023.07.009 (2023)
Artificial Intelligence-Based PTEN Loss Assessment as an Early Predictor of Prostate Cancer Metastasis After Surgery: A Multicenter Retrospective Study Patel, P; Harmon, S; Iseman, R et al. Mod Pathol, DOI://10.1016/j.modpat.2023.100241 (2023)
Feasibility of Using the Privacy-preserving Large Language Model Vicuna for Labeling Radiology Reports Mukherjee, P; Hou, B; Lanfredi, RB; Summers, RM; , Radiology, DOI://10.1148/radiol.231147 (2023)
σ28-dependent small RNA regulation of flagella biosynthesis Melamed, S; Zhang, A; Jarnik, M et al. Elife, DOI://10.7554/eLife.87151 (2023)
Elementary intracellular Ca signals approximated as a transition of release channel system from a metastable state Veron, G; Maltsev, VA; Stern, MD; Maltsev, AV; , J Appl Phys, DOI://10.1063/5.0151255 (2023)
Direct observation of tRNA-chaperoned folding of a dynamic mRNA ensemble Suddala, KC; Yoo, J; Fan, L et al. Nat Commun, DOI://10.1038/s41467-023-41155-3 (2023)
Serum biomarkers are altered in UK Biobank participants with mosaic chromosomal alterations Hubbard, AK; Brown, DW; Zhou, W et al. Hum Mol Genet, DOI://10.1093/hmg/ddad133 (2023)
Selection and Interpretation of Molecular Diagnostics in Heart Transplantation Goldberg, JF; Truby, LK; Agbor-Enoh, S et al. Circulation, DOI://10.1161/CIRCULATIONAHA.123.062847 (2023)
Cryptic splice mutation in the fumarate hydratase gene in patients with clinical manifestations of Hereditary Leiomyomatosis and Renal Cell Cancer Crooks, DR; Cawthon, GM; Fitzsimmons, CM et al. Hum Mol Genet, DOI://10.1093/hmg/ddad131 (2023)
VirB, a key transcriptional regulator of Shigella virulence, requires a CTP ligand for its regulatory activities Gerson, TM; Ott, AM; Karney, MMA et al. mBio, DOI://10.1128/mbio.01519-23 (2023)
Experimental bacterial dysbiosis with consequent immune alterations increase intrarectal SIV acquisition susceptibility Ortiz, AM; Baker, PJ; Langner, CA et al. Cell Rep, DOI://10.1016/j.celrep.2023.112020 (2023)
Innate attraction and aversion to odors in locusts Ray, S; Sun, K; Stopfer, M; , PLoS One, DOI://10.1371/journal.pone.0284641 (2023)
Dietary and supplemental intake of vitamins C and E is associated with altered DNA methylation in an epigenome-wide association study meta-analysis Keshawarz, A; Joehanes, R; Ma, J et al. Epigenetics, DOI://10.1080/15592294.2023.2211361 (2023)
Quantitative flow cytometry enables end-to-end optimization of cross-platform extracellular vesicle studies Cook, S; Tang, VA; Lannigan, J et al. Cell Rep Methods, DOI://10.1016/j.crmeth.2023.100664 (2023)
A fully automated FAIMS-DIA mass spectrometry-based proteomic pipeline Reilly, L; Lara, E; Ramos, D et al. Cell Rep Methods, DOI://10.1016/j.crmeth.2023.100593 (2023)
The substrate and inhibitor binding mechanism of polyspecific transporter OAT1 revealed by high-resolution cryo-EM Dou, T; Lian, T; Shu, S et al. Nat Struct Mol Biol, DOI://10.1038/s41594-023-01123-3 (2023)
Optimization of the Lead Compound NVP-BHG712 as a Colorectal Cancer Inhibitor Tröster, A; DiPrima, M; Jores, N et al. Chemistry, DOI://10.1002/chem.202203967 (2023)
Large-scale exome array summary statistics resources for glycemic traits to aid effector gene prioritization Willems, SM; Ng, NHJ; Fernandez, J et al. Wellcome Open Res, DOI://10.12688/wellcomeopenres.18754.1 (2023)
Recent Advances in Molecular Dynamics Simulations of Tau Fibrils and Oligomers Barredo, PA; Balanay, MP; , Membranes (Basel), DOI://10.3390/membranes13030277 (2023)
TScan-II: A genome-scale platform for the de novo identification of CD4+ T cell epitopes Dezfulian, MH; Kula, T; Pranzatelli, T et al. Cell, DOI://10.1016/j.cell.2023.10.024 (2023)
Transcriptome-wide association study of circulating IgE levels identifies novel targets for asthma and allergic diseases Recto, KA; Huan, T; Lee, DH et al. Front Immunol, DOI://10.3389/fimmu.2023.1080071 (2023)
Numbers and odds: TCR repertoire size and its age changes impacting on T cell functions Weng, NP Semin Immunol, DOI://10.1016/j.smim.2023.101810 (2023)
TCF3 haploinsufficiency defined by immune, clinical, gene-dosage, and murine studies Boast, B; Goel, S; González-Granado, LI et al. J Allergy Clin Immunol, DOI://10.1016/j.jaci.2023.05.017 (2023)
Nix interacts with WIPI2 to induce mitophagy Bunker, EN; Le Guerroué, F; Wang, C et al. EMBO J, DOI://10.15252/embj.2023113491 (2023)
First Potent Macrocyclic A3 Adenosine Receptor Agonists Reveal G-Protein and β-Arrestin2 Signaling Preferences Tosh, DK; Fisher, CL; Salmaso, V et al. ACS Pharmacol Transl Sci, DOI://10.1021/acsptsci.3c00126 (2023)
Neutrophil extracellular trap-associated carbamylation and histones trigger osteoclast formation in rheumatoid arthritis O'Neil, LJ; Oliveira, CB; Wang, X et al. Ann Rheum Dis, DOI://10.1136/ard-2022-223568 (2023)
Obesity impacts the expression of Alzheimer's disease-related genes: The Framingham Heart Study Charisis, S; Lin, H; Ray, R et al. Alzheimers Dement, DOI://10.1002/alz.12954 (2023)
Fully Automated Longitudinal Assessment of Renal Stone Burden on Serial CT Imaging Using Deep Learning Mukherjee, P; Lee, S; Elton, DC et al. J Endourol, DOI://10.1089/end.2023.0066 (2023)
Transmission disequilibrium analysis of whole genome data in childhood-onset systemic lupus erythematosus Vazzana, KM; Musolf, AM; Bailey-Wilson, JE et al. Genes Immun, DOI://10.1038/s41435-023-00214-x (2023)
Two complementary AI approaches for predicting UMLS semantic group assignment: heuristic reasoning and deep learning Mao, Y; Miller, RA; Bodenreider, O et al. J Am Med Inform Assoc, DOI://10.1093/jamia/ocad152 (2023)
The tumor microenvironment state associates with response to HPV therapeutic vaccination in patients with respiratory papillomatosis Norberg, SM; Bai, K; Sievers, C et al. Sci Transl Med, DOI://10.1126/scitranslmed.adj0740 (2023)
Combined inhibition of topoisomerase I and poly(ADP-ribose) polymerase: A synergistic therapeutic strategy for glioblastoma with phosphatase and tensin homolog deficiency Kim, O; Butler, M; Sergi, Z et al. Neurooncol Adv, DOI://10.1093/noajnl/vdad102 (2023)
Epigenome-wide DNA methylation association study of circulating IgE levels identifies novel targets for asthma Recto, K; Kachroo, P; Huan, T et al. EBioMedicine, DOI://10.1016/j.ebiom.2023.104758 (2023)
Human endogenous retrovirus K contributes to a stem cell niche in glioblastoma Shah, AH; Rivas, SR; Doucet-O'Hare, TT et al. J Clin Invest, DOI://10.1172/JCI167929 (2023)
Monocyte-derived macrophages orchestrate multiple cell-type interactions to repair necrotic liver lesions in disease models Feng, D; Xiang, X; Guan, Y et al. J Clin Invest, DOI://10.1172/JCI166954 (2023)
Crystal structure of Escherichia coli thiamine pyrophosphate-sensing riboswitch in the apo state Lee, HK; Lee, YT; Fan, L et al. Structure, DOI://10.1016/j.str.2023.05.003 (2023)
Scalable Nanopore sequencing of human genomes provides a comprehensive view of haplotype-resolved variation and methylation Kolmogorov, M; Billingsley, KJ; Mastoras, M et al. Nat Methods, DOI://10.1038/s41592-023-01993-x (2023)
Robust regulation of transcription pausing in Escherichia coli by the ubiquitous elongation factor NusG Yakhnin, AV; Bubunenko, M; Mandell, ZF et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2221114120 (2023)
Examining the role of dopamine in methylphenidate's effects on resting brain function Tomasi, D; Manza, P; Yan, W et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2314596120 (2023)
Single-cell analysis of shared signatures and transcriptional diversity during zebrafish development Sur, A; Wang, Y; Capar, P et al. Dev Cell, DOI://10.1016/j.devcel.2023.11.001 (2023)
Secretoglobin 3A2 protects lung from developing cigarette smoke-induced pulmonary emphysema Kurotani, R; Ono, S; Miyano, Y et al. Int J Biochem Cell Biol, DOI://10.1016/j.biocel.2023.106390 (2023)
Mosaic chromosomal alterations in peripheral blood leukocytes of children in sub-Saharan Africa Zhou, W; Fischer, A; Ogwang, MD et al. Nat Commun, DOI://10.1038/s41467-023-43881-0 (2023)
Inhibition of NAD+-Dependent Metabolic Processes Induces Cellular Necrosis and Tumor Regression in Rhabdomyosarcoma Models McKay-Corkum, GB; Collins, VJ; Yeung, C et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-23-0200 (2023)
Discovery and Synthesis of a Naturally Derived Protein Kinase Inhibitor that Selectively Inhibits Distinct Classes of Serine/Threonine Kinases Du, L; Wilson, BAP; Li, N et al. J Nat Prod, DOI://10.1021/acs.jnatprod.3c00394 (2023)
Longitudinal Natural History Study of Children and Adults with Rare Solid Tumors: Initial Results for First 200 Participants Ahmed, S; Wedekind, MF; Del Rivero, J et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-23-0247 (2023)
A novel GATA2 distal enhancer mutation results in MonoMAC syndrome in 2 second cousins West, RR; Bauer, TR; Tuschong, LM et al. Blood Adv, DOI://10.1182/bloodadvances.2023010458 (2023)
Cancer and Autism: How PTEN Mutations Degrade Function at the Membrane and Isoform Expression in the Human Brain Jang, H; Chen, J; Iakoucheva, LM; Nussinov, R; , J Mol Biol, DOI://10.1016/j.jmb.2023.168354 (2023)
Purine anabolism creates therapeutic vulnerability in hepatocellular carcinoma through m 6 A-mediated epitranscriptomic regulation Hung, MH; Chang, CW; Wang, KC et al. Hepatology, DOI://10.1097/HEP.0000000000000420 (2023)
"Online survey of COVID-19 immunization and infection in patients with systemic juvenile idiopathic arthritis and adult-onset still's disease." Marques, MC; Paul, S; Lake, C et al. Pediatr Rheumatol Online J, DOI://10.1186/s12969-023-00911-x (2023)
Glucose-6-Phosphate Dehydrogenase Deficiency and Coronavirus Disease 2019 Israel, A; Berkovitch, M; Merzon, E et al. Clin Infect Dis, DOI://10.1093/cid/ciad348 (2023)
Germline modifiers of the tumor immune microenvironment implicate drivers of cancer risk and immunotherapy response Pagadala, M; Sears, TJ; Wu, VH et al. Nat Commun, DOI://10.1038/s41467-023-38271-5 (2023)
Evaluating the transcriptional landscape and cell-cell communication networks in chronically irradiated parotid glands Rheinheimer, BA; Pasquale, MC; , et al. iScience, DOI://10.1016/j.isci.2023.106660 (2023)

An acetyltranferase moonlights as a regulator of the RNA binding repertoire of the RNA chaperone Hfq in Escherichia coli Luo, X; Zhang, A; Tai, CH et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2311509120 (2023)
Microbiota configuration determines nutritional immune optimization Han, SJ; Stacy, A; Corral, D et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2304905120 (2023)
Myr-Arf1 conformational flexibility at the membrane surface sheds light on the interactions with ArfGAP ASAP1 Zhang, Y; Soubias, O; Pant, S et al. Nat Commun, DOI://10.1038/s41467-023-43008-5 (2023)
Multimodal spatiotemporal transcriptomic resolution of embryonic palate osteogenesis Piña, JO; Raju, R; Roth, DM et al. Nat Commun, DOI://10.1038/s41467-023-41349-9 (2023)
Matrin3 regulates mitotic spindle dynamics by controlling alternative splicing of CDC14B Muys, BR; Shrestha, RL; Anastasakis, DG et al. Cell Rep, DOI://10.1016/j.celrep.2023.112260 (2023)
An Overview of CD133 as a Functional Unit of Prognosis and Treatment Resistance in Glioblastoma Joyce, T; Jagasia, S; Tasci, E et al. Curr Oncol, DOI://10.3390/curroncol30090601 (2023)
MYOD-SKP2 axis boosts tumorigenesis in fusion negative rhabdomyosarcoma by preventing differentiation through p57Kip2 targeting Pomella, S; Cassandri, M; D'Archivio, L et al. Nat Commun, DOI://10.1038/s41467-023-44130-0 (2023)
SHP2 clinical phenotype, cancer, or RASopathies, can be predicted by mutant conformational propensities Liu, Y; Zhang, W; Jang, H; Nussinov, R; , Cell Mol Life Sci, DOI://10.1007/s00018-023-05052-8 (2023)
Dimerization mechanism of an inverted-topology ion channel in membranes Ernst, M; Orabi, EA; Stockbridge, RB et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2308454120 (2023)
Integrated genomic and functional analyses of human skin-associated Staphylococcus reveal extensive inter- and intra-species diversity Joglekar, P; Conlan, S; Lee-Lin, SQ et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2310585120 (2023)
Modeling islet enhancers using deep learning identifies candidate causal variants at loci associated with T2D and glycemic traits Hudaiberdiev, S; Taylor, DL; Song, W et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2206612120 (2023)
Preclinical development of a chimeric antigen receptor T cell therapy targeting FGFR4 in rhabdomyosarcoma Tian, M; Wei, JS; Shivaprasad, N et al. Cell Rep Med, DOI://10.1016/j.xcrm.2023.101212 (2023)
Distinct use of super-enhancer elements controls cell type-specific CD25 transcription and function Spolski, R; Li, P; Chandra, V et al. Sci Immunol, DOI://10.1126/sciimmunol.adi8217 (2023)
Polygenic Parkinson's Disease Genetic Risk Score as Risk Modifier of Parkinsonism in Gaucher Disease Blauwendraat, C; Tayebi, N; Woo, EG et al. Mov Disord, DOI://10.1002/mds.29342 (2023)
Atypical neurofibromatous lesions: Epigenetic cousins of other benign peripheral nerve sheath tumors? Ida, CM; Aldape, K; , Neuro Oncol, DOI://10.1093/neuonc/noad083 (2023)
Protocol for in vivo and in vitro study of lymphatic valve formation driven by shear stress signaling pathway Banerjee, R; Knauer, LA; Yang, Y; , STAR Protoc, DOI://10.1016/j.xpro.2023.102141 (2023)
HECT domain interaction with ubiquitin binding sites on Tsg101-UEV controls HIV-1 egress, maturation, and infectivity Nyenhuis, DA; Rajasekaran, R; Watanabe, S et al. J Biol Chem, DOI://10.1016/j.jbc.2023.102901 (2023)
A genetic basis of mitochondrial DNAJA3 in nonalcoholic steatohepatitis-related hepatocellular carcinoma Chang, CW; Chen, YS; Huang, CH et al. Hepatology, DOI://10.1097/HEP.0000000000000637 (2023)
A multimorphic mutation in IRF4 causes human autosomal dominant combined immunodeficiency , ; Fornes, O; Jia, A et al. Sci Immunol, DOI://10.1126/sciimmunol.ade7953 (2023)
Quantitative mapping of the in vivo O-GalNAc glycoproteome in mouse tissues identifies GalNAc-T2 O-glycosites in metabolic disorder Yang, W; Tian, E; Chernish, A et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2303703120 (2023)
ZFTA-fused supratentorial ependymoma with a novel fusion partner, DUX4 Gubbiotti, MA; Madsen, PJ; Tucker, AM et al. J Neuropathol Exp Neurol, DOI://10.1093/jnen/nlad038 (2023)
Virus exposure and neurodegenerative disease risk across national biobanks Levine, KS; Leonard, HL; Blauwendraat, C et al. Neuron, DOI://10.1016/j.neuron.2022.12.029 (2023)
Dynamic extracellular vestibule of human SERT: Unveiling druggable potential with high-affinity allosteric inhibitors Salomon, K; Abramyan, AM; Plenge, P et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2304089120 (2023)
AGO2 silences mobile transposons in the nucleus of quiescent cells Sala, L; Kumar, M; Prajapat, M et al. Nat Struct Mol Biol, DOI://10.1038/s41594-023-01151-z (2023)
A new method for multiancestry polygenic prediction improves performance across diverse populations Zhang, H; Zhan, J; Jin, J et al. Nat Genet, DOI://10.1038/s41588-023-01501-z (2023)
Comprehensive mapping of cell fates in microsatellite unstable cancer cells supports dual targeting of WRN and ATR Zong, D; Koussa, NC; Cornwell, JA et al. Genes Dev, DOI://10.1101/gad.351085.123 (2023)
Tick innate immune responses to hematophagy and Ehrlichia infection at single-cell resolution Adegoke, A; Ribeiro, JMC; Smith, RC; Karim, S; , Front Immunol, DOI://10.3389/fimmu.2023.1305976 (2023)
Natural history study of patients with familial platelet disorder with associated myeloid malignancy Cunningham, L; Merguerian, M; Calvo, KR et al. Blood, DOI://10.1182/blood.2023019746 (2023)
New biochemistry in the Rhodanese-phosphatase superfamily: emerging roles in diverse metabolic processes, nucleic acid modifications, and biological conflicts Burroughs, AM; Aravind, L; , NAR Genom Bioinform, DOI://10.1093/nargab/lqad029 (2023)
Divergent HLA variations and heterogeneous expression but recurrent HLA loss-of- heterozygosity and common HLA-B and TAP transcriptional silencing across advanced pediatric solid cancers Lim, WC; Marques Da Costa, ME; Godefroy, K et al. Front Immunol, DOI://10.3389/fimmu.2023.1265469 (2023)
Temporal continuity shapes visual responses of macaque face patch neurons Russ, BE; Koyano, KW; Day-Cooney, J et al. Neuron, DOI://10.1016/j.neuron.2022.12.021 (2023)
Typed Markers and Context for Clinical Temporal Relation Extraction Cheng, C; Weiss, JC; , Proc Mach Learn Res, 2640-3498 (2023)
Phenotypic signatures of circulating neoantigen-reactive CD8+ T cells in patients with metastatic cancers Yossef, R; Krishna, S; Sindiri, S et al. Cancer Cell, DOI://10.1016/j.ccell.2023.11.005 (2023)
Integrative Mendelian randomization reveals the soluble receptor for advanced glycation end products as protective in relation to rheumatoid arthritis Lee, GY; Yao, C; Hwang, SJ et al. Sci Rep, DOI://10.1038/s41598-023-35098-4 (2023)
Monitoring response to a clinically relevant IDH inhibitor in glioma-Hyperpolarized 13C magnetic resonance spectroscopy approaches Hong, D; Kim, Y; Mushti, C et al. Neurooncol Adv, DOI://10.1093/noajnl/vdad143 (2023)
A draft of the genome of the Gulf Coast tick, Amblyomma maculatum Ribeiro, JMC; Bayona-Vásquez, NJ; Budachetri, K et al. Ticks Tick Borne Dis, DOI://10.1016/j.ttbdis.2022.102090 (2023)
Myo-differentiation reporter screen reveals NF-Y as an activator of PAX3-FOXO1 in rhabdomyosarcoma Sroka, MW; Skopelitis, D; Vermunt, MW et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2303859120 (2023)
ATR inhibition augments the efficacy of lurbinectedin in small-cell lung cancer Schultz, CW; Zhang, Y; Elmeskini, R et al. EMBO Mol Med, DOI://10.15252/emmm.202217313 (2023)
Biosynthesis of glucocorticoids in tumors. Reply Taves, MD; Otsuka, S; Ashwell, JD; , J Clin Invest, DOI://10.1172/JCI175274 (2023)
Tumor-derived biomarkers predict efficacy of B7H3 antibody-drug conjugate treatment in metastatic prostate cancer models Agarwal, S; Fang, L; McGowen, K et al. J Clin Invest, DOI://10.1172/JCI162148 (2023)
Spatiotemporal Alterations in Working Memory-Related Beta Band Neuromagnetic Activity of Patients With Schizophrenia On and Off Antipsychotic Medication: Investigation With MEG Rubinstein, DY; Eisenberg, DP; Carver, FW et al. Schizophr Bull, DOI://10.1093/schbul/sbac178 (2023)
Transcriptional profiling of canine osteosarcoma identifies prognostic gene expression signatures with translational value for humans Mannheimer, JD; Tawa, G; Gerhold, D et al. Commun Biol, DOI://10.1038/s42003-023-05208-z (2023)
Pan-viral serology uncovers distinct virome patterns as risk predictors of hepatocellular carcinoma and intrahepatic cholangiocarcinoma Do, WL; Wang, L; Forgues, M et al. Cell Rep Med, DOI://10.1016/j.xcrm.2023.101328 (2023)
Revisiting Concurrent Radiation Therapy, Temozolomide, and the Histone Deacetylase Inhibitor Valproic Acid for Patients with Glioblastoma-Proteomic Alteration and Comparison Analysis with the Standard-of-Care Chemoirradiation Krauze, AV; Zhao, Y; Li, MC et al. Biomolecules, DOI://10.3390/biom13101499 (2023)
Population-specific Mutation Patterns in Breast Tumors from African American, European American, and Kenyan Patients Tang, W; Zhang, F; Byun, JS et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-23-0165 (2023)
Extracellular Vesicle Refractive Index Derivation Utilizing Orthogonal Characterization Pleet, ML; Cook, S; Tang, VA et al. Nano Lett, DOI://10.1021/acs.nanolett.3c00562 (2023)
Specific inhibition of an anticancer target, polo-like kinase 1, by allosterically dismantling its mechanism of substrate recognition Park, JE; Kirsch, K; Lee, H et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2305037120 (2023)
Diabetes-associated breast cancer is molecularly distinct and shows a DNA damage repair deficiency Panigrahi, G; Candia, J; Dorsey, TH et al. JCI Insight, DOI://10.1172/jci.insight.170105 (2023)
Multi-omic network analysis identified betacellulin as a novel target of omega-3 fatty acid attenuation of western diet-induced nonalcoholic steatohepatitis Padiadpu, J; Garcia-Jaramillo, M; Newman, NK et al. EMBO Mol Med, DOI://10.15252/emmm.202318367 (2023)
Increased interleukin-6/C-reactive protein levels are associated with the upregulation of the adenosine pathway and serve as potential markers of therapeutic resistance to immune checkpoint inhibitor-based therapies in non-small cell lung cancer Naqash, AR; McCallen, JD; Mi, E et al. J Immunother Cancer, DOI://10.1136/jitc-2023-007310 (2023)
Piperacetazine Directly Binds to the PAX3::FOXO1 Fusion Protein and Inhibits Its Transcriptional Activity Nakazawa, K; Shaw, T; Song, YK et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-23-0119 (2023)
Expression of the transcription factor Klf6 by thymic epithelial cells is required for thymus development Malin, J; Martinez-Ruiz, GU; Zhao, Y et al. Sci Adv, DOI://10.1126/sciadv.adg8126 (2023)
Expanding PROTACtable genome universe of E3 ligases Liu, Y; Yang, J; Wang, T et al. Nat Commun, DOI://10.1038/s41467-023-42233-2 (2023)
Multi-ancestry meta-analysis and fine-mapping in Alzheimer's disease Lake, J; Warly Solsberg, C; Kim, JJ et al. Mol Psychiatry, DOI://10.1038/s41380-023-02089-w (2023)
Can incorporating genotyping data into efficacy estimators improve efficiency of early phase malaria vaccine trials? Potter, GE; Callier, V; Shrestha, B et al. Malar J, DOI://10.1186/s12936-023-04802-0 (2023)
Early short-term effects on catecholamine levels and pituitary function in patients with pheochromocytoma or paraganglioma treated with [177Lu]Lu-DOTA-TATE therapy Gubbi, S; Al-Jundi, M; Auh, S et al. Front Endocrinol (Lausanne), DOI://10.3389/fendo.2023.1275813 (2023)
Elevated A-to-I RNA editing in COVID-19 infected individuals Merdler-Rabinowicz, R; Gorelik, D; Park, J et al. NAR Genom Bioinform, DOI://10.1093/nargab/lqad092 (2023)
2-Amino-5-arylethynyl-thiophen-3-yl-(phenyl)methanones as A1 Adenosine Receptor Positive Allosteric Modulators Oliva, P; Suresh, RR; Pasquini, S et al. ACS Med Chem Lett, DOI://10.1021/acsmedchemlett.3c00315 (2023)
Targeting TREM1 augments antitumor T cell immunity by inhibiting myeloid-derived suppressor cells and restraining anti-PD-1 resistance Ajith, A; Mamouni, K; Horuzsko, DD et al. J Clin Invest, DOI://10.1172/JCI167951 (2023)
Phase I trial of Ganitumab plus Dasatinib to Cotarget the Insulin-Like Growth Factor 1 Receptor and Src Family Kinase YES in Rhabdomyosarcoma Akshintala, S; Sundby, RT; Bernstein, D et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-23-0709 (2023)

Molecular Graph-Based Deep Learning Algorithm Facilitates an Imaging-Based Strategy for Rapid Discovery of Small Molecules Modulating Biomolecular Condensates Gao, P; Zhang, Q; Keely, D et al. J Med Chem, DOI://10.1021/acs.jmedchem.3c00490 (2023)
Patterns of metastatic progression and association with clinical outcomes in canine osteosarcoma: A necropsy study of 83 dogs Silver, KI; Patkar, S; Mazcko, C et al. Vet Comp Oncol, DOI://10.1111/vco.12927 (2023)
The association between inflammatory bowel disease and all-cause and cause-specific mortality in the UK Biobank Li, F; Ramirez, Y; Yano, Y et al. Ann Epidemiol, DOI://10.1016/j.annepidem.2023.10.008 (2023)
Second-site suppressor mutations reveal connection between the drug-binding pocket and nucleotide-binding domain 1 of human P-glycoprotein (ABCB1) Murakami, M; Sajid, A; Lusvarghi, S et al. Drug Resist Updat, DOI://10.1016/j.drup.2023.101009 (2023)
GradWise: A Novel Application of a Rank-Based Weighted Hybrid Filter and Embedded Feature Selection Method for Glioma Grading with Clinical and Molecular Characteristics Tasci, E; Jagasia, S; Zhuge, Y et al. Cancers (Basel), DOI://10.3390/cancers15184628 (2023)
Profiles of Wnt pathway gene expression during tooth morphogenesis Raju, R; Piña, JO; Roth, DM et al. Front Physiol, DOI://10.3389/fphys.2023.1316635 (2023)
Spatial Mechano-Signaling Regulation of GTPases through Non-Degradative Ubiquitination Sewduth, RN; Carai, P; Ivanisevic, T et al. Adv Sci (Weinh), DOI://10.1002/advs.202303367 (2023)
JAK2 V617F mutation and associated chromosomal alterations in primary and secondary myelofibrosis and post-HCT outcomes Rafati, M; Brown, DW; Zhou, W et al. Blood Adv, DOI://10.1182/bloodadvances.2023010882 (2023)
Single-cell RNA sequencing reveals cancer stem-like cells and dynamics in tumor microenvironment during cholangiocarcinoma progression Golino, JL; Bian, J; Wang, X et al. Front Cell Dev Biol, DOI://10.3389/fcell.2023.1250215 (2023)
Molecular mechanism of EAG1 channel inhibition by imipramine binding to the PAS domain Wang, ZJ; Ghorbani, M; Chen, X et al. J Biol Chem, DOI://10.1016/j.jbc.2023.105391 (2023)
PET-measured human dopamine synthesis capacity and receptor availability predict trading rewards and time-costs during foraging Ianni, AM; Eisenberg, DP; Boorman, ED et al. Nat Commun, DOI://10.1038/s41467-023-41897-0 (2023)
Rickettsial Infection in Ticks from a National Park in the Cerrado Biome, Midwestern Brazil Paludo, RLDR; Paula, WVF; Neves, LC et al. Pathogens, DOI://10.3390/pathogens13010013 (2023)
Non-selective dampening of the host immune response after hepatitis C clearance and its association with circulating chemokine and endotoxin levels Quinn, G; Ali, RO; Zhang, GY et al. Liver Int, DOI://10.1111/liv.15737 (2023)
Genome-wide profiling of transcription factor activity in primary liver cancer using single-cell ATAC sequencing Craig, AJ; Silveira, MAD; Ma, L et al. Cell Rep, DOI://10.1016/j.celrep.2023.113446 (2023)
Stage-specific dynamic reorganization of genome topology shapes transcriptional neighborhoods in developing human retinal organoids Qu, Z; Batz, Z; Singh, N et al. Cell Rep, DOI://10.1016/j.celrep.2023.113543 (2023)
The complete sequence of a human Y chromosome Rhie, A; Nurk, S; Cechova, M et al. Nature, DOI://10.1038/s41586-023-06457-y (2023)
Instance segmentation of mitochondria in electron microscopy images with a generalist deep learning model trained on a diverse dataset Conrad, R; Narayan, K; , Cell Syst, DOI://10.1016/j.cels.2022.12.006 (2023)
Genomic characterization of the C. tuberculostearicum species complex, a prominent member of the human skin microbiome Ahmed, N; Joglekar, P; Deming, C et al. mSystems, DOI://10.1128/msystems.00632-23 (2023)
Caregivers Attitude Detection From Clinical Notes Manzo, G; Celi, LA; Shabazz, Y et al. AMIA Annu Symp Proc, 1942-597X (2023)
Effects of Porting Essie Tokenization and Normalization to Solr Gayen, S; Gupta, D; F Loane, R et al. AMIA Annu Symp Proc, 1942-597X (2023)
Oncolytic adenoviruses expressing checkpoint inhibitors for cancer therapy Xie, D; Tian, Y; Hu, D et al. Signal Transduct Target Ther, DOI://10.1038/s41392-023-01683-2 (2023)
Bitter- and Umami-Related Genes are Differentially Associated with Food Group Intakes: the Framingham Heart Study Gervis, JE; Ma, J; Chui, KKH et al. J Nutr, DOI://10.1016/j.tjnut.2022.11.005 (2023)
Tumor eradication by hetIL-15 locoregional therapy correlates with an induced intratumoral CD103intCD11b+ dendritic cell population Stellas, D; Karaliota, S; Stravokefalou, V et al. Cell Rep, DOI://10.1016/j.celrep.2023.112501 (2023)
Polymorphism in the ZNF804A Gene and Variation in D1 and D2/D3 Dopamine Receptor Availability in the Healthy Human Brain: A Dual Positron Emission Tomography Study Hegarty, CE; Ianni, AM; Kohn, PD et al. Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2020.12.006 (2023)
Single-cell methylation sequencing data reveal succinct metastatic migration histories and tumor progression models Liu, Y; Li, XC; Rashidi Mehrabadi, F et al. Genome Res, DOI://10.1101/gr.277608.122 (2023)
Observation of pH-Dependent Residual Structure in the Pmel17 Repeat Domain and the Implication for Its Amyloid Formation Morris, DL; Nyenhuis, DA; Dean, DN et al. Biochemistry, DOI://10.1021/acs.biochem.3c00445 (2023)
A novel conceptual model of heart rate autonomic modulation based on a small-world modular structure of the sinoatrial node Maltsev, AV; Stern, MD; Lakatta, EG; Maltsev, VA; , Front Physiol, DOI://10.3389/fphys.2023.1276023 (2023)
Diversity of short linear interaction motifs in SARS-CoV-2 nucleocapsid protein Schuck, P; Zhao, H; , mBio, DOI://10.1128/mbio.02388-23 (2023)
Examination of newborn DNA methylation among women with polycystic ovary syndrome/hirsutism Polinski, KJ; Robinson, SL; Putnick, DL et al. Epigenetics, DOI://10.1080/15592294.2023.2282319 (2023)
Changes in Behavior and Neural Dynamics across Adolescent Development Liuzzi, L; Pine, DS; Fox, NA; Averbeck, BB; , J Neurosci, DOI://10.1523/JNEUROSCI.0462-23.2023 (2023)

Decoding complexity in biomolecular recognition of DNA i-motifs with microarrays Yazdani, K; Seshadri, S; Tillo, D et al. Nucleic Acids Res, DOI://10.1093/nar/gkad981 (2023)
Acid phosphatase-like proteins, a biogenic amine and leukotriene-binding salivary protein family from the flea Xenopsylla cheopis Lu, S; Andersen, JF; Bosio, CF et al. Commun Biol, DOI://10.1038/s42003-023-05679-0 (2023)
A resource of induced pluripotent stem cell (iPSC) lines including clinical, genomic, and cellular data from genetically isolated families with mood and psychotic disorders Detera-Wadleigh, SD; Kassem, L; Besancon, E et al. Transl Psychiatry, DOI://10.1038/s41398-023-02641-w (2023)
Pseudo-Label Assisted nnU-Net enables automatic segmentation of 7T MRI from a single acquisition Donnay, C; Dieckhaus, H; Tsagkas, C et al. Front Neuroimaging, DOI://10.3389/fnimg.2023.1252261 (2023)
Exploratory Studies of Effective Inhibitors against the SARS-CoV-2 Main Protease by Halogen Incorporation and Amide Bond Replacement Tsuji, K; Kobayakawa, T; Ishii, T et al. Chem Pharm Bull (Tokyo), DOI://10.1248/cpb.c23-00562 (2023)
Functional Pdgfra fibroblast heterogeneity in normal and fibrotic mouse lung Trempus, CS; Papas, BN; Sifre, MI et al. JCI Insight, DOI://10.1172/jci.insight.164380 (2023)

ApoER2-Dab1 disruption as the origin of pTau-associated neurodegeneration in sporadic Alzheimer's disease Ramsden, CE; Zamora, D; Horowitz, MS et al. Acta Neuropathol Commun, DOI://10.1186/s40478-023-01693-9 (2023)
Ubiquitin Ligases Siah1a/2 Control Alveolar Macrophage Functions to Limit Carcinogen-Induced Lung Adenocarcinoma Scortegagna, M; Du, Y; Bradley, LM et al. Cancer Res, DOI://10.1158/0008-5472.CAN-23-0258 (2023)
Eukaryotic Kv channel Shaker inactivates through selectivity filter dilation rather than collapse Stix, R; Tan, XF; Bae, C et al. Sci Adv, DOI://10.1126/sciadv.adj5539 (2023)
PCSK9, A Promising Novel Target for Age-Related Cardiovascular Dysfunction Matyas, C; Trojnar, E; Zhao, S et al. JACC Basic Transl Sci, DOI://10.1016/j.jacbts.2023.06.005 (2023)
Dermis resident macrophages orchestrate localized ILC2 eosinophil circuitries to promote non-healing cutaneous leishmaniasis Lee, SH; Kang, B; Kamenyeva, O et al. Nat Commun, DOI://10.1038/s41467-023-43588-2 (2023)
A deep learning segmentation method to assess dose to organs at risk during breast radiotherapy Saha, M; Jung, JW; Lee, SW et al. Phys Imaging Radiat Oncol, DOI://10.1016/j.phro.2023.100520 (2023)

Mendelian randomization analyses suggest a causal role for circulating GIP and IL-1RA levels in homeostatic model assessment-derived measures of β-cell function and insulin sensitivity in Africans without type 2 diabetes Meeks, KAC; Bentley, AR; Assimes, TL et al. Genome Med, DOI://10.1186/s13073-023-01263-7 (2023)
Dietary fish oil enriched in very-long-chain polyunsaturated fatty acid reduces cardiometabolic risk factors and improves retinal function Yang, ZH; Gorusupudi, A; Lydic, TA et al. iScience, DOI://10.1016/j.isci.2023.108411 (2023)
Extrachromosomal Amplification of Human Papillomavirus Episomes Is a Mechanism of Cervical Carcinogenesis Rossi, NM; Dai, J; Xie, Y et al. Cancer Res, DOI://10.1158/0008-5472.CAN-22-3030 (2023)
Reference on copy number variations in pleomorphic xanthoastrocytoma: Implications for diagnostic approach Reuss, DE; Schrimpf, D; Stichel, D et al. Free Neuropathol, DOI://10.17879/freeneuropathology-2023-5156 (2023)
Functionally comparable but evolutionarily distinct nucleotide-targeting effectors help identify conserved paradigms across diverse immune systems Nicastro, GG; Burroughs, AM; Iyer, LM; Aravind, L; , Nucleic Acids Res, DOI://10.1093/nar/gkad879 (2023)
Geometric and topological characterization of the cytoarchitecture of islets of Langerhans Aggarwal, M; Striegel, DA; Hara, M; Periwal, V; , PLoS Comput Biol, DOI://10.1371/journal.pcbi.1011617 (2023)

SIRT1 Prevents R-Loops during Chronological Aging by Modulating DNA Replication at rDNA Loci Thakur, BL; Kusi, NA; Mosavarpour, S et al. Cells, DOI://10.3390/cells12222630 (2023)
Discovery of a Novel Intron in US10/US11/US12 of HSV-1 Strain 17 Chang, W; Hao, M; Qiu, J et al. Viruses, DOI://10.3390/v15112144 (2023)
Brief Report: The Virome of Bladder Tumors Arising in People Living With HIV Starrett, GJ; Foster, H; Sigel, K et al. J Acquir Immune Defic Syndr, DOI://10.1097/QAI.0000000000003283 (2023)
Effects of stopping criterion on the growth of trees in regression random forests Arsham, A; Rosenberg, P; Little, M; , N Engl J Stat Data Sci, DOI://10.51387/22-nejsds5 (2023)
Investigating the NRAS 5' UTR as a target for small molecules Balaratnam, S; Torrey, ZR; Calabrese, DR et al. Cell Chem Biol, DOI://10.1016/j.chembiol.2023.05.004 (2023)
SARS-CoV-2 antibodies recognize 23 distinct epitopic sites on the receptor binding domain Jiang, J; Boughter, CT; Ahmad, J et al. Commun Biol, DOI://10.1038/s42003-023-05332-w (2023)
In vivo deuterium magnetic resonance imaging of xenografted tumors following systemic administration of deuterated water Brender, JR; Assmann, JC; Farthing, DE et al. Sci Rep, DOI://10.1038/s41598-023-41163-9 (2023)
Inherited ARPC5 mutations cause an actinopathy impairing cell motility and disrupting cytokine signaling Nunes-Santos, CJ; Kuehn, H; Boast, B et al. Nat Commun, DOI://10.1038/s41467-023-39272-0 (2023)
Data-driven transcriptomics analysis identifies PCSK9 as a novel key regulator in liver aging Arif, M; Matyas, C; Mukhopadhyay, P et al. Geroscience, DOI://10.1007/s11357-023-00928-w (2023)
Tumors produce glucocorticoids by metabolite recycling, not synthesis, and activate Tregs to promote growth Taves, MD; Otsuka, S; Taylor, MA et al. J Clin Invest, DOI://10.1172/JCI164599 (2023)
Zfp281 and Zfp148 control CD4+ T cell thymic development and TH2 functions Chopp, LB; Zhu, X; Gao, Y et al. Sci Immunol, DOI://10.1126/sciimmunol.adi9066 (2023)
Reduced female fertility due to sequestration of RNA Pol II by pervasive transcription in exosome RNase-depleted oocytes Wu, D; Dean, J; , Cell Rep, DOI://10.1016/j.celrep.2023.113247 (2023)

Functional interrogation of twenty type 2 diabetes-associated genes using isogenic human embryonic stem cell-derived β-like cells Xue, D; Narisu, N; Taylor, DL et al. Cell Metab, DOI://10.1016/j.cmet.2023.09.013 (2023)
Mapping the individual human cortex using multidimensional MRI and unsupervised learning Kundu, S; Barsoum, S; Ariza, J et al. Brain Commun, DOI://10.1093/braincomms/fcad258 (2023)
A genome catalog of the early-life human skin microbiome Shen, Z; Robert, L; Stolpman, M et al. Genome Biol, DOI://10.1186/s13059-023-03090-w (2023)
Somatic mutational landscape of hereditary hematopoietic malignancies caused by germline variants in RUNX1, GATA2, and DDX41 Homan, CC; Drazer, MW; Yu, K et al. Blood Adv, DOI://10.1182/bloodadvances.2023010045 (2023)
Cryo-EM structures of human magnesium channel MRS2 reveal gating and regulatory mechanisms Lai, LTF; Balaraman, J; Zhou, F; Matthies, D; , Nat Commun, DOI://10.1038/s41467-023-42599-3 (2023)
Unappreciated subcontinental admixture in Europeans and European Americans and implications for genetic epidemiology studies Gouveia, MH; Bentley, AR; Leal, TP et al. Nat Commun, DOI://10.1038/s41467-023-42491-0 (2023)
Leishmania genetic exchange is mediated by IgM natural antibodies Serafim, TD; Iniguez, E; Barletta, ABF et al. Nature, DOI://10.1038/s41586-023-06655-8 (2023)
Parasite Detection in Visceral Leishmaniasis Samples by Dye-Based qPCR Using New Gene Targets of Leishmania infantum and Crithidia Takamiya, NT; Rogerio, LA; Torres, C et al. Trop Med Infect Dis, DOI://10.3390/tropicalmed8080405 (2023)
Subtle Structural Modification of a Synthetic Cannabinoid Receptor Agonist Drastically Increases its Efficacy at the CB1 Receptor Yano, H; Chitsazi, R; Lucaj, C et al. ACS Chem Neurosci, DOI://10.1021/acschemneuro.3c00530 (2023)
Reappraisal of Idiopathic CD4 Lymphocytopenia at 30 Years Lisco, A; Ortega-Villa, AM; Mystakelis, H et al. N Engl J Med, DOI://10.1056/NEJMoa2202348 (2023)
Transcriptome of Left Ventricle and Sinoatrial Node in Young and Old C57 Mice Qu, JH; Tarasov, KV; Tarasova, YS et al. Fortune J Health Sci, DOI://10.26502/fjhs.134 (2023)
Highly complete long-read genomes reveal pangenomic variation underlying yeast phenotypic diversity Weller, CA; Andreev, I; Chambers, MJ et al. Genome Res, DOI://10.1101/gr.277515.122 (2023)

Co-localization of clusters of TCR-regulated genes with TAD rearrangements Gao, GF; Li, P; Leonard, WJ; , BMC Genomics, DOI://10.1186/s12864-023-09693-8 (2023)
Identification of a new polyomavirus in distinct human populations and tissues Torres, C; Correa, RM; Picconi, MA et al. J Med Virol, DOI://10.1002/jmv.29197 (2023)
Advances in the structure, mechanism and targeting of chemoresistance-linked ABC transporters Sajid, A; Rahman, H; Ambudkar, SV; , Nat Rev Cancer, DOI://10.1038/s41568-023-00612-3 (2023)
SARS-CoV-2 infection establishes a stable and age-independent CD8+ T ce Choy, C; Chen, J; Li, J et al. Nat Commun, DOI://10.1038/s41467-023-42430-z (2023)
Expanded microbiome niches of RAG-deficient patients Blaustein, RA; Shen, Z; Kashaf, SS et al. Cell Rep Med, DOI://10.1016/j.xcrm.2023.101205 (2023)
Mechanism and evolutionary origins of alanine-tail C-degron recognition by E3 ligases Pirh2 and CRL2-KLHDC10 Patil, PR; Burroughs, AM; Misra, M et al. Cell Rep, DOI://10.1016/j.celrep.2023.113100 (2023)

Inactivation of the Kv2.1 channel through electromechanical coupling Fernández-Mariño, AI; Tan, XF; Bae, C et al. Nature, DOI://10.1038/s41586-023-06582-8 (2023)
Predicting Molecular Subtype and Survival of Rhabdomyosarcoma Patients Using Deep Learning of H&E Images: A Report from the Children's Oncology Group Milewski, D; Jung, H; Brown, GT et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-22-1663 (2023)
Apoptosis-induced nuclear expulsion in tumor cells drives S100a4-mediated metastatic outgrowth through the RAGE pathway Park, WY; Gray, JM; Holewinski, RJ et al. Nat Cancer, DOI://10.1038/s43018-023-00524-z (2023)
The multidrug resistance transporter P-glycoprotein confers resistance to ferroptosis inducers Frye, WJE; Huff, LM; González Dalmasy, JM et al. Cancer Drug Resist, DOI://10.20517/cdr.2023.29 (2023)
PLAE Web App Enables Powerful Searching and Multiple Visualizations Across One Million Unified Single-Cell Ocular Transcriptomes Swamy, VS; Batz, ZA; McGaughey, DM; , Transl Vis Sci Technol, DOI://10.1167/tvst.12.9.18 (2023)
Thyroid hormone receptor α1: a novel regulator of thyroid cancer cell differentiation Hwang, E; Doolittle, WKL; Zhu, YJ et al. Oncogene, DOI://10.1038/s41388-023-02815-2 (2023)

Pan-Cancer Analysis of Patient Tumor Single-Cell Transcriptomes Identifies Promising Selective and Safe Chimeric Antigen Receptor Targets in Head and Neck Cancer Madan, S; Sinha, S; Chang, T et al. Cancers (Basel), DOI://10.3390/cancers15194885 (2023)
Dysregulation of Mitochondrial Translation Caused by CBFB Deficiency Cooperates with Mutant PIK3CA and Is a Vulnerability in Breast Cancer Malik, N; Kim, YI; Yan, H et al. Cancer Res, DOI://10.1158/0008-5472.CAN-22-2525 (2023)
Capturing heterogeneous conformers of cobalamin riboswitch by cryo-EM Ding, J; Deme, JC; Stagno, JR et al. Nucleic Acids Res, DOI://10.1093/nar/gkad651 (2023)
Structure-Activity Relationship Studies of SARS-CoV-2 Main Protease Inhibitors Containing 4-Fluorobenzothiazole-2-carbonyl Moieties Tsuji, K; Ishii, T; Kobayakawa, T et al. J Med Chem, DOI://10.1021/acs.jmedchem.3c00777 (2023)
Autolysosomal exocytosis of lipids protect neurons from ferroptosis Ralhan, I; Chang, J; Moulton, MJ et al. J Cell Biol, DOI://10.1083/jcb.202207130 (2023)
Glucose-6-phosphate dehydrogenase deficiency and long-term risk of immune-related disorders Israel, A; Schäffer, AA; Berkovitch, M et al. Front Immunol, DOI://10.3389/fimmu.2023.1232560 (2023)

Chromatin Accessibility Landscape of Human Triple-negative Breast Cancer Cell Lines Reveals Variation by Patient Donor Ancestry Harris, AR; Panigrahi, G; Liu, H et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-23-0236 (2023)
Diffusion tensor free water MRI predicts progression of FLAIR white matter hyperintensities after ischemic stroke Kern, KC; Zagzoug, MS; Gottesman, RF et al. Front Neurol, DOI://10.3389/fneur.2023.1172031 (2023)
Synthesis and Antiphytopathogenic Activity of Novel Oxazolidine-2,4-diones Bearing Phenoxypyridine Moiety Liu, Y; Esser, L; Bai, H et al. J Agric Food Chem, DOI://10.1021/acs.jafc.3c03464 (2023)
Protein Kinase B (PKB/AKT) Protects IDH-Mutated Glioma from Ferroptosis via Nrf2 Liu, Y; Chou, FJ; Lang, F et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-22-3179 (2023)
Medical Image Retrieval via Nearest Neighbor Search on Pre-trained Image Features Gupta, D; Loane, R; Gayen, S; Demner-Fushman, D; , Knowl Based Syst, DOI://10.1016/j.knosys.2023.110907 (2023)
Identification of neoepitope reactive T-cell receptors guided by HLA-A*03:01 and HLA-A*11:01 immunopeptidomics Ade, CM; Sporn, MJ; Das, S et al. J Immunother Cancer, DOI://10.1136/jitc-2023-007097 (2023)

REUSED: A deep neural network method for rapid whole-brain high-resolution myelin water fraction mapping from extremely under-sampled MRI Gong, Z; Khattar, N; Kiely, M et al. Comput Med Imaging Graph, DOI://10.1016/j.compmedimag.2023.102282 (2023)
A planar polarized MYO6-DOCK7-RAC1 axis promotes tissue fluidification in mammary epithelia Menin, L; Weber, J; Villa, S et al. Cell Rep, DOI://10.1016/j.celrep.2023.113001 (2023)
An Investigation of Structure-Activity Relationships and Cell Death Mechanisms of the Marine Alkaloids Discorhabdins in Merkel Cell Carcinoma Cells Orfanoudaki, M; Smith, EA; Hill, NT et al. Mar Drugs, DOI://10.3390/md21090474 (2023)
Intensive systolic blood pressure treatment remodels brain perivascular spaces: A secondary analysis of the Systolic Pressure Intervention Trial (SPRINT) Kern, KC; Nasrallah, IM; Bryan, RN et al. Neuroimage Clin, DOI://10.1016/j.nicl.2023.103513 (2023)
Genome-First Approach of the Prevalence and Cancer Phenotypes of Pathogenic or Likely Pathogenic Germline TP53 Variants de Andrade, KC; Strande, NT; Kim, J et al. HGG Adv, DOI://10.1016/j.xhgg.2023.100242 (2023)
Cell-free chromatin immunoprecipitation to detect molecular pathways in heart transplantation Jang, MK; Markowitz, TE; Andargie, TE et al. Life Sci Alliance, DOI://10.26508/lsa.202302003 (2023)
Hypertensive Adults Exhibit Lower Myelin Content: A Multicomponent Relaxometry and Diffusion Magnetic Resonance Imaging Study Laporte, JP; Faulkner, ME; Gong, Z et al. Hypertension, DOI://10.1161/HYPERTENSIONAHA.123.21012 (2023)
Upregulation of Somatostatin Receptor Type 2 Improves 177Lu-DOTATATE Therapy in Receptor-Deficient Pancreatic Neuroendocrine Tumor Model Sharma, R; Earla, B; Baidoo, KE et al. Mol Cancer Ther, DOI://10.1158/1535-7163.MCT-22-0798 (2023)
Transcriptional landscape of Kaposi sarcoma tumors identifies unique immunologic signatures and key determinants of angiogenesis Ramaswami, R; Tagawa, T; Mahesh, G et al. J Transl Med, DOI://10.1186/s12967-023-04517-5 (2023)
A comprehensive analysis of adverse events in the first 30 days of phase 1 pediatric CAR T-cell trials Silbert, SK; Madan, S; Holland, EM et al. Blood Adv, DOI://10.1182/bloodadvances.2023009789 (2023)
CHD7 variants associated with hearing loss and enlargement of the vestibular aqueduct Roux, I; Fenollar-Ferrer, C; Lee, HJ et al. Hum Genet, DOI://10.1007/s00439-023-02581-x (2023)
Universal Genome-Wide Association Studies: Powerful Joint Ancestry and Association Testing Shriner, D; Bentley, AR; Gouveia, MH et al. HGG Adv, DOI://10.1016/j.xhgg.2023.100235 (2023)

IFNL4 Genotypes and Risk of Childhood Burkitt Lymphoma in East Africa Baker, FS; Wang, J; Florez-Vargas, O et al. J Interferon Cytokine Res, DOI://10.1089/jir.2023.0014 (2023)
HLA in isolated REM sleep behavior disorder and Lewy body dementia Yu, E; Krohn, L; Ruskey, JA et al. Ann Clin Transl Neurol, DOI://10.1002/acn3.51841 (2023)
Loss of CD4+ T cell-intrinsic arginase 1 accelerates Th1 response kinetics and reduces lung pathology during influenza infection West, EE; Merle, NS; Kamiński, MM et al. Immunity, DOI://10.1016/j.immuni.2023.07.014 (2023)
Transcription factor EGR2 controls homing and pathogenicity of TH17 cells in the central nervous system Gao, Y; Wang, Y; Chauss, D et al. Nat Immunol, DOI://10.1038/s41590-023-01553-7 (2023)
Chromatin remodeling of prostaglandin signaling in smooth muscle enables mouse embryo passage through the female reproductive tract Xin, Q; Yu, G; Feng, I; Dean, J; , Dev Cell, DOI://10.1016/j.devcel.2023.08.025 (2023)
Comparative Evaluation of Current Biochemical-, Sequencing-, and Proteomic-Based Identification Methods for the Streptococcus bovis Group Putnam, NE; Youn, JH; Wallace, MA et al. J Clin Microbiol, DOI://10.1128/jcm.01712-22 (2023)
An Artificial Intelligence Approach for Tackling Conformational Energy Uncertainties in Chiroptical Spectroscopies Marton, G; Koenis, MAJ; Liu, HB et al. Angew Chem Int Ed Engl, DOI://10.1002/anie.202307053 (2023)
Cannabinoformins: Designing Biguanide-Embedded, Orally Available, Peripherally Selective Cannabinoid-1 Receptor Antagonists for Metabolic Syndrome Disorders Dvorácskó, S; Herrerias, A; Oliverio, A et al. J Med Chem, DOI://10.1021/acs.jmedchem.3c00599 (2023)
TNFR1 and TNFR2, Which Link NF-κB Activation, Drive Lung Cancer Progression, Cell Dedifferentiation, and Metastasis Shi, G; Hu, Y; , Cancers (Basel), DOI://10.3390/cancers15174299 (2023)
Using patient-derived tumor organoids from common epithelial cancers to analyze personalized T-cell responses to neoantigens Parikh, AY; Masi, R; Gasmi, B et al. Cancer Immunol Immunother, DOI://10.1007/s00262-023-03476-6 (2023)
Designed nanoparticles elicit cross-reactive antibody responses to conserved influenza virus hemagglutinin stem epitopes McCraw, DM; Myers, ML; Gulati, NM et al. PLoS Pathog, DOI://10.1371/journal.ppat.1011514 (2023)
HIV-1 neutralizing antibodies elicited in humans by a prefusion-stabilized envelope trimer form a reproducible class targeting fusion peptide Wang, S; Matassoli, F; Zhang, B et al. Cell Rep, DOI://10.1016/j.celrep.2023.112755 (2023)
Absence of TRIC-B from type XIV Osteogenesis Imperfecta osteoblasts alters cell adhesion and mitochondrial function - A multi-omics study Jovanovic, M; Mitra, A; Besio, R et al. Matrix Biol, DOI://10.1016/j.matbio.2023.06.004 (2023)
Highly pathogenic avian influenza A (H5N1) in marine mammals and seabirds in Peru Leguia, M; Garcia-Glaessner, A; Muñoz-Saavedra, B et al. Nat Commun, DOI://10.1038/s41467-023-41182-0 (2023)
Evaluating the Cysteine-Rich and Catalytic Subdomains of Human Tyrosinase and OCA1-Related Mutants Using 1 μs Molecular Dynamics Simulation Woods, T; Sergeev, YV; , Int J Mol Sci, DOI://10.3390/ijms241713032 (2023)
Sarcopenia and gut microbiota alterations in patients with hematological diseases before and after hematopoietic stem cell transplantation Wang, B; Hu, W; Zhang, X et al. Chin J Cancer Res, DOI://10.21147/j.issn.1000-9604.2023.04.05 (2023)
Accelerated evolution of SARS-CoV-2 in free-ranging white-tailed deer McBride, DS; Garushyants, SK; Franks, J et al. Nat Commun, DOI://10.1038/s41467-023-40706-y (2023)
Evolutionary selection of proteins with two folds Schafer, JW; Porter, LL; , Nat Commun, DOI://10.1038/s41467-023-41237-2 (2023)
A brain specific alternatively spliced isoform of nonmuscle myosin IIA lacks its mechanoenzymatic activities Das, S; Mallick, D; Sarkar, S et al. J Biol Chem, DOI://10.1016/j.jbc.2023.105143 (2023)
Aire drives steroid hormone biosynthesis by medullary thymic epithelial cells Taves, MD; Donahue, KM; Bian, J et al. Sci Immunol, DOI://10.1126/sciimmunol.abo7975 (2023)
Vaccine elicitation and structural basis for antibody protection against alphaviruses Sutton, MS; Pletnev, S; Callahan, V et al. Cell, DOI://10.1016/j.cell.2023.05.019 (2023)
Opioid receptor antagonism and neural response to monetary rewards: Pilot studies in light and heavy alcohol users Gowin, JL; Sloan, ME; Kirk-Provencher, KT et al. J Psychopharmacol, DOI://10.1177/02698811231191707 (2023)
Development of a bicistronic anti-CD19/CD20 CAR construct including abrogation of unexpected nucleic acid sequence deletions Lam, N; Finney, R; Yang, S et al. Mol Ther Oncolytics, DOI://10.1016/j.omto.2023.07.001 (2023)
OPA1 helical structures give perspective to mitochondrial dysfunction Nyenhuis, SB; Wu, X; Strub, MP et al. Nature, DOI://10.1038/s41586-023-06462-1 (2023)

The Molecular Mechanism of Positive Allosteric Modulation at the Dopamine D1 Receptor Goldberg, A; Xie, B; Shi, L; , Int J Mol Sci, DOI://10.3390/ijms241612848 (2023)
Membrane free-energy landscapes derived from atomistic dynamics explain nonuniversal cholesterol-induced stiffening Fiorin, G; Forrest, LR; Faraldo-Gómez, JD; , PNAS Nexus, DOI://10.1093/pnasnexus/pgad269 (2023)
Optimizing TMS Coil Placement Approaches for Targeting the Dorsolateral Prefrontal Cortex in Depressed Adolescents: An Electric Field Modeling Study Deng, ZD; Robins, PL; Dannhauer, M et al. Biomedicines, DOI://10.3390/biomedicines11082320 (2023)
Intestinal microbiome and metabolome signatures in patients with chronic granulomatous disease Chandrasekaran, P; Han, Y; Zerbe, CS et al. J Allergy Clin Immunol, DOI://10.1016/j.jaci.2023.07.022 (2023)
Macrophage-mediated extracellular matrix remodeling controls host Staphylococcus aureus susceptibility in the skin Voisin, B; Nadella, V; Doebel, T et al. Immunity, DOI://10.1016/j.immuni.2023.06.006 (2023)
Genotype-Phenotype Association in ABCA4-Associated Retinopathy Pfau, M; Zein, WM; Huryn, LA et al. Adv Exp Med Biol, DOI://10.1007/978-3-031-27681-1_42 (2023)
Mechanisms of HIV-1 integrase resistance to dolutegravir and potent inhibition of drug-resistant variants Li, M; Oliveira Passos, D; Shan, Z et al. Sci Adv, DOI://10.1126/sciadv.adg5953 (2023)
Dorsal visual stream and LIMK1: hemideletion, haplotype, and enduring effects in children with Williams syndrome Kippenhan, JS; Gregory, MD; Nash, T et al. J Neurodev Disord, DOI://10.1186/s11689-023-09493-x (2023)
Time-Distributed Framework for 3D Reconstruction Integrating Fringe Projection with Deep Learning Nguyen, AH; Wang, Z; , Sensors (Basel), DOI://10.3390/s23167284 (2023)
Tumor-associated macrophages trigger MAIT cell dysfunction at the HCC invasive margin Ruf, B; Bruhns, M; Babaei, S et al. Cell, DOI://10.1016/j.cell.2023.07.026 (2023)
Optimizing treatment allocation in randomized clinical trials by leveraging baseline covariates Zhang, W; Zhang, Z; Liu, A; , Biometrics, DOI://10.1111/biom.13914 (2023)
Germline Exome Sequencing for Men with Testicular Germ Cell Tumor Reveals Coding Defects in Chromosomal Segregation and Protein-targeting Genes Pyle, LC; Kim, J; Bradfield, J et al. Eur Urol, DOI://10.1016/j.eururo.2023.05.008 (2023)
Design of cell-type-specific hyperstable IL-4 mimetics via modular de novo scaffolds Yang, H; Ulge, UY; Quijano-Rubio, A et al. Nat Chem Biol, DOI://10.1038/s41589-023-01313-6 (2023)
Fluid protein fold space and its implications Porter, LL Bioessays, DOI://10.1002/bies.202300057 (2023)
Evidence for virus-mediated oncogenesis in bladder cancers arising in solid organ transplant recipients Starrett, GJ; Yu, K; Golubeva, Y et al. Elife, DOI://10.7554/eLife.82690 (2023)
Bacterial NLR-related proteins protect against phage Kibby, EM; Conte, AN; Burroughs, AM et al. Cell, DOI://10.1016/j.cell.2023.04.015 (2023)
Nonlinear expression patterns and multiple shifts in gene network interactions underlie robust phenotypic change in Drosophila melanogaster selected for night sleep duration Souto-Maior, C; Serrano Negron, YL; Harbison, ST; , PLoS Comput Biol, DOI://10.1371/journal.pcbi.1011389 (2023)
Characterization of leukemia progression in the Cbfb-MYH11 knockin mice by single cell RNA sequencing Diemer, JL; Yu, K; Kelly, M et al. Leukemia, DOI://10.1038/s41375-023-01926-9 (2023)

B cell depletion therapy does not resolve chronic active multiple sclerosis lesions Maggi, P; Bulcke, CV; Pedrini, E et al. EBioMedicine, DOI://10.1016/j.ebiom.2023.104701 (2023)
Cell-specific and shared regulatory elements control a multigene locus active in mammary and salivary glands Lee, HK; Willi, M; Liu, C; Hennighausen, L; , Nat Commun, DOI://10.1038/s41467-023-40712-0 (2023)
Single-cell transcriptomic analysis of the identity and function of fibro/adipogenic progenitors in healthy and dystrophic muscle Uapinyoying, P; Hogarth, M; Battacharya, S et al. iScience, DOI://10.1016/j.isci.2023.107479 (2023)
Identification of eight novel proteasome variants in five unrelated cases of proteasome-associated autoinflammatory syndromes (PRAAS) Papendorf, JJ; Ebstein, F; Alehashemi, S et al. Front Immunol, DOI://10.3389/fimmu.2023.1190104 (2023)
Single-Cell Analysis of CX3CR1+ Cells Reveals a Pathogenic Role for BIRC5+ Myeloid Proliferating Cells Driven by Staphylococcus aureus Leukotoxins Loredan, DG; Devlin, JC; Lacey, KA et al. J Immunol, DOI://10.4049/jimmunol.2300166 (2023)
A novel ARPKD mouse model with near-complete deletion of the Polycystic Kidney and Hepatic Disease 1 (Pkhd1) genomic locus presents with multiple phenotypes but not renal cysts Ishimoto, Y; Menezes, LF; Zhou, F et al. Kidney Int, DOI://10.1016/j.kint.2023.05.027 (2023)
Pacak-Zhuang syndrome: a model providing new insights into tumor syndromes Rosenblum, JS; Wang, H; Nazari, MA et al. Endocr Relat Cancer, DOI://10.1530/ERC-23-0050 (2023)
Associations of Circulating Estrogens and Estrogen Metabolites with Fecal and Oral Microbiome in Postmenopausal Women in the Ghana Breast Health Study Wu, Z; Pfeiffer, RM; Byrd, DA et al. Microbiol Spectr, DOI://10.1128/spectrum.01572-23 (2023)
Natural History of Visual Dysfunction in ABCA4 Retinopathy and Its Genetic Correlates Pfau, M; Huryn, LA; Boyle, MP et al. Am J Ophthalmol, DOI://10.1016/j.ajo.2023.05.014 (2023)
The Vaginal Microbiota of Pregnant Women Varies with Gestational Age, Maternal Age, and Parity Romero, R; Theis, KR; Gomez-Lopez, N et al. Microbiol Spectr, DOI://10.1128/spectrum.03429-22 (2023)
Experimental NOE, Chemical Shift, and Proline Isomerization Data Provide Detailed Insights into Amelotin Oligomerization Chiliveri, SC; Shen, Y; Baber, JL et al. J Am Chem Soc, DOI://10.1021/jacs.3c05710 (2023)
Multiomics Analyses Reveal Sex Differences in Mouse Renal Proximal Subsegments Chen, L; Chou, CL; Yang, CR; Knepper, MA; , J Am Soc Nephrol, DOI://10.1681/ASN.0000000000000089 (2023)
Estimated Prevalence, Tumor Spectrum, and Neurofibromatosis Type 1-Like Phenotype of CDKN2A-Related Melanoma-Astrocytoma Syndrome Sargen, MR; Kim, J; Potjer, TP et al. JAMA Dermatol, DOI://10.1001/jamadermatol.2023.2621 (2023)
BRG1 HSA domain interactions with BCL7 proteins are critical for remodeling and gene expression Dietrich, N; Trotter, K; Ward, JM; Archer, TK; , Life Sci Alliance, DOI://10.26508/lsa.202201770 (2023)
Exposure to lung-migrating helminth protects against murine SARS-CoV-2 infection through macrophage-dependent T cell activation Oyesola, OO; Hilligan, KL; Namasivayam, S et al. Sci Immunol, DOI://10.1126/sciimmunol.adf8161 (2023)
Epigenetic signature of human immune aging in the GESTALT study Roy, R; Kuo, PL; Candia, J et al. Elife, DOI://10.7554/eLife.86136 (2023)
The Role of FAS Receptor Methylation in Osteosarcoma Metastasis Sun, JM; Chow, WY; Xu, G et al. Int J Mol Sci, DOI://10.3390/ijms241512155 (2023)
Positional influence on cellular transcriptional identity revealed through spatially segmented single-cell transcriptomics Morse, DB; Michalowski, AM; Ceribelli, M et al. Cell Syst, DOI://10.1016/j.cels.2023.05.003 (2023)
Deep learning-based decision forest for hereditary clear cell renal cell carcinoma segmentation on MRI Lay, N; Anari, PY; Chaurasia, A et al. Med Phys, DOI://10.1002/mp.16303 (2023)
A gene duplication of a septin reveals a developmentally regulated filament length control mechanism Cannon, KS; Vargas-Muniz, JM; Billington, N et al. J Cell Biol, DOI://10.1083/jcb.202204063 (2023)
A novel de novo TP63 mutation in whole-exome sequencing of a Syrian family with Oral cleft and ectrodactyly Simpson, CL; Kimble, DC; Chandrasekharappa, SC et al. Mol Genet Genomic Med, DOI://10.1002/mgg3.2179 (2023)
Expression quantitative trait methylation analysis elucidates gene regulatory effects of DNA methylation: the Framingham Heart Study Keshawarz, A; Bui, H; Joehanes, R et al. Sci Rep, DOI://10.1038/s41598-023-39936-3 (2023)
Improving segmentation and detection of lesions in CT scans using intensity distribution supervision Shin, SY; Shen, TC; Summers, RM; , Comput Med Imaging Graph, DOI://10.1016/j.compmedimag.2023.102259 (2023)
Lesion recognition by XPC, TFIIH and XPA in DNA excision repair Kim, J; Li, CL; Chen, X et al. Nature, DOI://10.1038/s41586-023-05959-z (2023)

A single N-terminal amino acid determines the distinct roles of histones H3 and H3.3 in the Drosophila male germline stem cell lineage Chandrasekhara, C; Ranjan, R; Urban, JA et al. PLoS Biol, DOI://10.1371/journal.pbio.3002098 (2023)
A chromosome-scale epigenetic map of the Hydra genome reveals conserved regulators of cell state Cazet, JF; Siebert, S; Little, HM et al. Genome Res, DOI://10.1101/gr.277040.122 (2023)
T cell intrinsic STAT1 signaling prevents aberrant Th1 responses during acute toxoplasmosis Schultz, AB; Kugler, DG; Nivelo, L et al. Front Immunol, DOI://10.3389/fimmu.2023.1212190 (2023)
SMYD3 represses tumor-intrinsic interferon response in HPV-negative squamous cell carcinoma of the head and neck Nigam, N; Bernard, B; Sevilla, S et al. Cell Rep, DOI://10.1016/j.celrep.2023.112823 (2023)
LAST-seq: single-cell RNA sequencing by direct amplification of single-stranded RNA without prior reverse transcription and second-strand synthesis Lyu, J; Chen, C; , Genome Biol, DOI://10.1186/s13059-023-03025-5 (2023)
Combined low-frequency brain oscillatory activity and behavior predict future errors in human motor skill Iwane, F; Dash, D; Salamanca-Giron, RF et al. Curr Biol, DOI://10.1016/j.cub.2023.06.040 (2023)
Estimated Prevalence and Clinical Manifestations of UBA1 Variants Associated With VEXAS Syndrome in a Clinical Population Beck, DB; Bodian, DL; Shah, V et al. JAMA, DOI://10.1001/jama.2022.24836 (2023)
MLL3/MLL4 methyltransferase activities control early embryonic development and embryonic stem cell differentiation in a lineage-selective manner Xie, G; Lee, JE; Senft, AD et al. Nat Genet, DOI://10.1038/s41588-023-01356-4 (2023)
Soluble prefusion-closed HIV-envelope trimers with glycan-covered bases Olia, AS; Cheng, C; Zhou, T et al. iScience, DOI://10.1016/j.isci.2023.107403 (2023)
Toxic antiphage defense proteins inhibited by intragenic antitoxin proteins Zhong, A; Jiang, X; Hickman, AB et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2307382120 (2023)
Short hydrocarbon stapled ApoC2-mimetic peptides activate lipoprotein lipase and lower plasma triglycerides in mice Sviridov, D; Dasseux, A; Reimund, M et al. Front Cardiovasc Med, DOI://10.3389/fcvm.2023.1223920 (2023)
In vivo Polycystin-1 interactome using a novel Pkd1 knock-in mouse model Lin, CC; Menezes, LF; Qiu, J et al. PLoS One, DOI://10.1371/journal.pone.0289778 (2023)
mRNA location and translation rate determine protein targeting to dual destinations Gasparski, AN; Moissoglu, K; Pallikkuth, S et al. Mol Cell, DOI://10.1016/j.molcel.2023.06.036 (2023)
Variant STAT4 and Response to Ruxolitinib in an Autoinflammatory Syndrome Baghdassarian, H; Blackstone, SA; Clay, OS et al. N Engl J Med, DOI://10.1056/NEJMoa2202318 (2023)
Exome-wide association study of treatment-resistant depression suggests novel treatment targets Shah, SB; Peddada, TN; Song, C et al. Sci Rep, DOI://10.1038/s41598-023-38984-z (2023)
Transcription factor TCF-1 regulates the functions, but not the development, of lymphoid tissue inducer subsets in different tissues Zheng, M; Yao, C; Ren, G et al. Cell Rep, DOI://10.1016/j.celrep.2023.112924 (2023)
Serology Identifies LIPyV as a Feline Rather than a Human Polyomavirus Kamminga, S; van der Meijden, E; Pesavento, P et al. Viruses, DOI://10.3390/v15071546 (2023)
Tracking genetic variants in the biomedical literature using LitVar 2.0 Allot, A; Wei, CH; Phan, L et al. Nat Genet, DOI://10.1038/s41588-023-01414-x (2023)
Crosstalk between ILC2s and Th2 cells varies among mouse models Gurram, RK; Wei, D; Yu, Q et al. Cell Rep, DOI://10.1016/j.celrep.2023.112073 (2023)
Extreme dynamics in a biomolecular condensate Galvanetto, N; Ivanović, MT; Chowdhury, A et al. Nature, DOI://10.1038/s41586-023-06329-5 (2023)
A virus-induced circular RNA maintains latent infection of Kaposi's sarcoma herpesvirus Tagawa, T; Oh, D; Dremel, S et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2212864120 (2023)
Reactivated thyroid hormone receptor β attenuates anaplastic thyroid cancer (ATC) stem cell activity Zhu, X; Zhao, L; Doolittle, WKL; Cheng, SY; , Endocr Relat Cancer, DOI://10.1530/ERC-22-0306 (2023)
Long wavelength-sensing cones of zebrafish retina exhibit multiple layers of transcriptional heterogeneity Farre, AA; Sun, C; Starostik, MR et al. Front Cell Neurosci, DOI://10.3389/fncel.2023.1214084 (2023)
Regulation of endogenous retrovirus-derived regulatory elements by GATA2/3 and MSX2 in human trophoblast stem cells Du, C; Jiang, J; Li, Y et al. Genome Res, DOI://10.1101/gr.277150.122 (2023)
Questionnaire-Based Polyexposure Assessment Outperforms Polygenic Scores for Classification of Type 2 Diabetes in a Multiancestry Cohort Akhtari, FS; Lloyd, D; Burkholder, A et al. Diabetes Care, DOI://10.2337/dc22-0295 (2023)
Architectural basis for cylindrical self-assembly governing Plk4-mediated centriole duplication in human cells Il Ahn, J; Zhang, L; Ravishankar, H et al. Commun Biol, DOI://10.1038/s42003-023-05067-8 (2023)
RNA exosome ribonuclease DIS3 degrades Pou6f1 to promote mouse pre-implantation cell differentiation Wu, D; Dean, J; , Cell Rep, DOI://10.1016/j.celrep.2023.112047 (2023)
Identifying sources of human interictal discharges with travelling wave and white matter propagation Withers, CP; Diamond, JM; Yang, B et al. Brain, DOI://10.1093/brain/awad259 (2023)
Multilevel human secondary lymphoid immune system compartmentalization revealed by complementary imaging approaches Oyler, BL; Valencia-Dávila, JA; Moysi, E et al. iScience, DOI://10.1016/j.isci.2023.107261 (2023)
2-Hydroxypropyl-β-Cyclodextrin Treatment Induces Modest Immune Activation in Healthy Rhesus Macaques Ortiz, AM; Castello Casta, F; Rahmberg, A et al. J Virol, DOI://10.1128/jvi.00600-23 (2023)

NF-κB subunits direct kinetically distinct transcriptional cascades in antigen receptor-activated B cells Zhao, M; Chauhan, P; Sherman, CA et al. Nat Immunol, DOI://10.1038/s41590-023-01561-7 (2023)
Senescence-induced cellular reprogramming drives cnidarian whole-body regeneration Salinas-Saavedra, M; Febrimarsa, ; Krasovec, G et al. Cell Rep, DOI://10.1016/j.celrep.2023.112687 (2023)
SOX9 is a key component of RUNX2-regulated transcriptional circuitry in osteosarcoma Kim, YI; Tseng, YC; Ayaz, G et al. Cell Biosci, DOI://10.1186/s13578-023-01088-2 (2023)
Multi-tiered approach to detect autoimmune cross-reactivity of therapeutic T cell receptors Ishii, K; Davies, JS; Sinkoe, AL et al. Sci Adv, DOI://10.1126/sciadv.adg9845 (2023)
PRDM10 RCC: A Birt-Hogg-Dubé-like Syndrome Associated With Lipoma and Highly Penetrant, Aggressive Renal Tumors Morphologically Resembling Type 2 Papillary Renal Cell Carcinoma Schmidt, LS; Vocke, CD; Ricketts, CJ et al. Urology, DOI://10.1016/j.urology.2023.04.035 (2023)
The genome of antibiotic-producing colonies of the Pelagophyte alga Chrysophaeum taylorii reveals a diverse and non-canonical capacity for secondary metabolism Davison, JR; Rajwani, R; Zhao, G; Bewley, CA; , Sci Rep, DOI://10.1038/s41598-023-38042-8 (2023)

Zinc-finger BED domains drive the formation of the active Hermes transpososome by asymmetric DNA binding Lannes, L; Furman, CM; Hickman, AB; Dyda, F; , Nat Commun, DOI://10.1038/s41467-023-40210-3 (2023)
Whole-genome methylation analysis of aging human tissues identifies age-related changes in developmental and neurological pathways Tharakan, R; Ubaida-Mohien, C; Dunn, C et al. Aging Cell, DOI://10.1111/acel.13847 (2023)
Manifold learning for fMRI time-varying functional connectivity Gonzalez-Castillo, J; Fernandez, IS; Lam, KC et al. Front Hum Neurosci, DOI://10.3389/fnhum.2023.1134012 (2023)
eEF2 diphthamide modification restrains spurious frameshifting to maintain translational fidelity Shin, BS; Ivanov, IP; Kim, JR et al. Nucleic Acids Res, DOI://10.1093/nar/gkad461 (2023)
Primary oxidative phosphorylation defects lead to perturbations in the human B cell repertoire Gordon-Lipkin, EM; Banerjee, P; Franco, JLM et al. Front Immunol, DOI://10.3389/fimmu.2023.1142634 (2023)
BOLD Response is more than just magnitude: Improving detection sensitivity through capturing hemodynamic profiles Chen, G; Taylor, PA; Reynolds, RC et al. Neuroimage, DOI://10.1016/j.neuroimage.2023.120224 (2023)

Integrative analysis of individual-level data and high-dimensional summary statistics Fu, S; Deng, L; Zhang, H et al. Bioinformatics, DOI://10.1093/bioinformatics/btad156 (2023)
Integrating massive RNA-seq data to elucidate transcriptome dynamics in Drosophila melanogaster Hu Qian, S; Shi, MW; Wang, DY et al. Brief Bioinform, DOI://10.1093/bib/bbad177 (2023)
Optimized quantification of intra-host viral diversity in SARS-CoV-2 and influenza virus sequence data Roder, AE; Johnson, KEE; Knoll, M et al. mBio, DOI://10.1128/mbio.01046-23 (2023)
AIONER: all-in-one scheme-based biomedical named entity recognition using deep learning Luo, L; Wei, CH; Lai, PT et al. Bioinformatics, DOI://10.1093/bioinformatics/btad310 (2023)
Haplotype-based analysis resolves missing heritability in oculocutaneous albinism type 1B Loftus, SK; Gillis, MF; Lundh, L et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2023.05.012 (2023)
Stiff matrix induces exosome secretion to promote tumour growth Wu, B; Liu, DA; Guan, L et al. Nat Cell Biol, DOI://10.1038/s41556-023-01092-1 (2023)
Analysis of several common APOBEC-type mutations in bladder tumors suggests links to viral infection Rao, N; Starrett, GJ; Piaskowski, ML et al. Cancer Prev Res (Phila), DOI://10.1158/1940-6207.CAPR-23-0112 (2023)
Structural basis for pre-tRNA recognition and processing by the human tRNA splicing endonuclease complex Hayne, CK; Butay, KJU; Stewart, ZD et al. Nat Struct Mol Biol, DOI://10.1038/s41594-023-00991-z (2023)
Author Correction: The power of genetic diversity in genome-wide association studies of lipids Graham, SE; Clarke, SL; Wu, KH et al. Nature, DOI://10.1038/s41586-023-06194-2 (2023)
The Combination of Trametinib and Ganitumab is Effective in RAS-Mutated PAX-Fusion Negative Rhabdomyosarcoma Models Hebron, KE; Wan, X; Roth, JS et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-22-1646 (2023)
A Phase II Trial of Guadecitabine in Children and Adults with SDH-Deficient GIST, Pheochromocytoma, Paraganglioma, and HLRCC-Associated Renal Cell Carcinoma Ligon, JA; Sundby, RT; Wedekind, MF et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-22-2168 (2023)
Cathepsin W restrains peripheral regulatory T cells for mucosal immune quiescence Li, J; Chen, Z; Kim, G et al. Sci Adv, DOI://10.1126/sciadv.adf3924 (2023)
Race/ethnicity-stratified fine-mapping of the MHC locus reveals genetic variants associated with late-onset asthma Lee, EY; Choi, W; Burkholder, AB et al. Front Genet, DOI://10.3389/fgene.2023.1173676 (2023)
rWTC-MBTA: autologous vaccine prevents metastases via antitumor immune responses Ye, J; Wang, H; Medina, R et al. J Exp Clin Cancer Res, DOI://10.1186/s13046-023-02744-8 (2023)
Gut dysbiosis in Thai intrahepatic cholangiocarcinoma and hepatocellular carcinoma Pomyen, Y; Chaisaingmongkol, J; Rabibhadana, S et al. Sci Rep, DOI://10.1038/s41598-023-38307-2 (2023)
Structural and photophysical characterization of the small ultra-red fluorescent protein Maiti, A; Buffalo, CZ; Saurabh, S et al. Nat Commun, DOI://10.1038/s41467-023-39776-9 (2023)
Noncoding RNA circuitry in melanoma onset, plasticity, and therapeutic response Grafanaki, K; Grammatikakis, I; Ghosh, A et al. Pharmacol Ther, DOI://10.1016/j.pharmthera.2023.108466 (2023)
GATA3 induces the pathogenicity of Th17 cells via regulating GM-CSF expression Butcher, MJ; Gurram, RK; Zhu, X et al. Front Immunol, DOI://10.3389/fimmu.2023.1186580 (2023)

Modification of a Conventional Deep Learning Model to Classify Simulated Breathing Patterns: A Step toward Real-Time Monitoring of Patients with Respiratory Infectious Diseases Park, J; Mah, AJ; Nguyen, T et al. Sensors (Basel), DOI://10.3390/s23125592 (2023)
Modulation of WNT, Activin/Nodal, and MAPK Signaling Pathways Increases Arterial Hemogenic Endothelium and Hematopoietic Stem/Progenitor Cell Formation During Human iPSC Differentiation Li, Y; Ding, J; Araki, D et al. Stem Cells, DOI://10.1093/stmcls/sxad040 (2023)
Cerebrospinal Fluid Protein Biomarker Discovery in CLN3 Dang Do, AN; Sleat, DE; Campbell, K et al. J Proteome Res, DOI://10.1021/acs.jproteome.3c00199 (2023)
Clinical, genetic, and structural characterization of a novel TUBB4B tubulinopathy McFadden, JR; Tolete, CDP; Huang, Y et al. Mol Genet Metab Rep, DOI://10.1016/j.ymgmr.2023.100990 (2023)
GRL-142 binds to and impairs HIV-1 integrase nuclear localization signal and potently suppresses highly INSTI-resistant HIV-1 variants Aoki, M; Aoki-Ogata, H; Bulut, H et al. Sci Adv, DOI://10.1126/sciadv.adg2955 (2023)
A longitudinal transcriptomic analysis from unfed to post-engorgement midguts of adult female Ixodes scapularis Lu, S; Martins, LA; Kotál, J et al. Sci Rep, DOI://10.1038/s41598-023-38207-5 (2023)

Residues from Homologous Transmembrane Helices 4 and 10 Are Critical for P-Glycoprotein (ABCB1)-Mediated Drug Transport Rahman, H; Ware, MJ; Sajid, A et al. Cancers (Basel), DOI://10.3390/cancers15133459 (2023)
Improve the model of disease subtype heterogeneity by leveraging external summary data Fu, S; Purdue, MP; Zhang, H et al. PLoS Comput Biol, DOI://10.1371/journal.pcbi.1011236 (2023)
Roving methyltransferases generate a mosaic epigenetic landscape and influence evolution in Bacteroides fragilis group Tisza, MJ; Smith, DDN; Clark, AE et al. Nat Commun, DOI://10.1038/s41467-023-39892-6 (2023)
mRNA decapping activators Pat1 and Dhh1 regulate transcript abundance and translation to tune cellular responses to nutrient availability Vijjamarri, AK; Gupta, N; Onu, C et al. Nucleic Acids Res, DOI://10.1093/nar/gkad584 (2023)
CellMinerCDB: NCATS Is a Web-Based Portal Integrating Public Cancer Cell Line Databases for Pharmacogenomic Explorations Reinhold, WC; Wilson, K; Elloumi, F et al. Cancer Res, DOI://10.1158/0008-5472.CAN-22-2996 (2023)
C5a-licensed phagocytes drive sterilizing immunity during systemic fungal infection Desai, JV; Kumar, D; Freiwald, T et al. Cell, DOI://10.1016/j.cell.2023.04.031 (2023)
MYC determines lineage commitment in KRAS-driven primary liver cancer development D'Artista, L; Moschopoulou, AA; Barozzi, I et al. J Hepatol, DOI://10.1016/j.jhep.2023.02.039 (2023)
Epitope-level profiling in children with mitochondrial disease reveals limitations in the antibacterial antibody repertoire Gordon-Lipkin, EM; Banerjee, P; Thompson, E et al. Mol Genet Metab, DOI://10.1016/j.ymgme.2023.107581 (2023)
Transcriptome-based measurement of CD8+ T cell age and its applications Weng, NP Trends Immunol, DOI://10.1016/j.it.2023.05.005 (2023)
Proteostasis Modulation in Germline Missense von Hippel Lindau Disease Chittiboina, P; Mandal, D; Bugarini, A et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-22-3651 (2023)
A network of DZF proteins controls alternative splicing regulation and fidelity Haque, N; Will, A; Cook, AG; Hogg, JR; , Nucleic Acids Res, DOI://10.1093/nar/gkad351 (2023)
Hi-TrAC detects active sub-TADs and reveals internal organizations of super-enhancers Cao, Y; Liu, S; Cui, K et al. Nucleic Acids Res, DOI://10.1093/nar/gkad378 (2023)

A Therapeutically Targetable NOTCH1-SIRT1-KAT7 Axis in T-cell Leukemia Lancho, O; Singh, A; da Silva-Diz, V et al. Blood Cancer Discov, DOI://10.1158/2643-3230.BCD-22-0098 (2023)
Extensive diversity in RNA termination and regulation revealed by transcriptome mapping for the Lyme pathogen Borrelia burgdorferi Petroni, E; Esnault, C; Tetreault, D et al. Nat Commun, DOI://10.1038/s41467-023-39576-1 (2023)
Germline loss-of-function PAM variants are enriched in subjects with pituitary hypersecretion Trivellin, G; Daly, AF; Hernández-Ramírez, LC et al. Front Endocrinol (Lausanne), DOI://10.3389/fendo.2023.1166076 (2023)
Dynamic switching of transcriptional regulators between two distinct low-mobility chromatin states Wagh, K; Stavreva, DA; Jensen, RAM et al. Sci Adv, DOI://10.1126/sciadv.ade1122 (2023)
NUP98::Nsd1 and FLT3-ITD collaborate to generate acute myeloid leukemia Matsukawa, T; Yin, M; Nigam, N et al. Leukemia, DOI://10.1038/s41375-023-01913-0 (2023)
ChromDL: a next-generation regulatory DNA classifier Hill, C; Hudaiberdiev, S; Ovcharenko, I; , Bioinformatics, DOI://10.1093/bioinformatics/btad217 (2023)

Distinct Genomic Landscape of Lung Adenocarcinoma from Household Use of Smoky Coal Zhang, T; Hoang, PH; Wong, JYY et al. Am J Respir Crit Care Med, DOI://10.1164/rccm.202302-0340LE (2023)
Eight Unexpected Selenoprotein Families in Organometallic Biochemistry in Clostridium difficile, in ABC Transport, and in Methylmercury Biosynthesis Haft, DH; Gwadz, M; , J Bacteriol, DOI://10.1128/jb.00259-22 (2023)
Tumor biology and immune infiltration define primary liver cancer subsets linked to overall survival after immunotherapy Budhu, A; Pehrsson, EC; He, A et al. Cell Rep Med, DOI://10.1016/j.xcrm.2023.101052 (2023)
An efficient genotyper and star-allele caller for pharmacogenomics Hari, A; Zhou, Q; Gonzaludo, N et al. Genome Res, DOI://10.1101/gr.277075.122 (2023)
Expanded analysis of high-grade astrocytoma with piloid features identifies an epigenetically and clinically distinct subtype associated with neurofibromatosis type 1 Cimino, PJ; Ketchum, C; Turakulov, R et al. Acta Neuropathol, DOI://10.1007/s00401-022-02513-5 (2023)
Reliability of Admission Procalcitonin Testing for Capturing Bacteremia Across the Sepsis Spectrum: Real-World Utilization and Performance Characteristics, 65 U.S. Hospitals, 2008-2017 Lawandi, A; Oshiro, M; Warner, S et al. Crit Care Med, DOI://10.1097/CCM.0000000000005968 (2023)

Genome-wide structural variant analysis identifies risk loci for non-Alzheimer's dementias Kaivola, K; Chia, R; Ding, J et al. Cell Genom, DOI://10.1016/j.xgen.2023.100316 (2023)
A landscape of response to drug combinations in non-small cell lung cancer Nair, NU; Greninger, P; Zhang, X et al. Nat Commun, DOI://10.1038/s41467-023-39528-9 (2023)
Ion channel selectivity through ion-modulated changes of selectivity filter pKa values Chen, AY; Brooks, BR; Damjanovic, A; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2220343120 (2023)
Germline genetic variants and pediatric rhabdomyosarcoma outcomes: a report from the Children's Oncology Group Martin-Giacalone, BA; Richard, MA; Scheurer, ME et al. J Natl Cancer Inst, DOI://10.1093/jnci/djad055 (2023)
Structural mechanism of LIN28B nucleosome targeting by OCT4 Guan, R; Lian, T; Zhou, BR et al. Mol Cell, DOI://10.1016/j.molcel.2023.05.030 (2023)
The molecular basis of heterochromatin assembly and epigenetic inheritance Grewal, SIS Mol Cell, DOI://10.1016/j.molcel.2023.04.020 (2023)
Decapping factor Dcp2 controls mRNA abundance and translation to adjust metabolism and filamentation to nutrient availability Vijjamarri, AK; Niu, X; Vandermeulen, MD et al. Elife, DOI://10.7554/eLife.85545 (2023)
Divergent Transcriptomic Effects of Allopregnanolone in Postpartum Depression Rudzinskas, SA; Mazzu, MA; Schiller, CE et al. Genes (Basel), DOI://10.3390/genes14061234 (2023)
Cellular Diversity in Human Subgenual Anterior Cingulate and Dorsolateral Prefrontal Cortex by Single-Nucleus RNA-Sequencing Kim, B; Kim, D; Schulmann, A et al. J Neurosci, DOI://10.1523/JNEUROSCI.0830-22.2023 (2023)
Structure of Complex III with Bound Antimalarial Agent CK-2-68 Provides Insights into Selective Inhibition of Plasmodium Cytochrome bc1 Complexes Esser, L; Zhou, F; Zeher, A et al. J Biol Chem, DOI://10.1016/j.jbc.2023.104860 (2023)
Large-scale rare variant burden testing in Parkinson's disease Makarious, MB; Lake, J; Pitz, V et al. Brain, DOI://10.1093/brain/awad214 (2023)
Germ cell-specific eIF4E1b regulates maternal mRNA translation to ensure zygotic genome activation Yang, G; Xin, Q; Feng, I et al. Genes Dev, DOI://10.1101/gad.350400.123 (2023)
A protocol for visualization of murine in situ neurovascular interfaces Dang, DD; Chandrashekhar, V; Chandrashekhar, V et al. STAR Protoc, DOI://10.1016/j.xpro.2023.102367 (2023)
Effect of motion, cortical orientation and spatial resolution on quantitative imaging of cortical R2* and magnetic susceptibility at 0.3 mm in-plane resolution at 7 T van Gelderen, P; Li, X; de Zwart, JA et al. Neuroimage, DOI://10.1016/j.neuroimage.2023.119992 (2023)
The NanoFlow Repository Arce, JE; Welsh, JA; Cook, S et al. Bioinformatics, DOI://10.1093/bioinformatics/btad368 (2023)
Tight basis cycle representatives for persistent homology of large biological data sets Aggarwal, M; Periwal, V; , PLoS Comput Biol, DOI://10.1371/journal.pcbi.1010341 (2023)
Signaling mechanisms in renal compensatory hypertrophy revealed by multi-omics Kikuchi, H; Chou, CL; Yang, CR et al. Nat Commun, DOI://10.1038/s41467-023-38958-9 (2023)
Master regulator activity QTL protocol to implicate regulatory pathways potentially mediating GWAS signals using eQTL data Hoskins, JW; Christensen, TA; Amundadottir, LT; , STAR Protoc, DOI://10.1016/j.xpro.2023.102362 (2023)

The beneficial effects of commensal E. coli for colon epithelial cell recovery are related with Formyl peptide receptor 2 (Fpr2) in epithelial cells Chen, K; McCulloch, J; Das Neves, R et al. Gut Pathog, DOI://10.1186/s13099-023-00557-w (2023)
An updated catalog of CTCF variants associated with neurodevelopmental disorder phenotypes Price, E; Fedida, LM; Pugacheva, EM et al. Front Mol Neurosci, DOI://10.3389/fnmol.2023.1185796 (2023)
Editorial: Demonstrating quality control (QC) procedures in fMRI Taylor, PA; Glen, DR; Reynolds, RC et al. Front Neurosci, DOI://10.3389/fnins.2023.1205928 (2023)
Three-Dimensional Reconstruction of the Hepatitis C Virus Envelope Glycoprotein E1E2 Heterodimer by Electron Microscopic Analysis Kanai, T; Hu, Z; Yang, R et al. J Virol, DOI://10.1128/jvi.01788-22 (2023)
Multiple models for outbreak decision support in the face of uncertainty Shea, K; Borchering, RK; Probert, WJM et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2207537120 (2023)
Identification of epigenetic modulators as determinants of nuclear size and shape Schibler, AC; Jevtic, P; Pegoraro, G et al. Elife, DOI://10.7554/eLife.80653 (2023)
Simulated dynamic cholesterol redistribution favors membrane fusion pore constriction Beaven, AH; Sapp, K; Sodt, AJ; , Biophys J, DOI://10.1016/j.bpj.2022.12.024 (2023)
Disrupted Dynamic Interactions Between Large-Scale Brain Networks in Cocaine Users Are Associated With Dependence Severity Zhai, T; Gu, H; Salmeron, BJ et al. Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2022.08.010 (2023)
Diverse Murine Vaccinations Reveal Distinct Antibody Classes to Target Fusion Peptide and Variation in Peptide Length to Improve HIV Neutralization Sastry, M; Changela, A; Gorman, J et al. J Virol, DOI://10.1128/jvi.01604-22 (2023)
Characterization of serotonin-5-HTR1E signaling pathways and its role in cell survival Sharma, VK; Campbell, K; Yang, X et al. FASEB J, DOI://10.1096/fj.202300128R (2023)
Constitutive and conditional deletion reveals distinct phenotypes driven by developmental versus neurotransmitter actions of the neuropeptide PACAP Bakalar, D; Gavrilova, O; Jiang, SZ et al. J Neuroendocrinol, DOI://10.1111/jne.13286 (2023)
Distributing task-related neural activity across a cortical network through task-independent connections Kim, CM; Finkelstein, A; Chow, CC et al. Nat Commun, DOI://10.1038/s41467-023-38529-y (2023)

3DVizSNP: a tool for rapidly visualizing missense mutations identified in high throughput experiments in iCn3D Sierk, M; Ratnayake, S; Wagle, MM et al. BMC Bioinformatics, DOI://10.1186/s12859-023-05370-5 (2023)
Co-crystal structures of the fluorogenic aptamer Beetroot show that close homology may not predict similar RNA architecture Passalacqua, LFM; Starich, MR; Link, KA et al. Nat Commun, DOI://10.1038/s41467-023-38683-3 (2023)
Cell surface marker-based capture of neoantigen-reactive CD8+ T-cell receptors from metastatic tumor digests Chatani, PD; Lowery, FJ; Parikh, NB et al. J Immunother Cancer, DOI://10.1136/jitc-2022-006264 (2023)
Efflux pump gene amplifications bypass necessity of multiple target mutations for resistance against dual-targeting antibiotic Silva, KPT; Sundar, G; Khare, A; , Nat Commun, DOI://10.1038/s41467-023-38507-4 (2023)
Dynamic chromatin accessibility licenses STAT5- and STAT6-dependent innate-like function of Th9 cells to promote allergic inflammation Son, A; Meylan, F; Gomez-Rodriguez, J et al. Nat Immunol, DOI://10.1038/s41590-023-01501-5 (2023)
Cumulative Genetic Score and C9orf72 Repeat Status Independently Contribute to Amyotrophic Lateral Sclerosis Risk in 2 Case-Control Studies Dou, J; Bakulski, K; Guo, K et al. Neurol Genet, DOI://10.1212/NXG.0000000000200079 (2023)
Immunology and immunotherapy of cholangiocarcinoma Greten, TF; Schwabe, R; Bardeesy, N et al. Nat Rev Gastroenterol Hepatol, DOI://10.1038/s41575-022-00741-4 (2023)
Restraint of IFN-γ expression through a distal silencer CNS-28 for tissue homeostasis Cui, K; Chen, Z; Cao, Y et al. Immunity, DOI://10.1016/j.immuni.2023.03.006 (2023)
Tetramerization of STAT5 regulates monocyte differentiation and the dextran sulfate sodium-induced colitis in mice Monaghan, KL; Zheng, W; Akhter, H et al. Front Immunol, DOI://10.3389/fimmu.2023.1117828 (2023)
Optimizing cancer immunotherapy response prediction by tumor aneuploidy score and fraction of copy number alterations Chang, TG; Cao, Y; Shulman, ED et al. NPJ Precis Oncol, DOI://10.1038/s41698-023-00408-6 (2023)
Cryo-EM structures of anti-malarial antibody L9 with circumsporozoite protein reveal trimeric L9 association and complete 27-residue epitope Tripathi, P; Bender, MF; Lei, H et al. Structure, DOI://10.1016/j.str.2023.02.009 (2023)
An Integrative Multiomics Framework for Identification of Therapeutic Targets in Pulmonary Fibrosis Arif, M; Basu, A; Wolf, KM et al. Adv Sci (Weinh), DOI://10.1002/advs.202207454 (2023)

Identification of a covert evolutionary pathway between two protein folds Chakravarty, D; Sreenivasan, S; Swint-Kruse, L; Porter, LL; , Nat Commun, DOI://10.1038/s41467-023-38519-0 (2023)
Synthesis of novel entecavir analogues having 4'-cyano-6''-fluoromethylenecyclopentene skeletons as an aglycone moiety as highly potent and long-acting anti-hepatitis B virus agent Kumamoto, H; Higashi-Kuwata, N; Hayashi, S et al. RSC Adv, DOI://10.1039/d3ra01750h (2023)
Interferon-gamma is quintessential for NOS2 and COX2 expression in ER- breast tumors that lead to poor outcome Cheng, RYS; Ridnour, LA; Wink, AL et al. Cell Death Dis, DOI://10.1038/s41419-023-05834-9 (2023)
Highlight results, don't hide them: Enhance interpretation, reduce biases and improve reproducibility Taylor, PA; Reynolds, RC; Calhoun, V et al. Neuroimage, DOI://10.1016/j.neuroimage.2023.120138 (2023)
Persistent Frustration-Induced Reconfigurations of Brain Networks Predict Individual Differences in Irritability Linke, JO; Haller, SP; Xu, EP et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2022.11.009 (2023)
A hyper-quiescent chromatin state formed during aging is reversed by regeneration Yang, N; Occean, JR; Melters, DP et al. Mol Cell, DOI://10.1016/j.molcel.2023.04.005 (2023)
Variants of LRP2, encoding a multifunctional cell-surface endocytic receptor, associated with hearing loss and retinal dystrophy Faridi, R; Yousaf, R; Gu, S et al. Clin Genet, DOI://10.1111/cge.14312 (2023)
Ca2+ efflux facilitated by co-transport of inorganic phosphate anion in the H+/Ca2+ antiporter YfkE Niu, W; Zhou, W; Lu, S et al. Commun Biol, DOI://10.1038/s42003-023-04944-6 (2023)
Physiological changes in bilayer thickness induced by cholesterol control GPCR rhodopsin function Soubias, O; Sodt, AJ; Teague, WE et al. Biophys J, DOI://10.1016/j.bpj.2022.11.2937 (2023)
TFEB and TFE3 drive kidney cystogenesis and tumorigenesis Di Malta, C; Zampelli, A; Granieri, L et al. EMBO Mol Med, DOI://10.15252/emmm.202216877 (2023)
Surface viscosities of lipid bilayers determined from equilibrium molecular dynamics simulations Fitzgerald, JE; Venable, RM; Pastor, RW; Lyman, ER; , Biophys J, DOI://10.1016/j.bpj.2023.01.038 (2023)
Initiation and evolution of pores formed by influenza fusion peptides probed by lysolipid inclusion Rice, A; Zimmerberg, J; Pastor, RW; , Biophys J, DOI://10.1016/j.bpj.2022.12.029 (2023)

Genome-wide association study of lung adenocarcinoma in East Asia and comparison with a European population Shi, J; Shiraishi, K; Choi, J et al. Nat Commun, DOI://10.1038/s41467-023-38196-z (2023)
Aneuploidy effects on human gene expression across three cell types Liu, S; Akula, N; Reardon, PK et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2218478120 (2023)
exRNA-eCLIP intersection analysis reveals a map of extracellular RNA binding proteins and associated RNAs across major human biofluids and carriers LaPlante, EL; Stürchler, A; Fullem, R et al. Cell Genom, DOI://10.1016/j.xgen.2023.100303 (2023)
A novel, bioinformatically informed highly sensitive NAAT assay for the diagnosis of loiasis and its use for detection of circulating cell free DNA Bennuru, S; Kodua, F; Drame, PM et al. J Infect Dis, DOI://10.1093/infdis/jiad186 (2023)
Periaqueductal gray matter and medial prefrontal cortex reflect negative prediction errors during differential conditioning Gorka, AX; Philips, RT; Torrisi, S et al. Soc Cogn Affect Neurosci, DOI://10.1093/scan/nsad025 (2023)
Inflammatory and interferon gene expression signatures in patients with mitochondrial disease Warren, EB; Gordon-Lipkin, EM; Cheung, F et al. J Transl Med, DOI://10.1186/s12967-023-04180-w (2023)

Influenza A viruses in gulls in landfills and freshwater habitats in Minnesota, United States Rasmussen, EA; Czaja, A; Cuthbert, FJ et al. Front Genet, DOI://10.3389/fgene.2023.1172048 (2023)
Differences in Merkel Cell Carcinoma Presentation and Outcomes Among Racial and Ethnic Groups Mohsin, N; Martin, MR; Reed, DJ et al. JAMA Dermatol, DOI://10.1001/jamadermatol.2023.0061 (2023)
Phenotypic plasticity and reduced tissue retention of exhausted tumor-infiltrating T cells following neoadjuvant immunotherapy in head and neck cancer Sievers, C; Craveiro, M; Friedman, J et al. Cancer Cell, DOI://10.1016/j.ccell.2023.03.014 (2023)
Cannabidiol sensitizes TRPV2 channels to activation by 2-APB Gochman, A; Tan, XF; Bae, C et al. Elife, DOI://10.7554/eLife.86166 (2023)
Constitutive and conditional PACAP deletion reveals distinct phenotypes driven by developmental versus neurotransmitter actions of PACAP Dana Bakalar, Oksana Gavrilova, Sunny Z. Jiang, Hai-ying Zhang, Snehashis Roy, Sarah K. Williams, Naili Liu, Stephen Wisser, Ted B. Usdin, Lee E. Eiden Journal of Neuroendocrinology, 10.1111/jne.13286 (2023)
AI-based CT Body Composition Identifies Myosteatosis as Key Mortality Predictor in Asymptomatic Adults Maxime Nachit , Yves Horsmans, Ronald M. Summers, Isabelle A. Leclercq, Perry J. Pickhardt Radiology, doi://10.1148/radiol.222008 (2023)
Protocol for using single-cell sequencing to study the heterogeneity of NF1 nerve sheath tumors from clinical biospecimens Zhang, X; Gopalan, V; Syed, N et al. STAR Protoc, DOI://10.1016/j.xpro.2023.102297 (2023)
Tracking the emergence of antigenic variants in influenza A virus epidemics in Brazil Pillai, TK; Johnson, KE; Song, T et al. Virus Evol, DOI://10.1093/ve/vead027 (2023)
Genome-Wide Analysis of Structural Variants in Parkinson Disease Billingsley, KJ; Ding, J; Jerez, PA et al. Ann Neurol, DOI://10.1002/ana.26608 (2023)
Country-level gender inequality is associated with structural differences in the brains of women and men Zugman, A; Alliende, LM; Medel, V et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2218782120 (2023)
Working memory and reward increase the accuracy of animal location encoding in the medial prefrontal cortex Ma, X; Zheng, C; Chen, Y et al. Cereb Cortex, DOI://10.1093/cercor/bhac205 (2023)
Genome and Genetic Engineering of the House Cricket (Acheta domesticus): A Resource for Sustainable Agriculture Dossey, AT; Oppert, B; Chu, FC et al. Biomolecules, DOI://10.3390/biom13040589 (2023)
Label-free cleared tissue microscopy and machine learning for 3D histopathology of biomaterial implants Ngo, TB; DeStefano, S; Liu, J et al. J Biomed Mater Res A, DOI://10.1002/jbm.a.37515 (2023)
Oncogenic CDK13 Mutations Impede Nuclear RNA Surveillance Insco, ML; Abraham, BJ; Dubbury, SJ et al. Science, DOI://10.1126/science.abn7625 (2023)
Genetic risk factor clustering within and across neurodegenerative diseases Koretsky, MJ; Alvarado, C; Makarious, MB et al. Brain, DOI://10.1093/brain/awad161 (2023)
Generalized Fringe-to-Phase Framework for Single-Shot 3D Reconstruction Integrating Structured Light with Deep Learning Nguyen, AH; Ly, KL; Lam, VK; Wang, Z; , Sensors (Basel), DOI://10.3390/s23094209 (2023)
Ancestral and environmental patterns in the association between triglycerides and other cardiometabolic risk factors Meeks, KAC; Bentley, AR; Agyemang, C et al. EBioMedicine, DOI://10.1016/j.ebiom.2023.104548 (2023)
Anti-Cancer Activity of Verteporfin in Cholangiocarcinoma Golino, JL; Wang, X; Bian, J et al. Cancers (Basel), DOI://10.3390/cancers15092454 (2023)
Epigenetic Regulation in Primary CNS Tumors: An Opportunity to Bridge Old and New WHO Classifications Dang, DD; Rosenblum, JS; Shah, AH et al. Cancers (Basel), DOI://10.3390/cancers15092511 (2023)
Comparative Analysis of the Humoral Immune Response to the EBV Proteome across EBV-Related Malignancies Argirion, I; Pfeiffer, RM; Proietti, C et al. Cancer Epidemiol Biomarkers Prev, DOI://10.1158/1055-9965.EPI-22-0452 (2023)
Blood-feeding adaptations and virome assessment of the poultry red mite Dermanyssus gallinae guided by RNA-seq Ribeiro, JM; Hartmann, D; Bartošová-Sojková, P et al. Commun Biol, DOI://10.1038/s42003-023-04907-x (2023)
Evolink: a phylogenetic approach for rapid identification of genotype-phenotype associations in large-scale microbial multispecies data Yang, Y; Jiang, X; , Bioinformatics, DOI://10.1093/bioinformatics/btad215 (2023)
NF-κB Signaling Modulates miR-452-5p and miR-335-5p Expression to Functionally Decrease Epithelial Ovarian Cancer Progression in Tumor-Initiating Cells Kamdar, RD; Harrington, BS; Attar, E et al. Int J Mol Sci, DOI://10.3390/ijms24097826 (2023)
Virtual screening of ultra-large chemical libraries identifies cell-permeable small-molecule inhibitors of a "non-druggable" target, STAT3 N-terminal domain Bonilla, PA; Hoop, CL; Stefanisko, K et al. Front Oncol, DOI://10.3389/fonc.2023.1144153 (2023)
Genomic analysis, immunomodulation and deep phenotyping of patients with nodding syndrome Soldatos, A; Nutman, TB; Johnson, T et al. Brain, DOI://10.1093/brain/awac357 (2023)
Recombination between heterologous human acrocentric chromosomes Guarracino, A; Buonaiuto, S; de Lima, LG et al. Nature, DOI://10.1038/s41586-023-05976-y (2023)
The landscape of health disparities in the UK Biobank Nagar, SD; Jordan, IK; Mariño-Ramírez, L; , Database (Oxford), DOI://10.1093/database/baad026 (2023)
First-time identification of a KIF5B-NTRK2 fusion in extraventricular neurocytoma Gubbiotti, MA; Santi, M; Storm, PB et al. J Neuropathol Exp Neurol, DOI://10.1093/jnen/nlad002 (2023)
Comparative Analysis of Transcriptome Profiles Reveals Distinct and Organ-Dependent Genomic and Nongenomic Actions of Thyroid Hormone in Xenopus tropicalis Tadpoles Wang, S; Shibata, Y; Tanizaki, Y et al. Thyroid, DOI://10.1089/thy.2022.0469 (2023)
Lipid flipping in the omega-3 fatty-acid transporter Nguyen, C; Lei, HT; Lai, LTF et al. Nat Commun, DOI://10.1038/s41467-023-37702-7 (2023)

Drude Polarizable Lipid Force Field with Explicit Treatment of Long-Range Dispersion: Parametrization and Validation for Saturated and Monounsaturated Zwitterionic Lipids Yu, Y; Venable, RM; Thirman, J et al. J Chem Theory Comput, DOI://10.1021/acs.jctc.3c00203 (2023)
Impact of overweight and obesity on US renal cell carcinoma incidence trends (1995-2018) Luo, Q; Hofmann, JN; Pfeiffer, RM et al. Int J Cancer, DOI://10.1002/ijc.34516 (2023)
Rye: genetic ancestry inference at biobank scale Conley, AB; Rishishwar, L; Ahmad, M et al. Nucleic Acids Res, DOI://10.1093/nar/gkad149 (2023)
Spurious intragenic transcription is a feature of mammalian cellular senescence and tissue aging Sen, P; Donahue, G; Li, C et al. Nat Aging, DOI://10.1038/s43587-023-00384-3 (2023)
Liver development during Xenopus tropicalis metamorphosis is controlled by T3-activation of WNT signaling Tanizaki, Y; Wang, S; Zhang, H et al. iScience, DOI://10.1016/j.isci.2023.106301 (2023)
Differential diagnosis of bone marrow failure syndromes guided by machine learning Gutierrez-Rodrigues, F; Munger, E; Ma, X et al. Blood, DOI://10.1182/blood.2022017518 (2023)

Ultra-rare complement factor 8 coding variants in families with age-related macular degeneration Zelinger, L; Martin, TM; Advani, J et al. iScience, DOI://10.1016/j.isci.2023.106417 (2023)
Parabolic avalanche scaling in the synchronization of cortical cell assemblies Capek, E; Ribeiro, TL; Kells, P et al. Nat Commun, DOI://10.1038/s41467-023-37976-x (2023)
Detection of extensive host-virus DNA hybrids in human polyomavirus 7-associated pruritic rash Starrett, GJ; Lee, JW; Chatterjee, S; Jedrych, JJ; , Br J Dermatol, DOI://10.1093/bjd/ljad002 (2023)
Improving Small Lesion Segmentation in CT Scans using Intensity Distribution Supervision: Application to Small Bowel Carcinoid Tumor Shin, SY; Shen, TC; Wank, SA; Summers, RM; , Proc SPIE Int Soc Opt Eng, DOI://10.1117/12.2651979 (2023)
Contribution of LRP1 in Human Congenital Heart Disease Correlates with Its Roles in the Outflow Tract and Atrioventricular Cushion Development Arrigo, AB; Zhu, W; Williams, KA et al. Genes (Basel), DOI://10.3390/genes14040947 (2023)
Staphylococcal diversity in atopic dermatitis from an individual to a global scale Saheb Kashaf, S; Harkins, CP; Deming, C et al. Cell Host Microbe, DOI://10.1016/j.chom.2023.03.010 (2023)
Mutual Associations of Healthy Behaviours and Socioeconomic Status with Respiratory Diseases Mortality: A Large Prospective Cohort Study Du, M; Zhu, L; Liu, M; Liu, J; , Nutrients, DOI://10.3390/nu15081872 (2023)
Evaluation of alcohol-free mouthwash for studies of the oral microbiome Yano, Y; Vogtmann, E; Shreves, AH et al. PLoS One, DOI://10.1371/journal.pone.0284956 (2023)
Brain motion networks predict head motion during rest- and task-fMRI Tomasi, D; Volkow, ND; , Front Neurosci, DOI://10.3389/fnins.2023.1096232 (2023)
Histopathologic and proteogenomic heterogeneity reveals features of clear cell renal cell carcinoma aggressiveness Li, Y; Lih, TM; Dhanasekaran, SM et al. Cancer Cell, DOI://10.1016/j.ccell.2022.12.001 (2023)
XY sex determination in a cnidarian Chen, R; Sanders, SM; Ma, Z et al. BMC Biol, DOI://10.1186/s12915-023-01532-2 (2023)
Oligodendrocyte-mediated myelin plasticity and its role in neural synchronization Pajevic, S; Plenz, D; Basser, PJ; Fields, RD; , Elife, DOI://10.7554/eLife.81982 (2023)
ABCB1 and ABCG2 Overexpression Mediates Resistance to the Phosphatidylinositol 3-Kinase Inhibitor HS-173 in Cancer Cell Lines Wu, CP; Hung, CY; Hsieh, YJ et al. Cells, DOI://10.3390/cells12071056 (2023)
Extrachromosomal DNA Amplification Contributes to Small Cell Lung Cancer Heterogeneity and Is Associated with Worse Outcomes Pongor, LS; Schultz, CW; Rinaldi, L et al. Cancer Discov, DOI://10.1158/2159-8290.CD-22-0796 (2023)
High-throughput and targeted drug screens identify pharmacological candidates against MiT-translocation renal cell carcinoma Lang, M; Schmidt, LS; Wilson, KM et al. J Exp Clin Cancer Res, DOI://10.1186/s13046-023-02667-4 (2023)
DIS3L2 ribonuclease degrades terminal-uridylated RNA to ensure oocyte maturation and female fertility Wu, D; Pedroza, M; Chang, J; Dean, J; , Nucleic Acids Res, DOI://10.1093/nar/gkad061 (2023)
Whole organism profiling of the Timp gene family Peeney, D; Fan, Y; Gurung, S et al. Matrix Biol Plus, DOI://10.1016/j.mbplus.2023.100132 (2023)
Adaptive immune responses to SARS-CoV-2 persist in the pharyngeal lymphoid tissue of children Xu, Q; Milanez-Almeida, P; Martins, AJ et al. Nat Immunol, DOI://10.1038/s41590-022-01367-z (2023)

Cryo-EM tomography and automatic segmentation delineate modular structures in the postsynaptic density Jung, JH; Chen, X; Reese, TS; , Front Synaptic Neurosci, DOI://10.3389/fnsyn.2023.1123564 (2023)
Glioneuronal tumor with ATRX alteration, kinase fusion and anaplastic features (GTAKA): a molecularly distinct brain tumor type with recurrent NTRK gene fusions Bogumil, H; Sill, M; Schrimpf, D et al. Acta Neuropathol, DOI://10.1007/s00401-023-02558-0 (2023)
An influenza H1 hemagglutinin stem-only immunogen elicits a broadly cross-reactive B cell response in humans Andrews, SF; Cominsky, LY; Shimberg, GD et al. Sci Transl Med, DOI://10.1126/scitranslmed.ade4976 (2023)
Bi-allelic SNAPC4 variants dysregulate global alternative splicing and lead to neuroregression and progressive spastic paraparesis Frost, FG; Morimoto, M; Sharma, P et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2023.03.001 (2023)
The art and science of using quality control to understand and improve fMRI data Teves, JB; Gonzalez-Castillo, J; Holness, M et al. Front Neurosci, DOI://10.3389/fnins.2023.1100544 (2023)
Ophthalmic Manifestations of ROSAH (Retinal Dystrophy, Optic Nerve Edema, Splenomegaly, Anhidrosis, and Headache) Syndrome, an Inherited NF κB-Mediated Autoinflammatory Disease with Retinal Dystrophy Huryn, LA; Kozycki, CT; Serpen, JY et al. Ophthalmology, DOI://10.1016/j.ophtha.2022.10.026 (2023)

Reserpine maintains photoreceptor survival in retinal ciliopathy by resolving proteostasis imbalance and ciliogenesis defects Chen, HY; Swaroop, M; Papal, S et al. Elife, DOI://10.7554/eLife.83205 (2023)
A novel variant affecting the cytoplasmic tail of the FAT1 protocadherin causing coloboma and renal failure: A case report Vieta-Ferrer, ER; Ullah, E; Blain, D et al. Ophthalmic Genet, DOI://10.1080/13816810.2022.2089360 (2023)
Circadian gene expression in mouse renal proximal tubule Bingham, MA; Neijman, K; Yang, CR et al. Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00231.2022 (2023)
The IgG4 hinge with CD28 transmembrane domain improves VHH-based CAR T cells targeting a membrane-distal epitope of GPC1 in pancreatic cancer Li, N; Quan, A; Li, D et al. Nat Commun, DOI://10.1038/s41467-023-37616-4 (2023)
Cellular differentiation into hyphae and spores in halophilic archaea Tang, SK; Zhi, XY; Zhang, Y et al. Nat Commun, DOI://10.1038/s41467-023-37389-w (2023)
Metagenomic characterization of the maternal prenatal gastrointestinal microbiome by pregravid BMI Dreisbach, C; Alhusen, J; Prescott, S et al. Obesity (Silver Spring), DOI://10.1002/oby.23659 (2023)

Constitutively active Lyn kinase causes a cutaneous small vessel vasculitis and liver fibrosis syndrome de Jesus, AA; Chen, G; Yang, D et al. Nat Commun, DOI://10.1038/s41467-023-36941-y (2023)
Genetic sequencing of a 1944 Rocky Mountain spotted fever vaccine Xiao, Y; Beare, PA; Best, SM et al. Sci Rep, DOI://10.1038/s41598-023-31894-0 (2023)
Specific recognition of an FGFR2 fusion by tumor infiltrating lymphocytes from a patient with metastatic cholangiocarcinoma White, BS; Sindiri, S; Hill, V et al. J Immunother Cancer, DOI://10.1136/jitc-2022-006303 (2023)
SEQUIN is an R/Shiny framework for rapid and reproducible analysis of RNA-seq data Weber, C; Hirst, MB; Ernest, B et al. Cell Rep Methods, DOI://10.1016/j.crmeth.2023.100420 (2023)
A novel framework for in-vivo diffusion tensor distribution MRI of the human brain Magdoom, KN; Avram, AV; Sarlls, JE et al. Neuroimage, DOI://10.1016/j.neuroimage.2023.120003 (2023)
MYH2-associated myopathy caused by a novel splice-site variant Cassini, TA; Malicdan, MCV; Macnamara, EF et al. Neuromuscul Disord, DOI://10.1016/j.nmd.2022.12.014 (2023)

mTOR inhibition overcomes RSK3-mediated resistance to BET inhibitors in small cell lung cancer Kumari, A; Gesumaria, L; Liu, YJ et al. JCI Insight, DOI://10.1172/jci.insight.156657 (2023)
A conserved oligomerization domain in the disordered linker of coronavirus nucleocapsid proteins Zhao, H; Wu, D; Hassan, SA et al. Sci Adv, DOI://10.1126/sciadv.adg6473 (2023)
Association of polygenic risk score with response to deep brain stimulation in Parkinson's disease Yoon, E; Ahmed, S; Li, R et al. BMC Neurol, DOI://10.1186/s12883-023-03188-5 (2023)
Exaptation of Inactivated Host Enzymes for Structural Roles in Orthopoxviruses and Novel Folds of Virus Proteins Revealed by Protein Structure Modeling Mutz, P; Resch, W; Faure, G et al. mBio, DOI://10.1128/mbio.00408-23 (2023)
Fully-automated detection of small bowel carcinoid tumors in CT scans using deep learning Shin, SY; Shen, TC; Wank, SA; Summers, RM; , Med Phys, DOI://10.1002/mp.16391 (2023)
A Simple Method for Robust and Accurate Intrinsic Subtyping of Breast Cancer Hamaneh, M; Yu, YK; , Cancer Inform, DOI://10.1177/11769351231159893 (2023)

Commercial influenza vaccines vary in HA-complex structure and in induction of cross-reactive HA antibodies Myers, ML; Gallagher, JR; Kim, AJ et al. Nat Commun, DOI://10.1038/s41467-023-37162-z (2023)
Genome-wide contribution of common short-tandem repeats to Parkinson's disease genetic risk Bustos, BI; Billingsley, K; Blauwendraat, C et al. Brain, DOI://10.1093/brain/awac301 (2023)
Bcs1, a novel target for fungicide Zhan, J; Xia, D; , Front Chem, DOI://10.3389/fchem.2023.1146753 (2023)
Encoding of 3D physical dimensions by face-selective cortical neurons Khandhadia, AP; Murphy, AP; Koyano, KW et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2214996120 (2023)
A cellular taxonomy of the adult human spinal cord Yadav, A; Matson, KJE; Li, L et al. Neuron, DOI://10.1016/j.neuron.2023.01.007 (2023)
Pediatric-type high-grade neuroepithelial tumors with CIC gene fusion share a common DNA methylation signature Sievers, P; Sill, M; Schrimpf, D et al. NPJ Precis Oncol, DOI://10.1038/s41698-023-00372-1 (2023)
Stochastic Modeling of Gene Expression Evolution Uncovers Tissue- and Sex-Specific Properties of Expression Evolution in the Drosophila Genus Pal, S; Oliver, B; Przytycka, TM; , J Comput Biol, DOI://10.1089/cmb.2022.0121 (2023)
Neurotrophin signaling is a central mechanism of salivary dysfunction after irradiation that disrupts myoepithelial cells Chibly, AM; Patel, VN; Aure, MH et al. NPJ Regen Med, DOI://10.1038/s41536-023-00290-7 (2023)
Structures of Cancer Antigen Mesothelin and Its Complexes with Therapeutic Antibodies Zhan, J; Lin, D; Watson, N et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-22-0306 (2023)
THINGS-data, a multimodal collection of large-scale datasets for investigating object representations in human brain and behavior Hebart, MN; Contier, O; Teichmann, L et al. Elife, DOI://10.7554/eLife.82580 (2023)
The utility of a type 2 diabetes polygenic score in addition to clinical variables for prediction of type 2 diabetes incidence in birth, youth and adult cohorts in an Indigenous study population Wedekind, LE; Mahajan, A; Hsueh, WC et al. Diabetologia, DOI://10.1007/s00125-023-05870-2 (2023)
Identification of GPI-anchored protein LYPD1 as an essential factor for odontoblast differentiation in tooth development Fu, Y; Miyazaki, K; Chiba, Y et al. J Biol Chem, DOI://10.1016/j.jbc.2023.104638 (2023)

A dataset for medical instructional video classification and question answering Gupta, D; Attal, K; Demner-Fushman, D; , Sci Data, DOI://10.1038/s41597-023-02036-y (2023)
The Foundational Data Initiative for Parkinson Disease: Enabling efficient translation from genetic maps to mechanism Bressan, E; Reed, X; Bansal, V et al. Cell Genom, DOI://10.1016/j.xgen.2023.100261 (2023)
Progressive neuronal plasticity in primate visual cortex during stimulus familiarization Koyano, KW; Esch, EM; Hong, JJ et al. Sci Adv, DOI://10.1126/sciadv.ade4648 (2023)
Genetic subgroups inform on pathobiology in adult and pediatric Burkitt lymphoma Thomas, N; Dreval, K; Gerhard, DS et al. Blood, DOI://10.1182/blood.2022016534 (2023)
A deeper insight into the sialome of male and female Culex quinquefasciatus mosquitoes Lu, S; Martin-Martin, I; Ribeiro, JM; Calvo, E; , BMC Genomics, DOI://10.1186/s12864-023-09236-1 (2023)
Clinically oriented prediction of patient response to targeted and immunotherapies from the tumor transcriptome Dinstag, G; Shulman, ED; Elis, E et al. Med, DOI://10.1016/j.medj.2022.11.001 (2023)
A bispecific inhibitor of complement and coagulation blocks activation in complementopathy models via a novel mechanism Andersen, JF; Lei, H; Strayer, EC et al. Blood, DOI://10.1182/blood.2022019359 (2023)
Wastewater surveillance uncovers regional diversity and dynamics of SARS-CoV-2 variants across nine states in the USA Fontenele, RS; Yang, Y; Driver, EM et al. Sci Total Environ, DOI://10.1016/j.scitotenv.2023.162862 (2023)
Antipsychotic drug use complicates assessment of gene expression changes associated with schizophrenia Schulmann, A; Marenco, S; Vawter, MP et al. Transl Psychiatry, DOI://10.1038/s41398-023-02392-8 (2023)
Additive Effects of Stress and Alcohol Exposure on Accelerated Epigenetic Aging in Alcohol Use Disorder Jung, J; McCartney, DL; Wagner, J et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2022.06.036 (2023)
Human VH-based chimeric antigen receptor T cells targeting glypican 3 eliminate tumors in preclinical models of HCC Kolluri, A; Li, D; Li, N et al. Hepatol Commun, DOI://10.1097/HC9.0000000000000022 (2023)
IntLIM 2.0: identifying multi-omic relationships dependent on discrete or continuous phenotypic measurements Eicher, T; Spencer, KD; Siddiqui, JK et al. Bioinform Adv, DOI://10.1093/bioadv/vbad009 (2023)
Two distinct long-range synaptic complexes promote different aspects of end processing prior to repair of DNA breaks by non-homologous end joining Buehl, CJ; Goff, NJ; Hardwick, SW et al. Mol Cell, DOI://10.1016/j.molcel.2023.01.012 (2023)
Activation mechanisms of clinically distinct B-Raf V600E and V600K mutants Zhang, M; Maloney, R; Liu, Y et al. Cancer Commun (Lond), DOI://10.1002/cac2.12395 (2023)
Strategy toward Kinase-Selective Drug Discovery Zhang, M; Liu, Y; Jang, H; Nussinov, R; , J Chem Theory Comput, DOI://10.1021/acs.jctc.2c01171 (2023)
A Cross-Species Neuroimaging Study of Sex Chromosome Dosage Effects on Human and Mouse Brain Anatomy Guma, E; Beauchamp, A; Liu, S et al. J Neurosci, DOI://10.1523/JNEUROSCI.1761-22.2022 (2023)
Structures of brain-derived 42-residue amyloid-β fibril polymorphs with unusual molecular conformations and intermolecular interactions Lee, M; Yau, WM; Louis, JM; Tycko, R; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2218831120 (2023)
miRNA Expression Profiles of Mouse Round Spermatids in GRTH/DDX25-Mediated Spermiogenesis: mRNA-miRNA Network Analysis Anbazhagan, R; Kavarthapu, R; Dale, R et al. Cells, DOI://10.3390/cells12050756 (2023)

Enhancer-promoter interactions can bypass CTCF-mediated boundaries and contribute to phenotypic robustness Chakraborty, S; Kopitchinski, N; Zuo, Z et al. Nat Genet, DOI://10.1038/s41588-022-01295-6 (2023)
Machine Learning Informs RNA-Binding Chemical Space Yazdani, K; Jordan, D; Yang, M et al. Angew Chem Int Ed Engl, DOI://10.1002/anie.202211358 (2023)
Visualizing RNA conformational and architectural heterogeneity in solution Ding, J; Lee, YT; Bhandari, Y et al. Nat Commun, DOI://10.1038/s41467-023-36184-x (2023)
HIV vaccine candidate efficacy in female macaques mediated by cAMP-dependent efferocytosis and V2-specific ADCC Bissa, M; Kim, S; Galli, V et al. Nat Commun, DOI://10.1038/s41467-023-36109-8 (2023)
Stylized versus voxel phantoms: quantification of internal organ chord length distances Coleman, D; Griffin, KT; Dewji, SA; , Phys Med Biol, DOI://10.1088/1361-6560/acbbb6 (2023)
Molecular classification and grading of meningioma Nasrallah, MP; Aldape, KD; , J Neurooncol, DOI://10.1007/s11060-022-04228-9 (2023)

Biglycan regulates bone development and regeneration Shainer, R; Kram, V; Kilts, TM et al. Front Physiol, DOI://10.3389/fphys.2023.1119368 (2023)
The dogs of Chernobyl: Demographic insights into populations inhabiting the nuclear exclusion zone Spatola, GJ; Buckley, RM; Dillon, M et al. Sci Adv, DOI://10.1126/sciadv.ade2537 (2023)
Transcription factor TFII-I fine tunes innate properties of B lymphocytes Singh, A; Kaileh, M; De, S et al. Front Immunol, DOI://10.3389/fimmu.2023.1067459 (2023)
Altered gene expression in excitatory neurons is associated with Alzheimer's disease and its higher incidence in women Garcia, AX; Xu, J; Cheng, F et al. Alzheimers Dement (N Y), DOI://10.1002/trc2.12373 (2023)
State-specific morphological deformations of the lipid bilayer explain mechanosensitive gating of MscS ion channels Park, YC; Reddy, B; Bavi, N et al. Elife, DOI://10.7554/eLife.81445 (2023)
Synthetic analysis of chromatin tracing and live-cell imaging indicates pervasive spatial coupling between genes Bohrer, CH; Larson, DR; , Elife, DOI://10.7554/eLife.81861 (2023)

Murine allogeneic CAR T cells integrated before or early after posttransplant cyclophosphamide exert antitumor effects Patterson, MT; Khan, SM; Nunes, NS et al. Blood, DOI://10.1182/blood.2022016660 (2023)
Cohesin regulates alternative splicing Singh, AK; Chen, Q; Nguyen, C et al. Sci Adv, DOI://10.1126/sciadv.ade3876 (2023)
Differential requirements for Gcn5 and NuA4 HAT activities in the starvation-induced versus basal transcriptomes Zheng, Q; Qiu, H; Zhang, H; Hinnebusch, AG; , Nucleic Acids Res, DOI://10.1093/nar/gkad099 (2023)
HAND2 Assists MYCN Enhancer Invasion to Regulate a Noradrenergic Neuroblastoma Phenotype Xu, M; Sun, M; Zhang, X et al. Cancer Res, DOI://10.1158/0008-5472.CAN-22-2042 (2023)
Genomic and transcriptomic analyses identify a prognostic gene signature and predict response to therapy in pleural and peritoneal mesothelioma Nair, NU; Jiang, Q; Wei, JS et al. Cell Rep Med, DOI://10.1016/j.xcrm.2023.100938 (2023)
Specific targeting of inflammatory osteoclastogenesis by the probiotic yeast S. boulardii CNCM I-745 reduces bone loss in osteoporosis Madel, MB; Halper, J; Ibáñez, L et al. Elife, DOI://10.7554/eLife.82037 (2023)

Binding preference at the μ-opioid receptor underlies distinct pharmacology of cyclopropyl versus valeryl analogs of fentanyl Xie, B; Le Rouzic, VP; Goldberg, A et al. Neuropharmacology, DOI://10.1016/j.neuropharm.2023.109442 (2023)
Tumor necroptosis-mediated shedding of cell surface proteins promotes metastasis of breast cancer by suppressing anti-tumor immunity Liu, Z; Choksi, S; Kwon, HJ et al. Breast Cancer Res, DOI://10.1186/s13058-023-01604-9 (2023)
Identification of SARS-CoV-2 Mpro inhibitors containing P1’ 4-fluorobenzothiazole moiety highly active against SARS-CoV-2 Higashi-Kuwata, N; Tsuji, K; Hayashi, H et al. Nat Commun, DOI://10.1038/s41467-023-36729-0 (2023)
Protocol for comparing gene-level selection on coding mutations between two groups of samples with Coselens Iranzo, J; Gruenhagen, G; Calle-Espinosa, J; Koonin, EV; , STAR Protoc, DOI://10.1016/j.xpro.2023.102117 (2023)
Rickettsia parkeri hijacks tick hemocytes to manipulate cellular and humoral transcriptional responses Adegoke, A; Ribeiro, JMC; Brown, S et al. Front Immunol, DOI://10.3389/fimmu.2023.1094326 (2023)
A highly replicable decline in mood during rest and simple tasks Jangraw, DC; Keren, H; Sun, H et al. Nat Hum Behav, DOI://10.1038/s41562-023-01519-7 (2023)

Mining metatranscriptomes reveals a vast world of viroid-like circular RNAs Lee, BD; Neri, U; Roux, S et al. Cell, DOI://10.1016/j.cell.2022.12.039 (2023)
Molecular basis for antiviral activity of two pediatric neutralizing antibodies targeting SARS-CoV-2 Spike RBD Chen, Y; Prévost, J; Ullah, I et al. iScience, DOI://10.1016/j.isci.2022.105783 (2023)
Discovery of clinical and demographic determinants of symptom burden in primary brain tumor patients using network analysis and unsupervised clustering Bergsneider, BH; Vera, E; Gal, O et al. Neurooncol Adv, DOI://10.1093/noajnl/vdac188 (2023)
E6AP AZUL interaction with UBQLN1/2 in cells, condensates, and an AlphaFold-NMR integrated structure Buel, GR; Chen, X; Myint, W et al. Structure, DOI://10.1016/j.str.2023.01.012 (2023)
The NLM indexer assignment dataset: a new large-scale dataset for reviewer assignment research Rae, AR; Mork, JG; Demner-Fushman, D; , J Assoc Inf Sci Technol, DOI://10.1002/asi.24722 (2023)
Fear-potentiated startle reveals diminished threat extinction in pathological anxiety Newsome, P; Ruiz, SG; Gold, AL et al. Int J Psychophysiol, DOI://10.1016/j.ijpsycho.2022.11.011 (2023)

Measures of Brain Connectivity and Cognition by Sex in US Children Tomasi, D; Volkow, ND; , JAMA Netw Open, DOI://10.1001/jamanetworkopen.2023.0157 (2023)
Longitudinal multi-omics analyses of the gut-liver axis reveals metabolic dysregulation in hepatitis C infection and cirrhosis Ali, RO; Quinn, GM; Umarova, R et al. Nat Microbiol, DOI://10.1038/s41564-022-01273-y (2023)
Identification and characterization of the long non-coding RNA NFIA-AS2 as a novel locus for body mass index in American Indians Bandesh, K; Traurig, M; Chen, P et al. Int J Obes (Lond), DOI://10.1038/s41366-023-01278-5 (2023)
Bispecific antibody CAP256.J3LS targets V2-apex and CD4-binding sites with high breadth and potency Zhang, B; Gorman, J; Kwon, YD et al. MAbs, DOI://10.1080/19420862.2023.2165390 (2023)
A de novo hexokinase 1 (HK1) variant presenting as Boucher-Neuhäuser syndrome Peretz, RH; Zein, WM; Hufnagel, RB et al. Am J Med Genet A, DOI://10.1002/ajmg.a.63045 (2023)
Autophagy Requirements for Eye Lens Differentiation and Transparency Brennan, L; Costello, MJ; Hejtmancik, JF et al. Cells, DOI://10.3390/cells12030475 (2023)

De novo human brain enhancers created by single-nucleotide mutations Li, S; Hannenhalli, S; Ovcharenko, I; , Sci Adv, DOI://10.1126/sciadv.add2911 (2023)
Role of ultra-high b-value DWI in the imaging of hereditary leiomyomatosis and renal cell carcinoma (HLRCC) Chaurasia, A; Gopal, N; Dehghani Firouzabadi, F et al. Abdom Radiol (NY), DOI://10.1007/s00261-022-03689-w (2023)
A dual-activity topoisomerase complex promotes both transcriptional activation and repression in response to starvation Su, S; Xue, Y; Lee, SK et al. Nucleic Acids Res, DOI://10.1093/nar/gkad086 (2023)
Telomere-to-telomere assembly of diploid chromosomes with Verkko Rautiainen, M; Nurk, S; Walenz, BP et al. Nat Biotechnol, DOI://10.1038/s41587-023-01662-6 (2023)
A 64-year-old woman with frontal lobe lesion and drug-resistant epilepsy Jin, X; Abdullaev, Z; Butman, JA et al. Brain Pathol, DOI://10.1111/bpa.13133 (2023)
Intrinsically dysregulated cellular stress signaling genes and gene networks in postpartum depression Rudzinskas, SA; Goff, AC; Mazzu, MA et al. Mol Psychiatry, DOI://10.1038/s41380-023-01985-5 (2023)

Bi-allelic ATG4D variants are associated with a neurodevelopmental disorder characterized by speech and motor impairment Morimoto, M; Bhambhani, V; Gazzaz, N et al. NPJ Genom Med, DOI://10.1038/s41525-022-00343-8 (2023)
MORF and MOZ acetyltransferases target unmethylated CpG islands through the winged helix domain Becht, DC; Klein, BJ; Kanai, A et al. Nat Commun, DOI://10.1038/s41467-023-36368-5 (2023)
Pleural fluid microbiota as a biomarker for malignancy and prognosis Kwok, B; Wu, BG; Kocak, IF et al. Sci Rep, DOI://10.1038/s41598-023-29001-4 (2023)
CD47-Dependent Regulation of Immune Checkpoint Gene Expression and MYCN mRNA Splicing in Murine CD8 and Jurkat T Cells Kaur, S; Awad, D; Finney, RP et al. Int J Mol Sci, DOI://10.3390/ijms24032612 (2023)
Deep Domain Adversarial Learning for Species-Agnostic Classification of Histologic Subtypes of Osteosarcoma Patkar, S; Beck, J; Harmon, S et al. Am J Pathol, DOI://10.1016/j.ajpath.2022.09.009 (2023)
Analysis of immune responses in CLL patients after heterologous COVID-19 vaccination Lee, HK; Hoechstetter, MA; Buchner, M et al. Blood Adv, DOI://10.1182/bloodadvances.2022008445 (2023)
Organ-specific effects on target binding due to knockout of thyroid hormone receptor α during Xenopus metamorphosis Tanizaki, Y; Zhang, H; Shibata, Y; Shi, YB; , Dev Growth Differ, DOI://10.1111/dgd.12825 (2023)
Racial/Ethnic Differences in Associations Between Traumatic Childhood Experiences and Both Metabolic Syndrome Prevalence and Type 2 Diabetes Risk Among a Cohort of U.S. Women Gaston, SA; Riley, NM; Parks, CG et al. Diabetes Care, DOI://10.2337/dc22-1486 (2023)
Transcription factors underlying photoreceptor diversity Angueyra, JM; Kunze, VP; Patak, LK et al. Elife, DOI://10.7554/eLife.81579 (2023)
Heterogeneous clinicopathological findings and patient-reported outcomes in adults with MN1-altered CNS tumors: A case report and systematic literature review Frederico, SC; Vera, E; Abdullaev, Z et al. Front Oncol, DOI://10.3389/fonc.2023.1099618 (2023)
Oral microbiome and risk of incident head and neck cancer: A nested case-control study Wu, Z; Han, Y; Wan, Y et al. Oral Oncol, DOI://10.1016/j.oraloncology.2022.106305 (2023)
Direct Cryo-ET observation of platelet deformation induced by SARS-CoV-2 spike protein Kuhn, CC; Basnet, N; Bodakuntla, S et al. Nat Commun, DOI://10.1038/s41467-023-36279-5 (2023)

Estimation of cell lineages in tumors from spatial transcriptomics data Ru, B; Huang, J; Zhang, Y et al. Nat Commun, DOI://10.1038/s41467-023-36062-6 (2023)
Genotype first: Clinical genomics research through a reverse phenotyping approach Wilczewski, CM; Obasohan, J; Paschall, JE et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2022.12.004 (2023)
Author Correction: Astroblastomas exhibit radial glia stem cell lineages and differential expression of imprinted and X-inactivation escape genes Lehman, NL; Spassky, N; Sak, M et al. Nat Commun, DOI://10.1038/s41467-023-36255-z (2023)
Identification of cerebral spinal fluid protein biomarkers in Niemann-Pick disease, type C1 Campbell, K; Cawley, NX; Luke, R et al. Biomark Res, DOI://10.1186/s40364-023-00448-x (2023)
Expanded NK cells used for adoptive cell therapy maintain diverse clonality and contain long-lived memory-like NK cell populations Allan, DSJ; Wu, C; Mortlock, RD et al. Mol Ther Oncolytics, DOI://10.1016/j.omto.2022.12.006 (2023)
Spleen tyrosine kinase inhibition restores myeloid homeostasis in COVID-19 Wigerblad, G; Warner, SA; Ramos-Benitez, MJ et al. Sci Adv, DOI://10.1126/sciadv.ade8272 (2023)
Genetic Influences on Fetal Alcohol Spectrum Disorder Sambo, D; Goldman, D; , Genes (Basel), DOI://10.3390/genes14010195 (2023)
Chromatin landscape governing murine epidermal differentiation Nayak, S; Jiang, K; Hope, E et al. J Invest Dermatol, DOI://10.1016/j.jid.2022.12.020 (2023)
Inflated expectations: Rare-variant association analysis using public controls Kim, J; Karyadi, DM; Hartley, SW et al. PLoS One, DOI://10.1371/journal.pone.0280951 (2023)
Middle-age high normal serum sodium as a risk factor for accelerated biological aging, chronic diseases, and premature mortality Dmitrieva, NI; Gagarin, A; Liu, D et al. EBioMedicine, DOI://10.1016/j.ebiom.2022.104404 (2023)
Expression and subcellular localization of USH1C/harmonin in human retina provides insights into pathomechanisms and therapy Nagel-Wolfrum, K; Fadl, BR; Becker, MM et al. Hum Mol Genet, DOI://10.1093/hmg/ddac211 (2023)
Revisiting the sialome of the cat flea Ctenocephalides felis Lu, S; Danchenko, M; Macaluso, KR; Ribeiro, JMC; , PLoS One, DOI://10.1371/journal.pone.0279070 (2023)

Upper age-limits for US male HPV-vaccination for oropharyngeal cancer prevention: A microsimulation-based modeling study Landy, R; Haber, G; Graubard, BI et al. J Natl Cancer Inst, DOI://10.1093/jnci/djad009 (2023)
GWAS Explorer: an open-source tool to explore, visualize, and access GWAS summary statistics in the PLCO Atlas Machiela, MJ; Huang, WY; Wong, W et al. Sci Data, DOI://10.1038/s41597-022-01921-2 (2023)
Transcriptomic Analysis of Human Podocytes In Vitro: Effects of Differentiation and APOL1 Genotype Yoshida, T; Latt, KZ; Rosenberg, AZ et al. Kidney Int Rep, DOI://10.1016/j.ekir.2022.10.011 (2023)
The repertoire of CSF antiviral antibodies in patients with neuroinflammatory diseases Enose-Akahata, Y; Wang, L; Almsned, F et al. Sci Adv, DOI://10.1126/sciadv.abq6978 (2023)
Preclinical optimization of a GPC2-targeting CAR T-cell therapy for neuroblastoma Sun, M; Cao, Y; Okada, R et al. J Immunother Cancer, DOI://10.1136/jitc-2022-005881 (2023)
Characterization of diverse populations of sinoatrial node cells and their proliferation potential at single nucleus resolution Qu, JH; Telljohann, R; Byshkov, R; Lakatta, EG; , Heliyon, DOI://10.1016/j.heliyon.2022.e12708 (2023)

The Ewald sphere/focus gradient does not limit the resolution of cryoEM reconstructions Heymann, JB J Struct Biol X, DOI://10.1016/j.yjsbx.2022.100083 (2023)
Novel polyomaviruses identified in fecal samples from four carnivore species Kraberger, S; Serieys, LEK; Riley, SPD et al. Arch Virol, DOI://10.1007/s00705-022-05675-5 (2023)
Comparison of busulfan and total body irradiation conditioning on hematopoietic clonal dynamics following lentiviral gene transfer in rhesus macaques Abraham, DM; Lozano, RJ; Guitart, X et al. Mol Ther Methods Clin Dev, DOI://10.1016/j.omtm.2022.12.001 (2023)
Prenatal social support in low-risk pregnancy shapes placental epigenome Tesfaye, M; Wu, J; Biedrzycki, RJ et al. BMC Med, DOI://10.1186/s12916-022-02701-w (2023)
Epigenetic gestational age and the relationship with developmental milestones in early childhood Polinski, KJ; Robinson, SL; Putnick, DL et al. Hum Mol Genet, DOI://10.1093/hmg/ddac302 (2023)
A dataset for plain language adaptation of biomedical abstracts Attal, K; Ondov, B; Demner-Fushman, D; , Sci Data, DOI://10.1038/s41597-022-01920-3 (2023)
A stem cell epigenome is associated with primary nonresponse to CD19 CAR T-cells in pediatric acute lymphoblastic leukemia Masih, KE; Gardner, RA; Chou, HC et al. Blood Adv, DOI://10.1182/bloodadvances.2022008977 (2023)
Variable selection for discrete survival model with frailty in presence of left truncation and right censoring: Studying association of environmental toxicants on time-to-pregnancy Saha, A; Sundaram, R; , Stat Med, DOI://10.1002/sim.9609 (2023)
Investigating Determinants and Evaluating Deep Learning Training Approaches for Visual Acuity in Foveal Hypoplasia Malechka, VV; Duong, D; Bordonada, KD et al. Ophthalmol Sci, DOI://10.1016/j.xops.2022.100225 (2023)
An inducible amphipathic α-helix mediates subcellular targeting and membrane binding of RPE65 Uppal, S; Liu, T; Galvan, E et al. Life Sci Alliance, DOI://10.26508/lsa.202201546 (2023)
Mix-and-Inject Serial Femtosecond Crystallography to Capture RNA Riboswitch Intermediates Stagno, JR; Knoska, J; Chapman, HN; Wang, YX; , Methods Mol Biol, DOI://10.1007/978-1-0716-2687-0_16 (2023)
Combining Biophysical Methods for Structure-Function Analyses of RNA in Solution Lee, YT; Fan, L; Ding, J; Wang, YX; , Methods Mol Biol, DOI://10.1007/978-1-0716-2687-0_11 (2023)

Application of Molecular Dynamics to Expand Docking Program's Exploratory Capabilities and to Evaluate Its Predictions Kasprzak, WK; Shapiro, BA; , Methods Mol Biol, DOI://10.1007/978-1-0716-2687-0_6 (2023)

2022 (620 papers)

Circulating microRNAs in cellular and antibody-mediated heart transplant rejection Shah, P; Agbor-Enoh, S; Bagchi, P et al. J Heart Lung Transplant, DOI://10.1016/j.healun.2022.06.019 (2022)
Visual Field Sensitivity Prediction Using Optical Coherence Tomography Analysis in Hydroxychloroquine Toxicity Jayakar, G; De Silva, T; Cukras, CA; , Invest Ophthalmol Vis Sci, DOI://10.1167/iovs.63.1.15 (2022)
Fast intratumor heterogeneity inference from single-cell sequencing data Kızılkale, C; Rashidi Mehrabadi, F; Sadeqi Azer, E et al. Nat Comput Sci, DOI://10.1038/s43588-022-00298-x (2022)
A reference human induced pluripotent stem cell line for large-scale collaborative studies Pantazis, CB; Yang, A; Lara, E et al. Cell Stem Cell, DOI://10.1016/j.stem.2022.11.004 (2022)
Blocking CDK7-Mediated NOTCH1-cMYC Signaling Attenuates Cancer Stem Cell Activity in Anaplastic Thyroid Cancer Doolittle, WKL; Zhao, L; Cheng, SY; , Thyroid, DOI://10.1089/thy.2022.0087 (2022)
Opioid medication use and blood DNA methylation: epigenome-wide association meta-analysis Lee, M; Joehanes, R; McCartney, DL et al. Epigenomics, DOI://10.2217/epi-2022-0353 (2022)
Internal checkpoint regulates T cell neoantigen reactivity and susceptibility to PD1 blockade Palmer, DC; Webber, BR; Patel, Y et al. Med, DOI://10.1016/j.medj.2022.07.008 (2022)
Automated Assessment of Renal Calculi in Serial Computed Tomography Scans Mukherjee, P; Lee, S; Pickhardt, PJ; Summers, RM; , Appl Med Artif Intell (2022), DOI://10.1007/978-3-031-17721-7_5 (2022)
Protein pKa Prediction by Tree-Based Machine Learning Chen, AY; Lee, J; Damjanovic, A; Brooks, BR; , J Chem Theory Comput, DOI://10.1021/acs.jctc.1c01257 (2022)
Genetic association of IL17 and the importance of ABO blood group antigens in saliva to COVID-19 Nishida, N; Sugiyama, M; Kawai, Y et al. Sci Rep, DOI://10.1038/s41598-022-07856-3 (2022)
Noninvasive biomarkers in heart transplant: 2020-2021 year in review Qian, X; Shah, P; Agbor-Enoh, S; , Curr Opin Organ Transplant, DOI://10.1097/MOT.0000000000000945 (2022)
Metformin treatment rescues CD8+ T-cell response to immune checkpoint inhibitor therapy in mice with NAFLD Wabitsch, S; McCallen, JD; Kamenyeva, O et al. J Hepatol, DOI://10.1016/j.jhep.2022.03.010 (2022)
Magnetoencephalography biomarkers of suicide attempt history and antidepressant response to ketamine in treatment-resistant major depression Gilbert, JR; Gerner, JL; Burton, CR et al. J Affect Disord, DOI://10.1016/j.jad.2022.06.025 (2022)
Cardiovascular disease and all-cause mortality risk prediction from abdominal CT using deep learning Daniel C. Elton, Andy Chen, Perry J. Pickhardt, Ronald M. Summers Medical Imaging 2022, doi://10.1117/12.2612620 (2022)
Potential therapeutic response in a severe case of autosomal dominant osteopetrosis type I Jafri SM; Burke EA; et al . J Transl Genet Genom, doi://10.20517/jtgg.2021.63 (2022)
Molecular Genetic Analysis of Ukrainian Families with Congenital Cataracts Jiao, X; Viswanathan, M; Bobrova, NF et al. Children (Basel), DOI://10.3390/children10010051 (2022)
Heterogeneity of enhancers embodies shared and representative functional groups underlying developmental and cell type-specific gene regulation Song, W; Ovcharenko, I; , Gene, DOI://10.1016/j.gene.2022.146640 (2022)
Mediation of Healthy Behaviour on the Association of Frailty with Respiratory Diseases Mortality among 0.4 Million Participants: A Prospective Cohort Study from UK Biobank Du, M; Tao, L; Liu, M; Liu, J; , Nutrients, DOI://10.3390/nu14235046 (2022)
High-Throughput DNA FISH (hiFISH) Finn, E; Misteli, T; Pegoraro, G; , Methods Mol Biol, DOI://10.1007/978-1-0716-2497-5_12 (2022)
Middle age serum sodium levels in the upper part of normal range and risk of heart failure Dmitrieva, NI; Liu, D; Wu, CO; Boehm, M; , Eur Heart J, DOI://10.1093/eurheartj/ehac138 (2022)
Histone deacetylation primes self-propagation of heterochromatin domains to promote epigenetic inheritance Zofall, M; Sandhu, R; Holla, S et al. Nat Struct Mol Biol, DOI://10.1038/s41594-022-00830-7 (2022)
Long-term antibiotic exposure promotes mortality after systemic fungal infection by driving lymphocyte dysfunction and systemic escape of commensal bacteria Drummond, RA; Desai, JV; Ricotta, EE et al. Cell Host Microbe, DOI://10.1016/j.chom.2022.04.013 (2022)
Cytomegalovirus infection reduced CD70 expression, signaling and expansion of viral specific memory CD8+ T cells in healthy human adults Lu, J; Chen, G; Sorokina, A et al. Immun Ageing, DOI://10.1186/s12979-022-00307-7 (2022)
Multistate models for the natural history of cancer progression Cheung, LC; Albert, PS; Das, S; Cook, RJ; , Br J Cancer, DOI://10.1038/s41416-022-01904-5 (2022)
PD-1 combination therapy with IL-2 modifies CD8+ T cell exhaustion program Hashimoto, M; Araki, K; Cardenas, MA et al. Nature, DOI://10.1038/s41586-022-05257-0 (2022)
Higher levels of allograft injury in black patients early after heart transplantation Doshi, A; Shah, KB; Agbor-Enoh, S et al. J Heart Lung Transplant, DOI://10.1016/j.healun.2021.12.006 (2022)
Functional aspects of evolution in a cluster of salivary protein genes from mosquitoes Alvarenga, PH; Dias, DR; Xu, X et al. Insect Biochem Mol Biol, DOI://10.1016/j.ibmb.2022.103785 (2022)
Developmental genome-wide occupancy analysis of bZIP transcription factor NRL uncovers the role of c-Jun in early differentiation of rod photoreceptors in the mammalian retina Liang, X; Brooks, MJ; Swaroop, A; , Hum Mol Genet, DOI://10.1093/hmg/ddac143 (2022)
Recreational physical activity before and during pregnancy and placental DNA methylation-an epigenome-wide association study Zhao, SK; Yeung, EH; Ouidir, M et al. Am J Clin Nutr, DOI://10.1093/ajcn/nqac111 (2022)
Hierarchical Voting-Based Feature Selection and Ensemble Learning Model Scheme for Glioma Grading with Clinical and Molecular Characteristics Tasci, E; Zhuge, Y; Kaur, H et al. Int J Mol Sci, DOI://10.3390/ijms232214155 (2022)
Identification of a novel GR-ARID1a-P53BP1 protein complex involved in DNA damage repair and cell cycle regulation Stubbs, FE; Flynn, BP; Rivers, CA et al. Oncogene, DOI://10.1038/s41388-022-02516-2 (2022)
Defining cellular population dynamics at single-cell resolution during prostate cancer progression Germanos, AA; Arora, S; Zheng, Y et al. Elife, DOI://10.7554/eLife.79076 (2022)
Logistic Regression-Based Model Is More Efficient Than U-Net Model for Reliable Whole Brain Magnetic Resonance Imaging Segmentation Dieckhaus, H; Meijboom, R; Okar, S et al. Top Magn Reson Imaging, DOI://10.1097/RMR.0000000000000296 (2022)
Mendelian randomization study reveals a causal relationship between adiponectin and LDL cholesterol in Africans Meeks, KAC; Bentley, AR; Doumatey, AP et al. Sci Rep, DOI://10.1038/s41598-022-21922-w (2022)
Baseline Microperimetry and OCT in the RUSH2A Study: Structure-Function Association and Correlation With Disease Severity Lad, EM; Duncan, JL; Liang, W et al. Am J Ophthalmol, DOI://10.1016/j.ajo.2022.08.013 (2022)

Rare germline deleterious variants increase susceptibility for lung cancer Sang, J; Zhang, T; Kim, J et al. Hum Mol Genet, DOI://10.1093/hmg/ddac123 (2022)
Nucleation causes an actin network to fragment into multiple high-density domains Chandrasekaran, A; Giniger, E; Papoian, GA; , Biophys J, DOI://10.1016/j.bpj.2022.07.035 (2022)
fast.adonis: a computationally efficient non-parametric multivariate analysis of microbiome data for large-scale studies Li, S; Vogtmann, E; Graubard, BI et al. Bioinform Adv, DOI://10.1093/bioadv/vbac044 (2022)
Early-Onset TIMP3-Related Retinopathy Associated With Impaired Signal Peptide Guan, B; Huryn, LA; Hughes, AB et al. JAMA Ophthalmol, DOI://10.1001/jamaophthalmol.2022.1822 (2022)
Cell-free DNA in lung transplantation: research tool or clinical workhorse? Keller, M; Agbor-Enoh, S; , Curr Opin Organ Transplant, DOI://10.1097/MOT.0000000000000979 (2022)
Melanoma central nervous system metastases: An update to approaches, challenges, and opportunities Karz, A; Dimitrova, M; Kleffman, K et al. Pigment Cell Melanoma Res, DOI://10.1111/pcmr.13059 (2022)

Structural mechanism of tapasin-mediated MHC-I peptide loading in antigen presentation Jiang, J; Taylor, DK; Kim, EJ et al. Nat Commun, DOI://10.1038/s41467-022-33153-8 (2022)
Lysine methyltransferase Kmt2d regulates naive CD8+ T cell activation-induced survival Kim, J; Nguyen, T; Cifello, J et al. Front Immunol, DOI://10.3389/fimmu.2022.1095140 (2022)
Gene-Level Associations in Patients With and Without Pathogenic Germline Variants in CDKN2A and Pancreatic Cancer Astiazaran-Symonds, E; Graham, C; Kim, J et al. JCO Precis Oncol, DOI://10.1200/PO.22.00145 (2022)
Context-Dependent Function of Long Noncoding RNA PURPL in Transcriptome Regulation during p53 Activation Hartford, CCR; Shrestha, RL; Pongor, L et al. Mol Cell Biol, DOI://10.1128/mcb.00289-22 (2022)
Zfp503/Nlz2 Is Required for RPE Differentiation and Optic Fissure Closure Boobalan, E; Thompson, AH; Alur, RP et al. Invest Ophthalmol Vis Sci, DOI://10.1167/iovs.63.12.5 (2022)
A Graph-theoretic Algorithm for Small Bowel Path Tracking in CT Scans Shin, SY; Lee, S; Summers, RM; , Proc SPIE Int Soc Opt Eng, DOI://10.1117/12.2611878 (2022)
GRAPH-BASED SMALL BOWEL PATH TRACKING WITH CYLINDRICAL CONSTRAINTS Shin, SY; Lee, S; Summers, RM; , Proc IEEE Int Symp Biomed Imaging, DOI://10.1109/isbi52829.2022.9761423 (2022)
Deep Reinforcement Learning for Small Bowel Path Tracking using Different Types of Annotations Shin, SY; Summers, RM; , Med Image Comput Comput Assist Interv, DOI://10.1007/978-3-031-16443-9_53 (2022)
Identifying and predicting amyotrophic lateral sclerosis clinical subgroups: a population-based machine-learning study Faghri, F; Brunn, F; Dadu, A et al. Lancet Digit Health, DOI://10.1016/S2589-7500(21)00274-0 (2022)
An MRI-based radiomics model to predict clear cell renal cell carcinoma growth rate classes in patients with von Hippel-Lindau syndrome Anari, PY; Lay, N; Gopal, N et al. Abdom Radiol (NY), DOI://10.1007/s00261-022-03610-5 (2022)
Topoisomerase 3b is dispensable for replication of a positive-sense RNA virus--murine coronavirus Zhang, T; Su, S; Altouma, V et al. Antiviral Res, DOI://10.1016/j.antiviral.2022.105451 (2022)
Genetic Origins of the Two Canis lupus familiaris (Dog) Freight Dog Populations Ali, MB; Dreger, DL; Buckley, RM et al. J Hered, DOI://10.1093/jhered/esac002 (2022)
Differential regulation of transcription factor T-bet induction during NK cell development and T helper-1 cell differentiation Fang, D; Cui, K; Cao, Y et al. Immunity, DOI://10.1016/j.immuni.2022.03.005 (2022)
ImmunoTyper-SR: A computational approach for genotyping immunoglobulin heavy chain variable genes using short-read data Ford, MKB; Hari, A; Rodriguez, O et al. Cell Syst, DOI://10.1016/j.cels.2022.08.008 (2022)
Alcohol use disorder is associated with DNA methylation-based shortening of telomere length and regulated by TESPA1: implications for aging Jung, J; McCartney, DL; Wagner, J et al. Mol Psychiatry, DOI://10.1038/s41380-022-01624-5 (2022)
Discriminatory capacity of prenatal ultrasound measures for large-for-gestational-age birth: A Bayesian approach to ROC analysis using placement values Ghosal, S; Chen, Z; , Stat Biosci, DOI://10.1007/s12561-021-09311-9 (2022)
Cryo-EM structures reveal multiple stages of bacterial outer membrane protein folding Doyle, MT; Jimah, JR; Dowdy, T et al. Cell, DOI://10.1016/j.cell.2022.02.016 (2022)
Daily changes in light influence mood via inhibitory networks within the thalamic perihabenular nucleus Weil, T; Daly, KM; Yarur Castillo, H et al. Sci Adv, DOI://10.1126/sciadv.abn3567 (2022)

Monoallelic variants resulting in substitutions of MAB21L1 Arg51 Cause Aniridia and microphthalmia Hall, HN; Bengani, H; Hufnagel, RB et al. PLoS One, DOI://10.1371/journal.pone.0268149 (2022)
Profiling the NOTCH2NLC GGC Repeat Expansion in Parkinson's Disease in the European Population Billingsley, KJ; Alvarez Jerez, P; Grenn, FP et al. Mov Disord, DOI://10.1002/mds.29155 (2022)
Whole-exome Sequencing of Nigerian Prostate Tumors from the Prostate Cancer Transatlantic Consortium (CaPTC) Reveals DNA Repair Genes Associated with African Ancestry White, JA; Kaninjing, ET; Adeniji, KA et al. Cancer Res Commun, DOI://10.1158/2767-9764.CRC-22-0136 (2022)
Evaluation of cutaneous immune response in a controlled human in vivo model of mosquito bites Guerrero, D; Vo, HTM; Lon, C et al. Nat Commun, DOI://10.1038/s41467-022-34534-9 (2022)
A novel role for GalNAc-T2 dependent glycosylation in energy homeostasis Verzijl, CRC; Oldoni, F; Loaiza, N et al. Mol Metab, DOI://10.1016/j.molmet.2022.101472 (2022)
Comorbidities and ethnic health disparities in the UK biobank Teagle, WL; Norris, ET; Rishishwar, L et al. JAMIA Open, DOI://10.1093/jamiaopen/ooac057 (2022)

Mechanism by which T7 bacteriophage protein Gp1.2 inhibits Escherichia coli dGTPase Klemm, BP; Singh, D; Smith, CE et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2123092119 (2022)
PUS7 deficiency in human patients causes profound neurodevelopmental phenotype by dysregulating protein translation Han, ST; Kim, AC; Garcia, K et al. Mol Genet Metab, DOI://10.1016/j.ymgme.2022.01.103 (2022)
Comparison of transcranial sonography and [18F]-fluorodopa PET imaging in GBA1 mutation carriers Eisenberg, DP; Lopez, G; Gregory, MD et al. Mov Disord, DOI://10.1002/mds.28852 (2022)
Natural and human-driven selection of a single non-coding body size variant in ancient and modern canids Plassais, J; vonHoldt, BM; Parker, HG et al. Curr Biol, DOI://10.1016/j.cub.2021.12.036 (2022)
Quality control practices in FMRI analysis: Philosophy, methods and examples using AFNI Reynolds, RC; Taylor, PA; Glen, DR; , Front Neurosci, DOI://10.3389/fnins.2022.1073800 (2022)
Adverse childhood experiences and premature mortality through mid-adulthood: A five-decade prospective study Yu, J; Patel, RA; Haynie, DL et al. Lancet Reg Health Am, DOI://10.1016/j.lana.2022.100349 (2022)

Genetic testing in severe aplastic anemia is required for optimal hematopoietic cell transplant outcomes McReynolds, LJ; Rafati, M; Wang, Y et al. Blood, DOI://10.1182/blood.2022016508 (2022)
A filarial parasite-encoded human IL-10 receptor antagonist reveals a novel strategy to modulate host responses Ricciardi, A; Hassan, SA; Kamenyeva, O et al. PNAS Nexus, DOI://10.1093/pnasnexus/pgac184 (2022)
An Overview of D7 Protein Structure and Physiological Roles in Blood-Feeding Nematocera Alvarenga, PH; Andersen, JF; , Biology (Basel), DOI://10.3390/biology12010039 (2022)
The multivalency of the glucocorticoid receptor ligand-binding domain explains its manifold physiological activities Jiménez-Panizo, A; Alegre-Martí, A; Tettey, TT et al. Nucleic Acids Res, DOI://10.1093/nar/gkac1119 (2022)
Transposase N-terminal phosphorylation and asymmetric transposon ends inhibit piggyBac transposition in mammalian cells Luo, W; Hickman, AB; Genzor, P et al. Nucleic Acids Res, DOI://10.1093/nar/gkac1191 (2022)
Domestic dog lineages reveal genetic drivers of behavioral diversification Dutrow, EV; Serpell, JA; Ostrander, EA; , Cell, DOI://10.1016/j.cell.2022.11.003 (2022)
Epidemiology of ICU-Onset Bloodstream Infection: Prevalence, Pathogens, and Risk Factors Among 150,948 ICU Patients at 85 U.S. Hospitals Gouel-Cheron, A; Swihart, BJ; Warner, S et al. Crit Care Med, DOI://10.1097/CCM.0000000000005662 (2022)
Mito-SiPE is a sequence-independent and PCR-free mtDNA enrichment method for accurate ultra-deep mitochondrial sequencing Walsh, DJ; Bernard, DJ; Pangilinan, F et al. Commun Biol, DOI://10.1038/s42003-022-04182-2 (2022)
Elevated cell-free DNA in respiratory viral infection and associated lung allograft dysfunction Bazemore, K; Permpalung, N; Mathew, J et al. Am J Transplant, DOI://10.1111/ajt.17125 (2022)
Plasma Cell-Free DNA Predicts Survival and Maps Specific Sources of Injury in Pulmonary Arterial Hypertension Brusca, SB; Elinoff, JM; Zou, Y et al. Circulation, DOI://10.1161/CIRCULATIONAHA.121.056719 (2022)
HAL-X: Scalable hierarchical clustering for rapid and tunable single-cell analysis Anibal, J; Day, AG; Bahadiroglu, E et al. PLoS Comput Biol, DOI://10.1371/journal.pcbi.1010349 (2022)
Barcode clonal tracking of tissue-resident immune cells in rhesus macaque highlights distinct clonal distribution pattern of tissue NK cells Wu, C; Liang, JA; Brenchley, JM et al. Front Immunol, DOI://10.3389/fimmu.2022.994498 (2022)
Systemic Inflammation is Associated with Cardiometabolic Risk Factors and Clinical Outcomes Tejada, B; Joehanes, R; Hwang, SJ et al. J Inflamm Res, DOI://10.2147/JIR.S382620 (2022)
Serological responses to human virome define clinical outcomes of Italian patients infected with SARS-CoV-2 Wang, L; Candia, J; Ma, L et al. Int J Biol Sci, DOI://10.7150/ijbs.78002 (2022)
Kidney tumors associated with germline mutations of FH and SDHB show a CpG island methylator phenotype (CIMP) Ricketts, CJ; Killian, JK; Vocke, CD et al. PLoS One, DOI://10.1371/journal.pone.0278108 (2022)
A Mega-analytic Study of White Matter Microstructural Differences Across 5 Cohorts of Youths With Attention-Deficit/Hyperactivity Disorder Sudre, G; Norman, L; Bouyssi-Kobar, M et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2022.09.021 (2022)
Acute worsening of CADASIL in a patient with COVID-19 infection: illustrative case Rosenblum, JS; Tunacao, JM; Nazari, MA et al. J Neurosurg Case Lessons, DOI://10.3171/CASE22413 (2022)
Evaluation of Cone- and Rod-Mediated Parameters in Dark Adaptation Testing as Outcome Measures in Age-Related Macular Degeneration Hess, K; de Silva, T; Grisso, P et al. Ophthalmol Retina, DOI://10.1016/j.oret.2022.05.018 (2022)
Protocol for base resolution mapping of ac4C using RedaC:T-seq Sturgill, D; Arango, D; Oberdoerffer, S; , STAR Protoc, DOI://10.1016/j.xpro.2022.101858 (2022)
COnstrained Reference frame diffusion TEnsor Correlation Spectroscopic (CORTECS) MRI: A practical framework for high-resolution diffusion tensor distribution imaging Avram, AV; Saleem, KS; Basser, PJ; , Front Neurosci, DOI://10.3389/fnins.2022.1054509 (2022)
Association between microbial composition, diversity, and function of the maternal gastrointestinal microbiome with impaired glucose tolerance on the glucose challenge test Dreisbach, C; Prescott, S; Alhusen, J et al. PLoS One, DOI://10.1371/journal.pone.0271261 (2022)
Identification and analysis of odorant receptors expressed in the two main olfactory organs, antennae and palps, of Schistocerca americana Boronat-Garcia, A; Iben, J; Dominguez-Martin, E; Stopfer, M; , Sci Rep, DOI://10.1038/s41598-022-27199-3 (2022)
Comparison of out-of-field normal tissue dose estimates for pencil beam scanning proton therapy: MCNP6, PHITS, and TOPAS Griffin, KT; Yeom, YS; Mille, MM et al. Biomed Phys Eng Express, DOI://10.1088/2057-1976/acaab1 (2022)
A Deeper Insight into the Tick Salivary Protein Families under the Light of Alphafold2 and Dali: Introducing the TickSialoFam 2.0 Database Mans, BJ; Andersen, JF; Ribeiro, JMC; , Int J Mol Sci, DOI://10.3390/ijms232415613 (2022)

The paradigm shift: Heartbeat initiation without "the pacemaker cell" Maltsev, VA; Stern, MD; , Front Physiol, DOI://10.3389/fphys.2022.1090162 (2022)
Hi-TrAC reveals division of labor of transcription factors in organizing chromatin loops Liu, S; Cao, Y; Cui, K et al. Nat Commun, DOI://10.1038/s41467-022-34276-8 (2022)
Cryo-EM reveals the architecture of the PELP1-WDR18 molecular scaffold Gordon, J; Chapus, FL; Viverette, EG et al. Nat Commun, DOI://10.1038/s41467-022-34610-0 (2022)
Cell type-specific changes in Wnt signaling and neuronal differentiation in the developing mouse cortex after prenatal alcohol exposure during neurogenesis Sambo, D; Gohel, C; Yuan, Q et al. Front Cell Dev Biol, DOI://10.3389/fcell.2022.1011974 (2022)
Rad51-mediated interhomolog recombination during budding yeast meiosis is promoted by the meiotic recombination checkpoint and the conserved Pif1 helicase Ziesel, A; Weng, Q; Ahuja, JS et al. PLoS Genet, DOI://10.1371/journal.pgen.1010407 (2022)
Adults with lysosomal storage diseases in the undiagnosed diseases network Xiao, C; Koziura, M; Cope, H et al. Mol Genet Genomic Med, DOI://10.1002/mgg3.2013 (2022)

Modeling Dinophysis in Western Andalucía using an autoregressive hidden Markov model Aron, J; Albert, PS; Gribble, MO; , Environ Ecol Stat, DOI://10.1007/s10651-022-00534-7 (2022)
Organ dose calculator for diagnostic nuclear medicine patients based on the ICRP reference voxel phantoms and biokinetic models Villoing, D; Kwon, TE; Pasqual, E et al. Biomed Phys Eng Express, DOI://10.1088/2057-1976/aca543 (2022)
Temporal Improvements in COVID-19 Outcomes for Hospitalized Adults: A Post Hoc Observational Study of Remdesivir Group Participants in the Adaptive COVID-19 Treatment Trial Potter, GE; Bonnett, T; Rubenstein, K et al. Ann Intern Med, DOI://10.7326/M22-2116 (2022)
Opposing functions of circadian protein DBP and atypical E2F family E2F8 in anti-tumor Th9 cell differentiation Park, SA; Lim, YJ; Ku, WL et al. Nat Commun, DOI://10.1038/s41467-022-33733-8 (2022)
Structural basis of 3'-end poly(A) RNA recognition by LARP1 Kozlov, G; Mattijssen, S; Jiang, J et al. Nucleic Acids Res, DOI://10.1093/nar/gkac696 (2022)
High-resolution cortical MAP-MRI reveals areal borders and laminar substructures observed with histological staining Avram, AV; Saleem, KS; Komlosh, ME et al. Neuroimage, DOI://10.1016/j.neuroimage.2022.119653 (2022)
Transcriptional mapping of the macaque retina and RPE-choroid reveals conserved inter-tissue transcription drivers and signaling pathways Mungale, A; McGaughey, DM; Zhang, C et al. Front Genet, DOI://10.3389/fgene.2022.949449 (2022)
A deep learning approach to identify missing is-a relations in SNOMED CT Abeysinghe, R; Zheng, F; Bernstam, EV et al. J Am Med Inform Assoc, DOI://10.1093/jamia/ocac248 (2022)
An imputation approach for a time-to-event analysis subject to missing outcomes due to noncoverage in disease registries Shih, JH; Albert, PS; Fine, J; Liu, D; , Biostatistics, DOI://10.1093/biostatistics/kxac049 (2022)
Insights into autoregulation of a membrane protein complex by its cytoplasmic domains Leone, V; Bradshaw, RT; Koshy, C et al. Biophys J, DOI://10.1016/j.bpj.2022.12.021 (2022)
Structural variant analysis of a cancer reference cell line sample using multiple sequencing technologies Talsania, K; Shen, TW; Chen, X et al. Genome Biol, DOI://10.1186/s13059-022-02816-6 (2022)
Massively parallel reporter assays and variant scoring identified functional variants and target genes for melanoma loci and highlighted cell-type specificity Long, E; Yin, J; Funderburk, KM et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2022.11.006 (2022)

Structural Determinants and Functional Significance of Dimerization for Osmosensing Transporter ProP in Escherichia coli Ozturk, TN; Coumoundouros, C; Culham, DE; Wood, JM; , Biochemistry, DOI://10.1021/acs.biochem.2c00393 (2022)
Rare copy number variants in males and females with childhood attention-deficit/hyperactivity disorder Jung, B; Ahn, K; Justice, C et al. Mol Psychiatry, DOI://10.1038/s41380-022-01906-y (2022)
Identification and characterization of proteins that form the inner core Ixodes scapularis tick attachment cement layer Mulenga, A; Radulovic, Z; Porter, L et al. Sci Rep, DOI://10.1038/s41598-022-24881-4 (2022)
TULIP: An RNA-seq-based Primary Tumor Type Prediction Tool Using Convolutional Neural Networks Jones, S; Beyers, M; Shukla, M et al. Cancer Inform, DOI://10.1177/11769351221139491 (2022)
Broad misappropriation of developmental splicing profile by cancer in multiple organs Singh, A; Rajeevan, A; Gopalan, V et al. Nat Commun, DOI://10.1038/s41467-022-35322-1 (2022)
Molecular models of multiple sclerosis severity identify heterogeneity of pathogenic mechanisms Kosa, P; Barbour, C; Varosanec, M et al. Nat Commun, DOI://10.1038/s41467-022-35357-4 (2022)

Sex Biases in Cancer and Autoimmune Disease Incidence Are Strongly Positively Correlated with Mitochondrial Gene Expression across Human Tissues Crawford, DR; Sinha, S; Nair, NU et al. Cancers (Basel), DOI://10.3390/cancers14235885 (2022)
Systematic single-cell pathway analysis to characterize early T cell activation Bibby, JA; Agarwal, D; Freiwald, T et al. Cell Rep, DOI://10.1016/j.celrep.2022.111697 (2022)
UPF1 mutants with intact ATPase but deficient helicase activities promote efficient nonsense-mediated mRNA decay Chapman, JH; Craig, JM; Wang, CD et al. Nucleic Acids Res, DOI://10.1093/nar/gkac1026 (2022)
Planar aggregation of the influenza viral fusion peptide alters membrane structure and hydration, promoting poration Rice, A; Haldar, S; Wang, E et al. Nat Commun, DOI://10.1038/s41467-022-34576-z (2022)
Active DNA demethylation promotes cell fate specification and the DNA damage response Wang, D; Wu, W; Callen, E et al. Science, DOI://10.1126/science.add9838 (2022)
Non-parametric estimation of the age-at-onset distribution from a cross-sectional sample Mandal, S; Qin, J; Pfeiffer, RM; , Biometrics, DOI://10.1111/biom.13804 (2022)

The tumour microenvironment shapes innate lymphoid cells in patients with hepatocellular carcinoma Heinrich, B; Gertz, EM; Schäffer, AA et al. Gut, DOI://10.1136/gutjnl-2021-325288 (2022)
An Exact Hypergraph Matching algorithm for posture identification in embryonic C. elegans Lauziere, A; Christensen, R; Shroff, H; Balan, R; , PLoS One, DOI://10.1371/journal.pone.0277343 (2022)
Creation of a new Drosophila melanogaster X chromosome balancer, First Multiple 8 ( FM8 ), using the CRISPR/Cas9 gene-editing system Muron, S; Kucera, S; Oliver, B; Benner, L; , MicroPubl Biol, DOI://10.17912/micropub.biology.000663 (2022)
Rickettsia parkeri infection modulates the sialome and ovariome of the Gulf coast tick, Amblyomma maculatum Guizzo, MG; Budachetri, K; Adegoke, A et al. Front Microbiol, DOI://10.3389/fmicb.2022.1023980 (2022)
Genomic study of maternal lipid traits in early pregnancy concurs with four known adult lipid loci Ouidir, M; Chatterjee, S; Wu, J; Tekola-Ayele, F; , J Clin Lipidol, DOI://10.1016/j.jacl.2022.10.013 (2022)
Single cell atlas of spinal cord injury in mice reveals a pro-regenerative signature in spinocerebellar neurons Matson, KJE; Russ, DE; Kathe, C et al. Nat Commun, DOI://10.1038/s41467-022-33184-1 (2022)

Epigenetic regulation of white adipose tissue plasticity and energy metabolism by nucleosome binding HMGN proteins Nanduri, R; Furusawa, T; Lobanov, A et al. Nat Commun, DOI://10.1038/s41467-022-34964-5 (2022)
Anti-mesothelin immunotoxin induces mesothelioma eradication, anti-tumor immunity, and the development of tertiary lymphoid structures Liu, W; Tai, CH; Liu, X; Pastan, I; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2214928119 (2022)
Specification of neuronal subtypes in the spiral ganglion begins prior to birth in the mouse Sanders, TR; Kelley, MW; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2203935119 (2022)
Cryo-EM of prion strains from the same genotype of host identifies conformational determinants Hoyt, F; Alam, P; Artikis, E et al. PLoS Pathog, DOI://10.1371/journal.ppat.1010947 (2022)
Characterization of Oncology Clinical Trials Using Germline Genetic Data Kammula, AV; Schäffer, AA; Rajagopal, PS; , JAMA Netw Open, DOI://10.1001/jamanetworkopen.2022.42370 (2022)
Linear and nonlinear correlation estimators unveil undescribed taxa interactions in microbiome data Lin, H; Eggesbø, M; Peddada, SD; , Nat Commun, DOI://10.1038/s41467-022-32243-x (2022)

Hypermutator strains of Pseudomonas aeruginosa reveal novel pathways of resistance to combinations of cephalosporin antibiotics and beta-lactamase inhibitors Chiang, AD; Patil, PP; Beka, L et al. PLoS Biol, DOI://10.1371/journal.pbio.3001878 (2022)
Hydroxygenkwanin Improves the Efficacy of Cytotoxic Drugs in ABCG2-Overexpressing Multidrug-Resistant Cancer Cells Li, YQ; Murakami, M; Huang, YH et al. Int J Mol Sci, DOI://10.3390/ijms232112763 (2022)
Mapping the cortico-striatal transcriptome in attention deficit hyperactivity disorder Sudre, G; Gildea, DE; Shastri, GG et al. Mol Psychiatry, DOI://10.1038/s41380-022-01844-9 (2022)
Assigning species information to corresponding genes by a sequence labeling framework Luo, L; Wei, CH; Lai, PT et al. Database (Oxford), DOI://10.1093/database/baac090 (2022)
Proteomic Landscape and Deduced Functions of the Cardiac 14-3-3 Protein Interactome Qu, JH; Tarasov, KV; Chakir, K et al. Cells, DOI://10.3390/cells11213496 (2022)
The Solvation of the E. coli CheY Phosphorylation Site Mapped by XFMS Hamid, M; Khalid, MF; Chaudhary, SU; Khan, S; , Int J Mol Sci, DOI://10.3390/ijms232112771 (2022)

A Bietti Crystalline Dystrophy Mouse Model Shows Increased Sensitivity to Light-Induced Injury Ma, Z; Jiao, X; Agbaga, MP et al. Int J Mol Sci, DOI://10.3390/ijms232113108 (2022)
Intranasal delivery of a rationally attenuated SARS-CoV-2 is immunogenic and protective in Syrian hamsters Liu, S; Stauft, CB; Selvaraj, P et al. Nat Commun, DOI://10.1038/s41467-022-34571-4 (2022)
Biological Variation of Donor-Derived Cell-Free DNA in Stable Lung Transplant Recipients Keller, M; Mutebi, C; Shah, P et al. J Appl Lab Med, DOI://10.1093/jalm/jfab171 (2022)
Higher order interactions of Bcr-Abl can broaden chronic myeloid leukemia (CML) drug repertoire Liu, Y; Zhang, M; Jang, H; Nussinov, R; , Protein Sci, DOI://10.1002/pro.4504 (2022)
Vaccination History, Body Mass Index, Age, and Baseline Gene Expression Predict Influenza Vaccination Outcomes Forst, CV; Chung, M; Hockman, M et al. Viruses, DOI://10.3390/v14112446 (2022)
Retrotransposon insertions associated with risk of neurologic and psychiatric diseases Ahn, HW; Worman, ZF; Lechsinska, A et al. EMBO Rep, DOI://10.15252/embr.202255197 (2022)

Co-immunization with hemagglutinin stem immunogens elicits cross-group neutralizing antibodies and broad protection against influenza A viruses Moin, SM; Boyington, JC; Boyoglu-Barnum, S et al. Immunity, DOI://10.1016/j.immuni.2022.10.015 (2022)
Genome-wide profiling of retroviral DNA integration and its effect on clinical pre-infusion CAR T-cell products Shao, L; Shi, R; Zhao, Y et al. J Transl Med, DOI://10.1186/s12967-022-03729-5 (2022)
Cryo-EM structures of prefusion SIV envelope trimer Gorman, J; Wang, C; Mason, RD et al. Nat Struct Mol Biol, DOI://10.1038/s41594-022-00852-1 (2022)
Incorporating the image formation process into deep learning improves network performance Li, Y; Su, Y; Guo, M et al. Nat Methods, DOI://10.1038/s41592-022-01652-7 (2022)
MOSAICS: A Software Suite for Analysis of Membrane Structure and Dynamics in Simulated Trajectories Bernhardt, N; Faraldo-Gómez, JD; , Biophys J, DOI://10.1016/j.bpj.2022.11.005 (2022)
Common Gray Matter Reductions in Alcohol Use and Obsessive-Compulsive Disorders: A Meta-analysis Stevens, BW; Morris, JK; Diazgranados, N; Ramchandani, VA; , Biol Psychiatry Glob Open Sci, DOI://10.1016/j.bpsgos.2021.11.010 (2022)

Integrative epigenomic analyses of small cell lung cancer cells demonstrates the clinical translational relevance of gene body methylation Pongor, LS; Tlemsani, C; Elloumi, F et al. iScience, DOI://10.1016/j.isci.2022.105338 (2022)
Structural Mechanism of TAF-Iβ Chaperone Function on Linker Histone H1.10 Feng, H; Zhou, BR; Schwieters, CD; Bai, Y; , J Mol Biol, DOI://10.1016/j.jmb.2022.167755 (2022)
Multiomics analyses reveal early metabolic imbalance and mitochondrial stress in neonatal photoreceptors leading to cell death in Pde6brd1/rd1 mouse model of retinal degeneration Jiang, K; Mondal, AK; Adlakha, YK et al. Hum Mol Genet, DOI://10.1093/hmg/ddac013 (2022)
Machine learning based survival prediction in Glioma using large-scale registry data Zhao, R; Zhuge, Y; Camphausen, K; Krauze, AV; , Health Informatics J, DOI://10.1177/14604582221135427 (2022)
NF kappa B regulator Bcl3 controls development and function of classical dendritic cells required for resistance to Toxoplasma gondii Guha, J; Kang, B; Claudio, E et al. PLoS Pathog, DOI://10.1371/journal.ppat.1010502 (2022)
Changes in DNA methylation hallmark alterations in chromatin accessibility and gene expression for eye lens differentiation Disatham, J; Brennan, L; Jiao, X et al. Epigenetics Chromatin, DOI://10.1186/s13072-022-00440-z (2022)

Pituitary adenomas evade apoptosis via noxa deregulation in Cushing's disease Asuzu, DT; Alvarez, R; Fletcher, PA et al. Cell Rep, DOI://10.1016/j.celrep.2022.111223 (2022)
Computational Modeling and Imaging of the Intracellular Oxygen Gradient Sedlack, AJH; Penjweini, R; Link, KA et al. Int J Mol Sci, DOI://10.3390/ijms232012597 (2022)
Limited cross-variant immune response from SARS-CoV-2 Omicron BA.2 in naïve but not previously infected outpatients Lee, HK; Knabl, L; Walter, M et al. iScience, DOI://10.1016/j.isci.2022.105369 (2022)
An introduction to PIWI-interacting RNAs (piRNAs) in the context of metazoan small RNA silencing pathways Haase, AD RNA Biol, DOI://10.1080/15476286.2022.2132359 (2022)
Time-Varying Gene Expression Network Analysis Reveals Conserved Transition States in Hematopoietic Differentiation between Human and Mouse Gao, S; Chen, Y; Wu, Z et al. Genes (Basel), DOI://10.3390/genes13101890 (2022)
Strain level microbial detection and quantification with applications to single cell metagenomics Zhu, K; Schäffer, AA; Robinson, W et al. Nat Commun, DOI://10.1038/s41467-022-33869-7 (2022)

Mechanism of 4-aminopyridine inhibition of the lysosomal channel TMEM175 Oh, S; Stix, R; Zhou, W et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2208882119 (2022)
A compendium of co-regulated mitoribosomal proteins in pan-cancer uncovers collateral defective events in tumor malignancy Chang, CW; Wei, Z; Durell, SR et al. iScience, DOI://10.1016/j.isci.2022.105244 (2022)
Ectopic expression of meiotic cohesin generates chromosome instability in cancer cell line Boukaba, A; Liu, J; Ward, C et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2204071119 (2022)
Nuclear position modulates long-range chromatin interactions Finn, EH; Misteli, T; , PLoS Genet, DOI://10.1371/journal.pgen.1010451 (2022)
A computational solution for bolstering reliability of epigenetic clocks: Implications for clinical trials and longitudinal tracking Higgins-Chen, AT; Thrush, KL; Wang, Y et al. Nat Aging, DOI://10.1038/s43587-022-00248-2 (2022)
Micro-scale functional modules in the human temporal lobe Chapeton, JI; Wittig, JH; Inati, SK; Zaghloul, KA; , Nat Commun, DOI://10.1038/s41467-022-34018-w (2022)
Maternal caffeine intake and DNA methylation in newborn cord blood Polinski, KJ; Purdue-Smithe, A; Robinson, SL et al. Am J Clin Nutr, DOI://10.1093/ajcn/nqab348 (2022)
CT organ dose calculator size adaptive for pediatric and adult patients Lee, C; Yeom, YS; Folio, L; , Biomed Phys Eng Express, DOI://10.1088/2057-1976/ac9845 (2022)
Semi-automated assembly of high-quality diploid human reference genomes Jarvis, ED; Formenti, G; Rhie, A et al. Nature, DOI://10.1038/s41586-022-05325-5 (2022)
Impact of adjuvant: Trivalent vaccine with quadrivalent-like protection against heterologous Yamagata-lineage influenza B virus Myers, ML; Gallagher, JR; Woolfork, DD et al. Front Immunol, DOI://10.3389/fimmu.2022.1002286 (2022)
Single-shot 3D shape acquisition using a learning-based structured-light technique Nguyen, AH; Ly, KL; Qiong Li, C; Wang, Z; , Appl Opt, DOI://10.1364/AO.470208 (2022)
STING-induced regulatory B cells compromise NK function in cancer immunity Li, S; Mirlekar, B; Johnson, BM et al. Nature, DOI://10.1038/s41586-022-05254-3 (2022)

Design of a Protein with Improved Thermal Stability by an Evolution-Based Generative Model Tian, P; Lemaire, A; Sénéchal, F et al. Angew Chem Int Ed Engl, DOI://10.1002/anie.202202711 (2022)
Loss of CASZ1 tumor suppressor linked to oncogenic subversion of neuroblastoma core regulatory circuitry Liu, Z; Zhang, X; Xu, M et al. Cell Death Dis, DOI://10.1038/s41419-022-05314-6 (2022)
Ancestry-specific high-risk gene variant profiling unmasks diabetes-associated genes Zhang, J; Chen, W; Chen, G et al. Hum Mol Genet, DOI://10.1093/hmg/ddac255 (2022)
CellCallEXT: Analysis of Ligand-Receptor and Transcription Factor Activities in Cell-Cell Communication of Tumor Immune Microenvironment Gao, S; Feng, X; Wu, Z et al. Cancers (Basel), DOI://10.3390/cancers14194957 (2022)
Disentangling autoproteolytic cleavage from tethered agonist-dependent activation of the adhesion receptor ADGRL3 Perry-Hauser, NA; VanDyck, MW; Lee, KH et al. J Biol Chem, DOI://10.1016/j.jbc.2022.102594 (2022)
Clinical utility of family history of depression for prognosis of adolescent depression severity and duration assessed with predictive modeling Gorham, LS; Sadeghi, N; Eisner, L et al. J Child Psychol Psychiatry, DOI://10.1111/jcpp.13547 (2022)

Misconfigured striatal connectivity profiles in smokers Korponay, C; Stein, EA; Ross, TJ; , Neuropsychopharmacology, DOI://10.1038/s41386-022-01366-6 (2022)
A cerebellar-prepontine circuit for tonic immobility triggered by an inescapable threat Bhandiwad, AA; Chu, NC; Semenova, SA et al. Sci Adv, DOI://10.1126/sciadv.abo0549 (2022)
Protein kinase CK2 modulates the activity of Maf-family bZIP transcription factor NRL in rod photoreceptors of mammalian retina Liang, X; Yadav, SP; Batz, ZA et al. Hum Mol Genet, DOI://10.1093/hmg/ddac256 (2022)
High-resolution genome topology of human retina uncovers super enhancer-promoter interactions at tissue-specific and multifactorial disease loci Marchal, C; Singh, N; Batz, Z et al. Nat Commun, DOI://10.1038/s41467-022-33427-1 (2022)
A regulatory network of Sox and Six transcription factors initiate a cell fate transformation during hearing regeneration in adult zebrafish Jimenez, E; Slevin, CC; Song, W et al. Cell Genom, DOI://10.1016/j.xgen.2022.100170 (2022)
A miniature fluorescence microscope for multi-plane imaging Barbera, G; Jun, R; Zhang, Y et al. Sci Rep, DOI://10.1038/s41598-022-21022-9 (2022)

Fully Automated and Explainable Liver Segmental Volume Ratio and Spleen Segmentation at CT for Diagnosing Cirrhosis Lee, S; Elton, DC; Yang, AH et al. Radiol Artif Intell, DOI://10.1148/ryai.210268 (2022)
Setting Up a Better Infection: Overexpression of the Early Bacteriophage T4 Gene motB During Infection Results in a More Favorable tRNA Pool for the Phage Son, B; Patterson-West, J; Thompson, CO et al. Phage (New Rochelle), DOI://10.1089/phage.2022.0023 (2022)
Molecular and clinicopathologic characteristics of gliomas with EP300::BCOR fusions Wu, Z; Rajan, S; Chung, HJ et al. Acta Neuropathol, DOI://10.1007/s00401-022-02508-2 (2022)
TFSyntax: a database of transcription factors binding syntax in mammalian genomes Zhao, Y Nucleic Acids Res, DOI://10.1093/nar/gkac849 (2022)
"Stripe" transcription factors provide accessibility to co-binding partners in mammalian genomes Zhao, Y; Vartak, SV; Conte, A et al. Mol Cell, DOI://10.1016/j.molcel.2022.06.029 (2022)
Progression of prostate cancer reprograms MYC-mediated lipid metabolism via lysine methyltransferase 2A Whitlock, NC; White, ME; Capaldo, BJ et al. Discov Oncol, DOI://10.1007/s12672-022-00565-3 (2022)

Resolution of R-loops by topoisomerase III-β (TOP3B) in coordination with the DEAD-box helicase DDX5 Saha, S; Yang, X; Huang, SN et al. Cell Rep, DOI://10.1016/j.celrep.2022.111067 (2022)
Abdominal CT Body Composition Thresholds Using Automated AI Tools for Predicting 10-year Adverse Outcomes Lee, MH; Zea, R; Garrett, JW et al. Radiology, DOI://10.1148/radiol.220574 (2022)
HIV-1 Vpr suppresses expression of the thiazide-sensitive sodium chloride co-transporter in the distal convoluted tubule Shrivastav, S; Lee, H; Okamoto, K et al. PLoS One, DOI://10.1371/journal.pone.0273313 (2022)
An optimized bicistronic chimeric antigen receptor against GPC2 or CD276 overcomes heterogeneous expression in neuroblastoma Tian, M; Cheuk, AT; Wei, JS et al. J Clin Invest, DOI://10.1172/JCI155621 (2022)
Creatine riboside is a cancer cell-derived metabolite associated with arginine auxotrophy Parker, AL; Toulabi, L; Oike, T et al. J Clin Invest, DOI://10.1172/JCI157410 (2022)
OMA1 mediates local and global stress responses against protein misfolding in CHCHD10 mitochondrial myopathy Shammas, MK; Huang, X; Wu, BP et al. J Clin Invest, DOI://10.1172/JCI157504 (2022)

Single-cell sequencing reveals activation of core transcription factors in PRC2-deficient malignant peripheral nerve sheath tumor Zhang, X; Lou, HE; Gopalan, V et al. Cell Rep, DOI://10.1016/j.celrep.2022.111363 (2022)
Tea Consumption and All-Cause and Cause-Specific Mortality in the UK Biobank : A Prospective Cohort Study Inoue-Choi, M; Ramirez, Y; Cornelis, MC et al. Ann Intern Med, DOI://10.7326/M22-0041 (2022)
ADHD and its neurocognitive substrates: A two sample Mendelian randomization study Ahn, K; Norman, LJ; Justice, CM; Shaw, P; , Transl Psychiatry, DOI://10.1038/s41398-022-02139-x (2022)
HMI-PRED 2.0: a biologist-oriented web application for prediction of host-microbe protein-protein interaction by interface mimicry Lim, H; Tsai, CJ; Keskin, O et al. Bioinformatics, DOI://10.1093/bioinformatics/btac633 (2022)
Adding an Attention Layer Improves the Performance of a Neural Network Architecture for Synonymy Prediction in the UMLS Metathesaurus Nguyen, V; Bodenreider, O; , Stud Health Technol Inform, DOI://10.3233/SHTI220043 (2022)
Development of ultra-high affinity bivalent ligands targeting the polo-like kinase 1 Tsuji, K; Hymel, D; Ma, B et al. RSC Chem Biol, DOI://10.1039/d2cb00153e (2022)
Atlas of regulated target genes of transcription factors (ART-TF) in human ES cells Sharov, AA; Nakatake, Y; Wang, W; , BMC Bioinformatics, DOI://10.1186/s12859-022-04924-3 (2022)
Disruption of grin2B, an ASD-associated gene, produces social deficits in zebrafish Zoodsma, JD; Keegan, EJ; Moody, GR et al. Mol Autism, DOI://10.1186/s13229-022-00516-3 (2022)
Zrsr2 Is Essential for the Embryonic Development and Splicing of Minor Introns in RNA and Protein Processing Genes in Zebrafish Weinstein, R; Bishop, K; Broadbridge, E et al. Int J Mol Sci, DOI://10.3390/ijms231810668 (2022)
Multiple Nf1 Schwann cell populations reprogram the plexiform neurofibroma tumor microenvironment Kershner, LJ; Choi, K; Wu, J et al. JCI Insight, DOI://10.1172/jci.insight.154513 (2022)
Transcriptomic architecture of nuclei in the marmoset CNS Lin, JP; Kelly, HM; Song, Y et al. Nat Commun, DOI://10.1038/s41467-022-33140-z (2022)
Context-Enriched Learning Models for Aligning Biomedical Vocabularies at Scale in the UMLS Metathesaurus Nguyen, V; Yip, HY; Bajaj, G et al. Proc Int World Wide Web Conf, DOI://10.1145/3485447.3511946 (2022)

Turning coldspots into hotspots: targeted recruitment of axis protein Hop1 stimulates meiotic recombination in Saccharomyces cerevisiae Shodhan, A; Xaver, M; Wheeler, D; Lichten, M; , Genetics, DOI://10.1093/genetics/iyac106 (2022)
Association of a common genetic variant with Parkinson's disease is mediated by microglia Langston, RG; Beilina, A; Reed, X et al. Sci Transl Med, DOI://10.1126/scitranslmed.abp8869 (2022)
Glioma progression is shaped by genetic evolution and microenvironment interactions Varn, FS; Johnson, KC; Martinek, J et al. Cell, DOI://10.1016/j.cell.2022.04.038 (2022)
Anti-GD2 Antibodies Conjugated to IL15 and IL21 Mediate Potent Antitumor Cytotoxicity against Neuroblastoma Nguyen, R; Zhang, X; Sun, M et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-22-0717 (2022)
The oxidoreductase CLIC4 is required to maintain mitochondrial function and resistance to exogenous oxidants in breast cancer cells Al Khamici, H; Sanchez, VC; Yan, H et al. J Biol Chem, DOI://10.1016/j.jbc.2022.102275 (2022)
Evidence from "big data" for the default-mode hypothesis of ADHD: a mega-analysis of multiple large samples Norman, LJ; Sudre, G; Price, J et al. Neuropsychopharmacology, DOI://10.1038/s41386-022-01408-z (2022)

Germline-somatic JAK2 interactions are associated with clonal expansion in myelofibrosis Brown, DW; Zhou, W; Wang, Y et al. Nat Commun, DOI://10.1038/s41467-022-32986-7 (2022)
The astroglial and stem cell functions of adult rat folliculostellate cells Fletcher, PA; Smiljanic, K; Prévide, RM et al. Glia, DOI://10.1002/glia.24267 (2022)
Transcriptome-Wide Effects of NusA on RNA Polymerase Pausing in Bacillus subtilis Jayasinghe, OT; Mandell, ZF; Yakhnin, AV et al. J Bacteriol, DOI://10.1128/jb.00534-21 (2022)
Brain-wide functional connectivity of face patch neurons during rest Zaldivar, D; Koyano, KW; Ye, FQ et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2206559119 (2022)
Aging exacerbates the brain inflammatory micro-environment contributing to α-synuclein pathology and functional deficits in a mouse model of DLB/PD Iba, M; McDevitt, RA; Kim, C et al. Mol Neurodegener, DOI://10.1186/s13024-022-00564-6 (2022)
De novo frameshift mutation in YAP1 associated with bilateral uveal coloboma and microphthalmia DeYoung, C; Guan, B; Ullah, E et al. Ophthalmic Genet, DOI://10.1080/13816810.2022.2028299 (2022)

Longitudinal analysis reveals age-related changes in the T cell receptor repertoire of human T cell subsets Sun, X; Nguyen, T; Achour, A et al. J Clin Invest, DOI://10.1172/JCI158122 (2022)
Heterogeneity and transcriptome changes of human CD8+ T cells across nine decades of life Lu, J; Ahmad, R; Nguyen, T et al. Nat Commun, DOI://10.1038/s41467-022-32869-x (2022)
miRSCAPE - inferring miRNA expression from scRNA-seq data Olgun, G; Gopalan, V; Hannenhalli, S; , iScience, DOI://10.1016/j.isci.2022.104962 (2022)
Cannabinoid receptor 2 activation alleviates diabetes-induced cardiac dysfunction, inflammation, oxidative stress, and fibrosis Rajesh, M; Mukhopadhyay, P; Bátkai, S et al. Geroscience, DOI://10.1007/s11357-022-00565-9 (2022)
Disrupted control of origin activation compromises genome integrity upon destabilization of Polε and dysfunction of the TRP53-CDKN1A/P21 axis Borel, V; Boeing, S; Van Wietmarschen, N et al. Cell Rep, DOI://10.1016/j.celrep.2022.110871 (2022)
An alternative UPF1 isoform drives conditional remodeling of nonsense-mediated mRNA decay Fritz, SE; Ranganathan, S; Wang, CD; Hogg, JR; , EMBO J, DOI://10.15252/embj.2021108898 (2022)

Validation and Comparison of Radiograph-Based Organ Dose Reconstruction Approaches for Wilms Tumor Radiation Treatment Plans Wang, Z; Virgolin, M; Balgobind, BV et al. Adv Radiat Oncol, DOI://10.1016/j.adro.2022.101015 (2022)
Allosteric regulation of autoinhibition and activation of c-Abl Liu, Y; Zhang, M; Tsai, CJ et al. Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2022.08.014 (2022)
Mcm2 hypomorph leads to acute leukemia or hematopoietic stem cell failure, dependent on genetic context Matsukawa, T; Yin, M; Baslan, T et al. FASEB J, DOI://10.1096/fj.202200061RR (2022)
Recurrent ACVR1 mutations in posterior fossa ependymoma Pratt, D; Lucas, CG; Selvam, PP et al. Acta Neuropathol, DOI://10.1007/s00401-022-02435-2 (2022)
Heterozygous PRKN mutations are common but do not increase the risk of Parkinson's disease Zhu, W; Huang, X; Yoon, E et al. Brain, DOI://10.1093/brain/awab456 (2022)
An inactivated multivalent influenza A virus vaccine is broadly protective in mice and ferrets Park, J; Fong Legaspi, SL; Schwartzman, LM et al. Sci Transl Med, DOI://10.1126/scitranslmed.abo2167 (2022)
The oral microbiome and breast cancer and nonmalignant breast disease, and its relationship with the fecal microbiome in the Ghana Breast Health Study Wu, Z; Byrd, DA; Wan, Y et al. Int J Cancer, DOI://10.1002/ijc.34145 (2022)
The developmentally timed decay of an essential microRNA family is seed-sequence dependent Donnelly, BF; Yang, B; Grimme, AL et al. Cell Rep, DOI://10.1016/j.celrep.2022.111154 (2022)
Adoptive Cellular Therapy with Autologous Tumor-Infiltrating Lymphocytes and T-cell Receptor-Engineered T Cells Targeting Common p53 Neoantigens in Human Solid Tumors Kim, SP; Vale, NR; Zacharakis, N et al. Cancer Immunol Res, DOI://10.1158/2326-6066.CIR-22-0040 (2022)
BEND3 safeguards pluripotency by repressing differentiation-associated genes Kurniawan, F; Chetlangia, N; Kamran, M et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2107406119 (2022)
Enhancer looping protein LDB1 regulates hepatocyte gene expression by cooperating with liver transcription factors Liu, G; Wang, L; Wess, J; Dean, A; , Nucleic Acids Res, DOI://10.1093/nar/gkac707 (2022)
Machine Learning in Infectious Disease for Risk Factor Identification and Hypothesis Generation: Proof of Concept Using Invasive Candidiasis Mayer, LM; Strich, JR; Kadri, SS et al. Open Forum Infect Dis, DOI://10.1093/ofid/ofac401 (2022)

Anti-Fibrotic Potential of Tomentosenol A, a Constituent of Cerumen from the Australian Native Stingless Bee, Tetragonula carbonaria Hamilton, KD; Czajkowski, D; Kong, NJ et al. Antioxidants (Basel), DOI://10.3390/antiox11081604 (2022)
Accurately Identifying Cerebroarterial Stenosis from Angiography Reports Using Natural Language Processing Approaches Lin, CH; Hsu, KC; Liang, CK et al. Diagnostics (Basel), DOI://10.3390/diagnostics12081882 (2022)
Satellite glia modulate sympathetic neuron survival, activity, and autonomic function Mapps, AA; Boehm, E; Beier, C et al. Elife, DOI://10.7554/eLife.74295 (2022)
Gain-of-function mutations in ALPK1 cause an NF-κB-mediated autoinflammatory disease: functional assessment, clinical phenotyping and disease course of patients with ROSAH syndrome Kozycki, CT; Kodati, S; Huryn, L et al. Ann Rheum Dis, DOI://10.1136/annrheumdis-2022-222629 (2022)
Dynamic model of monovalent-divalent cation exchange in polyelectrolyte gels Matan Mussel, Owen Lewis, Peter J. Basser, and Ferenc Horkay Phys. Rev. Materials 6:035602 (2022)
The NIMH intramural healthy volunteer dataset: A comprehensive MEG, MRI, and behavioral resource Nugent, AC; Thomas, AG; Mahoney, M et al. Sci Data, DOI://10.1038/s41597-022-01623-9 (2022)

MHC-independent αβT cells: Lessons learned about thymic selection and MHC-restriction Van Laethem, F; Bhattacharya, A; Craveiro, M et al. Front Immunol, DOI://10.3389/fimmu.2022.953160 (2022)
Inhibitor of DNA binding proteins revealed as orchestrators of steady state, stress and malignant hematopoiesis Singh, S; Sarkar, T; Jakubison, B et al. Front Immunol, DOI://10.3389/fimmu.2022.934624 (2022)
Molecular dynamics study of the swelling and osmotic properties of compact nanogel particles Chremos, A; Douglas, JF; Basser, PJ; Horkay, F; , Soft Matter, DOI://10.1039/d2sm00681b (2022)
A multi-layer functional genomic analysis to understand noncoding genetic variation in lipids Ramdas, S; Judd, J; Graham, SE et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2022.06.012 (2022)
Direct epitranscriptomic regulation of mammalian translation initiation through N4-acetylcytidine Arango, D; Sturgill, D; Yang, R et al. Mol Cell, DOI://10.1016/j.molcel.2022.05.016 (2022)
Genetic loci and prioritization of genes for kidney function decline derived from a meta-analysis of 62 longitudinal genome-wide association studies Gorski, M; Rasheed, H; Teumer, A et al. Kidney Int, DOI://10.1016/j.kint.2022.05.021 (2022)

Transcription factors TCF-1 and GATA3 are key factors for the epigenetic priming of early innate lymphoid progenitors toward distinct cell fates Ren, G; Lai, B; Harly, C et al. Immunity, DOI://10.1016/j.immuni.2022.06.019 (2022)
The amyloid concentric β-barrel hypothesis: Models of amyloid beta 42 oligomers and annular protofibrils Durell, SR; Kayed, R; Guy, HR; , Proteins, DOI://10.1002/prot.26301 (2022)
Ultra-slow fMRI fluctuations in the fourth ventricle as a marker of drowsiness Gonzalez-Castillo, J; Fernandez, IS; Handwerker, DA; Bandettini, PA; , Neuroimage, DOI://10.1016/j.neuroimage.2022.119424 (2022)
Brain charts for the human lifespan Bethlehem, RAI; Seidlitz, J; White, SR et al. Nature, DOI://10.1038/s41586-022-04554-y (2022)
scPCOR-seq enables co-profiling of chromatin occupancy and RNAs in single cells Pan, L; Ku, WL; Tang, Q et al. Commun Biol, DOI://10.1038/s42003-022-03584-6 (2022)
IL27 Signaling Serves as an Immunologic Checkpoint for Innate Cytotoxic Cells to Promote Hepatocellular Carcinoma Aghayev, T; Mazitova, AM; Fang, JR et al. Cancer Discov, DOI://10.1158/2159-8290.CD-20-1628 (2022)

Comprehensive short and long read sequencing analysis for the Gaucher and Parkinson's disease-associated GBA gene Toffoli, M; Chen, X; Sedlazeck, FJ et al. Commun Biol, DOI://10.1038/s42003-022-03610-7 (2022)
Cross-species identification of cancer resistance-associated genes that may mediate human cancer risk Nair, NU; Cheng, K; Naddaf, L et al. Sci Adv, DOI://10.1126/sciadv.abj7176 (2022)
Assessment of Androgen Receptor Splice Variant-7 as a Biomarker of Clinical Response in Castration-Sensitive Prostate Cancer Sowalsky, AG; Figueiredo, I; Lis, RT et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-22-0851 (2022)
An epigenome atlas of neural progenitors within the embryonic mouse forebrain Rhodes, CT; Thompson, JJ; Mitra, A et al. Nat Commun, DOI://10.1038/s41467-022-31793-4 (2022)
Multi-ancestry genetic study of type 2 diabetes highlights the power of diverse populations for discovery and translation Mahajan, A; Spracklen, CN; Zhang, W et al. Nat Genet, DOI://10.1038/s41588-022-01058-3 (2022)
Chromatin structure undergoes global and local reorganization during murine dendritic cell development and activation Kurotaki, D; Kikuchi, K; Cui, K et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2207009119 (2022)

NURF301 contributes to gypsy chromatin insulator-mediated nuclear organization Chen, S; Rosin, LF; Pegoraro, G et al. Nucleic Acids Res, DOI://10.1093/nar/gkac600 (2022)
Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly Li, H; Janssens, J; De Waegeneer, M et al. Science, DOI://10.1126/science.abk2432 (2022)
Reusable Single Cell for Iterative Epigenomic Analyses Ohnuki, H; Venzon, DJ; Lobanov, A; Tosato, G; , J Vis Exp, DOI://10.3791/63456 (2022)
A Cascaded Deep Learning-Based Artificial Intelligence Algorithm for Automated Lesion Detection and Classification on Biparametric Prostate Magnetic Resonance Imaging Mehralivand, S; Yang, D; Harmon, SA et al. Acad Radiol, DOI://10.1016/j.acra.2021.08.019 (2022)
Late-onset Proteus syndrome with cerebriform connective tissue nevus and subsequent development of intraductal papilloma Modlin, EW; Slavotinek, AM; Darling, TN et al. Am J Med Genet A, DOI://10.1002/ajmg.a.62761 (2022)
Genome-wide regulation of KSHV RNA splicing by viral RNA-binding protein ORF57 Majerciak, V; Alvarado-Hernandez, B; Lobanov, A et al. PLoS Pathog, DOI://10.1371/journal.ppat.1010311 (2022)

Causes and functional intricacies of inter- and intratumor heterogeneity of primary liver cancers Khatib, SA; Wang, XW; , Adv Cancer Res, DOI://10.1016/bs.acr.2022.01.006 (2022)
Cross-ancestry genome-wide meta-analysis of 61,047 cases and 947,237 controls identifies new susceptibility loci contributing to lung cancer Byun, J; Han, Y; Li, Y et al. Nat Genet, DOI://10.1038/s41588-022-01115-x (2022)
Flipped over U: structural basis for dsRNA cleavage by the SARS-CoV-2 endoribonuclease Frazier, MN; Wilson, IM; Krahn, JM et al. Nucleic Acids Res, DOI://10.1093/nar/gkac589 (2022)
Sex-specific transcriptome differences in a middle-aged frailty cohort Pacheco, NL; Noren Hooten, N; Zhang, Y et al. BMC Geriatr, DOI://10.1186/s12877-022-03326-7 (2022)
Reversal of the T cell immune system reveals the molecular basis for T cell lineage fate determination in the thymus Shinzawa, M; Moseman, EA; Gossa, S et al. Nat Immunol, DOI://10.1038/s41590-022-01187-1 (2022)
Intestinal microbiota signatures of clinical response and immune-related adverse events in melanoma patients treated with anti-PD-1 McCulloch, JA; Davar, D; Rodrigues, RR et al. Nat Med, DOI://10.1038/s41591-022-01698-2 (2022)
Disorders of ubiquitylation: unchained inflammation Beck, DB; Werner, A; Kastner, DL; Aksentijevich, I; , Nat Rev Rheumatol, DOI://10.1038/s41584-022-00778-4 (2022)
Single-cell biology uncovers apoptotic cell death and its spatial organization as a potential modifier of tumor diversity in HCC Khatib, SA; Ma, L; Dang, H et al. Hepatology, DOI://10.1002/hep.32345 (2022)
Questionnaire-based exposome-wide association studies (ExWAS) reveal expected and novel risk factors associated with cardiovascular outcomes in the Personalized Environment and Genes Study Lee, EY; Akhtari, F; House, JS et al. Environ Res, DOI://10.1016/j.envres.2022.113463 (2022)
FOXM1 network in association with TREM1 suppression regulates NET formation in diabetic foot ulcers Sawaya, AP; Stone, RC; Mehdizadeh, S et al. EMBO Rep, DOI://10.15252/embr.202154558 (2022)
Disorder in Ca2+ release unit locations confers robustness but cuts flexibility of heart pacemaking Maltsev, AV; Stern, MD; Maltsev, VA; , J Gen Physiol, DOI://10.1085/jgp.202113061 (2022)
Insights From a Large-Scale Whole-Genome Sequencing Study of Systolic Blood Pressure, Diastolic Blood Pressure, and Hypertension Kelly, TN; Sun, X; He, KY et al. Hypertension, DOI://10.1161/HYPERTENSIONAHA.122.19324 (2022)
Malignant melanocytic schwannian tumor and leptomeningeal disease: A case series with a focus on management Woodford, R; Prather, L; Helfer, C et al. J Neurol Sci, DOI://10.1016/j.jns.2022.120291 (2022)
Pulmonary Function and Blood DNA Methylation: A Multiancestry Epigenome-Wide Association Meta-analysis Lee, M; Huan, T; McCartney, DL et al. Am J Respir Crit Care Med, DOI://10.1164/rccm.202108-1907OC (2022)
A deeper insight into the sialome of male and female Ochlerotatus triseriatus mosquitoes Lu, S; Martin-Martin, I; Ribeiro, JM; Calvo, E; , Insect Biochem Mol Biol, DOI://10.1016/j.ibmb.2022.103800 (2022)
Genetic regulation of OAS1 nonsense-mediated decay underlies association with COVID-19 hospitalization in patients of European and African ancestries Banday, AR; Stanifer, ML; Florez-Vargas, O et al. Nat Genet, DOI://10.1038/s41588-022-01113-z (2022)
Epigenetic Reprogramming Leads to Downregulation of CD4 and Functional Changes in African Green Monkey Memory CD4 + T Cells Rahmberg, AR; Markowitz, TE; Mudd, JC et al. J Immunol, DOI://10.4049/jimmunol.2200109 (2022)
Single-Cell Analysis of the Transcriptome and Epigenome Mazan-Mamczarz, K; Ha, J; De, S; Sen, P; , Methods Mol Biol, DOI://10.1007/978-1-0716-1831-8_3 (2022)
The oral microbiome and lung cancer risk: An analysis of 3 prospective cohort studies Vogtmann, E; Hua, X; Yu, G et al. J Natl Cancer Inst, DOI://10.1093/jnci/djac149 (2022)
Novel GLCCI1-BRAF fusion drives kinase signaling in a case of pheochromocytomatosis Green, BL; Grant, RRC; Richie, CT et al. Eur J Endocrinol, DOI://10.1530/EJE-21-0797 (2022)
Neoantigen Identification and Response to Adoptive Cell Transfer in Anti-PD-1 Naïve and Experienced Patients with Metastatic Melanoma Levi, ST; Copeland, AR; Nah, S et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-21-4499 (2022)
Clonal hematopoiesis in patients with ANKRD26 or ETV6 germline mutations Drazer, MW; Homan, CC; Yu, K et al. Blood Adv, DOI://10.1182/bloodadvances.2022007211 (2022)
Gene-level association analysis of ordinal traits with functional ordinal logistic regressions Chiu, CY; Wang, S; Zhang, B et al. Genet Epidemiol, DOI://10.1002/gepi.22451 (2022)
Emergence of Irregular Activity in Networks of Strongly Coupled Conductance-Based Neurons Sanzeni, A; Histed, MH; Brunel, N; Phys Rev X, DOI://10.1103/physrevx.12.011044 (2022)

Cholesterol Binds the Amphipathic Helix of IFITM3 and Regulates Antiviral Activity Rahman, K; Datta, SAK; Beaven, AH et al. J Mol Biol, DOI://10.1016/j.jmb.2022.167759 (2022)
Causal and putative pathogenic mutations identified in 39% of children with primary steroid-resistant nephrotic syndrome in South Africa Nandlal, L; Winkler, CA; Bhimma, R et al. Eur J Pediatr, DOI://10.1007/s00431-022-04581-x (2022)
ID2 and HIF-1α collaborate to protect quiescent hematopoietic stem cells from activation, differentiation, and exhaustion Jakubison, BL; Sarkar, T; Gudmundsson, KO et al. J Clin Invest, DOI://10.1172/JCI152599 (2022)
Whole Genome DNA and RNA Sequencing of Whole Blood Elucidates the Genetic Architecture of Gene Expression Underlying a Wide Range of Diseases Liu, C; Joehanes, R; Ma, J et al. Res Sq, DOI://10.21203/rs.3.rs-1598646/v1 (2022)
Polyoxovanadates as new P-glycoprotein inhibitors: insights into the mechanism of inhibition Kita, DH; de Andrade, GA; Missina, JM et al. FEBS Lett, DOI://10.1002/1873-3468.14265 (2022)
Large-scale mapping of positional changes of hypoxia-responsive genes upon activation Nakayama, K; Shachar, S; Finn, EH et al. Mol Biol Cell, DOI://10.1091/mbc.E21-11-0593 (2022)
Breast Cancers Are Immunogenic: Immunologic Analyses and a Phase II Pilot Clinical Trial Using Mutation-Reactive Autologous Lymphocytes Zacharakis, N; Huq, LM; Seitter, SJ et al. J Clin Oncol, DOI://10.1200/JCO.21.02170 (2022)
M6A RNA Methylation Regulates Histone Ubiquitination to Support Cancer Growth and Progression Yadav, P; Subbarayalu, P; Medina, D et al. Cancer Res, DOI://10.1158/0008-5472.CAN-21-2106 (2022)
Integrative analysis of clinical and epigenetic biomarkers of mortality Huan, T; Nguyen, S; Colicino, E et al. Aging Cell, DOI://10.1111/acel.13608 (2022)
Repeat expansions nested within tandem CNVs: A unique structural change in GLS exemplifies the diagnostic challenges of non-coding pathogenic variation Fazal, S; Danzi, MC; van Kuilenburg, ABP et al. Hum Mol Genet, DOI://10.1093/hmg/ddac173 (2022)
Magnetoencephalographic correlates of mood and reward dynamics in human adolescents Liuzzi, L; Chang, KK; Zheng, C et al. Cereb Cortex, DOI://10.1093/cercor/bhab417 (2022)
MicrobiomeGWAS: A Tool for Identifying Host Genetic Variants Associated with Microbiome Composition Hua, X; Song, L; Yu, G et al. Genes (Basel), DOI://10.3390/genes13071224 (2022)

Role of Lysosomal Gene Variants in Modulating GBA-Associated Parkinson's Disease Risk Straniero, L; Rimoldi, V; Monfrini, E et al. Mov Disord, DOI://10.1002/mds.28987 (2022)
Oxysterol derivatives Oxy186 and Oxy210 inhibit WNT signaling in non-small cell lung cancer Tang, LY; Spezia, M; Chen, T et al. Cell Biosci, DOI://10.1186/s13578-022-00857-9 (2022)
Identification of Daboia siamensis venome using integrated multi-omics data Saethang, T; Somparn, P; Payungporn, S et al. Sci Rep, DOI://10.1038/s41598-022-17300-1 (2022)
Arsenic Exposure, Blood DNA Methylation, and Cardiovascular Disease Domingo-Relloso, A; Makhani, K; Riffo-Campos, AL et al. Circ Res, DOI://10.1161/CIRCRESAHA.122.320991 (2022)
Identification of genomic determinants contributing to cytokine release in immunotherapies and human diseases Shao, L; Pelayo, A; Shi, R et al. J Transl Med, DOI://10.1186/s12967-022-03531-3 (2022)
Cavβ1 regulates T cell expansion and apoptosis independently of voltage-gated Ca2+ channel function Erdogmus, S; Concepcion, AR; Yamashita, M et al. Nat Commun, DOI://10.1038/s41467-022-29725-3 (2022)

Unravelling the distinct biological functions and potential therapeutic applications of TIMP2 in cancer Peeney, D; Liu, Y; Lazaroff, C et al. Carcinogenesis, DOI://10.1093/carcin/bgac037 (2022)
NuRD complex recruitment to Thpok mediates CD4 + T cell lineage differentiation Gao, Y; Zamisch, M; Vacchio, M et al. Sci Immunol, DOI://10.1126/sciimmunol.abn5917 (2022)
Single-cell transcriptome and accessible chromatin dynamics during endocrine pancreas development Duvall, E; Benitez, CM; Tellez, K et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2201267119 (2022)
High-resolution structures of the SAMHD1 dGTPase homolog from Leeuwenhoekiella blandensis reveal a novel mechanism of allosteric activation by dATP Klemm, BP; Sikkema, AP; Hsu, AL et al. J Biol Chem, DOI://10.1016/j.jbc.2022.102073 (2022)
Predicting cancer immunotherapy response from gut microbiomes using machine learning models Liang, H; Jo, JH; Zhang, Z et al. Oncotarget, DOI://10.18632/oncotarget.28252 (2022)
Extensive co-binding and rapid redistribution of NANOG and GATA6 during emergence of divergent lineages Thompson, JJ; Lee, DJ; Mitra, A et al. Nat Commun, DOI://10.1038/s41467-022-31938-5 (2022)

Spatial meta-transcriptomics reveal associations of intratumor bacteria burden with lung cancer cells showing a distinct oncogenic signature Wong-Rolle, A; Dong, Q; Zhu, Y et al. J Immunother Cancer, DOI://10.1136/jitc-2022-004698 (2022)
Non-synergy of PD-1 blockade with T-cell therapy in solid tumors Davies, JS; Karimipour, F; Zhang, L et al. J Immunother Cancer, DOI://10.1136/jitc-2022-004906 (2022)
Strong and weak cross-inheritance of substance use disorders in a nationally representative sample Zhang, H; Grant, BF; Hodgkinson, CA et al. Mol Psychiatry, DOI://10.1038/s41380-021-01370-0 (2022)
Lipid Peroxidation Induced ApoE Receptor-Ligand Disruption as a Unifying Hypothesis Underlying Sporadic Alzheimer's Disease in Humans Ramsden, CE; Keyes, GS; Calzada, E et al. J Alzheimers Dis, DOI://10.3233/JAD-220071 (2022)
IQ Modulates Coupling Between Diverse Dimensions of Psychopathology in Children and Adolescents Mahony, BW; Tu, D; Rau, S et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2022.06.015 (2022)
Clonal Hematopoiesis Is Not Significantly Associated with Covid-19 Disease Severity Zhou, Y; Shalhoub, RN; Rogers, SN et al. Blood, DOI://10.1182/blood.2022015721 (2022)

C3-Symmetric Aromatic Core of Griffithsin Is Essential for Potent Anti-HIV Activity Sun, J; Zhao, G; Bylund, T et al. ACS Chem Biol, DOI://10.1021/acschembio.1c00990 (2022)
Distinct functions of three chromatin remodelers in activator binding and preinitiation complex assembly Rawal, Y; Qiu, H; Hinnebusch, AG; , PLoS Genet, DOI://10.1371/journal.pgen.1010277 (2022)
Design principles of PI(4,5)P 2 clustering under protein-free conditions: Specific cation effects and calcium-potassium synergy Han, K; Kim, SH; Venable, RM; Pastor, RW; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2202647119 (2022)
Pruning recurrent neural networks replicates adolescent changes in working memory and reinforcement learning Averbeck, BB Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2121331119 (2022)
Coding and Noncoding Variation in LRRK2 and Parkinson's Disease Risk Lake, J; Reed, X; Langston, RG et al. Mov Disord, DOI://10.1002/mds.28787 (2022)
HNRNPH1 destabilizes the G-quadruplex structures formed by G-rich RNA sequences that regulate the alternative splicing of an oncogenic fusion transcript Vo, T; Brownmiller, T; Hall, K et al. Nucleic Acids Res, DOI://10.1093/nar/gkac409 (2022)
DNA methyltransferase 3B-mediated intra-tumoral heterogeneity and therapeutic targeting in breast cancer recurrence and metastasis So, JY; Yang, HH; Park, WY et al. Mol Cancer Res, DOI://10.1158/1541-7786.MCR-21-0887 (2022)
Single-Cell Analysis Reveals the Range of Transcriptional States of Circulating Human Neutrophils Wigerblad, G; Cao, Q; Brooks, S et al. J Immunol, DOI://10.4049/jimmunol.2200154 (2022)
Studies of a mosaic patient with DBA and chimeric mice reveal erythroid cell-extrinsic contributions to erythropoiesis Doty, RT; Fan, X; Young, DJ et al. Blood, DOI://10.1182/blood.2021013507 (2022)
Hemogen/BRG1 cooperativity modulates promoter and enhancer activation during erythropoiesis Guo, X; Zhao, Y; Kim, J; Dean, A; , Blood, DOI://10.1182/blood.2021014308 (2022)
A Path-Based Analysis of Infected Cell Line and COVID-19 Patient Transcriptome Reveals Novel Potential Targets and Drugs Against SARS-CoV-2 Agrawal, P; Sambaturu, N; Olgun, G; Hannenhalli, S; , Front Immunol, DOI://10.3389/fimmu.2022.918817 (2022)
Computational simulations reveal that Abl activity controls cohesiveness of actin networks in growth cones Chandrasekaran, A; Clarke, A; McQueen, P et al. Mol Biol Cell, DOI://10.1091/mbc.E21-11-0535 (2022)

The structural basis of BCR-ABL recruitment of GRB2 in chronic myelogenous leukemia Liu, Y; Jang, H; Zhang, M et al. Biophys J, DOI://10.1016/j.bpj.2022.05.030 (2022)
Finite-Size Effects in Simulations of Peptide/Lipid Assembly Jarin, Z; Agolini, O; Pastor, RW; , J Membr Biol, DOI://10.1007/s00232-022-00255-9 (2022)
Folic acid-mediated fibrosis is driven by C5a receptor 1-mediated activation of kidney myeloid cells Sahu, RK; Xavier, S; Chauss, D et al. Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00404.2021 (2022)
Bma-LAD-2, an Intestinal Cell Adhesion Protein, as a Potential Therapeutic Target for Lymphatic Filariasis Flynn, AF; Taylor, RT; Pazgier, ME et al. mBio, DOI://10.1128/mbio.03742-21 (2022)
Identification of Distinct Inflammatory Programs and Biomarkers in Systemic Juvenile Idiopathic Arthritis and Related Lung Disease by Serum Proteome Analysis Chen, G; Deutsch, GH; Schulert, GS et al. Arthritis Rheumatol, DOI://10.1002/art.42099 (2022)
BioRED: a rich biomedical relation extraction dataset Luo, L; Lai, PT; Wei, CH et al. Brief Bioinform, DOI://10.1093/bib/bbac282 (2022)

Global changes in diffusion tensor imaging during acute ischemic stroke and post-stroke cognitive performance Kern, KC; Wright, CB; Leigh, R; , J Cereb Blood Flow Metab, DOI://10.1177/0271678X221101644 (2022)
Structural and catalytic analyses of the InsP 6 kinase activities of higher plant ITPKs Zong, G; Shears, SB; Wang, H; , FASEB J, DOI://10.1096/fj.202200393R (2022)
Selective A 3 Adenosine Receptor Antagonist Radioligand for Human and Rodent Species Suresh, RR; Gao, ZG; Salmaso, V et al. ACS Med Chem Lett, DOI://10.1021/acsmedchemlett.1c00685 (2022)
A molecularly integrated grade for meningioma Driver, J; Hoffman, SE; Tavakol, S et al. Neuro Oncol, DOI://10.1093/neuonc/noab213 (2022)
Dependence on Bcl6 and Blimp1 drive distinct differentiation of murine memory and follicular helper CD4+ T cells Ciucci, T; Vacchio, MS; Chen, T et al. J Exp Med, DOI://10.1084/jem.20202343 (2022)
Novel MAPK/AKT-impairing germline NRAS variant identified in a melanoma-prone family Brown, KM; Xu, M; Sargen, M et al. Fam Cancer, DOI://10.1007/s10689-021-00267-9 (2022)
Reply to Wang et al., "Assessment of the Abundance and Potential Function of Human Papillomavirus Type 16 Circular E7 RNA" Yu, L; Lobanov, A; Zheng, ZM; , mBio, DOI://10.1128/mbio.00758-22 (2022)
Mucus sialylation determines intestinal host-commensal homeostasis Yao, Y; Kim, G; Shafer, S et al. Cell, DOI://10.1016/j.cell.2022.02.013 (2022)
P-glycoprotein Mediates Resistance to the Anaplastic Lymphoma Kinase Inhiitor Ensartinib in Cancer Cells Wu, CP; Hung, CY; Murakami, M et al. Cancers (Basel), DOI://10.3390/cancers14092341 (2022)
Host CLIC4 expression in the tumor microenvironment is essential for breast cancer metastatic competence Sanchez, VC; Yang, HH; Craig-Lucas, A et al. PLoS Genet, DOI://10.1371/journal.pgen.1010271 (2022)
Non-invasive in situ visualization of the murine cranial vasculature Rosenblum, JS; Cappadona, AJ; Lookian, PP et al. Cell Rep Methods, DOI://10.1016/j.crmeth.2021.100151 (2022)
ABCA4 c.859-25A>G, a Frequent Palestinian Founder Mutation Affecting the Intron 7 Branchpoint, Is Associated With Early-Onset Stargardt Disease Corradi, Z; Salameh, M; Khan, M et al. Invest Ophthalmol Vis Sci, DOI://10.1167/iovs.63.4.20 (2022)

Autocrine Canonical Wnt Signaling Primes Noncanonical Signaling through ROR1 in Metastatic Castration-Resistant Prostate Cancer Ma, F; Arai, S; Wang, K et al. Cancer Res, DOI://10.1158/0008-5472.CAN-21-1807 (2022)
Human constitutive androstane receptor represses liver cancer development and hepatoma cell proliferation by inhibiting erythropoietin signaling Li, Z; Kwon, SM; Li, D et al. J Biol Chem, DOI://10.1016/j.jbc.2022.101885 (2022)
Astroblastomas exhibit radial glia stem cell lineages and differential expression of imprinted and X-inactivation escape genes Lehman, NL; Spassky, N; Sak, M et al. Nat Commun, DOI://10.1038/s41467-022-29302-8 (2022)
A complete pedigree-based graph workflow for rare candidate variant analysis Markello, C; Huang, C; Rodriguez, A et al. Genome Res, DOI://10.1101/gr.276387.121 (2022)
Associations of carotid intima media thickness with gene expression in whole blood and genetically predicted gene expression across 48 tissues Castaneda, AB; Petty, LE; Scholz, M et al. Hum Mol Genet, DOI://10.1093/hmg/ddab236 (2022)
Redefining the Foreign Antigen and Self-Driven Memory CD4+ T-Cell Compartments via Transcriptomic, Phenotypic, and Functional Analyses Kawabe, T; Ciucci, T; Kim, KS et al. Front Immunol, DOI://10.3389/fimmu.2022.870542 (2022)

Dromedary camel nanobodies broadly neutralize SARS-CoV-2 variants Hong, J; Kwon, HJ; Cachau, R et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2201433119 (2022)
DNA-PK promotes DNA end resection at DNA double strand breaks in G0 cells Fowler, FC; Chen, BR; Zolnerowich, N et al. Elife, DOI://10.7554/eLife.74700 (2022)
Cardiovascular disease protein biomarkers are associated with kidney function: The Framingham Heart Study Keshawarz, A; Hwang, SJ; Lee, GY et al. PLoS One, DOI://10.1371/journal.pone.0268293 (2022)
The CD8α hinge is intrinsically disordered with a dynamic exchange that includes proline cis-trans isomerization Chen, X; Mirazee, JM; Skorupka, KA et al. J Magn Reson, DOI://10.1016/j.jmr.2022.107234 (2022)
Characterization of Immunogenicity of Malignant Cells with Stemness in Intrahepatic Cholangiocarcinoma by Single-Cell RNA Sequencing Bian, J; Fu, J; Wang, X et al. Stem Cells Int, DOI://10.1155/2022/3558200 (2022)
Dataset of high-throughput ligand screening against the RNA Packaging Signals regulating Hepatitis B Virus nucleocapsid formation Abulwerdi, F; Fatehi, F; Manfield, IW et al. Data Brief, DOI://10.1016/j.dib.2022.108206 (2022)
Association of Pathogenic Variants in Hereditary Cancer Genes With Multiple Diseases Zeng, C; Bastarache, LA; Tao, R et al. JAMA Oncol, DOI://10.1001/jamaoncol.2022.0373 (2022)
A structural exposé of noncanonical molecular reactivity within the protein tyrosine phosphatase WPD loop Wang, H; Perera, L; Jork, N et al. Nat Commun, DOI://10.1038/s41467-022-29673-y (2022)
Fully Automated Abdominal CT Biomarkers for Type 2 Diabetes Using Deep Learning Tallam, H; Elton, DC; Lee, S et al. Radiology, DOI://10.1148/radiol.211914 (2022)
Hierarchical length and sequence preferences establish a single major piRNA 3'-end Stoyko, D; Genzor, P; Haase, AD; , iScience, DOI://10.1016/j.isci.2022.104427 (2022)
Multiple modes of antigen exposure induce clonotypically diverse epitope-specific CD8+ T cells across multiple tissues in nonhuman primates Simpson, J; Starke, CE; Ortiz, AM et al. PLoS Pathog, DOI://10.1371/journal.ppat.1010611 (2022)
Butyrate administration is not sufficient to improve immune reconstitution in antiretroviral-treated SIV-infected macaques Ortiz, AM; Simpson, J; Langner, CA et al. Sci Rep, DOI://10.1038/s41598-022-11122-x (2022)

Functional Heterogeneity of Cell Populations Increases Robustness of Pacemaker Function in a Numerical Model of the Sinoatrial Node Tissue Maltsev, AV; Stern, MD; Lakatta, EG; Maltsev, VA; , Front Physiol, DOI://10.3389/fphys.2022.845634 (2022)
Sex-specific placental gene expression signatures of small for gestational age at birth Chatterjee, S; Zeng, X; Ouidir, M et al. Placenta, DOI://10.1016/j.placenta.2022.03.004 (2022)
Bayesian analysis of dynamic phosphoproteomic data identifies protein kinases mediating GPCR responses Leo, KT; Chou, CL; Yang, CR et al. Cell Commun Signal, DOI://10.1186/s12964-022-00892-6 (2022)
Postmitotic G1 phase survivin drives mitogen-independent cell division of B lymphocytes Singh, A; Spitzer, MH; Joy, JP et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2115567119 (2022)
Acquired Disorder and Asymmetry in a Domain-Swapped Model for γ-Crystallin Aggregation Sagar, V; Wistow, G; , J Mol Biol, DOI://10.1016/j.jmb.2022.167559 (2022)
Plasticity in structure and assembly of SARS-CoV-2 nucleocapsid protein Zhao, H; Nguyen, A; Wu, D et al. PNAS Nexus, DOI://10.1093/pnasnexus/pgac049 (2022)

Predominant Founder Effect among Recurrent Pathogenic Variants for an X-Linked Disorder Bender, C; Woo, EG; Guan, B et al. Genes (Basel), DOI://10.3390/genes13040675 (2022)
Computational modeling of threat learning reveals links with anxiety and neuroanatomy in humans Abend, R; Burk, D; Ruiz, SG et al. Elife, DOI://10.7554/eLife.66169 (2022)
Cryo-EM structure of anchorless RML prion reveals variations in shared motifs between distinct strains Hoyt, F; Standke, HG; Artikis, E et al. Nat Commun, DOI://10.1038/s41467-022-30458-6 (2022)
On-scalp magnetocorticography with optically pumped magnetometers: Simulated performance in resolving simultaneous sources Nugent, AC; Benitez Andonegui, A; Holroyd, T; Robinson, SE; , Neuroimage Rep, DOI://10.1016/j.ynirp.2022.100093 (2022)
Patagonian sheepdog: Genomic analyses trace the footprints of extinct UK herding dogs to South America Barrios, N; González-Lagos, C; Dreger, DL et al. PLoS Genet, DOI://10.1371/journal.pgen.1010160 (2022)
APOE gene region methylation is associated with cognitive performance in middle-aged urban adults Shen, B; Hernandez, DG; Chitrala, KN et al. Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2022.03.010 (2022)

Checkpoint Inhibitors Modulate Plasticity of Innate Lymphoid Cells in Peripheral Blood of Patients With Hepatocellular Carcinoma Heinrich, B; Ruf, B; Subramanyam, V et al. Front Immunol, DOI://10.3389/fimmu.2022.849958 (2022)
Unraveling the Treatment Effect of Baricitinib on Clinical Progression and Resource Utilization in Hospitalized COVID-19 Patients: Secondary Analysis of the Adaptive COVID-19 Treatment Randomized Trial-2 Fintzi, J; Bonnett, T; Tebas, P et al. Open Forum Infect Dis, DOI://10.1093/ofid/ofac219 (2022)
Scoping review and classification of deep learning in medical genetics Ledgister Hanchard, SE; Dwyer, MC; Liu, S et al. Genet Med, DOI://10.1016/j.gim.2022.04.025 (2022)
A Genome-First Approach to Estimate Prevalence of Germline Pathogenic Variants and Risk of Pancreatic Cancer in Select Cancer Susceptibility Genes Astiazaran-Symonds, E; Kim, J; Haley, JS et al. Cancers (Basel), DOI://10.3390/cancers14133257 (2022)
A dual-activity topoisomerase complex regulates mRNA translation and turnover Su, S; Xue, Y; Sharov, A et al. Nucleic Acids Res, DOI://10.1093/nar/gkac538 (2022)
Durable response in a patient with recurrent respiratory papillomatosis treated with immune checkpoint blockade Bai, K; Norberg, SM; Sievers, C et al. Head Neck, DOI://10.1002/hed.27144 (2022)
Question-aware transformer models for consumer health question summarization Yadav, S; Gupta, D; Abacha, AB; Demner-Fushman, D; , J Biomed Inform, DOI://10.1016/j.jbi.2022.104040 (2022)
Dentithecamides A-H, Diacylated Zoanthoxanthin Derivatives with PAX3-FOXO1 Inhibitory Activity from the Hydroid Dentitheca habereri Jiang, W; Tian, X; Wang, D et al. J Nat Prod, DOI://10.1021/acs.jnatprod.2c00246 (2022)
GRN Mutations Are Associated with Lewy Body Dementia Reho, P; Koga, S; Shah, Z et al. Mov Disord, DOI://10.1002/mds.29144 (2022)
DiffChIPL: A differential peak analysis method for high throughput sequencing data with biological replicates based on limma Chen, Y; Chen, S; Lei, EP; , Bioinformatics, DOI://10.1093/bioinformatics/btac498 (2022)
Translation of cytoplasmic UBA1 contributes to VEXAS syndrome pathogenesis Ferrada, MA; Savic, S; Ospina Cardona, D et al. Blood, DOI://10.1182/blood.2022016985 (2022)
Dysregulation of Hepatitis B Virus Nucleocapsid Assembly in vitro by RNA-binding Small Ligands Patel, N; Abulwerdi, F; Fatehi, F et al. J Mol Biol, DOI://10.1016/j.jmb.2022.167557 (2022)

Prior Vaccination Exceeds Prior Infection in Eliciting Innate and Humoral Immune Responses in Omicron Infected Outpatients Lee, HK; Knabl, L; Walter, M et al. Front Immunol, DOI://10.3389/fimmu.2022.916686 (2022)
Many dissimilar NusG protein domains switch between α-helix and β-sheet folds Porter, LL; Kim, AK; Rimal, S et al. Nat Commun, DOI://10.1038/s41467-022-31532-9 (2022)
Systematic identification of molecular mediators of interspecies sensing in a community of two frequently coinfecting bacterial pathogens Zarrella, TM; Khare, A; , PLoS Biol, DOI://10.1371/journal.pbio.3001679 (2022)
Reversal of viral and epigenetic HLA class I repression in Merkel cell carcinoma Lee, PC; Klaeger, S; Le, PM et al. J Clin Invest, DOI://10.1172/JCI151666 (2022)
Putative Host-Derived Insertions in the Genomes of Circulating SARS-CoV-2 Variants Yang, Y; Dufault-Thompson, K; Salgado Fontenele, R; Jiang, X; , mSystems, DOI://10.1128/msystems.00179-22 (2022)
Genetic evaluation of dementia with Lewy bodies implicates distinct disease subgroups Kaivola, K; Shah, Z; Chia, R et al. Brain, DOI://10.1093/brain/awab402 (2022)

Sorting out Parkinson's disease: one cell at a time Lin, HP; Narendra, DP; , Brain, DOI://10.1093/brain/awac071 (2022)
Interrogating RNA-Small Molecule Interactions with Structure Probing and Artificial Intelligence-Augmented Molecular Simulations Wang, Y; Parmar, S; Schneekloth, JS; Tiwary, P; , ACS Cent Sci, DOI://10.1021/acscentsci.2c00149 (2022)
Long-read mapping to repetitive reference sequences using Winnowmap2 Jain, C; Rhie, A; Hansen, NF et al. Nat Methods, DOI://10.1038/s41592-022-01457-8 (2022)
Copper-Binding Domain Variation in a Novel Murine Lysyl Oxidase Model Produces Structurally Inferior Aortic Elastic Fibers Whose Failure Is Modified by Age, Sex, and Blood Pressure Tsang, KM; Knutsen, RH; Billington, CJ et al. Int J Mol Sci, DOI://10.3390/ijms23126749 (2022)
Enhanced neoepitope-specific immunity following neoadjuvant PD-L1 and TGF-b blockade in HPV-unrelated head and neck cancer Redman, JM; Friedman, J; Robbins, Y et al. J Clin Invest, DOI://10.1172/JCI161400 (2022)
An 8-Gene Signature for Classifying Major Subtypes of Non-Small-Cell Lung Cancer Hamaneh, M; Yu, YK; , Cancer Inform, DOI://10.1177/11769351221100718 (2022)
Cross-sectional and Longitudinal Associations of Anxiety and Irritability With Adolescents' Neural Responses to Cognitive Conflict Cardinale, EM; Bezek, J; Morales, S et al. Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2022.03.007 (2022)
Investigating the genetic architecture of eye colour in a Canadian cohort Lona-Durazo, F; Thakur, R; Pairo-Castineira, E et al. iScience, DOI://10.1016/j.isci.2022.104485 (2022)
Macaque Clonal Hematopoiesis Model Demonstrates Expansion of TET2-Disrupted Clones and Utility for Testing Interventions Shin, TH; Zhou, Y; Chen, S et al. Blood, DOI://10.1182/blood.2021014875 (2022)
A cellular and molecular analysis of SoxB-driven neurogenesis in a cnidarian Chrysostomou, E; Flici, H; Gornik, SG et al. Elife, DOI://10.7554/eLife.78793 (2022)
Classification of Functional Movement Disorders with Resting-State Functional Magnetic Resonance Imaging Waugh, RE; Parker, JA; Hallett, M; Horovitz, SG; , Brain Connect, DOI://10.1089/brain.2022.0001 (2022)
Isha is a su(Hw) mRNA-binding protein required for gypsy insulator function Bag, I; Chen, Y; D'Orazio, K et al. G3 (Bethesda), DOI://10.1093/g3journal/jkac152 (2022)
Donor-derived cell-free DNA as a composite marker of acute lung allograft dysfunction in clinical care Keller, M; Sun, J; Mutebi, C et al. J Heart Lung Transplant, DOI://10.1016/j.healun.2021.12.009 (2022)
GPR15L is an epithelial inflammation-derived pruritogen Tseng, PY; Hoon, MA; , Sci Adv, DOI://10.1126/sciadv.abm7342 (2022)
DNA methylation signatures reveal that distinct combinations of transcription factors specify human immune cell epigenetic identity Roy, R; Ramamoorthy, S; Shapiro, BD et al. Immunity, DOI://10.1016/j.immuni.2022.05.006 (2022)
Antisense transcription from lentiviral gene targeting linked to an integrated stress response in colorectal cancer cells Ha, T; DiPrima, M; Koparde, V et al. Mol Ther Nucleic Acids, DOI://10.1016/j.omtn.2022.05.029 (2022)
Notes from the Field: VEXAS Syndrome and Disease Taxonomy in Rheumatology Grayson, PC; Beck, DB; Ferrada, MA et al. Arthritis Rheumatol, DOI://10.1002/art.42258 (2022)
Functional characterization of a novel p.Ser76Thr variant in IGFBP4 that associates with body mass index in American Indians Muller, YL; Saporito, M; Day, S et al. Eur J Hum Genet, DOI://10.1038/s41431-022-01129-3 (2022)

Prostate-Specific Membrane Antigen Is a Biomarker for Residual Disease following Neoadjuvant Intense Androgen Deprivation Therapy in Prostate Cancer Bright, JR; Lis, RT; Ku, AT et al. J Urol, DOI://10.1097/JU.0000000000002492 (2022)
High-Frequency Transcranial Magnetic Stimulation Combined With Functional Magnetic Resonance Imaging Reveals Distinct Activation Patterns Associated With Different Dorsolateral Prefrontal Cortex Stimulation Sites Caparelli, EC; Schleyer, B; Zhai, T et al. Neuromodulation, DOI://10.1016/j.neurom.2022.03.002 (2022)
Additive genetic effect of GCKR, G6PC2, and SLC30A8 variants on fasting glucose levels and risk of type 2 diabetes Chen, G; Shriner, D; Zhang, J et al. PLoS One, DOI://10.1371/journal.pone.0269378 (2022)
Immune Determinants of the Association between Tumor Mutational Burden and Immunotherapy Response across Cancer Types Sinha, N; Sinha, S; Valero, C et al. Cancer Res, DOI://10.1158/0008-5472.CAN-21-2542 (2022)
Lesion size and shape in central vein sign assessment for multiple sclerosis diagnosis: An in vivo and postmortem MRI study Al-Louzi, O; Manukyan, S; Donadieu, M et al. Mult Scler, DOI://10.1177/13524585221097560 (2022)
Heterologous ChAdOx1-BNT162b2 vaccination in Korean cohort induces robust immune and antibody responses that includes Omicron Lee, HK; Go, J; Sung, H et al. iScience, DOI://10.1016/j.isci.2022.104473 (2022)
Genetically programmed alternative splicing of NEMO mediates an autoinflammatory disease phenotype Lee, Y; Wessel, AW; Xu, J et al. J Clin Invest, DOI://10.1172/JCI128808 (2022)
Impact of the methylation classifier and ancillary methods on CNS tumor diagnostics Wu, Z; Abdullaev, Z; Pratt, D et al. Neuro Oncol, DOI://10.1093/neuonc/noab227 (2022)
Development of Aging-Related Emphysematous and Lymphoma-Like Lesions is Enhanced by the Lack of Secretoglobin 3A2 in Mouse Lungs Kurotani, R; Kurumazuka, A; Sakahara, S et al. Int J Chron Obstruct Pulmon Dis, DOI://10.2147/COPD.S330170 (2022)
Neuropeptides in Rhipicephalus microplus and other hard ticks Waldman, J; Xavier, MA; Vieira, LR et al. Ticks Tick Borne Dis, DOI://10.1016/j.ttbdis.2022.101910 (2022)
Intestinal inflammation alters the antigen-specific immune response to a skin commensal Merana, GR; Dwyer, LR; Dhariwala, MO et al. Cell Rep, DOI://10.1016/j.celrep.2022.110891 (2022)
Identification of Antibiotic Resistance Proteins via MiCId's Augmented Workflow. A Mass Spectrometry-Based Proteomics Approach Alves, G; Ogurtsov, A; Karlsson, R et al. J Am Soc Mass Spectrom, DOI://10.1021/jasms.1c00347 (2022)

Variegation of autism related traits across seven neurogenetic disorders Lee, NR; Niu, X; Zhang, F et al. Transl Psychiatry, DOI://10.1038/s41398-022-01895-0 (2022)
Human lymph node immune dynamics as driver of vaccine efficacy: an understudied aspect of immune responses Moysi, E; Paris, RM; Le Grand, R et al. Expert Rev Vaccines, DOI://10.1080/14760584.2022.2045198 (2022)
AlphaFold2 fails to predict protein fold switching Chakravarty, D; Porter, LL; , Protein Sci, DOI://10.1002/pro.4353 (2022)
In situ cryo-electron tomography reveals local cellular machineries for axon branch development Nedozralova, H; Basnet, N; Ibiricu, I et al. J Cell Biol, DOI://10.1083/jcb.202106086 (2022)
High-grade glioma with pleomorphic and pseudopapillary features (HPAP): a proposed type of circumscribed glioma in adults harboring frequent TP53 mutations and recurrent monosomy 13 Pratt, D; Abdullaev, Z; Papanicolau-Sengos, A et al. Acta Neuropathol, DOI://10.1007/s00401-022-02404-9 (2022)
A missense variant Arg611Cys in LIPE which encodes hormone sensitive lipase decreases lipolysis and increases risk of type 2 diabetes in American Indians Muller, YL; Sutherland, J; Nair, AK et al. Diabetes Metab Res Rev, DOI://10.1002/dmrr.3504 (2022)

Boosting NAD+ blunts TLR4-induced type I IFN in control and systemic lupus erythematosus monocytes Wu, J; Singh, K; Lin, A et al. J Clin Invest, DOI://10.1172/JCI139828 (2022)
Context-dependent amygdala-prefrontal connectivity during the dot-probe task varies by irritability and attention bias to angry faces Naim, R; Haller, SP; Linke, JO et al. Neuropsychopharmacology, DOI://10.1038/s41386-022-01307-3 (2022)
Functional editing of endogenous genes through rapid selection of cell pools (Rapid generation of endogenously tagged genes in Drosophila ovarian somatic sheath cells) Meng, Q; Stoyko, D; Andrews, CM et al. Nucleic Acids Res, DOI://10.1093/nar/gkac448 (2022)
Computational modeling of mitochondrial K+- and H+-driven ATP synthesis Cortassa, S; Aon, MA; Juhaszova, M et al. J Mol Cell Cardiol, DOI://10.1016/j.yjmcc.2021.12.005 (2022)
Integrated Multiomics, Bioinformatics, and Computational Modeling Approaches to Central Metabolism in Organs Cortassa, S; Villon, P; Sollott, SJ; Aon, MA; , Methods Mol Biol, DOI://10.1007/978-1-0716-1831-8_7 (2022)
Systems Biology of the Vasopressin V2 Receptor: New Tools for Discovery of Molecular Actions of a GPCR Chen, L; Jung, HJ; Datta, A et al. Annu Rev Pharmacol Toxicol, DOI://10.1146/annurev-pharmtox-052120-011012 (2022)
Draft Reference Genome Sequence of Corynebacterium mastitidis RC, an Ocular Commensal, Isolated from Mouse Conjunctiva Nagarajan, V; St Leger, AJ; Zhang, A et al. Microbiol Resour Announc, DOI://10.1128/mra.00187-22 (2022)
Rare and common variants in ROM1 and PRPH2 genes trans-modify Stargardt/ABCA4 disease Zernant, J; Lee, W; Wang, J et al. PLoS Genet, DOI://10.1371/journal.pgen.1010129 (2022)
Structural basis for catalyzed assembly of the Sonic hedgehog-Patched1 signaling complex Huang, P; Wierbowski, BM; Lian, T et al. Dev Cell, DOI://10.1016/j.devcel.2022.02.008 (2022)
Diagnostic and Prognostic Implications of GNAS Inactivation in Sonic Hedgehog-Activated Medulloblastoma: Case Report with Comprehensive Molecular Profiling and Review of Literature Goode, E; Montoya, L; Graham, E et al. JCO Precis Oncol, DOI://10.1200/PO.21.00403 (2022)
Differential ion dehydration energetics explains selectivity in the non-canonical lysosomal K + channel TMEM175 Oh, S; Marinelli, F; Zhou, W et al. Elife, DOI://10.7554/eLife.75122 (2022)
Predicting cancer prognosis and drug response from the tumor microbiome Hermida, LC; Gertz, EM; Ruppin, E; , Nat Commun, DOI://10.1038/s41467-022-30512-3 (2022)

A comprehensive evaluation of the potential binding poses of fentanyl and its analogs at the µ-opioid receptor Xie, B; Goldberg, A; Shi, L; , Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2022.05.013 (2022)
SARS-CoV-2 introductions and early dynamics of the epidemic in Portugal Borges, V; Isidro, J; Trovão, NS et al. Commun Med (Lond), DOI://10.1038/s43856-022-00072-0 (2022)
Synthetic lethality-based prediction of anti-SARS-CoV-2 targets Pal, LR; Cheng, K; Nair, NU et al. iScience, DOI://10.1016/j.isci.2022.104311 (2022)
Coxiella Endosymbiont of Rhipicephalus microplus Modulates Tick Physiology With a Major Impact in Blood Feeding Capacity Guizzo, MG; Tirloni, L; Gonzalez, SA et al. Front Microbiol, DOI://10.3389/fmicb.2022.868575 (2022)
Obtaining QM/MM binding free energies in the SAMPL8 drugs of abuse challenge: indirect approaches Hudson, PS; Aviat, F; Meana-Pañeda, R et al. J Comput Aided Mol Des, DOI://10.1007/s10822-022-00443-8 (2022)
Conformational spread drives the evolution of the calcium-calmodulin protein kinase II Khan, S Sci Rep, DOI://10.1038/s41598-022-12090-y (2022)

GraphVAMPNet, using graph neural networks and variational approach to Markov processes for dynamical modeling of biomolecules Ghorbani, M; Prasad, S; Klauda, JB; Brooks, BR; , J Chem Phys, DOI://10.1063/5.0085607 (2022)
GPCR-mediated β-arrestin activation deconvoluted with single-molecule precision Asher, WB; Terry, DS; Gregorio, GGA et al. Cell, DOI://10.1016/j.cell.2022.03.042 (2022)
Drugsniffer: An Open Source Workflow for Virtually Screening Billions of Molecules for Binding Affinity to Protein Targets Venkatraman, V; Colligan, TH; Lesica, GT et al. Front Pharmacol, DOI://10.3389/fphar.2022.874746 (2022)
Serum proteomics links suppression of tumor immunity to ancestry and lethal prostate cancer Minas, TZ; Candia, J; Dorsey, TH et al. Nat Commun, DOI://10.1038/s41467-022-29235-2 (2022)
DNA methylation analysis of glioblastomas harboring FGFR3-TACC3 fusions identifies a methylation subclass with better patient survival Wu, Z; Lopes Abath Neto, O; Bale, TA et al. Acta Neuropathol, DOI://10.1007/s00401-022-02430-7 (2022)
Structural characterization of the Myxococcus xanthus encapsulin and ferritin-like cargo system gives insight into its iron storage mechanism Eren, E; Wang, B; Winkler, DC et al. Structure, DOI://10.1016/j.str.2022.01.008 (2022)

Flexible pri-miRNA structures enable tunable production of 5' isomiRs Bofill-De Ros, X; Hong, Z; Birkenfeld, B et al. RNA Biol, DOI://10.1080/15476286.2022.2025680 (2022)
A phenotypic signature that identifies neoantigen-reactive T cells in fresh human lung cancers Hanada, KI; Zhao, C; Gil-Hoyos, R et al. Cancer Cell, DOI://10.1016/j.ccell.2022.03.012 (2022)
Protonation-Dependent Sequencing of 5-Formylcytidine in RNA Link, CN; Thalalla Gamage, S; Gallimore, D et al. Biochemistry, DOI://10.1021/acs.biochem.1c00761 (2022)
Phylogenomic analysis of the diversity of graspetides and proteins involved in their biosynthesis Makarova, KS; Blackburne, B; Wolf, YI et al. Biol Direct, DOI://10.1186/s13062-022-00320-2 (2022)
Immune transcriptome and antibody response in adult-onset Still's disease with mild flare following administration of mRNA vaccine BNT162b2 Knabl, L; Lee, HK; Walter, M et al. Rheumatology (Oxford), DOI://10.1093/rheumatology/keac281 (2022)
DDX58(RIG-I)-related disease is associated with tissue-specific interferon pathway activation Prasov, L; Bohnsack, BL; El Husny, AS et al. J Med Genet, DOI://10.1136/jmedgenet-2020-107447 (2022)

The mechanism of activation of MEK1 by B-Raf and KSR1 Maloney, RC; Zhang, M; Liu, Y et al. Cell Mol Life Sci, DOI://10.1007/s00018-022-04296-0 (2022)
Placental multi-omics integration identifies candidate functional genes for birthweight Tekola-Ayele, F; Zeng, X; Chatterjee, S et al. Nat Commun, DOI://10.1038/s41467-022-30007-1 (2022)
Increasing efficiency and reducing bias when assessing HPV vaccination efficacy by using nontargeted HPV strains Etievant, L; Sampson, JN; Gail, MH; , Biometrics, DOI://10.1111/biom.13663 (2022)
Modeling Androgen Deprivation Therapy-Induced Prostate Cancer Dormancy and Its Clinical Implications Dong, X; Xue, H; Mo, F et al. Mol Cancer Res, DOI://10.1158/1541-7786.MCR-21-1037 (2022)
Retinal pigment epithelium-specific CLIC4 mutant is a mouse model of dry age-related macular degeneration Chuang, JZ; Yang, N; Nakajima, N et al. Nat Commun, DOI://10.1038/s41467-021-27935-9 (2022)
A T cell resilience model associated with response to immunotherapy in multiple tumor types Zhang, Y; Trang, V; Palmer, DC et al. Nat Med, DOI://10.1038/s41591-022-01799-y (2022)

Inactivation of axon guidance molecule netrin-1 in human colorectal cancer by an epigenetic mechanism Nakayama, H; Ohnuki, H; Nakahara, M et al. Biochem Biophys Res Commun, DOI://10.1016/j.bbrc.2022.04.069 (2022)
Urine Single-Cell RNA Sequencing in Focal Segmental Glomerulosclerosis Reveals Inflammatory Signatures Latt, KZ; Heymann, J; Jessee, JH et al. Kidney Int Rep, DOI://10.1016/j.ekir.2021.11.005 (2022)
Selective Recognition of Carbohydrate Antigens by Germline Antibodies Isolated from AID Knockout Mice DeLaitsch, AT; Pridgen, JR; Tytla, A et al. J Am Chem Soc, DOI://10.1021/jacs.1c12745 (2022)
Transposable element landscapes in aging Drosophila Yang, N; Srivastav, SP; Rahman, R et al. PLoS Genet, DOI://10.1371/journal.pgen.1010024 (2022)
Neural Networks for Classification and Image Generation of Aging in Genetic Syndromes Duong D; Hu P.; et al Front Genet., 10.3389/fgene.2022.864092 (2022)
BNT162b2 vaccination enhances interferon-JAK-STAT-regulated antiviral programs in COVID-19 patients infected with the SARS-CoV-2 Beta variant Knabl, L; Lee, HK; Wieser, M et al. Commun Med (Lond), DOI://10.1038/s43856-022-00083-x (2022)

Evolutionary history and introduction of SARS-CoV-2 Alpha VOC/B.1.1.7 in Pakistan through international travelers Nasir, A; Bukhari, AR; Trovão, NS et al. Virus Evol, DOI://10.1093/ve/veac020 (2022)
Genome-wide association studies of metabolites in Finnish men identify disease-relevant loci Yin, X; Chan, LS; Bose, D et al. Nat Commun, DOI://10.1038/s41467-022-29143-5 (2022)
Simultaneous Quantification of H2O2 and Organic Hydroperoxides by 1H NMR Spectroscopy Kakeshpour, T; Bax, A; , Anal Chem, DOI://10.1021/acs.analchem.2c00264 (2022)
Synthesis and Effect of Conformationally Locked Carbocyclic Guanine Nucleotides on Dynamin Toti, KS; Jimah, JR; Salmaso, V et al. Biomolecules, DOI://10.3390/biom12040584 (2022)
Estimation of multiple ordered ROC curves using placement values Ghosal, S; Grantz, KL; Chen, Z; , Stat Methods Med Res, DOI://10.1177/09622802221094940 (2022)
Utilizing patient information to identify subtype heterogeneity of cancer driver genes Wu, HH; Hua, X; Shi, J et al. Stat Methods Med Res, DOI://10.1177/09622802211055854 (2022)

Lysosomal exocytosis of HSP70 stimulates monocytic BMP6 expression in Sjögren's syndrome Mo, YQ; Nakamura, H; Tanaka, T et al. J Clin Invest, DOI://10.1172/JCI152780 (2022)
Heterogeneity of neuroendocrine transcriptional states in metastatic small cell lung cancers and patient-derived models Lissa, D; Takahashi, N; Desai, P et al. Nat Commun, DOI://10.1038/s41467-022-29517-9 (2022)
Autophosphorylation transforms DNA-PK from protecting to processing DNA ends Liu, L; Chen, X; Li, J et al. Mol Cell, DOI://10.1016/j.molcel.2021.11.025 (2022)
H3K27ac nucleosomes facilitate HMGN localization at regulatory sites to modulate chromatin binding of transcription factors Zhang, S; Postnikov, Y; Lobanov, A et al. Commun Biol, DOI://10.1038/s42003-022-03099-0 (2022)
The transcription factor LRF promotes integrin β7 expression by and gut homing of CD8αα + intraepithelial lymphocyte precursors Nie, J; Carpenter, AC; Chopp, LB et al. Nat Immunol, DOI://10.1038/s41590-022-01161-x (2022)
Oncogenic lncRNAs alter epigenetic memory at a fragile chromosomal site in human cancer cells Arunkumar, G; Baek, S; Sturgill, D et al. Sci Adv, DOI://10.1126/sciadv.abl5621 (2022)

Dosage compensation in Bombyx mori is achieved by partial repression of both Z chromosomes in males Rosin, LF; Chen, D; Chen, Y; Lei, EP; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2113374119 (2022)
Integrating cultivation and metagenomics for a multi-kingdom view of skin microbiome diversity and functions Saheb Kashaf, S; Proctor, DM; Deming, C et al. Nat Microbiol, DOI://10.1038/s41564-021-01011-w (2022)
Artificial intelligence approaches to human-microbiome protein-protein interactions Lim, H; Cankara, F; Tsai, CJ et al. Curr Opin Struct Biol, DOI://10.1016/j.sbi.2022.102328 (2022)
Asymmetric drug binding in an ATP-loaded inward-facing state of an ABC transporter Thaker, TM; Mishra, S; Zhou, W et al. Nat Chem Biol, DOI://10.1038/s41589-021-00936-x (2022)
Patterns of Crystallin Gene Expression in Differentiation State Specific Regions of the Embryonic Chicken Lens Ma, Z; Chauss, D; Disatham, J et al. Invest Ophthalmol Vis Sci, DOI://10.1167/iovs.63.4.8 (2022)
SUITOR: Selecting the number of mutational signatures through cross-validation Lee, D; Wang, D; Yang, XR et al. PLoS Comput Biol, DOI://10.1371/journal.pcbi.1009309 (2022)

Reliability of task-evoked neural activation during face-emotion paradigms: Effects of scanner and psychological processes Haller, SP; Chen, G; Kitt, ER et al. Hum Brain Mapp, DOI://10.1002/hbm.25723 (2022)
Modified eQTL and Somatic DNA Segment Alterations in Esophageal Squamous Cell Carcinoma for Genes Related to Immunity, DNA Repair, and Inflammation Yang, HH; Liu, H; Hu, N et al. Cancers (Basel), DOI://10.3390/cancers14071629 (2022)
ATP Synthase K+- and H+-fluxes Drive ATP Synthesis and Enable Mitochondrial K+-Uniporter Function: II. Ion and ATP Synthase Flux Regulation Juhaszova, M; Kobrinsky, E; Zorov, DB et al. Function (Oxf), DOI://10.1093/function/zqac001 (2022)
ATP Synthase K+- and H+-Fluxes Drive ATP Synthesis and Enable Mitochondrial K+-“Uniporter” Function: I. Characterization of Ion Fluxes Juhaszova, M; Kobrinsky, E; Zorov, DB et al. Function (Oxf), DOI://10.1093/function/zqab065 (2022)
Long-read sequencing reveals complex patterns of wraparound transcription in polyomaviruses Nomburg, J; Zou, W; Frost, TC et al. PLoS Pathog, DOI://10.1371/journal.ppat.1010401 (2022)
HiCRes: a computational method to estimate and predict the genomic resolution of Hi-C libraries Marchal, C; Singh, N; Corso-Díaz, X; Swaroop, A; , Nucleic Acids Res, DOI://10.1093/nar/gkab1235 (2022)

Modulation of free energy landscapes as a strategy for the design of antimicrobial peptides Hassan, SA; Steinbach, PJ; , J Biol Phys, DOI://10.1007/s10867-022-09605-z (2022)
mRNA vaccination in octogenarians 15 and 20 months after recovery from COVID-19 elicits robust immune and antibody responses that include Omicron Lee, HK; Knabl, L; Moliva, JI et al. Cell Rep, DOI://10.1016/j.celrep.2022.110680 (2022)
A deep learning system for automated kidney stone detection and volumetric segmentation on noncontrast CT scans Elton, DC; Turkbey, EB; Pickhardt, PJ; Summers, RM; , Med Phys, DOI://10.1002/mp.15518 (2022)
The glucocorticoid receptor associates with the cohesin loader NIPBL to promote long-range gene regulation Rinaldi, L; Fettweis, G; Kim, S et al. Sci Adv, DOI://10.1126/sciadv.abj8360 (2022)
Molecular signatures of antitumor neoantigen-reactive T cells from metastatic human cancers Lowery, FJ; Krishna, S; Yossef, R et al. Science, DOI://10.1126/science.abl5447 (2022)
Virtual Screening for the Discovery of Microbiome β-Glucuronidase Inhibitors to Alleviate Cancer Drug Toxicity Challa, AP; Hu, X; Zhang, YQ et al. J Chem Inf Model, DOI://10.1021/acs.jcim.1c01414 (2022)
Examination of Genetic Susceptibility in Radiation-Associated Meningioma Pemov, A; Kim, J; Jones, K et al. Radiat Res, DOI://10.1667/RADE-21-00035.1 (2022)
The progressive spectral signal-to-noise ratio of cryo-electron micrograph movies as a tool to assess quality and radiation damage Heymann, JB Comput Methods Programs Biomed, DOI://10.1016/j.cmpb.2022.106799 (2022)
Cure of syngeneic carcinomas with targeted IL-12 through obligate reprogramming of lymphoid and myeloid immunity Hong, Y; Robbins, Y; Yang, X et al. JCI Insight, DOI://10.1172/jci.insight.157448 (2022)
The amyloid concentric β-barrel hypothesis: Models of synuclein oligomers, annular protofibrils, lipoproteins, and transmembrane channels Durell, SR; Guy, HR; , Proteins, DOI://10.1002/prot.26249 (2022)
TMPRSS2-ERG promotes the initiation of prostate cancer by suppressing oncogene-induced senescence Fang, L; Li, D; Yin, J et al. Cancer Gene Ther, DOI://10.1038/s41417-022-00454-5 (2022)
Combining selinexor with alisertib to target the p53 pathway in neuroblastoma Nguyen, R; Wang, H; Sun, M et al. Neoplasia, DOI://10.1016/j.neo.2022.100776 (2022)
Detailed mapping of behavior reveals the formation of prelimbic neural ensembles across operant learning Zhang, Y; Denman, AJ; Liang, B et al. Neuron, DOI://10.1016/j.neuron.2021.11.022 (2022)
The posterior cingulate cortex reflects the impact of anxiety on drift rates during cognitive processing Gorka, AX; Philips, RT; Torrisi, S et al. Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2022.03.010 (2022)
Understanding immunity in a tissue-centric context: Combining novel imaging methods and mathematics to extract new insights into function and dysfunction Germain, RN; Radtke, AJ; Thakur, N et al. Immunol Rev, DOI://10.1111/imr.13052 (2022)
Yearlong COVID-19 Infection Reveals Within-Host Evolution of SARS-CoV-2 in a Patient With B-Cell Depletion Nussenblatt, V; Roder, AE; Das, S et al. J Infect Dis, DOI://10.1093/infdis/jiab622 (2022)
Imaging the immune system redux Germain, RN Immunol Rev, DOI://10.1111/imr.13063 (2022)
Structure of the Shaker Kv channel and mechanism of slow C-type inactivation Tan, XF; Bae, C; Stix, R et al. Sci Adv, DOI://10.1126/sciadv.abm7814 (2022)

Merfin: improved variant filtering, assembly evaluation and polishing via k-mer validation Formenti, G; Rhie, A; Walenz, BP et al. Nat Methods, DOI://10.1038/s41592-022-01445-y (2022)
The complete sequence of a human genome Nurk, S; Koren, S; Rhie, A et al. Science, DOI://10.1126/science.abj6987 (2022)
From telomere to telomere: The transcriptional and epigenetic state of human repeat elements Hoyt, SJ; Storer, JM; Hartley, GA et al. Science, DOI://10.1126/science.abk3112 (2022)
Epigenetic patterns in a complete human genome Gershman, A; Sauria, MEG; Guitart, X et al. Science, DOI://10.1126/science.abj5089 (2022)
Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies McCartney AM, Shafin K, Alonge M et al Nat. Methods, 10.1038/s41592-022-01440-3 (2022)
Segmental duplications and their variation in a complete human genome Vollger, MR; Guitart, X; Dishuck, PC et al. Science, DOI://10.1126/science.abj6965 (2022)

Complete genomic and epigenetic maps of human centromeres Altemose, N; Logsdon, GA; Bzikadze, AV et al. Science, DOI://10.1126/science.abl4178 (2022)
A complete reference genome improves analysis of human genetic variation Aganezov, S; Yan, SM; Soto, DC et al. Science, DOI://10.1126/science.abl3533 (2022)
Transcriptional heterogeneity of ventricular zone cells in the ganglionic eminences of the mouse forebrain Lee, DR; Rhodes, C; Mitra, A et al. Elife, DOI://10.7554/eLife.71864 (2022)
Transcriptomic analysis of human sensory neurons in painful diabetic neuropathy reveals inflammation and neuronal loss Hall, BE; Macdonald, E; Cassidy, M et al. Sci Rep, DOI://10.1038/s41598-022-08100-8 (2022)
The genome of the zebra mussel, Dreissena polymorpha: a resource for comparative genomics, invasion genetics, and biocontrol McCartney, MA; Auch, B; Kono, T et al. G3 (Bethesda), DOI://10.1093/g3journal/jkab423 (2022)
Epstein-Barr Virus in Burkitt Lymphoma in Africa Reveals a Limited Set of Whole Genome and LMP-1 Sequence Patterns: Analysis of Archival Datasets and Field Samples From Uganda, Tanzania, and Kenya Liao, HM; Liu, H; Chin, PJ et al. Front Oncol, DOI://10.3389/fonc.2022.812224 (2022)

The landscape of receptor-mediated precision cancer combination therapy via a single-cell perspective Ahmadi, S; Sukprasert, P; Vegesna, R et al. Nat Commun, DOI://10.1038/s41467-022-29154-2 (2022)
Complete Genome Sequence of Herpes Simplex Virus 2 Strain G Chang, W; Jiao, X; Sui, H et al. Viruses, DOI://10.3390/v14030536 (2022)
Single-molecule fluorescence imaging and deep learning reveal highly heterogeneous aggregation of amyloid-β 42 Meng, F; Yoo, J; Chung, HS; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2116736119 (2022)
Assessment of Aortoiliac Atherosclerotic Plaque on CT in Prostate Cancer Patients Undergoing Treatment Lee, S; Elton, DC; Gulley, JL et al. Tomography, DOI://10.3390/tomography8020050 (2022)
Lamina-specific immunohistochemical signatures in the olfactory bulb of healthy, Alzheimer's and Parkinson's disease patients Murray, HC; Johnson, K; Sedlock, A et al. Commun Biol, DOI://10.1038/s42003-022-03032-5 (2022)
Pleomorphic xanthoastrocytoma is a heterogeneous entity with pTERT mutations prognosticating shorter survival Ebrahimi, A; Korshunov, A; Reifenberger, G et al. Acta Neuropathol Commun, DOI://10.1186/s40478-021-01308-1 (2022)

Tuning Formation of Protein-DNA Coacervates by Sequence and Environment Lebold, KM; Best, RB; , J Phys Chem B, DOI://10.1021/acs.jpcb.2c00424 (2022)
Enhancer-silencer transitions in the human genome Huang, D; Ovcharenko, I; , Genome Res, DOI://10.1101/gr.275992.121 (2022)
Parallel functional subnetworks embedded in the macaque face patch system Park, SH; Koyano, KW; Russ, BE et al. Sci Adv, DOI://10.1126/sciadv.abm2054 (2022)
DNA methylation-based prognostic subtypes of chordoma tumors in tissue and plasma Zuccato, JA; Patil, V; Mansouri, S et al. Neuro Oncol, DOI://10.1093/neuonc/noab235 (2022)
Photoreceptor degeneration in ABCA4-associated retinopathy and its genetic correlates Pfau, M; Cukras, CA; Huryn, LA et al. JCI Insight, DOI://10.1172/jci.insight.155373 (2022)
Germline SUCLG2 Variants in Patients With Pheochromocytoma and Paraganglioma Hadrava Vanova, K; Pang, Y; Krobova, L et al. J Natl Cancer Inst, DOI://10.1093/jnci/djab158 (2022)

Preintubation Sequential Organ Failure Assessment Score for Predicting COVID-19 Mortality: External Validation Using Electronic Health Record From 86 U.S. Healthcare Systems to Appraise Current Ventilator Triage Algorithms Keller, MB; Wang, J; Nason, M et al. Crit Care Med, DOI://10.1097/CCM.0000000000005534 (2022)
A mouse model of occult intestinal colonization demonstrating antibiotic-induced outgrowth of carbapenem-resistant Enterobacteriaceae Sim, CK; Kashaf, SS; Stacy, A et al. Microbiome, DOI://10.1186/s40168-021-01207-6 (2022)
Clinical Implications of Inter- and Intratumor Heterogeneity of Immune Cell Markers in Lung Cancer Zhao, W; Zhu, B; Hutchinson, A et al. J Natl Cancer Inst, DOI://10.1093/jnci/djab157 (2022)
Dual-function Spot 42 RNA encodes a 15-amino acid protein that regulates the CRP transcription factor Aoyama, JJ; Raina, M; Zhong, A; Storz, G; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2119866119 (2022)
Severe delayed hypersensitivity reactions to IL-1 and IL-6 inhibitors link to common HLA-DRB1*15 alleles Saper, VE; Ombrello, MJ; Tremoulet, AH et al. Ann Rheum Dis, DOI://10.1136/annrheumdis-2021-220578 (2022)
Ancestry-Matched and Cross-Ancestry Genetic Risk Scores of Type 2 Diabetes in Pregnant Women and Fetal Growth: A Study in an Ancestrally Diverse Cohort Ouidir, M; Zeng, X; Chatterjee, S et al. Diabetes, DOI://10.2337/db21-0655 (2022)

Taxonomic distribution and evolutionary analysis of the equol biosynthesis gene cluster Dufault-Thompson, K; Hall, B; Jiang, X; , BMC Genomics, DOI://10.1186/s12864-022-08426-7 (2022)
A year of COVID-19 GWAS results from the GRASP portal reveals potential genetic risk factors Thibord, F; Chan, MV; Chen, MH; Johnson, AD; , HGG Adv, DOI://10.1016/j.xhgg.2022.100095 (2022)
Quantification of cerebral blood volume changes caused by visual stimulation at 3 T using DANTE-prepared dual-echo EPI Li, L; Law, C; Marrett, S et al. Magn Reson Med, DOI://10.1002/mrm.29099 (2022)
Pembrolizumab and decitabine for refractory or relapsed acute myeloid leukemia Goswami, M; Gui, G; Dillon, LW et al. J Immunother Cancer, DOI://10.1136/jitc-2021-003392 (2022)
Mitochondria in cone photoreceptors act as microlenses to enhance photon delivery and confer directional sensitivity to light Ball, JM; Chen, S; Li, W; , Sci Adv, DOI://10.1126/sciadv.abn2070 (2022)
Topoisomerase VI is a chirally-selective, preferential DNA decatenase McKie, SJ; Desai, PR; Seol, Y et al. Elife, DOI://10.7554/eLife.67021 (2022)

Influence of network defects on the conformational structure of nanogel particles: From "closed compact" to "open fractal" nanogel particles Chremos, A; Horkay, F; Douglas, JF; , J Chem Phys, DOI://10.1063/5.0072274 (2022)
DNA Methylation Profiling: An Emerging Paradigm for Cancer Diagnosis Papanicolau-Sengos, A; Aldape, K; , Annu Rev Pathol, DOI://10.1146/annurev-pathol-042220-022304 (2022)
A systematic genome-wide account of binding sites for the model transcription factor Gcn4 Coey, CT; Clark, DJ; , Genome Res, DOI://10.1101/gr.276080.121 (2022)
Bivalent recognition of fatty acyl-CoA by a human integral membrane palmitoyltransferase Lee, CJ; Stix, R; Rana, MS et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2022050119 (2022)
Interaction of A 3 adenosine receptor ligands with the human multidrug transporter ABCG2 Abel, B; Murakami, M; Tosh, DK et al. Eur J Med Chem, DOI://10.1016/j.ejmech.2022.114103 (2022)
Japanese pediatric and adult atomic bomb survivor dosimetry: potential improvements using the J45 phantom series and modern Monte Carlo transport Griffin, KT; Sato, T; Funamoto, S et al. Radiat Environ Biophys, DOI://10.1007/s00411-021-00946-2 (2022)
Activating NTRK2 and ALK receptor tyrosine kinase fusions extend the molecular spectrum of pleomorphic xanthoastrocytomas of early childhood: a diagnostic overlap with infant-type hemispheric glioma Lucas, CG; Abdullaev, Z; Bruggers, CS et al. Acta Neuropathol, DOI://10.1007/s00401-021-02396-y (2022)
Bridged Piperidine Analogues of a High Affinity Naphthalene-Based P2Y 14 R Antagonist Wen, Z; Salmaso, V; Jung, YH et al. J Med Chem, DOI://10.1021/acs.jmedchem.1c01964 (2022)
Immune cell gene expression signatures in diffuse glioma are associated with IDH mutation status, patient outcome and malignant cell state, and highlight the importance of specific cell subsets in glioma biology Mehani, B; Asanigari, S; Chung, HJ et al. Acta Neuropathol Commun, DOI://10.1186/s40478-022-01323-w (2022)
Evaluating treatment effects in group sequential multivariate longitudinal studies with covariate adjustment Jeffries, NO; Troendle, JF; Geller, NL; , Biometrics, DOI://10.1111/biom.13659 (2022)
Artificial Intelligence-based Tumor Segmentation in Mouse Models of Lung Adenocarcinoma Arlova, A; Jin, C; Wong-Rolle, A et al. J Pathol Inform, DOI://10.1016/j.jpi.2022.100007 (2022)
Periconception and Prenatal Exposure to Maternal Perceived Stress and Cord Blood DNA Methylation Polinski, KJ; Putnick, DL; Robinson, SL et al. Epigenet Insights, DOI://10.1177/25168657221082045 (2022)

DNA methylation cues in nucleosome geometry, stability and unwrapping Li, S; Peng, Y; Landsman, D; Panchenko, AR; , Nucleic Acids Res, DOI://10.1093/nar/gkac097 (2022)
Immune transcriptome analysis of COVID-19 patients infected with SARS-CoV-2 variants carrying the E484K escape mutation identifies a distinct gene module Lee, HK; Knabl, L; Knabl, L et al. Sci Rep, DOI://10.1038/s41598-022-06752-0 (2022)
Yap-Sox9 signaling determines hepatocyte plasticity and lineage-specific hepatocarcinogenesis Liu, Y; Zhuo, S; Zhou, Y et al. J Hepatol, DOI://10.1016/j.jhep.2021.11.010 (2022)
Layer-specific activation in human primary somatosensory cortex during tactile temporal prediction error processing Yu, Y; Huber, L; Yang, J et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118867 (2022)
A 3 adenosine receptor agonists containing dopamine moieties for enhanced interspecies affinity Tosh, DK; Salmaso, V; Campbell, RG et al. Eur J Med Chem, DOI://10.1016/j.ejmech.2021.113983 (2022)
Structure-Activity Relationship of 3-Methylcytidine-5'-α,β-methylenediphosphates as CD73 Inhibitors Scortichini, M; Idris, RM; Moschütz, S et al. J Med Chem, DOI://10.1021/acs.jmedchem.1c01852 (2022)

MRP5 and MRP9 play a concerted role in male reproduction and mitochondrial function Chambers, IG; Kumar, P; Lichtenberg, J et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2111617119 (2022)
SARS-CoV-2 infection in free-ranging white-tailed deer Hale, VL; Dennis, PM; McBride, DS et al. Nature, DOI://10.1038/s41586-021-04353-x (2022)
An open-source tool for automated analysis of breathing behaviors in common marmosets and rodents Bishop, M; Weinhold, M; Turk, AZ et al. Elife, DOI://10.7554/eLife.71647 (2022)
Epidemiology and genetic diversity of SARS-CoV-2 lineages circulating in Africa Okoh, OS; Nii-Trebi, NI; Jakkari, A et al. iScience, DOI://10.1016/j.isci.2022.103880 (2022)
Identification of genetic risk loci and prioritization of genes and pathways for myasthenia gravis: a genome-wide association study Chia, R; Saez-Atienzar, S; Murphy, N et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2108672119 (2022)
The positive-negative mode link between brain connectivity, demographics and behaviour: a pre-registered replication of Smith et al. (2015) Goyal, N; Moraczewski, D; Bandettini, PA et al. R Soc Open Sci, DOI://10.1098/rsos.201090 (2022)

Multiple in vivo roles for the C-terminal domain of the RNA chaperone Hfq Kavita, K; Zhang, A; Tai, CH et al. Nucleic Acids Res, DOI://10.1093/nar/gkac017 (2022)
MicroRNA-15a/16-1 Prevents Hepatocellular Carcinoma by Disrupting the Communication Between Kupffer Cells and Regulatory T Cells Liu, N; Chang, CW; Steer, CJ et al. Gastroenterology, DOI://10.1053/j.gastro.2021.10.015 (2022)
Synthesis, Biological Evaluation, and Molecular Modeling Studies of 3,4-Diarylpyrazoline Series of Compounds as Potent, Nonbrain Penetrant Antagonists of Cannabinoid-1 (CB1R) Receptor with Reduced Lipophilicity Iyer, MR; Cinar, R; Wood, CM et al. J Med Chem, DOI://10.1021/acs.jmedchem.1c01836 (2022)
MYC amplifies gene expression through global changes in transcription factor dynamics Patange, S; Ball, DA; Wan, Y et al. Cell Rep, DOI://10.1016/j.celrep.2021.110292 (2022)
Structural insights into the BRAF monomer-to-dimer transition mediated by RAS binding Martinez Fiesco, JA; Durrant, DE; Morrison, DK; Zhang, P; , Nat Commun, DOI://10.1038/s41467-022-28084-3 (2022)
KLF3 and PAX6 are candidate driver genes in late-stage, MSI-hypermutated endometrioid endometrial carcinomas Rudd, ML; Hansen, NF; Zhang, X et al. PLoS One, DOI://10.1371/journal.pone.0251286 (2022)

Prenatal origins of suicide mortality: A prospective cohort study in the United States Vidal-Ribas, P; Govender, T; Sundaram, R et al. Transl Psychiatry, DOI://10.1038/s41398-021-01777-x (2022)
Can AlphaFold2 predict the impact of missense mutations on structure? Buel, GR; Walters, KJ; , Nat Struct Mol Biol, DOI://10.1038/s41594-021-00714-2 (2022)
Hyperbolic trade-off: The importance of balancing trial and subject sample sizes in neuroimaging Chen, G; Pine, DS; Brotman, MA et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118786 (2022)
Autonomic arousals contribute to brain fluid pulsations during sleep Picchioni, D; Özbay, PS; Mandelkow, H et al. Neuroimage, DOI://10.1016/j.neuroimage.2022.118888 (2022)
Comparison of somatic mutation landscapes in Chinese versus European breast cancer patients Zhu, B; Joo, L; Zhang, T et al. HGG Adv, DOI://10.1016/j.xhgg.2021.100076 (2022)
Neural network classifiers for images of genetic conditions with cutaneous manifestations Duong, D; Waikel, RL; Hu, P et al. HGG Adv, DOI://10.1016/j.xhgg.2021.100053 (2022)

Central Vein Sign Profile of Newly Developing Lesions in Multiple Sclerosis: A 3-Year Longitudinal Study Al-Louzi, O; Letchuman, V; Manukyan, S et al. Neurol Neuroimmunol Neuroinflamm, DOI://10.1212/NXI.0000000000001120 (2022)
Evolution of influenza A virus in intensive and free-range swine farms in Spain Encinas, P; Del Real, G; Dutta, J et al. Virus Evol, DOI://10.1093/ve/veab099 (2022)
Artificial Intelligence in Medical Imaging and its Impact on the Rare Disease Community: Threats, Challenges and Opportunities Hasani, N; Farhadi, F; Morris, MA et al. PET Clin, DOI://10.1016/j.cpet.2021.09.009 (2022)
Functional variants in cytochrome b5 type A (CYB5A) are enriched in Southwest American Indian individuals and associate with obesity Day, SE; Traurig, M; Kumar, P et al. Obesity (Silver Spring), DOI://10.1002/oby.23359 (2022)
Threat imminence reveals links among unfolding of anticipatory physiological response, cortical-subcortical intrinsic functional connectivity, and anxiety Abend, R; Ruiz, SG; Bajaj, MA et al. Neurobiol Stress, DOI://10.1016/j.ynstr.2022.100428 (2022)
Structural basis and mode of action for two broadly neutralizing antibodies against SARS-CoV-2 emerging variants of concern Li, W; Chen, Y; Prévost, J et al. Cell Rep, DOI://10.1016/j.celrep.2021.110210 (2022)
Dose-dependent relationship between social drinking and brain aging Angebrandt, A; Abulseoud, OA; Kisner, M et al. Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2021.11.008 (2022)
Integrated analysis of the sialotranscriptome and sialoproteome of the rat flea Xenopsylla cheopis Lu, S; Andersen, JF; Bosio, CF et al. J Proteomics, DOI://10.1016/j.jprot.2021.104476 (2022)
cLoops2: a full-stack comprehensive analytical tool for chromatin interactions Cao, Y; Liu, S; Ren, G et al. Nucleic Acids Res, DOI://10.1093/nar/gkab1233 (2022)
Fetal dose from proton pencil beam scanning craniospinal irradiation during pregnancy: a Monte Carlo study Yeom, YS; Griffin, KT; Mille, MM et al. Phys Med Biol, DOI://10.1088/1361-6560/ac4b38 (2022)
Viscoelastic parameterization of human skin cells characterize material behavior at multiple timescales Parvini, CH; Cartagena-Rivera, AX; Solares, SD; , Commun Biol, DOI://10.1038/s42003-021-02959-5 (2022)
Bacteroidales species in the human gut are a reservoir of antibiotic resistance genes regulated by invertible promoters Yan, W; Hall, AB; Jiang, X; , NPJ Biofilms Microbiomes, DOI://10.1038/s41522-021-00260-1 (2022)

Achieving robust somatic mutation detection with deep learning models derived from reference data sets of a cancer sample Sahraeian, SME; Fang, LT; Karagiannis, K et al. Genome Biol, DOI://10.1186/s13059-021-02592-9 (2022)
Genomic analysis of childhood hearing loss in the Yoruba population of Nigeria Adeyemo, A; Faridi, R; Chattaraj, P et al. Eur J Hum Genet, DOI://10.1038/s41431-021-00984-w (2022)
Release of linker histone from the nucleosome driven by polyelectrolyte competition with a disordered protein Heidarsson, PO; Mercadante, D; Sottini, A et al. Nat Chem, DOI://10.1038/s41557-021-00839-3 (2022)
Autocrine vitamin D signaling switches off pro-inflammatory programs of T H 1 cells Chauss, D; Freiwald, T; McGregor, R et al. Nat Immunol, DOI://10.1038/s41590-021-01080-3 (2022)
Deconvolving clinically relevant cellular immune crosstalk from bulk gene expression using CODEFACS and LIRICS stratifies melanoma patients to anti-PD-1 therapy Wang, K; Patkar, S; Lee, JS et al. Cancer Discov, DOI://10.1158/2159-8290.CD-21-0887 (2022)
Fluorine-Modifications Contribute to Potent Antiviral Activity against Highly Drug-Resistant HIV-1 and Favorable Blood-Brain Barrier (BBB) Penetration Property of Novel Central Nervous System (CNS)-targeting HIV-1 Protease Inhibitors In Vitro Amano, M; Yedidi, RS; Salcedo-Gómez, PM et al. Antimicrob Agents Chemother, DOI://10.1128/AAC.01715-21 (2022)
Discovery of novel fish papillomaviruses: From the Antarctic to the commercial fish market Kraberger, S; Austin, C; Farkas, K et al. Virology, DOI://10.1016/j.virol.2021.10.007 (2022)
Antipsychotic medication-mediated cognitive change in schizophrenia and polygenic score for cognitive ability Blackman, RK; Dickinson, D; Eisenberg, DP et al. Schizophr Res Cogn, DOI://10.1016/j.scog.2021.100223 (2022)
Artificial Intelligence in Vascular-PET:: Translational and Clinical Applications Paravastu, SS; Theng, EH; Morris, MA et al. PET Clin, DOI://10.1016/j.cpet.2021.09.003 (2022)

2021 (606 papers)

Basal ganglia activation localized in MEG using a reward task Sepe-Forrest, L; Carver, FW; Quentin, R et al. Neuroimage Rep, DOI://10.1016/j.ynirp.2021.100034 (2021)
B cell residency but not T cell-independent IgA switching in the gut requires innate lymphoid cells Zheng, M; Mao, K; Fang, D et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2106754118 (2021)
Phosphoproteomic Identification of Vasopressin/cAMP/Protein Kinase A-Dependent Signaling in Kidney Salhadar, K; Matthews, A; Raghuram, V et al. Mol Pharmacol, DOI://10.1124/mol.120.119602 (2021)
The NIH Lipo-COVID Study: A Pilot NMR Investigation of Lipoprotein Subfractions and Other Metabolites in Patients with Severe COVID-19 Ballout, RA; Kong, H; Sampson, M et al. Biomedicines, DOI://10.3390/biomedicines9091090 (2021)
The SIRPα-CD47 immune checkpoint in NK cells Deuse, T; Hu, X; Agbor-Enoh, S et al. J Exp Med, DOI://10.1084/jem.20200839 (2021)
Trial and error: A hierarchical modeling approach to test-retest reliability Chen, G; Pine, DS; Brotman, MA et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118647 (2021)
Response by Shah et al to Letter Regarding Article, "Cell-Free DNA to Detect Heart Allograft Acute Rejection" Shah, P; Agbor-Enoh, S; Tunc, I et al. Circulation, DOI://10.1161/CIRCULATIONAHA.121.055697 (2021)
Integration of Single-Cell RNA- and CAGE-seq Reveals Tooth-Enriched Genes Chiba, Y; Yoshizaki, K; Tian, T et al. J Dent Res, DOI://10.1177/00220345211049785 (2021)
Donor-Derived Cell-Free DNA for Acute Rejection Monitoring in Heart and Lung Transplantation Keller, M; Agbor-Enoh, S; , Curr Transplant Rep, DOI://10.1007/s40472-021-00349-8 (2021)

Incorporating survival data into case-control studies with incident and prevalent cases Mandal, S; Qin, J; Pfeiffer, RM; , Stat Med, DOI://10.1002/sim.9183 (2021)
Cancer incidence, patterns, and genotype-phenotype associations in individuals with pathogenic or likely pathogenic germline TP53 variants: an observational cohort study de Andrade, KC; Khincha, PP; Hatton, JN et al. Lancet Oncol, DOI://10.1016/S1470-2045(21)00580-5 (2021)
Donor derived cell free DNA% is elevated with pathogens that are risk factors for acute and chronic lung allograft injury Bazemore, K; Rohly, M; Permpalung, N et al. J Heart Lung Transplant, DOI://10.1016/j.healun.2021.05.012 (2021)
Building the mega single-cell transcriptome ocular meta-atlas Swamy, VS; Fufa, TD; Hufnagel, RB; McGaughey, DM; , Gigascience, DOI://10.1093/gigascience/giab061 (2021)
Mechanistic Insights into Photodynamic Regulation of Adenosine 5'-Triphosphate-Binding Cassette Drug Transporters Liang, BJ; Lusvarghi, S; Ambudkar, SV; Huang, HC; , ACS Pharmacol Transl Sci, DOI://10.1021/acsptsci.1c00138 (2021)
Role of 53BP1 in end protection and DNA synthesis at DNA breaks Paiano, J; Zolnerowich, N; Wu, W et al. Genes Dev, DOI://10.1101/gad.348667.121 (2021)
Studying the History of Tumor Evolution from Single-Cell Sequencing Data by Exploring the Space of Binary Matrices Malikić, S; Mehrabadi, FR; Azer, ES et al. J Comput Biol, DOI://10.1089/cmb.2020.0595 (2021)
Long-Term Report of a Comprehensive Molecular and Genomic Analysis in NRG Oncology/RTOG 0424: A Phase II Study of Radiation and Temozolomide in High-Risk Grade II Glioma Fleming, JL; Pugh, SL; Fisher, BJ et al. JCO Precis Oncol, DOI://10.1200/PO.21.00112 (2021)
Report of Canonical BCR-ABL1 Fusion in Glioblastoma Pang, Y; Yu, G; Butler, M et al. JCO Precis Oncol, DOI://10.1200/PO.20.00519 (2021)
Comparison of approaches to transcriptomic analysis in multi-sampled tumors Ku, AT; Wilkinson, S; Sowalsky, AG; , Brief Bioinform, DOI://10.1093/bib/bbab337 (2021)
Neonatal exposure to a wild-derived microbiome protects mice against diet-induced obesity Hild, B; Dreier, MS; Oh, JH et al. Nat Metab, DOI://10.1038/s42255-021-00439-y (2021)
Privacy-Preserving Genotype Imputation in a Trusted Execution Environment Dokmai, N; Kockan, C; Zhu, K et al. Res Comput Mol Biol (2021)
The power of genetic diversity in genome-wide association studies of lipids Graham, SE; Clarke, SL; Wu, KH et al. Nature, DOI://10.1038/s41586-021-04064-3 (2021)
Clinical and Histopathologic Correlates of Asymmetric Retinitis Pigmentosa Lal, T; Yu, ZX; Guan, B et al. JAMA Ophthalmol, DOI://10.1001/jamaophthalmol.2021.2688 (2021)
Blood DNA Methylation and Incident Coronary Heart Disease: Evidence From the Strong Heart Study Navas-Acien, A; Domingo-Relloso, A; Subedi, P et al. JAMA Cardiol, DOI://10.1001/jamacardio.2021.2704 (2021)
A Longitudinal Study of Resting-State Connectivity and Response to Psychostimulant Treatment in ADHD Norman, LJ; Sudre, G; Bouyssi-Kobar, M et al. Am J Psychiatry, DOI://10.1176/appi.ajp.2021.20091342 (2021)
Cortical and subcortical brain structure in generalized anxiety disorder: findings from 28 research sites in the ENIGMA-Anxiety Working Group Harrewijn, A; Cardinale, EM; Groenewold, NA et al. Transl Psychiatry, DOI://10.1038/s41398-021-01622-1 (2021)
α-tubulin tail modifications regulate microtubule stability through selective effector recruitment, not changes in intrinsic polymer dynamics Chen, J; Kholina, E; Szyk, A et al. Dev Cell, DOI://10.1016/j.devcel.2021.05.005 (2021)
Transcriptome of HPβCD-treated Niemann-Pick disease type C1 cells highlights GPNMB as a biomarker for therapeutics Rodriguez-Gil, JL; Baxter, LL; Watkins-Chow, DE et al. Hum Mol Genet, DOI://10.1093/hmg/ddab194 (2021)
Exploring and Targeting the Tumor Immune Microenvironment of Neuroblastoma Masih, KE; Wei, JS; Milewski, D; Khan, J; , J Cell Immunol, DOI://10.33696/immunology.3.111 (2021)
BAF complexes drive proliferation and block myogenic differentiation in fusion-positive rhabdomyosarcoma Laubscher, D; Gryder, BE; Sunkel, BD et al. Nat Commun, DOI://10.1038/s41467-021-27176-w (2021)
Androgen receptor and MYC equilibration centralizes on developmental super-enhancer Guo, H; Wu, Y; Nouri, M et al. Nat Commun, DOI://10.1038/s41467-021-27077-y (2021)
Use of donor-derived-cell-free DNA as a marker of early allograft injury in primary graft dysfunction (PGD) to predict the risk of chronic lung allograft dysfunction (CLAD) Keller, M; Bush, E; Diamond, JM et al. J Heart Lung Transplant, DOI://10.1016/j.healun.2021.02.008 (2021)
Serum fructosamine and glycemic status in the presence of the sickle cell mutation Doumatey, AP; Feron, H; Ekoru, K et al. Diabetes Res Clin Pract, DOI://10.1016/j.diabres.2021.108918 (2021)
Sex Chromosome Dosage Effects on White Matter Structure in the Human Brain Warling, A; Yavi, M; Clasen, LS et al. Cereb Cortex, DOI://10.1093/cercor/bhab162 (2021)
Fasting blood glucose as a predictor of mortality: Lost in translation Palliyaguru, DL; Shiroma, EJ; Nam, JK et al. Cell Metab, DOI://10.1016/j.cmet.2021.08.013 (2021)
Structure activity relationship of 3-nitro-2-(trifluoromethyl)-2H-chromene derivatives as P2Y 6 receptor antagonists Jung, YH; Jain, S; Gopinatth, V et al. Bioorg Med Chem Lett, DOI://10.1016/j.bmcl.2021.128008 (2021)
Connectome 2.0: Developing the next-generation ultra-high gradient strength human MRI scanner for bridging studies of the micro-, meso- and macro-connectome Huang, SY; Witzel, T; Keil, B et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118530 (2021)
Myeloid-Derived Suppressive Cell Expansion Promotes Melanoma Growth and Autoimmunity by Inhibiting CD40/IL27 Regulation in Macrophages Valencia, JC; Erwin-Cohen, RA; Clavijo, PE et al. Cancer Res, DOI://10.1158/0008-5472.CAN-21-1148 (2021)
Lysine Demethylase 5A is Required for MYC Driven Transcription in Multiple Myeloma Ohguchi, H; Park, PMC; Wang, T et al. Blood Cancer Discov, DOI://10.1158/2643-3230.BCD-20-0108 (2021)

Auditory and olfactory findings in patients with USH2A-related retinal degeneration-Findings at baseline from the rate of progression in USH2A-related retinal degeneration natural history study (RUSH2A) Iannaccone, A; Brewer, CC; Cheng, P et al. Am J Med Genet A, DOI://10.1002/ajmg.a.62437 (2021)
Clinical diagnosis of presumed SOX2 gonadosomatic mosaicism Daich Varela, M; Hufnagel, RB; Guan, B et al. Ophthalmic Genet, DOI://10.1080/13816810.2021.1888127 (2021)
Impact of Prior Treatment on the Efficacy of Adoptive Transfer of Tumor-Infiltrating Lymphocytes in Patients with Metastatic Melanoma Seitter, SJ; Sherry, RM; Yang, JC et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-21-1171 (2021)
Age-related DNA methylation in paired normal and tumour breast tissue in Chinese breast cancer patients Kiely, M; Tse, LA; Koka, H et al. Epigenetics, DOI://10.1080/15592294.2020.1819661 (2021)
A custom capture sequence approach for oculocutaneous albinism identifies structural variant alleles at the OCA2 locus Loftus, SK; Lundh, L; Watkins-Chow, DE et al. Hum Mutat, DOI://10.1002/humu.24257 (2021)
Redundant mechanisms driven independently by RUNX1 and GATA2 for hematopoietic development Bresciani, E; Carrington, B; Yu, K et al. Blood Adv, DOI://10.1182/bloodadvances.2020003969 (2021)

Oncostatin M can sensitize sensory neurons in inflammatory pruritus Tseng, PY; Hoon, MA; , Sci Transl Med, DOI://10.1126/scitranslmed.abe3037 (2021)
Genetic effects on liver chromatin accessibility identify disease regulatory variants Currin, KW; Erdos, MR; Narisu, N et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2021.05.001 (2021)
Curvature Energetics Determined by Alchemical Simulation on Four Topologically Distinct Lipid Phases Beaven, AH; Arnarez, C; Lyman, E et al. J Phys Chem B, DOI://10.1021/acs.jpcb.0c09458 (2021)
A semiparametric kernel independence test with application to mutational signatures Lee, D; Zhu, B; , J Am Stat Assoc, DOI://10.1080/01621459.2020.1871357 (2021)
Atoh7-independent specification of retinal ganglion cell identity Brodie-Kommit, J; Clark, BS; Shi, Q et al. Sci Adv, DOI://10.1126/sciadv.abe4983 (2021)
Cellular abundance shapes function in piRNA-guided genome defense Genzor, P; Konstantinidou, P; Stoyko, D et al. Genome Res, DOI://10.1101/gr.275478.121 (2021)

Mechanistic gene networks inferred from single-cell data with an outlier-insensitive method Han, J; Perera, S; Wunderlich, Z; Periwal, V; , Math Biosci, DOI://10.1016/j.mbs.2021.108722 (2021)
How asymmetric DNA replication achieves symmetrical fidelity Zhou, ZX; Lujan, SA; Burkholder, AB et al. Nat Struct Mol Biol, DOI://10.1038/s41594-021-00691-6 (2021)
Fasting-induced FOXO4 blunts human CD4+ T helper cell responsiveness Han, K; Singh, K; Rodman, MJ et al. Nat Metab, DOI://10.1038/s42255-021-00356-0 (2021)
The role of Niemann-Pick type C2 in zebrafish embryonic development Tseng, WC; Johnson Escauriza, AJ; Tsai-Morris, CH et al. Development, DOI://10.1242/dev.194258 (2021)
Genome editing in human hematopoietic stem and progenitor cells via CRISPR-Cas9-mediated homology-independent targeted integration Bloomer, H; Smith, RH; Hakami, W; Larochelle, A; , Mol Ther, DOI://10.1016/j.ymthe.2020.12.010 (2021)
Metastatic Castration-Resistant Prostate Cancer Remains Dependent on Oncogenic Drivers Found in Primary Tumors Einstein, DJ; Arai, S; Calagua, C et al. JCO Precis Oncol, DOI://10.1200/PO.21.00059 (2021)
The Haskins pediatric atlas: a magnetic-resonance-imaging-based pediatric template and atlas Molfese, PJ; Glen, D; Mesite, L et al. Pediatr Radiol, DOI://10.1007/s00247-020-04875-y (2021)
Targeted Single-Cell RNA-seq Identifies Minority Cell Types of Kidney Distal Nephron Chen, L; Chou, CL; Knepper, MA; , J Am Soc Nephrol, DOI://10.1681/ASN.2020101407 (2021)
The RUNX1 database (RUNX1db): establishment of an expert curated RUNX1 registry and genomics database as a public resource for familial platelet disorder with myeloid malignancy Homan, CC; King-Smith, SL; Lawrence, DM et al. Haematologica, DOI://10.3324/haematol.2021.278762 (2021)
Association of Variants in the SPTLC1 Gene With Juvenile Amyotrophic Lateral Sclerosis Johnson, JO; Chia, R; Miller, DE et al. JAMA Neurol, DOI://10.1001/jamaneurol.2021.2598 (2021)
Using a Recently Approved Tumor Mutational Burden Biomarker to Stratify Patients for Immunotherapy May Introduce a Sex Bias Sinha, N; Sinha, S; Cheng, K et al. JCO Precis Oncol, DOI://10.1200/PO.21.00168 (2021)
Parsing Immune Correlates of Protection Against SARS-CoV-2 from Biomedical Literature Foote, SL; Jones, S; Lockmuller, J et al. AMIA Annu Symp Proc, 1942-597X (2021)
Cell-Free DNA to Detect Heart Allograft Acute Rejection Agbor-Enoh, S; Shah, P; Tunc, I et al. Circulation, DOI://10.1161/CIRCULATIONAHA.120.049098 (2021)
Meta-analysis of epigenome-wide association studies of carotid intima-media thickness Portilla-Fernández, E; Hwang, SJ; Wilson, R et al. Eur J Epidemiol, DOI://10.1007/s10654-021-00759-z (2021)
Alterations of human skin microbiome and expansion of antimicrobial resistance after systemic antibiotics Jo, JH; Harkins, CP; Schwardt, NH et al. Sci Transl Med, DOI://10.1126/scitranslmed.abd8077 (2021)
Meta-analyses identify DNA methylation associated with kidney function and damage Schlosser, P; Tin, A; Matias-Garcia, PR et al. Nat Commun, DOI://10.1038/s41467-021-27234-3 (2021)
Proteomic Biomarker Analysis of Serum from Japanese Field Mice (Apodemus Speciosus) Collected within the Fukushima Difficult-to-return Zone Sproull, M; Hayes, J; Ishiniwa, H et al. Health Phys, DOI://10.1097/HP.0000000000001467 (2021)
Tentorial venous anatomy of mice and humans Lookian, PP; Chandrashekhar, V; Cappadona, A et al. JCI Insight, DOI://10.1172/jci.insight.151222 (2021)
Epigenome-wide association study of serum urate reveals insights into urate co-regulation and the SLC2A9 locus Tin, A; Schlosser, P; Matias-Garcia, PR et al. Nat Commun, DOI://10.1038/s41467-021-27198-4 (2021)
Helminth-Induced Human Gastrointestinal Dysbiosis: a Systematic Review and Meta-Analysis Reveals Insights into Altered Taxon Diversity and Microbial Gradient Collapse Kupritz, J; Angelova, A; Nutman, TB; Gazzinelli-Guimaraes, PH; , mBio, DOI://10.1128/mBio.02890-21 (2021)
A UVB-responsive common variant at chromosome band 7p21.1 confers tanning response and melanoma risk via regulation of the aryl hydrocarbon receptor, AHR Xu, M; Mehl, L; Zhang, T et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2021.07.002 (2021)
Cell-type-specific meQTLs extend melanoma GWAS annotation beyond eQTLs and inform melanocyte gene-regulatory mechanisms Zhang, T; Choi, J; Dilshat, R et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2021.06.018 (2021)
The nuclear transcription factor, TAF7, is a cytoplasmic regulator of protein synthesis Cheng, D; Semmens, K; McManus, E et al. Sci Adv, DOI://10.1126/sciadv.abi5751 (2021)
Cryo-EM structure of the autoinhibited state of myosin-2 Heissler, SM; Arora, AS; Billington, N et al. Sci Adv, DOI://10.1126/sciadv.abk3273 (2021)
25-Hydroxycholesterol Inhibits Kaposi's Sarcoma Herpesvirus and Epstein-Barr Virus Infections and Activates Inflammatory Cytokine Responses Serquiña, AKP; Tagawa, T; Oh, D et al. mBio, DOI://10.1128/mBio.02907-21 (2021)
A Subset of Localized Prostate Cancer Displays an Immunogenic Phenotype Associated with Losses of Key Tumor Suppressor Genes Calagua, C; Ficial, M; Jansen, CS et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-21-0121 (2021)
Genetic Overlap Profiles of Cognitive Ability in Psychotic and Affective Illnesses: A Multisite Study of Multiplex Pedigrees Knowles, EEM; Peralta, JM; Almasy, L et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2021.03.012 (2021)
Retroviral integrase: Structure, mechanism, and inhibition Passos, DO; Li, M; Craigie, R; Lyumkis, D; , Enzymes, DOI://10.1016/bs.enz.2021.06.007 (2021)
The Vaginal Microbiome of Nonhuman Primates Can Be Only Transiently Altered to Become Lactobacillus Dominant without Reducing Inflammation Langner, CA; Ortiz, AM; Flynn, JK et al. Microbiol Spectr, DOI://10.1128/Spectrum.01074-21 (2021)
Recurrent fusions in PLAGL1 define a distinct subset of pediatric-type supratentorial neuroepithelial tumors Sievers, P; Henneken, SC; Blume, C et al. Acta Neuropathol, DOI://10.1007/s00401-021-02356-6 (2021)
High-resolution mapping and digital atlas of subcortical regions in the macaque monkey based on matched MAP-MRI and histology Saleem, KS; Avram, AV; Glen, D et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118759 (2021)
Tissue Trafficking Kinetics of Rhesus Macaque Natural Killer Cells Measured by Serial Intravascular Staining Mortlock, RD; Wu, C; Potter, EL et al. Front Immunol, DOI://10.3389/fimmu.2021.772332 (2021)
PI3Kδ coordinates transcriptional, chromatin, and metabolic changes to promote effector CD8+ T cells at the expense of central memory Cannons, JL; Villarino, AV; Kapnick, SM et al. Cell Rep, DOI://10.1016/j.celrep.2021.109804 (2021)
Clear cell meningiomas are defined by a highly distinct DNA methylation profile and mutations in SMARCE1 Sievers, P; Sill, M; Blume, C et al. Acta Neuropathol, DOI://10.1007/s00401-020-02247-2 (2021)
The Spectrum of the Deficiency of Adenosine Deaminase 2: An Observational Analysis of a 60 Patient Cohort Barron, KS; Aksentijevich, I; Deuitch, NT et al. Front Immunol, DOI://10.3389/fimmu.2021.811473 (2021)
New structural insights reveal an expanded reaction cycle for inositol pyrophosphate hydrolysis by human DIPP1 Zong, G; Jork, N; Hostachy, S et al. FASEB J, DOI://10.1096/fj.202001489R (2021)

Converging Multi-modal Evidence for Implicit Threat-Related Bias in Pediatric Anxiety Disorders Abend, R; Bajaj, MA; Matsumoto, C et al. Res Child Adolesc Psychopathol, DOI://10.1007/s10802-020-00712-w (2021)
GLYCO: a tool to quantify glycan shielding of glycosylated proteins Lee, M; Reveiz, M; Rawi, R et al. Bioinformatics, DOI://10.1093/bioinformatics/btab791 (2021)
Cell-free DNA beyond a biomarker for rejection: Biological trigger of tissue injury and potential therapeutics Tsuji, N; Agbor-Enoh, S; , J Heart Lung Transplant, DOI://10.1016/j.healun.2021.03.007 (2021)
Argos: A toolkit for tracking multiple animals in complex visual environments Ray S; Stopfer MA Methods Ecol. Evol. , /10.1111/2041-210X.13776 (2021)
Use of photoimmunoconjugates to characterize ABCB1 in cancer cells Liang, BJ; Lusvarghi, S; Ambudkar, SV; Huang, HC; , Nanophotonics, DOI://10.1515/nanoph-2021-0252 (2021)
Temperature Dependence of Hydrophobic and Hydrophilic Forces and Interactions Durell, SR; Ben-Naim, A; , J Phys Chem B, DOI://10.1021/acs.jpcb.1c07802 (2021)

An Integrative Sialomic Analysis Reveals Molecules From Triatoma sordida (Hemiptera: Reduviidae) Praça, YR; Santiago, PB; Charneau, S et al. Front Cell Infect Microbiol, DOI://10.3389/fcimb.2021.798924 (2021)
Correction: Regulatory roles of Escherichia coli 5' UTR and ORF-internal RNAs detected by 3' end mapping Storz, G; Adams, PP; Baniulyte, G et al. Elife, DOI://10.7554/eLife.69260 (2021)
Detection of metabolic change in glioblastoma cells after radiotherapy using hyperpolarized 13 C-MRI Kawai, T; Brender, JR; Lee, JA et al. NMR Biomed, DOI://10.1002/nbm.4514 (2021)
RNA Externalized by Neutrophil Extracellular Traps Promotes Inflammatory Pathways in Endothelial Cells Blanco, LP; Wang, X; Carlucci, PM et al. Arthritis Rheumatol, DOI://10.1002/art.41796 (2021)
Efficient Immune Cell Genome Engineering with Enhanced CRISPR Editing Tools Chan, W; Gottschalk, RA; Yao, Y et al. Immunohorizons, DOI://10.4049/immunohorizons.2000082 (2021)
Reversion mutations in phosphoprotein P of a codon-pair-deoptimized human respiratory syncytial virus confer increased transcription, immunogenicity, and genetic stability without loss of attenuation Chen, JW; Yang, L; Santos, C et al. PLoS Pathog, DOI://10.1371/journal.ppat.1010191 (2021)
A sequence-based method for predicting extant fold switchers that undergo α-helix ↔ β-strand transitions Mishra, S; Looger, LL; Porter, LL; , Biopolymers, DOI://10.1002/bip.23471 (2021)
Identification of neoantigen-reactive T lymphocytes in the peripheral blood of a patient with glioblastoma Leko, V; Cafri, G; Yossef, R et al. J Immunother Cancer, DOI://10.1136/jitc-2021-002882 (2021)
The mechanism of Raf activation through dimerization Zhang, M; Maloney, R; Jang, H; Nussinov, R; , Chem Sci, DOI://10.1039/d1sc03444h (2021)
Genomic and Transcriptomic Analysis of Relapsed and Refractory Childhood Solid Tumors Reveals a Diverse Molecular Landscape and Mechanisms of Immune Evasion Byron, SA; Hendricks, WPD; Nagulapally, AB et al. Cancer Res, DOI://10.1158/0008-5472.CAN-21-1033 (2021)
TNF plays a crucial role in inflammation by signaling via T cell TNFR2 Alam, MS; Otsuka, S; Wong, N et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2109972118 (2021)
Inhibition of cytoplasmic EZH2 induces antitumor activity through stabilization of the DLC1 tumor suppressor protein Tripathi, BK; Anderman, MF; Bhargava, D et al. Nat Commun, DOI://10.1038/s41467-021-26993-3 (2021)
Dynamic bulge nucleotides in the KSHV PAN ENE triple helix provide a unique binding platform for small molecule ligands Swain, M; Ageeli, AA; Kasprzak, WK et al. Nucleic Acids Res, DOI://10.1093/nar/gkab1170 (2021)
Comprehensive multiomic characterization of human papillomavirus-driven recurrent respiratory papillomatosis reveals distinct molecular subtypes Sievers, C; Robbins, Y; Bai, K et al. Commun Biol, DOI://10.1038/s42003-021-02942-0 (2021)
Structure-guided bifunctional molecules hit a DEUBAD-lacking hRpn13 species upregulated in multiple myeloma Lu, X; Sabbasani, VR; Osei-Amponsa, V et al. Nat Commun, DOI://10.1038/s41467-021-27570-4 (2021)
Nuclear pore protein NUP210 depletion suppresses metastasis through heterochromatin-mediated disruption of tumor cell mechanical response Amin, R; Shukla, A; Zhu, JJ et al. Nat Commun, DOI://10.1038/s41467-021-27451-w (2021)
A novel lineage of polyomaviruses identified in bark scorpions Schmidlin, K; Kraberger, S; Cook, C et al. Virology, DOI://10.1016/j.virol.2021.08.008 (2021)
Variational embedding of protein folding simulations using Gaussian mixture variational autoencoders Ghorbani, M; Prasad, S; Klauda, JB; Brooks, BR; , J Chem Phys, DOI://10.1063/5.0069708 (2021)
Integrated Molecular-Morphologic Meningioma Classification: A Multicenter Retrospective Analysis, Retrospectively and Prospectively Validated Maas, SLN; Stichel, D; Hielscher, T et al. J Clin Oncol, DOI://10.1200/JCO.21.00784 (2021)
Interrogation of clonal tracking data using barcodetrackR Espinoza DA; Mortlock RD; et al Nat. Comp. Sci., doi://10.1038/s43588-021-00057-4 (2021)
Identification of Genetic Risk Factors for Familial Urinary Bladder Cancer: An Exome Sequencing Study Pemov, A; Wegman-Ostrosky, T; Kim, J et al. JCO Precis Oncol, DOI://10.1200/PO.21.00115 (2021)
Endogenous Retroviral Elements in Human Development and Central Nervous System Embryonal Tumors Doucet-O'Hare, TT; Rosenblum, JS; Shah, AH et al. J Pers Med, DOI://10.3390/jpm11121332 (2021)
Luminal microvesicles uniquely influence translocating bacteria after SIV infection Flynn, JK; Langner, CA; Karmele, EP et al. Mucosal Immunol, DOI://10.1038/s41385-021-00393-8 (2021)
Outlier detection in multimodal MRI identifies rare individual phenotypes among more than 15,000 brains Ma, Z; Reich, DS; Dembling, S et al. Hum Brain Mapp, DOI://10.1002/hbm.25756 (2021)
Genotype-cancer association in patients with Fanconi anemia due to pathogenic variants in FANCD1 (BRCA2) or FANCN (PALB2) McReynolds, LJ; Biswas, K; Giri, N et al. Cancer Genet, DOI://10.1016/j.cancergen.2021.10.001 (2021)
RAS induced senescence of skin keratinocytes is mediated through Rho-associated protein kinase (ROCK) Lee, AJ; Fraser, E; Flowers, B et al. Mol Carcinog, DOI://10.1002/mc.23351 (2021)
Molecular studies into cell biological role of Copine-4 in Retinal Ganglion Cells Goel, M; Aponte, AM; Wistow, G; Badea, TC; , PLoS One, DOI://10.1371/journal.pone.0255860 (2021)
Temporal inhibition of chromatin looping and enhancer accessibility during neuronal remodeling Chen, D; McManus, CE; Radmanesh, B et al. Nat Commun, DOI://10.1038/s41467-021-26628-7 (2021)
Screening by deep sequencing reveals mediators of microRNA tailing in C. elegans Vieux, KF; Prothro, KP; Kelley, LH et al. Nucleic Acids Res, DOI://10.1093/nar/gkab840 (2021)
A machine learning model for ranking candidate HLA class I neoantigens based on known neoepitopes from multiple human tumor types Gartner, JJ; Parkhurst, MR; Gros, A et al. Nat Cancer, DOI://10.1038/s43018-021-00197-6 (2021)

Characterization of SARS2 Nsp15 nuclease activity reveals it's mad about U Frazier, MN; Dillard, LB; Krahn, JM et al. Nucleic Acids Res, DOI://10.1093/nar/gkab719 (2021)
gcMECM: graph clustering of mutual exclusivity of cancer mutations Hu, Y; Yan, C; Chen, Q; Meerzaman, D; , BMC Bioinformatics, DOI://10.1186/s12859-021-04505-w (2021)
Large parental differences in chromatin organization in pancreatic beta cell line explaining diabetes susceptibility effects Jian, X; Felsenfeld, G; , Nat Commun, DOI://10.1038/s41467-021-24635-2 (2021)
Tumor heterogeneity assessed by sequencing and fluorescence in situ hybridization (FISH) data Lei, H; Gertz, EM; Schäffer, AA et al. Bioinformatics, DOI://10.1093/bioinformatics/btab504 (2021)
A Transcription Start Site Map in Human Pancreatic Islets Reveals Functional Regulatory Signatures Varshney, A; Kyono, Y; Elangovan, VR et al. Diabetes, DOI://10.2337/db20-1087 (2021)
Corticosterone pattern-dependent glucocorticoid receptor binding and transcriptional regulation within the liver Flynn, BP; Birnie, MT; Kershaw, YM et al. PLoS Genet, DOI://10.1371/journal.pgen.1009737 (2021)

The dynamic nature of the K-Ras/calmodulin complex can be altered by oncogenic mutations Abdelkarim, H; Leschinsky, N; Jang, H et al. Curr Opin Struct Biol, DOI://10.1016/j.sbi.2021.06.008 (2021)
Lentzeacins A-E, New Bacterial-Derived 2,5- and 2,6-Disubstituted Pyrazines from a BGC-Rich Soil Bacterium Lentzea sp. GA3-008 Liu, HB; Davison, JR; Rajwani, R et al. Molecules, DOI://10.3390/molecules26237197 (2021)
Tumor Mutation Burden, Expressed Neoantigens and the Immune Microenvironment in Diffuse Gliomas Yu, G; Pang, Y; Merchant, M et al. Cancers (Basel), DOI://10.3390/cancers13236092 (2021)
The Hydrogen-Coupled Oligopeptide Membrane Cotransporter Pept2 is SUMOylated in Kidney Distal Convoluted Tubule Cells Aroankins, TS; Murali, SK; Fenton, RA; Wu, Q; , Front Mol Biosci, DOI://10.3389/fmolb.2021.790606 (2021)
Immuno-transcriptomic profiling of extracranial pediatric solid malignancies Brohl, AS; Sindiri, S; Wei, JS et al. Cell Rep, DOI://10.1016/j.celrep.2021.110047 (2021)
Inferred expression regulator activities suggest genes mediating cardiometabolic genetic signals Hoskins, JW; Chung, CC; O'Brien, A et al. PLoS Comput Biol, DOI://10.1371/journal.pcbi.1009563 (2021)

Single-nucleus transcriptomic analysis of human dorsal root ganglion neurons Nguyen, MQ; von Buchholtz, LJ; Reker, AN et al. Elife, DOI://10.7554/eLife.71752 (2021)
CD63 + and MHC Class I + Subsets of Extracellular Vesicles Produced by Wild-Type and CD47-Deficient Jurkat T Cells Have Divergent Functional Effects on Endothelial Cell Gene Expression Kaur, S; Elkahloun, AG; Petersen, JD et al. Biomedicines, DOI://10.3390/biomedicines9111705 (2021)
Multiview confocal super-resolution microscopy Wu, Y; Han, X; Su, Y et al. Nature, DOI://10.1038/s41586-021-04110-0 (2021)
Genome-Guided Discovery of Natural Products through Multiplexed Low-Coverage Whole-Genome Sequencing of Soil Actinomycetes on Oxford Nanopore Flongle Rajwani, R; Ohlemacher, SI; Zhao, G et al. mSystems, DOI://10.1128/mSystems.01020-21 (2021)
Cataloging Human PRDM9 Allelic Variation Using Long-Read Sequencing Reveals PRDM9 Population Specificity and Two Distinct Groupings of Related Alleles Alleva, B; Brick, K; Pratto, F et al. Front Cell Dev Biol, DOI://10.3389/fcell.2021.675286 (2021)
Bayesian identification of candidate transcription factors for the regulation of Aqp2 gene expression Kikuchi, H; Jung, HJ; Raghuram, V et al. Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00204.2021 (2021)

Integration of adeno-associated virus (AAV) into the genomes of most Thai and Mongolian liver cancer patients does not induce oncogenesis Schäffer, AA; Dominguez, DA; Chapman, LM et al. BMC Genomics, DOI://10.1186/s12864-021-08098-9 (2021)
Extended antibody-framework-to-antigen distance observed exclusively with broad HIV-1-neutralizing antibodies recognizing glycan-dense surfaces Lee, M; Changela, A; Gorman, J et al. Nat Commun, DOI://10.1038/s41467-021-26579-z (2021)
Whole genome and exome sequencing reference datasets from a multi-center and cross-platform benchmark study Zhao, Y; Fang, LT; Shen, TW et al. Sci Data, DOI://10.1038/s41597-021-01077-5 (2021)
Overcoming Acquired Epigenetic Resistance to BTK Inhibitors Shaffer, AL; Phelan, JD; Wang, JQ et al. Blood Cancer Discov, DOI://10.1158/2643-3230.BCD-21-0063 (2021)
CSC software corrects off-target mediated gRNA depletion in CRISPR-Cas9 essentiality screens Perez, AR; Sala, L; Perez, RK; Vidigal, JA; , Nat Commun, DOI://10.1038/s41467-021-26722-w (2021)
A large Canadian cohort provides insights into the genetic architecture of human hair colour Lona-Durazo, F; Mendes, M; Thakur, R et al. Commun Biol, DOI://10.1038/s42003-021-02764-0 (2021)

Structures of synthetic nanobody-SARS-CoV-2 receptor-binding domain complexes reveal distinct sites of interaction Ahmad, J; Jiang, J; Boyd, LF et al. J Biol Chem, DOI://10.1016/j.jbc.2021.101202 (2021)
Genome-scale metabolic modeling reveals SARS-CoV-2-induced metabolic changes and antiviral targets Cheng, K; Martin-Sancho, L; Pal, LR et al. Mol Syst Biol, DOI://10.15252/msb.202110260 (2021)
PERK signaling through C/EBPδ contributes to ER stress-induced expression of immunomodulatory and tumor promoting chemokines by cancer cells Sheshadri, N; Poria, DK; Sharan, S et al. Cell Death Dis, DOI://10.1038/s41419-021-04318-y (2021)
Placental Gene Co-expression Network for Maternal Plasma Lipids Revealed Enrichment of Inflammatory Response Pathways Ouidir, M; Chatterjee, S; Mendola, P et al. Front Genet, DOI://10.3389/fgene.2021.681095 (2021)
Methylphenidate modulates interactions of anxiety with cognition Gaillard, C; Lago, TR; Gorka, AX et al. Transl Psychiatry, DOI://10.1038/s41398-021-01621-2 (2021)
FGFR1-TACC1 fusion associated with malignant transformation in a primary spinal cord glioma: a case report Asuzu, DT; Desai, B; Maggio, D et al. J Spine Surg, DOI://10.21037/jss-21-24 (2021)

DNA methylation profiling as a model for discovery and precision diagnostics in neuro-oncology Pratt, D; Sahm, F; Aldape, K; , Neuro Oncol, DOI://10.1093/neuonc/noab143 (2021)
A 584 bp deletion in CTRB2 inhibits chymotrypsin B2 activity and secretion and confers risk of pancreatic cancer Jermusyk, A; Zhong, J; Connelly, KE et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2021.09.002 (2021)
Development of CHARMM Additive Potential Energy Parameters for α-Methyl Amino Acids Pane, AJ; Yu, W; Aytenfisu, A et al. J Phys Chem B, DOI://10.1021/acs.jpcb.1c07202 (2021)
Identification of BvgA-Dependent and BvgA-Independent Small RNAs (sRNAs) in Bordetella pertussis Using the Prokaryotic sRNA Prediction Toolkit ANNOgesic Moon, K; Sim, M; Tai, CH et al. Microbiol Spectr, DOI://10.1128/Spectrum.00044-21 (2021)
Cigarette Smoking and Opium Use in Relation to the Oral Microbiota in Iran Wu, Z; Han, Y; Caporaso, JG et al. Microbiol Spectr, DOI://10.1128/Spectrum.00138-21 (2021)
T Cell-Mediated Antitumor Immunity Cooperatively Induced By TGFβR1 Antagonism and Gemcitabine Counteracts Reformation of the Stromal Barrier in Pancreatic Cancer Li, D; Schaub, N; Guerin, TM et al. Mol Cancer Ther, DOI://10.1158/1535-7163.MCT-20-0620 (2021)

A disease-specific language representation model for cerebrovascular disease research Lin, CH; Hsu, KC; Liang, CK et al. Comput Methods Programs Biomed, DOI://10.1016/j.cmpb.2021.106446 (2021)
Pupal behavior emerges from unstructured muscle activity in response to neuromodulation in Drosophila Elliott, AD; Berndt, A; Houpert, M et al. Elife, DOI://10.7554/eLife.68656 (2021)
A chemical probe based on the PreQ 1 metabolite enables transcriptome-wide mapping of binding sites Balaratnam, S; Rhodes, C; Bume, DD et al. Nat Commun, DOI://10.1038/s41467-021-25973-x (2021)
Tyrp1 Mutant Variants Associated with OCA3: Computational Characterization of Protein Stability and Ligand Binding Patel, MH; Dolinska, MB; Sergeev, YV; , Int J Mol Sci, DOI://10.3390/ijms221910203 (2021)
Repeated strand invasion and extensive branch migration are hallmarks of meiotic recombination Ahuja, JS; Harvey, CS; Wheeler, DL; Lichten, M; , Mol Cell, DOI://10.1016/j.molcel.2021.08.003 (2021)
Sp6/Epiprofin is a master regulator in the developing tooth Rhodes, CS; Yoshitomi, Y; Burbelo, PD et al. Biochem Biophys Res Commun, DOI://10.1016/j.bbrc.2021.10.017 (2021)
Deep Learning CT-based Quantitative Visualization Tool for Liver Volume Estimation: Defining Normal and Hepatomegaly Perez, AA; Noe-Kim, V; Lubner, MG et al. Radiology, DOI://10.1148/radiol.2021210531 (2021)
Primary mismatch repair deficient IDH-mutant astrocytoma (PMMRDIA) is a distinct type with a poor prognosis Suwala, AK; Stichel, D; Schrimpf, D et al. Acta Neuropathol, DOI://10.1007/s00401-020-02243-6 (2021)
Genomic and evolutionary classification of lung cancer in never smokers Zhang, T; Joubert, P; Ansari-Pour, N et al. Nat Genet, DOI://10.1038/s41588-021-00920-0 (2021)
Prioritizing and characterizing functionally relevant genes across human tissues Somepalli, G; Sahoo, S; Singh, A; Hannenhalli, S; , PLoS Comput Biol, DOI://10.1371/journal.pcbi.1009194 (2021)
Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing Fang, LT; Zhu, B; Zhao, Y et al. Nat Biotechnol, DOI://10.1038/s41587-021-00993-6 (2021)
Rigorous treatment of pairwise and many-body electrostatic interactions among dielectric spheres at the Debye-Hückel level Obolensky, OI; Doerr, TP; Yu, YK; , Eur Phys J E Soft Matter, DOI://10.1140/epje/s10189-021-00131-9 (2021)
Ecdysoneless protein regulates viral and cellular mRNA splicing to promote cervical oncogenesis Mirza, S; Kalluchi, A; Raza, M et al. Mol Cancer Res, DOI://10.1158/1541-7786.MCR-21-0567 (2021)
A novel exome probe set captures phototransduction genes across birds (Aves) enabling efficient analysis of vision evolution White, ND; Batz, ZA; Braun, EL et al. Mol Ecol Resour, DOI://10.1111/1755-0998.13496 (2021)
Adintoviruses: a proposed animal-tropic family of midsize eukaryotic linear dsDNA (MELD) viruses Starrett, GJ; Tisza, MJ; Welch, NL et al. Virus Evol, DOI://10.1093/ve/veaa055 (2021)
A mixed-model approach for powerful testing of genetic associations with cancer risk incorporating tumor characteristics Zhang, H; Zhao, N; Ahearn, TU et al. Biostatistics, DOI://10.1093/biostatistics/kxz065 (2021)
Neanderthal-derived genetic variation in living humans relates to schizophrenia diagnosis, to psychotic symptom severity, and to dopamine synthesis Gregory, MD; Eisenberg, DP; Hamborg, M et al. Am J Med Genet B Neuropsychiatr Genet, DOI://10.1002/ajmg.b.32872 (2021)
Social groups constrain the spatiotemporal dynamics of wild sifaka gut microbiomes Perofsky, AC; Ancel Meyers, L; Abondano, LA et al. Mol Ecol, DOI://10.1111/mec.16193 (2021)
Corrections in the CHARMM36 Parametrization of Chloride Interactions with Proteins, Lipids, and Alkali Cations, and Extension to Other Halide Anions Orabi, EA; Öztürk, TN; Bernhardt, N; Faraldo-Gómez, JD; , J Chem Theory Comput, DOI://10.1021/acs.jctc.1c00550 (2021)
NMDARs Drive the Expression of Neuropsychiatric Disorder Risk Genes Within GABAergic Interneuron Subtypes in the Juvenile Brain Mahadevan, V; Mitra, A; Zhang, Y et al. Front Mol Neurosci, DOI://10.3389/fnmol.2021.712609 (2021)
Identification of DNA Methylation Changes That Predict Onset of Post-traumatic Stress Disorder and Depression Following Physical Trauma Martin, CA; Vorn, R; Schrieber, M et al. Front Neurosci, DOI://10.3389/fnins.2021.738347 (2021)
Mitigation of endemic GI-tract pathogen-mediated inflammation through development of multimodal treatment regimen and its impact on SIV acquisition in rhesus macaques Bochart, RM; Busman-Sahay, K; Bondoc, S et al. PLoS Pathog, DOI://10.1371/journal.ppat.1009565 (2021)
Deconstructing the Treatment Effect of Remdesivir in the Adaptive COVID-19 Treatment Trial-1: Implications for Critical Care Resource Utilization Fintzi, J; Bonnett, T; Sweeney, DA et al. Clin Infect Dis, DOI://10.1093/cid/ciab712 (2021)
Microbial signatures in the lower airways of mechanically ventilated COVID-19 patients associated with poor clinical outcome Sulaiman, I; Chung, M; Angel, L et al. Nat Microbiol, DOI://10.1038/s41564-021-00961-5 (2021)
Longitudinal change in blood DNA epigenetic signature after smoking cessation Keshawarz, A; Joehanes, R; Guan, W et al. Epigenetics, DOI://10.1080/15592294.2021.1985301 (2021)
Dual Inhibition of Histone Deacetylases and the Mechanistic Target of Rapamycin Promotes Apoptosis in Cell Line Models of Uveal Melanoma Patel, RP; Thomas, JR; Curt, KM et al. Invest Ophthalmol Vis Sci, DOI://10.1167/iovs.62.12.16 (2021)
The ETS transcription factor ERF controls the exit from the naive pluripotent state in a MAPK-dependent manner Vega-Sendino, M; Olbrich, T; Tillo, D et al. Sci Adv, DOI://10.1126/sciadv.abg8306 (2021)
Blockade of GRTH/DDX25 Phosphorylation by Cyclic Peptides Provides an Avenue for Developing a Nonhormonal Male Contraceptive Raju, M; Kavarthapu, R; Anbazhagan, R et al. J Med Chem, DOI://10.1021/acs.jmedchem.1c01201 (2021)
Long term follow-up of a phase II study of cladribine with concurrent rituximab with hairy cell leukemia variant Chihara, D; Arons, E; Stetler-Stevenson, M et al. Blood Adv, DOI://10.1182/bloodadvances.2021005039 (2021)
Proteogenomic Analysis Unveils the HLA Class I-Presented Immunopeptidome in Melanoma and EGFR-Mutant Lung Adenocarcinoma Qi, YA; Maity, TK; Cultraro, CM et al. Mol Cell Proteomics, DOI://10.1016/j.mcpro.2021.100136 (2021)

Conformational changes in tubulin upon binding cryptophycin-52 reveal its mechanism of action Eren, E; Watts, NR; Sackett, DL; Wingfield, PT; , J Biol Chem, DOI://10.1016/j.jbc.2021.101138 (2021)
Systematic investigation of cytokine signaling activity at the tissue and single-cell levels Jiang, P; Zhang, Y; Ru, B et al. Nat Methods, DOI://10.1038/s41592-021-01274-5 (2021)
Phenotypic and Genetic Spectrum of Autosomal Recessive Bestrophinopathy and Best Vitelliform Macular Dystrophy Pfister, TA; Zein, WM; Cukras, CA et al. Invest Ophthalmol Vis Sci, DOI://10.1167/iovs.62.6.22 (2021)
The taxonomic distribution of histamine-secreting bacteria in the human gut microbiome Mou, Z; Yang, Y; Hall, AB; Jiang, X; , BMC Genomics, DOI://10.1186/s12864-021-08004-3 (2021)
A lymphocyte-microglia-astrocyte axis in chronic active multiple sclerosis Absinta, M; Maric, D; Gharagozloo, M et al. Nature, DOI://10.1038/s41586-021-03892-7 (2021)
Binding of regulatory proteins to nucleosomes is modulated by dynamic histone tails Peng, Y; Li, S; Onufriev, A et al. Nat Commun, DOI://10.1038/s41467-021-25568-6 (2021)
Joint testing of overall and simple effects for the two-by-two factorial trial design Leifer, ES; Troendle, JF; Kolecki, A; Follmann, DA; , Clin Trials, DOI://10.1177/17407745211014493 (2021)
Impact of depression and stress on placental DNA methylation in ethnically diverse pregnant women Tesfaye, M; Chatterjee, S; Zeng, X et al. Epigenomics, DOI://10.2217/epi-2021-0192 (2021)
Altered regulation of DPF3, a member of the SWI/SNF complexes, underlies the 14q24 renal cancer susceptibility locus Colli, LM; Jessop, L; Myers, TA et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2021.07.009 (2021)
NOTCH-mediated ex vivo expansion of human hematopoietic stem and progenitor cells by culture under hypoxia Araki, D; Fu, JF; Huntsman, H et al. Stem Cell Reports, DOI://10.1016/j.stemcr.2021.08.001 (2021)
Specific β-Defensins Stimulate Pruritus through Activation of Sensory Neurons Tseng, PY; Hoon, MA; , J Invest Dermatol, DOI://10.1016/j.jid.2021.07.178 (2021)
Transcriptomic profiling in canines and humans reveals cancer specific gene modules and biological mechanisms common to both species Tawa, GJ; Braisted, J; Gerhold, D et al. PLoS Comput Biol, DOI://10.1371/journal.pcbi.1009450 (2021)
Genome-Wide Analysis Unveils DNA Helicase RECQ1 as a Regulator of Estrogen Response Pathway in Breast Cancer Cells Lu, X; Redon, CE; Tang, W et al. Mol Cell Biol, DOI://10.1128/MCB.00515-20 (2021)
Training Spiking Neural Networks in the Strong Coupling Regime Kim, CM; Chow, CC; , Neural Comput, DOI://10.1162/neco_a_01379 (2021)
Genomic Classification and Clinical Outcome in Rhabdomyosarcoma: A Report From an International Consortium Shern, JF; Selfe, J; Izquierdo, E et al. J Clin Oncol, DOI://10.1200/JCO.20.03060 (2021)
An engineered IL-2 partial agonist promotes CD8 + T cell stemness Mo, F; Yu, Z; Li, P et al. Nature, DOI://10.1038/s41586-021-03861-0 (2021)
Progesterone promotes immunomodulation and tumor development in the murine mammary gland Werner, LR; Gibson, KA; Goodman, ML et al. J Immunother Cancer, DOI://10.1136/jitc-2020-001710 (2021)
Stem-like cells drive NF1-associated MPNST functional heterogeneity and tumor progression Sun, D; Xie, XP; Zhang, X et al. Cell Stem Cell, DOI://10.1016/j.stem.2021.04.029 (2021)
Tumor metabolism and associated serum metabolites define prognostic subtypes of Asian hepatocellular carcinoma Pomyen, Y; Budhu, A; Chaisaingmongkol, J et al. Sci Rep, DOI://10.1038/s41598-021-91560-1 (2021)
Identification of bacteria-derived HLA-bound peptides in melanoma Kalaora, S; Nagler, A; Nejman, D et al. Nature, DOI://10.1038/s41586-021-03368-8 (2021)
A clinically applicable integrative molecular classification of meningiomas Nassiri, F; Liu, J; Patil, V et al. Nature, DOI://10.1038/s41586-021-03850-3 (2021)
CBFB cooperates with p53 to maintain TAp73 expression and suppress breast cancer Malik, N; Yan, H; Yang, HH et al. PLoS Genet, DOI://10.1371/journal.pgen.1009553 (2021)
Fully-Automated Deep Learning Tool for Sarcopenia Assessment on CT: L1 Versus L3 Vertebral Level Muscle Measurements for Opportunistic Prediction of Adverse Clinical Outcomes Pickhardt, PJ; Perez, AA; Garrett, JW et al. AJR Am J Roentgenol, DOI://10.2214/AJR.21.26486 (2021)
Identification and Validation of T-cell Receptors Targeting RAS Hotspot Mutations in Human Cancers for Use in Cell-based Immunotherapy Levin, N; Paria, BC; Vale, NR et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-21-0849 (2021)
Chromosome 8 gain is associated with high-grade transformation in MPNST Dehner, C; Moon, CI; Zhang, X et al. JCI Insight, DOI://10.1172/jci.insight.146351 (2021)
Replication of the Mammalian Genome by Replisomes Specific for Euchromatin and Heterochromatin Zhang, J; Bellani, MA; Huang, J et al. Front Cell Dev Biol, DOI://10.3389/fcell.2021.729265 (2021)
Identifying and characterizing virus-encoded circular RNAs Tagawa, T; Kopardé, VN; Ziegelbauer, JM; , Methods, DOI://10.1016/j.ymeth.2021.03.004 (2021)
Two mechanisms of chromosome fragility at replication-termination sites in bacteria Mei, Q; Fitzgerald, DM; Liu, J et al. Sci Adv, DOI://10.1126/sciadv.abe2846 (2021)
Dual PD-L1 and TGF-b blockade in patients with recurrent respiratory papillomatosis Robbins, Y; Friedman, J; Clavijo, PE et al. J Immunother Cancer, DOI://10.1136/jitc-2021-003113 (2021)
Treatment of Relapsing HPV Diseases by Restored Function of Natural Killer Cells Lisco, A; Hsu, AP; Dimitrova, D et al. N Engl J Med, DOI://10.1056/NEJMoa2102715 (2021)
Biomedical Vocabulary Alignment at Scale in the UMLS Metathesaurus Nguyen, V; Yip, HY; Bodenreider, O; , Proc Int World Wide Web Conf, DOI://10.1145/3442381.3450128 (2021)
The third-generation EGFR inhibitor almonertinib (HS-10296) resensitizes ABCB1-overexpressing multidrug-resistant cancer cells to chemotherapeutic drugs Wu, CP; Hung, TH; Lusvarghi, S et al. Biochem Pharmacol, DOI://10.1016/j.bcp.2021.114516 (2021)
Compromised counterselection by FAS creates an aggressive subtype of germinal center lymphoma Razzaghi, R; Agarwal, S; Kotlov, N et al. J Exp Med, DOI://10.1084/jem.20201173 (2021)
Regulation of the Dimerization and Activity of SARS-CoV-2 Main Protease through Reversible Glutathionylation of Cysteine 300 Davis, DA; Bulut, H; Shrestha, P et al. mBio, DOI://10.1128/mBio.02094-21 (2021)
Gut microbiota development during infancy: Impact of introducing allergenic foods Marrs, T; Jo, JH; Perkin, MR et al. J Allergy Clin Immunol, DOI://10.1016/j.jaci.2020.09.042 (2021)
Immune cell deconvolution of bulk DNA methylation data reveals an association with methylation class, key somatic alterations, and cell state in glial/glioneuronal tumors Singh, O; Pratt, D; Aldape, K; , Acta Neuropathol Commun, DOI://10.1186/s40478-021-01249-9 (2021)

Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing Xiao, W; Ren, L; Chen, Z et al. Nat Biotechnol, DOI://10.1038/s41587-021-00994-5 (2021)
Skin Metagenomic Sequence Analysis of Early Candida auris Outbreaks in U.S. Nursing Homes Huang, X; Welsh, RM; Deming, C et al. mSphere, DOI://10.1128/mSphere.00287-21 (2021)
Applications of genetic-epigenetic tissue mapping for plasma DNA in prenatal testing, transplantation and oncology Gai, W; Zhou, Z; Agbor-Enoh, S et al. Elife, DOI://10.7554/eLife.64356 (2021)
Toward Reducing hERG Affinities for DAT Inhibitors with a Combined Machine Learning and Molecular Modeling Approach Lee, KH; Fant, AD; Guo, J et al. J Chem Inf Model, DOI://10.1021/acs.jcim.1c00856 (2021)
Identification of human long noncoding RNAs associated with nonalcoholic fatty liver disease and metabolic homeostasis Ruan, X; Li, P; Ma, Y et al. J Clin Invest, DOI://10.1172/JCI136336 (2021)
Magnetization transfer weighted EPI facilitates cortical depth determination in native fMRI space Chai, Y; Li, L; Wang, Y et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118455 (2021)
ZFTA Translocations Constitute Ependymoma Chromatin Remodeling and Transcription Factors Kupp, R; Ruff, L; Terranova, S et al. Cancer Discov, DOI://10.1158/2159-8290.CD-20-1052 (2021)
Tobacco smoking induces metabolic reprogramming of renal cell carcinoma Reigle, J; Secic, D; Biesiada, J et al. J Clin Invest, DOI://10.1172/JCI140522 (2021)
Understanding tumour cell heterogeneity and its implication for immunotherapy in liver cancer using single-cell analysis Heinrich, S; Craig, AJ; Ma, L et al. J Hepatol, DOI://10.1016/j.jhep.2020.11.036 (2021)
A penalized regression framework for building polygenic risk models based on summary statistics from genome-wide association studies and incorporating external information Chen, TH; Chatterjee, N; Landi, MT; Shi, J; , J Am Stat Assoc, DOI://10.1080/01621459.2020.1764849 (2021)
Differences in risk factors for molecular subtypes of clear cell renal cell carcinoma Purdue, MP; Rhee, J; Moore, L et al. Int J Cancer, DOI://10.1002/ijc.33701 (2021)
A Novel ARL3 Gene Mutation Associated With Autosomal Dominant Retinal Degeneration Ratnapriya, R; Jacobson, SG; Cideciyan, AV et al. Front Cell Dev Biol, DOI://10.3389/fcell.2021.720782 (2021)

Determinants of conductance of a bacterial voltage-gated sodium channel Chen, AY; Brooks, BR; Damjanovic, A; , Biophys J, DOI://10.1016/j.bpj.2021.06.013 (2021)
Genetic risk scores for cardiometabolic traits in sub-Saharan African populations Ekoru, K; Adeyemo, AA; Chen, G et al. Int J Epidemiol, DOI://10.1093/ije/dyab046 (2021)
Cell-free DNA ultra-low-pass whole genome sequencing to distinguish malignant peripheral nerve sheath tumor (MPNST) from its benign precursor lesion: A cross-sectional study Szymanski, JJ; Sundby, RT; Jones, PA et al. PLoS Med, DOI://10.1371/journal.pmed.1003734 (2021)
SARS-CoV-2 S2P spike ages through distinct states with altered immunogenicity Olia, AS; Tsybovsky, Y; Chen, SJ et al. J Biol Chem, DOI://10.1016/j.jbc.2021.101127 (2021)
Ras isoform-specific expression, chromatin accessibility, and signaling Nussinov, R; Zhang, M; Maloney, R; Jang, H; , Biophys Rev, DOI://10.1007/s12551-021-00817-6 (2021)
Prenatal maternal infection promotes tissue-specific immunity and inflammation in offspring Lim, AI; McFadden, T; Link, VM et al. Science, DOI://10.1126/science.abf3002 (2021)

Identification of natural product modulators of Merkel cell carcinoma cell growth and survival Smith, EA; Hill, NT; Gelb, T et al. Sci Rep, DOI://10.1038/s41598-021-93097-9 (2021)
A linear noise approximation for stochastic epidemic models fit to partially observed incidence counts Fintzi, J; Wakefield, J; Minin V Biometrics, 10.1111/biom.13538 (2021)
X-chromosome influences on neuroanatomical variation in humans Mallard, TT; Liu, S; Seidlitz, J et al. Nat Neurosci, DOI://10.1038/s41593-021-00890-w (2021)
Topographical and laminar distribution of audiovisual processing within human planum temporale Chai, Y; Liu, TT; Marrett, S et al. Prog Neurobiol, DOI://10.1016/j.pneurobio.2021.102121 (2021)
Origin of the Isomer Stability of Polymethylated DOTA Chelates Complexed with Ln3+ Ions Yong-Sok Lee, Zhongyou Mou et al Eur. J. Inorg. Chem, doi://10.1002/ejic.202100252 (2021)
Empirical Findings on the Role of Structured Data, Unstructured Data, and their Combination for Automatic Clinical Phenotyping Moldwin, A; Demner-Fushman, D; Goodwin, TR; , AMIA Annu Symp Proc, 1942-597X (2021)
The trans-ancestral genomic architecture of glycemic traits Chen, J; Spracklen, CN; Marenne, G et al. Nat Genet, DOI://10.1038/s41588-021-00852-9 (2021)
Compound heterozygous KCTD7 variants in progressive myoclonus epilepsy Burke, EA; Sturgeon, M; Zastrow, DB et al. J Neurogenet, DOI://10.1080/01677063.2021.1892095 (2021)
Genetic contributions to alcohol use disorder treatment outcomes: a genome-wide pharmacogenomics study Biernacka, JM; Coombes, BJ; Batzler, A et al. Neuropsychopharmacology, DOI://10.1038/s41386-021-01097-0 (2021)
The N terminus of α-synuclein dictates fibril formation McGlinchey, RP; Ni, X; Shadish, JA et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2023487118 (2021)
Hedgehog dysregulation contributes to tissue-specific inflammaging of resident macrophages Babagana, M; Oh, KS; Chakraborty, S et al. Aging (Albany NY), DOI://10.18632/aging.203422 (2021)
Recovering prokaryotic genomes from host-associated, short-read shotgun metagenomic sequencing data Saheb Kashaf, S; Almeida, A; Segre, JA; Finn, RD; , Nat Protoc, DOI://10.1038/s41596-021-00508-2 (2021)
Genome-wide association studies identify 137 genetic loci for DNA methylation biomarkers of aging McCartney, DL; Min, JL; Richmond, RC et al. Genome Biol, DOI://10.1186/s13059-021-02398-9 (2021)
Effects of processed meat and drinking water nitrate on oral and fecal microbial populations in a controlled feeding study Sinha, R; Zhao, N; Goedert, JJ et al. Environ Res, DOI://10.1016/j.envres.2021.111084 (2021)
Dynamic Time Warping Identifies Functionally Distinct fMRI Resting State Cortical Networks Specific to VTA and SNc: A Proof of Concept Philips, RT; Torrisi, SJ; Gorka, AX et al. Cereb Cortex, DOI://10.1093/cercor/bhab273 (2021)
Rat PRDM9 shapes recombination landscapes, duration of meiosis, gametogenesis, and age of fertility Mihola, O; Landa, V; Pratto, F et al. BMC Biol, DOI://10.1186/s12915-021-01017-0 (2021)
Amygdala Functional Connectivity and Negative Reactive Temperament at Age 4 Months Filippi, CA; Ravi, S; Bracy, M et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2020.11.021 (2021)
Sperm acrosome overgrowth and infertility in mice lacking chromosome 18 pachytene piRNA Choi, H; Wang, Z; Dean, J; , PLoS Genet, DOI://10.1371/journal.pgen.1009485 (2021)
Intratumoral γδ T-Cell Infiltrates, Chemokine (C-C Motif) Ligand 4/Chemokine (C-C Motif) Ligand 5 Protein Expression and Survival in Patients With Hepatocellular Carcinoma Zhao, N; Dang, H; Ma, L et al. Hepatology, DOI://10.1002/hep.31412 (2021)
FOXF1 is required for the oncogenic properties of PAX3-FOXO1 in rhabdomyosarcoma Milewski, D; Shukla, S; Gryder, BE et al. Oncogene, DOI://10.1038/s41388-021-01694-9 (2021)
Single-cell atlas of tumor cell evolution in response to therapy in hepatocellular carcinoma and intrahepatic cholangiocarcinoma Ma, L; Wang, L; Khatib, SA et al. J Hepatol, DOI://10.1016/j.jhep.2021.06.028 (2021)
High-resolution structure and strain comparison of infectious mammalian prions Kraus, A; Hoyt, F; Schwartz, CL et al. Mol Cell, DOI://10.1016/j.molcel.2021.08.011 (2021)
Nanobodies from camelid mice and llamas neutralize SARS-CoV-2 variants Xu, J; Xu, K; Jung, S et al. Nature, DOI://10.1038/s41586-021-03676-z (2021)
Novel Tsg101 Binding Partners Regulate Viral L Domain Trafficking Strickland, M; Nyenhuis, D; Watanabe, SM et al. Viruses, DOI://10.3390/v13061147 (2021)
An Integrative Genomic Strategy Identifies sRAGE as a Causal and Protective Biomarker of Lung Function Keefe, J; Yao, C; Hwang, SJ et al. Chest, DOI://10.1016/j.chest.2021.06.053 (2021)
Bias correction for estimates from linear excess relative risk models in small case-control studies Roberti, S; van Leeuwen, FE; Hauptmann, M; Pfeiffer, RM; , Stat Med, DOI://10.1002/sim.9158 (2021)
Regional White Matter Scaling in the Human Brain Warling, A; McDermott, CL; Liu, S et al. J Neurosci, DOI://10.1523/JNEUROSCI.1193-21.2021 (2021)
Experimental Babesia rossi infection induces hemolytic, metabolic, and viral response pathways in the canine host Smith, RL; Goddard, A; Boddapati, A et al. BMC Genomics, DOI://10.1186/s12864-021-07889-4 (2021)
Granzyme A and CD160 expression delineates ILC1 with graded functions in the mouse liver Di Censo, C; Marotel, M; Mattiola, I et al. Eur J Immunol, DOI://10.1002/eji.202149209 (2021)
Mechanistic basis of breast cancer resistance protein inhibition by new indeno[1,2-b]indoles Kita, DH; Guragossian, N; Zattoni, IF et al. Sci Rep, DOI://10.1038/s41598-020-79892-w (2021)
POLD1 Deficiency Reveals a Role for POLD1 in DNA Repair and T and B Cell Development Nichols-Vinueza, DX; Delmonte, OM; Bundy, V et al. J Clin Immunol, DOI://10.1007/s10875-020-00903-6 (2021)
Genome-wide covariation in SARS-CoV-2 Cresswell-Clay, E; Periwal, V; , Math Biosci, DOI://10.1016/j.mbs.2021.108678 (2021)
Atomic view of cosolute-induced protein denaturation probed by NMR solvent paramagnetic relaxation enhancement Okuno, Y; Yoo, J; Schwieters, CD et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2112021118 (2021)
Proneural genes define ground-state rules to regulate neurogenic patterning and cortical folding Han, S; Okawa, S; Wilkinson, GA et al. Neuron, DOI://10.1016/j.neuron.2021.07.007 (2021)
Fecal microbiota transplant overcomes resistance to anti-PD-1 therapy in melanoma patients Davar, D; Dzutsev, AK; McCulloch, JA et al. Science, DOI://10.1126/science.abf3363 (2021)
Sclerosing Sialadenitis Is Associated With Salivary Gland Hypofunction and a Unique Gene Expression Profile in Sjögren's Syndrome Yin H, Pranzatelli TJF et al. Front Immunol ., doi://10.3389/fimmu.2021.699722. (2021)

The large bat Helitron DNA transposase forms a compact monomeric assembly that buries and protects its covalently bound 5'-transposon end Kosek, D; Grabundzija, I; Lei, H et al. Mol Cell, DOI://10.1016/j.molcel.2021.07.028 (2021)
Identification of Accessible Hepatic Gene Signatures for Interindividual Variations in Nutrigenomic Response to Dietary Supplementation of Omega-3 Fatty Acids Shi, Y; Li, P; Jiang, CF et al. Cells, DOI://10.3390/cells10020467 (2021)
Mouse papillomavirus type 1 (MmuPV1) DNA is frequently integrated in benign tumors by microhomology-mediated end-joining Yu, L; Majerciak, V; Xue, XY et al. PLoS Pathog, DOI://10.1371/journal.ppat.1009812 (2021)
RGC-32 Acts as a Hub to Regulate the Transcriptomic Changes Associated With Astrocyte Development and Reactive Astrocytosis Tatomir, A; Beltrand, A; Nguyen, V et al. Front Immunol, DOI://10.3389/fimmu.2021.705308 (2021)
Identification of retinal ganglion cell types and brain nuclei expressing the transcription factor Brn3c/Pou4f3 using a Cre recombinase knock-in allele Parmhans, N; Fuller, AD; Nguyen, E et al. J Comp Neurol, DOI://10.1002/cne.25065 (2021)
Hepcidin-regulating iron metabolism genes and pancreatic ductal adenocarcinoma: a pathway analysis of genome-wide association studies Julián-Serrano, S; Yuan, F; Wheeler, W et al. Am J Clin Nutr, DOI://10.1093/ajcn/nqab217 (2021)

JAK inhibitors dampen activation of interferon-activated transcriptomes and the SARS-CoV-2 receptor ACE2 in human renal proximal tubules Jankowski, J; Lee, HK; Wilflingseder, J; Hennighausen, L; , iScience, DOI://10.1016/j.isci.2021.102928 (2021)
Color Space Geometry Uncovered with Magnetoencephalography Rosenthal, IA; Singh, SR; Hermann, KL et al. Curr Biol, DOI://10.1016/j.cub.2021.02.023 (2021)
Novel Majeed Syndrome-Causing LPIN2 Mutations Link Bone Inflammation to Inflammatory M2 Macrophages and Accelerated Osteoclastogenesis Bhuyan, F; de Jesus, AA; Mitchell, J et al. Arthritis Rheumatol, DOI://10.1002/art.41624 (2021)
The X-linked acrogigantism-associated gene gpr101 is a regulator of early embryonic development and growth in zebrafish Trivellin, G; Tirosh, A; Hernández-Ramírez, LC et al. Mol Cell Endocrinol, DOI://10.1016/j.mce.2020.111091 (2021)
How to Interpret Resting-State fMRI: Ask Your Participants Gonzalez-Castillo, J; Kam, JWY; Hoy, CW; Bandettini, PA; , J Neurosci, DOI://10.1523/JNEUROSCI.1786-20.2020 (2021)
RepairSig: Deconvolution of DNA damage and repair contributions to the mutational landscape of cancer Wojtowicz, D; Hoinka, J; Amgalan, B et al. Cell Syst, DOI://10.1016/j.cels.2021.07.004 (2021)
Contrasting Patterns of Gene Duplication, Relocation, and Selection Among Human Taste Genes Wang, Y; Sun, Y; Joseph, PV; , Evol Bioinform Online, DOI://10.1177/11769343211035141 (2021)
Translational autoregulation of the S. cerevisiae high-affinity polyamine transporter Hol1 Vindu, A; Shin, BS; Choi, K et al. Mol Cell, DOI://10.1016/j.molcel.2021.07.020 (2021)
A phage-encoded nucleoid associated protein compacts both host and phage DNA and derepresses H-NS silencing Son, B; Patterson-West, J; Arroyo-Mendoza, M et al. Nucleic Acids Res, DOI://10.1093/nar/gkab678 (2021)
Branebrutinib (BMS-986195), a Bruton'ss Tyrosine Kinase Inhibitor, Resensitizes P-Glycoprotein-Overexpressing Multidrug-Resistant Cancer Cells to Chemotherapeutic Agents Wu, CP; Murakami, M; Wu, YS et al. Front Cell Dev Biol, DOI://10.3389/fcell.2021.699571 (2021)
Distinct Mitochondrial Pathologies Caused by Mutations of the Proximal Tubular Enzymes EHHADH and GATM Forst, AL; Reichold, M; Kleta, R; Warth, R; , Front Physiol, DOI://10.3389/fphys.2021.715485 (2021)
Use of Variational Autoencoders with Unsupervised Learning to Detect Incorrect Organ Segmentations at CT Sandfort, V; Yan, K; Graffy, PM et al. Radiol Artif Intell, DOI://10.1148/ryai.2021200218 (2021)

gEAR: Gene Expression Analysis Resource portal for community-driven, multi-omic data exploration Orvis, J; Gottfried, B; Kancherla, J et al. Nat Methods, DOI://10.1038/s41592-021-01200-9 (2021)
Endemic Burkitt Lymphoma in second-degree relatives in Northern Uganda: in-depth genome-wide analysis suggests clues about genetic susceptibility Gouveia, MH; Otim, I; Ogwang, MD et al. Leukemia, DOI://10.1038/s41375-020-01052-w (2021)
Linking cortical circuit models to human cognition with laminar fMRI Yang, J; Huber, L; Yu, Y; Bandettini, PA; , Neurosci Biobehav Rev, DOI://10.1016/j.neubiorev.2021.07.005 (2021)
Serine hydroxymethyltransferase 2 expression promotes tumorigenesis in rhabdomyosarcoma with 12q13-q14 amplification Nguyen, TH; Vemu, PL; Hoy, GE et al. J Clin Invest, DOI://10.1172/JCI138022 (2021)
Aberrant type 1 immunity drives susceptibility to mucosal fungal infections Break, TJ; Oikonomou, V; Dutzan, N et al. Science, DOI://10.1126/science.aay5731 (2021)
The p53-induced RNA-binding protein ZMAT3 is a splicing regulator that inhibits the splicing of oncogenic CD44 variants in colorectal carcinoma Muys, BR; Anastasakis, DG; Claypool, D et al. Genes Dev, DOI://10.1101/gad.342634.120 (2021)

Host-Virus Chimeric Events in SARS-CoV-2-Infected Cells Are Infrequent and Artifactual Yan, B; Chakravorty, S; Mirabelli, C et al. J Virol, DOI://10.1128/JVI.00294-21 (2021)
Direct identification of neoantigen-specific TCRs from tumor specimens by high-throughput single-cell sequencing Lu, YC; Zheng, Z; Lowery, FJ et al. J Immunother Cancer, DOI://10.1136/jitc-2021-002595 (2021)
Resting-State Functional Connectivity and Psychopathology in Klinefelter Syndrome (47, XXY) Whitman, ET; Liu, S; Torres, E et al. Cereb Cortex, DOI://10.1093/cercor/bhab077 (2021)
A computational network perspective on pediatric anxiety symptoms Abend, R; Bajaj, MA; Coppersmith, DDL et al. Psychol Med, DOI://10.1017/S0033291720000501 (2021)
Strengths and challenges of longitudinal non-human primate neuroimaging Song, X; García-Saldivar, P; Kindred, N et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118009 (2021)
NLM-Gene, a richly annotated gold standard dataset for gene entities that addresses ambiguity and multi-species gene recognition Islamaj, R; Wei, CH; Cissel, D et al. J Biomed Inform, DOI://10.1016/j.jbi.2021.103779 (2021)

Shifts in the Skin Bacterial and Fungal Communities of Healthy Children Transitioning through Puberty Park, J; Schwardt, NH; Jo, JH et al. J Invest Dermatol, DOI://10.1016/j.jid.2021.04.034 (2021)
Structural basis for placental malaria mediated by Plasmodium falciparum VAR2CSA Ma, R; Lian, T; Huang, R et al. Nat Microbiol, DOI://10.1038/s41564-020-00858-9 (2021)
Unusual phenotypes in patients with a pathogenic germline variant in DICER1 Venger, K; Elbracht, M; Carlens, J et al. Fam Cancer, DOI://10.1007/s10689-021-00271-z (2021)
Clinical Manifestations, Mutational Analysis, and Immunological Phenotype in Patients with RAG1/2 Mutations: First Cases Series from Mexico and Description of Two Novel Mutations Lugo-Reyes, SO; Pastor, N; González-Serrano, E et al. J Clin Immunol, DOI://10.1007/s10875-021-01052-0 (2021)
Distinguishing type II focal cortical dysplasias from normal cortex: A novel normative modeling approach Snyder, K; Whitehead, EP; Theodore, WH et al. Neuroimage Clin, DOI://10.1016/j.nicl.2021.102565 (2021)
The genome of the stable fly, Stomoxys calcitrans, reveals potential mechanisms underlying reproduction, host interactions, and novel targets for pest control Olafson, PU; Aksoy, S; Attardo, GM et al. BMC Biol, DOI://10.1186/s12915-021-00975-9 (2021)

Toward a Liver Cell Atlas: Understanding Liver Biology in Health and Disease at Single-Cell Resolution Ma, L; Khatib, S; Craig, AJ; Wang, XW; , Semin Liver Dis, DOI://10.1055/s-0041-1729970 (2021)
Mutant Idh2 cooperates with a NUP98-HOXD13 fusion to induce early immature thymocyte precursor ALL Goldberg, L; Negi, V; Chung, YJ et al. Cancer Res, DOI://10.1158/0008-5472.CAN-21-1027 (2021)
Gene-Based Association Testing of Dichotomous Traits With Generalized Functional Linear Mixed Models Using Extended Pedigrees: Applications to Age-Related Macular Degeneration Jiang, Y; Chiu, CY; Yan, Q et al. J Am Stat Assoc, DOI://10.1080/01621459.2020.1799809 (2021)
Acute ambient air pollution exposure and placental Doppler results in the NICHD fetal growth studies - Singleton cohort Ouidir, M; Tekola-Ayele, F; Canty, T et al. Environ Res, DOI://10.1016/j.envres.2021.111728 (2021)
Monocyte Subsets With High Osteoclastogenic Potential and Their Epigenetic Regulation Orchestrated by IRF8 Das, A; Wang, X; Kang, J et al. J Bone Miner Res, DOI://10.1002/jbmr.4165 (2021)
Emotional distractors and attentional control in anxious youth: eye tracking and fMRI data Smith, AR; Haller, SP; Haas, SA et al. Cogn Emot, DOI://10.1080/02699931.2020.1816911 (2021)
Endogenous retroviruses drive lineage-specific regulatory evolution across primate and rodent placentae Sun, MA; Wolf, G; Wang, Y et al. Mol Biol Evol, DOI://10.1093/molbev/msab223 (2021)
Roseabol A, a New Peptaibol from the Fungus Clonostachys rosea Kim, CK; Krumpe, LRH; Smith, E et al. Molecules, DOI://10.3390/molecules26123594 (2021)
Frequency of Pathogenic Germline Variants in Cancer-Susceptibility Genes in the Childhood Cancer Survivor Study Kim, J; Gianferante, M; Karyadi, DM et al. JNCI Cancer Spectr, DOI://10.1093/jncics/pkab007 (2021)
In vivo evolution of an emerging zoonotic bacterial pathogen in an immunocompromised human host Launay, A; Wu, CJ; Dulanto Chiang, A et al. Nat Commun, DOI://10.1038/s41467-021-24668-7 (2021)
A multi-ethnic epigenome-wide association study of leukocyte DNA methylation and blood lipids Jhun, MA; Mendelson, M; Wilson, R et al. Nat Commun, DOI://10.1038/s41467-021-23899-y (2021)
PD-1 blockade exacerbates Mycobacterium tuberculosis infection in rhesus macaques Kauffman, KD; Sakai, S; Lora, NE et al. Sci Immunol, DOI://10.1126/sciimmunol.abf3861 (2021)
Publisher Correction: A multi-ethnic epigenome-wide association study of leukocyte DNA methylation and blood lipids Jhun, MA; Mendelson, M; Wilson, R et al. Nat Commun, DOI://10.1038/s41467-021-24600-z (2021)
M1BP cooperates with CP190 to activate transcription at TAD borders and promote chromatin insulator activity Bag, I; Chen, S; Rosin, LF et al. Nat Commun, DOI://10.1038/s41467-021-24407-y (2021)
Oncogenic Hedgehog-smoothened signaling depends on YAP1-TAZ/TEAD transcription to restrain differentiation in basal cell carcinoma Yuan, Y; Salinas Parra, N; Chen, Q; Iglesias-Bartolome, R; , J Invest Dermatol, DOI://10.1016/j.jid.2021.06.020 (2021)
Targeting a noncanonical, hairpin-containing G-quadruplex structure from the MYCN gene Yang, M; Carter, S; Parmar, S et al. Nucleic Acids Res, DOI://10.1093/nar/gkab594 (2021)
Budding epithelial morphogenesis driven by cell-matrix versus cell-cell adhesion Wang, S; Matsumoto, K; Lish, SR et al. Cell, DOI://10.1016/j.cell.2021.05.015 (2021)
Modelling PNPLA3-Associated Non-Alcoholic Fatty Liver Disease Using Human Induced Pluripotent Stem Cells Tilson, SG; Morell, CM; Lenaerts, AS et al. Hepatology, DOI://10.1002/hep.32063 (2021)
Statistical learning occurs during practice while high-order rule learning during rest period Quentin, R; Fanuel, L; Kiss, M et al. NPJ Sci Learn, DOI://10.1038/s41539-021-00093-9 (2021)
A Randomized Controlled Trial of Computerized Interpretation Bias Training for Disruptive Mood Dysregulation Disorder: A Fast-Fail Study Haller, SP; Stoddard, J; Botz-Zapp, C et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2021.05.022 (2021)
Characterizing Expression and Regulation of Gamma-Herpesviral Circular RNAs Tagawa, T; Oh, D; Santos, J et al. Front Microbiol, DOI://10.3389/fmicb.2021.670542 (2021)
The dystonia gene THAP1 controls DNA double-strand break repair choice Shinoda, K; Zong, D; Callen, E et al. Mol Cell, DOI://10.1016/j.molcel.2021.03.034 (2021)
PARK7-Related Early Onset Parkinson Disease in the Setting of Complete Uniparental Isodisomy of Chromosome 1 Xiao, C; Markello, T; Zein, WM et al. Neurol Genet, DOI://10.1212/NXG.0000000000000606 (2021)
Genetic and evolutionary analysis of SARS-CoV-2 circulating in the region surrounding Islamabad, Pakistan Tamim, S; Trovao, NS; Thielen, P et al. Infect Genet Evol, DOI://10.1016/j.meegid.2021.105003 (2021)
Discovery and fine-mapping of height loci via high-density imputation of GWASs in individuals of African ancestry Graff, M; Justice, AE; Young, KL et al. Am J Hum Genet, DOI://10.1016/j.ajhg.2021.02.011 (2021)
A fluorescence-based genetic screen reveals diverse mechanisms silencing small RNA signaling in E. coli Chen, J; To, L; de Mets, F et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2106964118 (2021)
Computational Modeling of C-Terminal Tails to Predict the Calcium-Dependent Secretion of Endoplasmic Reticulum Resident Proteins Trychta, KA; Xie, B; Verma, RK et al. Front Chem, DOI://10.3389/fchem.2021.689608 (2021)
Circulating mitochondrial DNA is a proinflammatory DAMP in sickle cell disease Tumburu, L; Ghosh-Choudhary, S; Seifuddin, FT et al. Blood, DOI://10.1182/blood.2020009063 (2021)
Multimodal Molecular Imaging Detects Early Responses to Immune Checkpoint Blockade Saida, Y; Brender, JR; Yamamoto, K et al. Cancer Res, DOI://10.1158/0008-5472.CAN-20-3182 (2021)
Landscape of GPCR expression along the mouse nephron Poll, BG; Chen, L; Chou, CL et al. Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00077.2021 (2021)
Activation of the antiviral factor RNase L triggers translation of non-coding mRNA sequences Karasik, A; Jones, GD; DePass, AV; Guydosh, NR; , Nucleic Acids Res, DOI://10.1093/nar/gkab036 (2021)
Fine-tuning neural excitation/inhibition for tailored ketamine use in treatment-resistant depression Fagerholm, ED; Leech, R; Williams, S et al. Transl Psychiatry, DOI://10.1038/s41398-021-01442-3 (2021)
Meiotic recombination mirrors patterns of germline replication in mice and humans Pratto, F; Brick, K; Cheng, G et al. Cell, DOI://10.1016/j.cell.2021.06.025 (2021)
Prior Cocaine Use Alters the Normal Evolution of Information Coding in Striatal Ensembles during Value-Guided Decision-Making Mueller, LE; Sharpe, MJ; Stalnaker, TA et al. J Neurosci, DOI://10.1523/JNEUROSCI.1755-20.2020 (2021)
A versatile polypharmacology platform promotes cytoprotection and viability of human pluripotent and differentiated cells Chen, Y; Tristan, CA; Chen, L et al. Nat Methods, DOI://10.1038/s41592-021-01126-2 (2021)
Notch signaling and efficacy of PD-1/PD-L1 blockade in relapsed small cell lung cancer Roper, N; Velez, MJ; Chiappori, A et al. Nat Commun, DOI://10.1038/s41467-021-24164-y (2021)

The combined action of CTCF and its testis-specific paralog BORIS is essential for spermatogenesis Rivero-Hinojosa, S; Pugacheva, EM; Kang, S et al. Nat Commun, DOI://10.1038/s41467-021-24140-6 (2021)
Analysis of PTRHD1 common and rare variants in European patients with Parkinson's disease Sosero, YL; Bandres-Ciga, S; Gan-Or, Z et al. Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2021.06.005 (2021)
Navigator-Guided Motion and B0 Correction of T2*-Weighted Magnetic Resonance Imaging Improves Multiple Sclerosis Cortical Lesion Detection Liu, J; Beck, ES; Filippini, S et al. Invest Radiol, DOI://10.1097/RLI.0000000000000754 (2021)
Retbindin mediates light-damage in mouse retina while its absence leads to premature retinal aging Fan, J; Rajapakse, D; Peterson, K et al. Exp Eye Res, DOI://10.1016/j.exer.2021.108698 (2021)
Personalized Single-Cell Proteogenomics to Distinguish Acute Myeloid Leukemia from Nonmalignant Clonal Hematopoiesis Dillon, LW; Ghannam, J; Nosiri, C et al. Cancer Discov, DOI://10.1158/2643-3230.BCD-21-0046 (2021)
The structures of two salivary proteins from the West Nile vector Culex quinquefasciatus reveal a beta-trefoil fold with putative sugar binding properties Kern, O; Valenzuela Leon, PC; Gittis, AG et al. Curr Res Struct Biol, DOI://10.1016/j.crstbi.2021.03.001 (2021)
Histone tails as signaling antennas of chromatin Peng, Y; Li, S; Landsman, D; Panchenko, AR; , Curr Opin Struct Biol, DOI://10.1016/j.sbi.2020.10.018 (2021)
A functional map of genomic HIF1α-DNA complexes in the eye lens revealed through multiomics analysis Disatham, J; Brennan, L; Chauss, D et al. BMC Genomics, DOI://10.1186/s12864-021-07795-9 (2021)
Consolidation of human skill linked to waking hippocampo-neocortical replay Buch, ER; Claudino, L; Quentin, R et al. Cell Rep, DOI://10.1016/j.celrep.2021.109193 (2021)
The Parkinson's Disease DNA Variant Browser Kim, JJ; Makarious, MB; Bandres-Ciga, S et al. Mov Disord, DOI://10.1002/mds.28488 (2021)
Genetic Variation and Recurrent Haplotypes on Chromosome 6q23-25 Risk Locus in Familial Lung Cancer Musolf, AM; Simpson, CL; Moiz, BA et al. Cancer Res, DOI://10.1158/0008-5472.CAN-20-3196 (2021)
LayNii: A software suite for layer-fMRI Huber, LR; Poser, BA; Bandettini, PA et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.118091 (2021)

Ketamine and Attentional Bias Toward Emotional Faces: Dynamic Causal Modeling of Magnetoencephalographic Connectivity in Treatment-Resistant Depression Gilbert, JR; Galiano, CS; Nugent, AC; Zarate, CA; , Front Psychiatry, DOI://10.3389/fpsyt.2021.673159 (2021)
Dynamics of replication origin over-activation Fu, H; Redon, CE; Thakur, BL et al. Nat Commun, DOI://10.1038/s41467-021-23835-0 (2021)
Multi-ancestry genome-wide gene-sleep interactions identify novel loci for blood pressure Wang, H; Noordam, R; Cade, BE et al. Mol Psychiatry, DOI://10.1038/s41380-021-01087-0 (2021)
CAR T cells targeting tumor-associated exons of glypican 2 regress neuroblastoma in mice Li, N; Torres, MB; Spetz, MR et al. Cell Rep Med, DOI://10.1016/j.xcrm.2021.100297 (2021)
Assessing vaccine durability in randomized trials following placebo crossover Fintzi, J; Follmann, D; , Stat Med, DOI://10.1002/sim.9001 (2021)
Predictable fold switching by the SARS-CoV-2 protein ORF9b Porter, LL Protein Sci, DOI://10.1002/pro.4097 (2021)

The temporal representation of experience in subjective mood Keren, H; Zheng, C; Jangraw, DC et al. Elife, DOI://10.7554/eLife.62051 (2021)
GWAS in Africans identifies novel lipids loci and demonstrates heterogenous association within Africa Bentley, AR; Chen, G; Doumatey, AP et al. Hum Mol Genet, DOI://10.1093/hmg/ddab174 (2021)
Distinct Signatures of Genomic Copy Number Variants Define Subgroups of Merkel Cell Carcinoma Tumors Hill, NT; Kim, D; Busam, KJ et al. Cancers (Basel), DOI://10.3390/cancers13051134 (2021)
Long-term stability of avalanche scaling and integrative network organization in prefrontal and premotor cortex Miller, SR; Yu, S; Pajevic, S; Plenz, D; , Netw Neurosci, DOI://10.1162/netn_a_00188 (2021)
The mechanism of activation of monomeric B-Raf V600E Maloney, RC; Zhang, M; Jang, H; Nussinov, R; , Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2021.06.007 (2021)
Functional connectivity of dorsolateral prefrontal cortex predicts cocaine relapse: implications for neuromodulation treatment Zhai, T; Salmeron, BJ; Gu, H et al. Brain Commun, DOI://10.1093/braincomms/fcab120 (2021)

Commute patterns, residential traffic-related air pollution, and lung cancer risk in the prospective UK Biobank cohort study Wong, JYY; Jones, RR; Breeze, C et al. Environ Int, DOI://10.1016/j.envint.2021.106698 (2021)
Hidden mover-stayer model for disease progression accounting for misclassified and partially observed diagnostic tests: Application to the natural history of human papillomavirus and cervical precancer Aron, J; Albert, PS; Wentzensen, N; Cheung, LC; , Stat Med, DOI://10.1002/sim.8977 (2021)
Subgenual cingulate resting regional cerebral blood flow in premenstrual dysphoric disorder: differential regulation by ovarian steroids and preliminary evidence for an association with expression of ESC/E(Z) complex genes Wei, SM; Baller, EB; Martinez, PE et al. Transl Psychiatry, DOI://10.1038/s41398-021-01328-4 (2021)
Prediction and Validation of Hematopoietic Stem and Progenitor Cell Off-Target Editing in Transplanted Rhesus Macaques AlJanahi, AA; Lazzarotto, CR; Chen, S et al. Mol Ther, DOI://10.1016/j.ymthe.2021.06.016 (2021)
Innate Immune Memory in Hematopoietic Stem/Progenitor Cells: Myeloid-Biased Differentiation and the Role of Interferon Chen, L; Ozato, K; , Front Immunol, DOI://10.3389/fimmu.2021.621333 (2021)
A catalog of tens of thousands of viruses from human metagenomes reveals hidden associations with chronic diseases Tisza, MJ; Buck, CB; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2023202118 (2021)

Structural insights into integrin α 5 β 1 opening by fibronectin ligand Schumacher, S; Dedden, D; Nunez, RV et al. Sci Adv, DOI://10.1126/sciadv.abe9716 (2021)
A Fusion Transcription Factor-Driven Cancer Progresses to a Fusion-Independent Relapse via Constitutive Activation of a Downstream Transcriptional Target Boudjadi, S; Pandey, PR; Chatterjee, B et al. Cancer Res, DOI://10.1158/0008-5472.CAN-20-1613 (2021)
Prospective representations in rat orbitofrontal ensembles Zhou, J; Zong, W; Jia, C et al. Behav Neurosci, DOI://10.1037/bne0000451 (2021)
Group testing can improve the cost-efficiency of prospective-retrospective biomarker studies Zhang, W; Zhang, Z; Krushkal, J; Liu, A; , BMC Med Res Methodol, DOI://10.1186/s12874-021-01239-4 (2021)
Response of human macrophages to gamma radiation is mediated via expression of endogenous retroviruses Mikhalkevich, N; O'Carroll, IP; Tkavc, R et al. PLoS Pathog, DOI://10.1371/journal.ppat.1009305 (2021)
Integrin αvβ6-TGFβ-SOX4 Pathway Drives Immune Evasion in Triple-Negative Breast Cancer Bagati, A; Kumar, S; Jiang, P et al. Cancer Cell, DOI://10.1016/j.ccell.2020.12.001 (2021)

Functional connectivity during frustration: a preliminary study of predictive modeling of irritability in youth Scheinost, D; Dadashkarimi, J; Finn, ES et al. Neuropsychopharmacology, DOI://10.1038/s41386-020-00954-8 (2021)
Correction to: Large‑scale pathway specific polygenic risk and transcriptomic community network analysis identifies novel functional pathways in Parkinson disease Bandres-Ciga, S; Saez-Atienzar, S; Kim, JJ et al. Acta Neuropathol, DOI://10.1007/s00401-021-02309-z (2021)
Structural insights of the conserved “priming loop” of hepatitis B virus pre-genomic RNA LeBlanc, RM; Kasprzak, WK; Longhini, AP et al. J Biomol Struct Dyn, DOI://10.1080/07391102.2021.1934544 (2021)
Integrated genomic, epidemiologic investigation of Candida auris skin colonization in a skilled nursing facility Proctor, DM; Dangana, T; Sexton, DJ et al. Nat Med, DOI://10.1038/s41591-021-01383-w (2021)
Genetic and in-utero environmental contributions to DNA methylation variation in placenta Chatterjee, S; Ouidir, M; Tekola-Ayele, F; , Hum Mol Genet, DOI://10.1093/hmg/ddab161 (2021)
Functional Selectivity of a Biased Cannabinoid-1 Receptor (CB 1 R) Antagonist Liu, Z; Iyer, MR; Godlewski, G et al. ACS Pharmacol Transl Sci, DOI://10.1021/acsptsci.1c00048 (2021)
Corrigendum: Characterizing Adult Cochlear Supporting Cell Transcriptional Diversity Using Single-Cell RNA-Seq: Validation in the Adult Mouse and Translational Implications for the Adult Human Cochlea Hoa, M; Olszewski, R; Li, X et al. Front Mol Neurosci, DOI://10.3389/fnmol.2021.699859 (2021)
Investigation of Autosomal Genetic Sex Differences in Parkinson's Disease Blauwendraat, C; Iwaki, H; Makarious, MB et al. Ann Neurol, DOI://10.1002/ana.26090 (2021)
A UGT1A1 variant is associated with serum total bilirubin levels, which are causal for hypertension in African-ancestry individuals Chen, G; Adeyemo, A; Zhou, J et al. NPJ Genom Med, DOI://10.1038/s41525-021-00208-6 (2021)
Author Correction to: Endemic Burkitt lymphoma in second-degree relatives in Northern Uganda: in-depth genome-wide analysis suggests clues about genetic susceptibility Gouveia, MH; Otim, I; Ogwang, MD et al. Leukemia, DOI://10.1038/s41375-021-01140-5 (2021)
Regional Differences in Human Biliary Tissues and Corresponding In Vitro-Derived Organoids Rimland, CA; Tilson, SG; Morell, CM et al. Hepatology, DOI://10.1002/hep.31252 (2021)
Correction to: Clinical Manifestations, Mutational Analysis, and Immunological Phenotype in Patients with RAG1/2 Mutations: First Cases Series from Mexico and Description of Two Novel Mutations Lugo-Reyes, SO; Pastor, N; González-Serrano, E et al. J Clin Immunol, DOI://10.1007/s10875-021-01075-7 (2021)

Spreading and epigenetic inheritance of heterochromatin require a critical density of histone H3 lysine 9 tri-methylation Cutter DiPiazza, AR; Taneja, N; Dhakshnamoorthy, J et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2100699118 (2021)
Clinical sites of the Undiagnosed Diseases Network: unique contributions to genomic medicine and science Schoch, K; Esteves, C; Bican, A et al. Genet Med, DOI://10.1038/s41436-020-00984-z (2021)
A non-radioactive, improved PAR-CLIP and small RNA cDNA library preparation protocol Anastasakis, DG; Jacob, A; Konstantinidou, P et al. Nucleic Acids Res, DOI://10.1093/nar/gkab011 (2021)
Dynamic imaging of nascent RNA reveals general principles of transcription dynamics and stochastic splice site selection Wan, Y; Anastasakis, DG; Rodriguez, J et al. Cell, DOI://10.1016/j.cell.2021.04.012 (2021)
LRRC15 antibody-drug conjugates show promise as osteosarcoma therapeutics in preclinical studies Slemmons, KK; Mukherjee, S; Meltzer, P et al. Pediatr Blood Cancer, DOI://10.1002/pbc.28771 (2021)
JAK inhibitors dampen activation of interferon-stimulated transcription of ACE2 isoforms in human airway epithelial cells Lee, HK; Jung, O; Hennighausen, L; , Commun Biol, DOI://10.1038/s42003-021-02167-1 (2021)

Neuronal enhancers are hotspots for DNA single-strand break repair Wu, W; Hill, SE; Nathan, WJ et al. Nature, DOI://10.1038/s41586-021-03468-5 (2021)
Profiling single-cell histone modifications using indexing chromatin immunocleavage sequencing Ku, WL; Pan, L; Cao, Y et al. Genome Res, DOI://10.1101/gr.260893.120 (2021)
Human oral mucosa cell atlas reveals a stromal-neutrophil axis regulating tissue immunity Williams, DW; Greenwell-Wild, T; Brenchley, L et al. Cell, DOI://10.1016/j.cell.2021.05.013 (2021)
Innate immune cells in the tumor microenvironment Li, MO; Wolf, N; Raulet, DH et al. Cancer Cell, DOI://10.1016/j.ccell.2021.05.016 (2021)
Rare Germline Variants in Chordoma-Related Genes and Chordoma Susceptibility Yepes, S; Shah, NN; Bai, J et al. Cancers (Basel), DOI://10.3390/cancers13112704 (2021)
Biomolecular interactions of ultrasmall metallic nanoparticles and nanoclusters Sousa, AA; Schuck, P; Hassan, SA; , Nanoscale Adv, DOI://10.1039/d1na00086a (2021)
A complement factor H homolog, heparan sulfation, and syndecan maintain inversin compartment boundaries in C. elegans cilia Acker, N; Smith, H; Devine, C et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2016698118 (2021)
The mechanism of full activation of tumor suppressor PTEN at the phosphoinositide-enriched membrane Jang, H; Smith, IN; Eng, C; Nussinov, R; , iScience, DOI://10.1016/j.isci.2021.102438 (2021)
The mechanistic analysis of founder virus data in challenge models Ortega-Villa, AM; Nason, MC; Follmann, D; , Stat Med, DOI://10.1002/sim.9075 (2021)
Functional and Regulatory Roles of Fold-Switching Proteins Kim, AK; Porter, LL; , Structure, DOI://10.1016/j.str.2020.10.006 (2021)
An autosomal dominant neurological disorder caused by de novo variants in FAR1 resulting in uncontrolled synthesis of ether lipids Ferdinandusse, S; McWalter, K; Te Brinke, H et al. Genet Med, DOI://10.1038/s41436-020-01027-3 (2021)
Identification and Validation of Nutrient State-Dependent Serum Protein Mediators of Human CD4 + T Cell Responsiveness Han, K; Singh, K; Rodman, MJ et al. Nutrients, DOI://10.3390/nu13051492 (2021)

Pathogenic Germline Variants in Cancer Susceptibility Genes in Children and Young Adults With Rhabdomyosarcoma Kim, J; Light, N; Subasri, V et al. JCO Precis Oncol, DOI://10.1200/PO.20.00218 (2021)
Time-Varying Functional Connectivity Decreases as a Function of Acute Nicotine Abstinence Fedota, JR; Ross, TJ; Castillo, J et al. Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2020.10.004 (2021)
Topological polymorphism of nucleosome fibers and folding of chromatin Zhurkin, VB; Norouzi, D; , Biophys J, DOI://10.1016/j.bpj.2021.01.008 (2021)
A transcriptionally distinct subpopulation of healthy acinar cells exhibit features of pancreatic progenitors and pancreatic ductal adenocarcinoma Gopalan, V; Singh, A; Rashidi Mehrabadi, F et al. Cancer Res, DOI://10.1158/0008-5472.CAN-21-0427 (2021)
Prefrontal Responses during Proactive and Reactive Inhibition Are Differentially Impacted by Stress in Anorexia and Bulimia Nervosa Westwater, ML; Mancini, F; Gorka, AX et al. J Neurosci, DOI://10.1523/JNEUROSCI.2853-20.2021 (2021)
NLRP3 Inhibition Ameliorates Severe Cutaneous Autoimmune Manifestations in a Mouse Model of Autoimmune Polyendocrinopathy-Candidiasis-Ectodermal Dystrophy-Like Disease Zhu, F; Willette-Brown, J; Zhang, J et al. J Invest Dermatol, DOI://10.1016/j.jid.2020.10.016 (2021)

AniProtDB: A Collection of Consistently Generated Metazoan Proteomes for Comparative Genomics Studies Barreira, SN; Nguyen, AD; Fredriksen, MT et al. Mol Biol Evol, DOI://10.1093/molbev/msab165 (2021)
Cutaneous T-Cell Lymphoma Skin Microbiome Is Characterized by Shifts in Certain Commensal Bacteria but not Viruses when Compared with Healthy Controls Harkins, CP; MacGibeny, MA; Thompson, K et al. J Invest Dermatol, DOI://10.1016/j.jid.2020.10.021 (2021)
Impact of Conditioning Intensity and Genomics on Relapse After Allogeneic Transplantation for Patients With Myelodysplastic Syndrome Dillon, LW; Gui, G; Logan, BR et al. JCO Precis Oncol, DOI://10.1200/PO.20.00355 (2021)
Gut microbiota composition is associated with newborn functional brain connectivity and behavioral temperament Kelsey, CM; Prescott, S; McCulloch, JA et al. Brain Behav Immun, DOI://10.1016/j.bbi.2020.11.003 (2021)
Automated picking of amyloid fibrils from cryo-EM images for helical reconstruction with RELION Thurber, KR; Yin, Y; Tycko, R; , J Struct Biol, DOI://10.1016/j.jsb.2021.107736 (2021)
Comparative Transcriptomic Analysis of the Hematopoietic System between Human and Mouse by Single Cell RNA Sequencing Gao, S; Wu, Z; Kannan, J et al. Cells, DOI://10.3390/cells10050973 (2021)
Recurrent lymphadenitis in a female XIAP/BIRC4 mutation carrier with normal lyonization Durkee-Shock, JR; Kuehn, HS; Stoddard, J et al. J Allergy Clin Immunol Pract, DOI://10.1016/j.jaip.2020.10.062 (2021)
MED1 is a lipogenesis coactivator required for postnatal adipose expansion Jang, Y; Park, YK; Lee, JE et al. Genes Dev, DOI://10.1101/gad.347583.120 (2021)
Radiation-related genomic profile of papillary thyroid carcinoma after the Chernobyl accident Morton, LM; Karyadi, DM; Stewart, C et al. Science, DOI://10.1126/science.abg2538 (2021)
A replica exchange umbrella sampling (REUS) approach to predict host-guest binding free energies in SAMPL8 challenge Ghorbani, M; Hudson, PS; Jones, MR et al. J Comput Aided Mol Des, DOI://10.1007/s10822-021-00385-7 (2021)
A Data-Driven Hydrophobicity Scale for Predicting Liquid-Liquid Phase Separation of Proteins Dannenhoffer-Lafage, T; Best, RB; , J Phys Chem B, DOI://10.1021/acs.jpcb.0c11479 (2021)
Cancer cells escape autophagy inhibition via NRF2-induced macropinocytosis Su, H; Yang, F; Fu, R et al. Cancer Cell, DOI://10.1016/j.ccell.2021.02.016 (2021)

Bridged parametric survival models: General paradigm and speed improvements Swihart, BJ; Bandyopadhyay, D; , Comput Methods Programs Biomed, DOI://10.1016/j.cmpb.2021.106115 (2021)
Calibration of cell-intrinsic interleukin-2 response thresholds guides design of a regulatory T cell biased agonist Glassman, CR; Su, L; Majri-Morrison, SS et al. Elife, DOI://10.7554/eLife.65777 (2021)
Lack of transgenerational effects of ionizing radiation exposure from the Chernobyl accident Yeager, M; Machiela, MJ; Kothiyal, P et al. Science, DOI://10.1126/science.abg2365 (2021)
A miR-375/YAP axis regulates neuroendocrine differentiation and tumorigenesis in lung carcinoid cells Yang, X; Nanayakkara, J; Claypool, D et al. Sci Rep, DOI://10.1038/s41598-021-89855-4 (2021)
COVID-19-CT-CXR: A Freely Accessible and Weakly Labeled Chest X-Ray and CT Image Collection on COVID-19 From Biomedical Literature Peng, Y; Tang, Y; Lee, S et al. IEEE Trans Big Data, DOI://10.1109/tbdata.2020.3035935 (2021)
Severity modeling of propionic acidemia using clinical and laboratory biomarkers Shchelochkov, OA; Manoli, I; Juneau, P et al. Genet Med, DOI://10.1038/s41436-021-01173-2 (2021)
Common Variable Immunodeficiency, Autoimmune Hemolytic Anemia, and Pancytopenia Associated With a Defect in IKAROS Yilmaz, E; Kuehn, HS; Odakir, E et al. J Pediatr Hematol Oncol, DOI://10.1097/MPH.0000000000001976 (2021)
Cell-free DNA maps COVID-19 tissue injury and risk of death and can cause tissue injury Andargie, TE; Tsuji, N; Seifuddin, F et al. JCI Insight, DOI://10.1172/jci.insight.147610 (2021)
Small RNAs are modified with N-glycans and displayed on the surface of living cells Flynn, RA; Pedram, K; Malaker, SA et al. Cell, DOI://10.1016/j.cell.2021.04.023 (2021)
Genome-Wide Association Study Meta-Analysis for Parkinson Disease Motor Subtypes Alfradique-Dunham, I; Al-Ouran, R; von Coelln, R et al. Neurol Genet, DOI://10.1212/NXG.0000000000000557 (2021)
Feeding-induced resistance to acute lethal sepsis is dependent on hepatic BMAL1 and FXR signalling Geiger, SS; Traba, J; Richoz, N et al. Nat Commun, DOI://10.1038/s41467-021-22961-z (2021)
Membrane transporter dimerization driven by differential lipid solvation energetics of dissociated and associated states Chadda, R; Bernhardt, N; Kelley, EG et al. Elife, DOI://10.7554/eLife.63288 (2021)
Next generation sequencing for HLA loci in full heritage Pima Indians of Arizona, Part II: HLA-A, -B, and -C with selected non-classical loci at 4-field resolution from whole genome sequences Williams, RC; Koroglu, C; Knowler, WC et al. Hum Immunol, DOI://10.1016/j.humimm.2021.03.013 (2021)
Novel Murine Biomarkers of Radiation Exposure Using An Aptamer-Based Proteomic Technology Sproull, M; Shankavaram, U; Camphausen, K; , Front Pharmacol, DOI://10.3389/fphar.2021.633131 (2021)
SeqEnhDL: sequence-based classification of cell type-specific enhancers using deep learning models Wang, Y; Jaime-Lara, RB; Roy, A et al. BMC Res Notes, DOI://10.1186/s13104-021-05518-7 (2021)
Single nucleus RNA-sequencing defines unexpected diversity of cholinergic neuron types in the adult mouse spinal cord Alkaslasi, MR; Piccus, ZE; Hareendran, S et al. Nat Commun, DOI://10.1038/s41467-021-22691-2 (2021)
Rapid Identification and Evaluation of Neoantigen-reactive T-Cell Receptors From Single Cells Paria, BC; Levin, N; Lowery, FJ et al. J Immunother, DOI://10.1097/CJI.0000000000000342 (2021)
The Extended Eighth-Shell method for periodic boundary conditions with rotational symmetry Prasad, S; Simmonett, AC; Meana-Pañeda, R; Brooks, BR; , J Comput Chem, DOI://10.1002/jcc.26545 (2021)
Germline IKAROS dimerization haploinsufficiency causes hematologic cytopenias and malignancies Kuehn, HS; Niemela, JE; Stoddard, J et al. Blood, DOI://10.1182/blood.2020007292 (2021)
The ribosome modulates folding inside the ribosomal exit tunnel Wruck, F; Tian, P; Kudva, R et al. Commun Biol, DOI://10.1038/s42003-021-02055-8 (2021)
Multimodal Functional Imaging for Cancer/Tumor Microenvironments Based on MRI, EPRI, and PET Matsumoto, KI; Mitchell, JB; Krishna, MC; , Molecules, DOI://10.3390/molecules26061614 (2021)
Author Correction: High-depth African genomes inform human migration and health Choudhury, A; Aron, S; Botigué, LR et al. Nature, DOI://10.1038/s41586-021-03286-9 (2021)
VPS13D promotes peroxisome biogenesis Baldwin, HA; Wang, C; Kanfer, G et al. J Cell Biol, DOI://10.1083/jcb.202001188 (2021)
The causes of Fanconi anemia in South Asia and the Middle East: A case series and review of the literature Thompson, AS; Saba, N; McReynolds, LJ et al. Mol Genet Genomic Med, DOI://10.1002/mgg3.1693 (2021)

Towards complete and error-free genome assemblies of all vertebrate species Rhie, A; McCarthy, SA; Fedrigo, O et al. Nature, DOI://10.1038/s41586-021-03451-0 (2021)
Loss of DLX3 tumor suppressive function promotes progression of SCC through EGFR-ERBB2 pathway Bajpai, D; Mehdizadeh, S; Uchiyama, A et al. Oncogene, DOI://10.1038/s41388-021-01802-9 (2021)
Social Heterogeneity Drives Complex Patterns of the COVID-19 Pandemic: Insights From a Novel Stochastic Heterogeneous Epidemic Model (SHEM) Alexander V. Maltsev & Michael D. Stern* Front. Phys., doi://10.3389/fphy.2020.609224 (2021)
Human Histone Interaction Networks: An Old Concept, New Trends Peng, Y; Markov, Y; Goncearenco, A et al. J Mol Biol, DOI://10.1016/j.jmb.2020.10.018 (2021)
Redundant and non-redundant cytokine-activated enhancers control Csn1s2b expression in the lactating mouse mammary gland Lee, HK; Willi, M; Kuhns, T et al. Nat Commun, DOI://10.1038/s41467-021-22500-w (2021)
FIB-SEM as a Volume Electron Microscopy Approach to Study Cellular Architectures in SARS-CoV-2 and Other Viral Infections: A Practical Primer for a Virologist Baena, V; Conrad, R; Friday, P et al. Viruses, doi://10.3390/v13040611 (2021)
Perfluorooctanoic acid (PFOA) or perfluorooctane sulfonate (PFOS) and DNA methylation in newborn dried blood spots in the Upstate KIDS cohort Robinson, SL; Zeng, X; Guan, W et al. Environ Res, DOI://10.1016/j.envres.2020.110668 (2021)
TOR targets an RNA processing network to regulate facultative heterochromatin, developmental gene expression and cell proliferation Wei, Y; Lee, NN; Pan, L et al. Nat Cell Biol, DOI://10.1038/s41556-021-00631-y (2021)
Threat-anticipatory psychophysiological response is enhanced in youth with anxiety disorders and correlates with prefrontal cortex neuroanatomy Abend, R; Bajaj, MA; Harrewijn, A et al. J Psychiatry Neurosci, DOI://10.1503/jpn.200110 (2021)
Shared and Anxiety-Specific Pediatric Psychopathology Dimensions Manifest Distributed Neural Correlates Linke, JO; Abend, R; Kircanski, K et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2020.10.018 (2021)
Overexpression of Human ABCB1 and ABCG2 Reduces the Susceptibility of Cancer Cells to the Histone Deacetylase 6-Specific Inhibitor Citarinostat Wu, CP; Hung, CY; Lusvarghi, S et al. Int J Mol Sci, DOI://10.3390/ijms22052592 (2021)
Host-Pathogen Interactions in Human Polyomavirus 7‒Associated Pruritic Skin Eruption Rosenstein, RK; Pastrana, DV; Starrett, GJ et al. J Invest Dermatol, DOI://10.1016/j.jid.2020.09.014 (2021)

Morphological integration of the human brain across adolescence and adulthood Nadig, A; Seidlitz, J; McDermott, CL et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2023860118 (2021)
SASH3 variants cause a novel form of X-linked combined immunodeficiency with immune dysregulation Delmonte, OM; Bergerson, JRE; Kawai, T et al. Blood, DOI://10.1182/blood.2020008629 (2021)
Assessment of ANG variants in Parkinson's disease Grenn, FP; Moore, A; Bandres-Ciga, S et al. Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2021.03.006 (2021)
Ketamine Alters Electrophysiological Responses to Emotional Faces in Major Depressive Disorder Lundin, NB; Sepe-Forrest, L; Gilbert, JR et al. J Affect Disord, DOI://10.1016/j.jad.2020.10.007 (2021)
Beam image-shift accelerated data acquisition for near-atomic resolution single-particle cryo-electron tomography Bouvette, J; Liu, HF; Du, X et al. Nat Commun, DOI://10.1038/s41467-021-22251-8 (2021)
Skeletal muscle transcriptome in healthy aging Tumasian, RA; Harish, A; Kundu, G et al. Nat Commun, DOI://10.1038/s41467-021-22168-2 (2021)

The structure, function and evolution of a complete human chromosome 8 Logsdon, GA; Vollger, MR; Hsieh, P et al. Nature, DOI://10.1038/s41586-021-03420-7 (2021)
Synchronous RNA conformational changes trigger ordered phase transitions in crystals Ramakrishnan, S; Stagno, JR; Conrad, CE et al. Nat Commun, DOI://10.1038/s41467-021-21838-5 (2021)
A comprehensive macaque fMRI pipeline and hierarchical atlas Jung, B; Taylor, PA; Seidlitz, J et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.117997 (2021)
Reprogramming of translation in yeast cells impaired for ribosome recycling favors short, efficiently translated mRNAs Gaikwad, S; Ghobakhlou, F; Young, DJ et al. Elife, DOI://10.7554/eLife.64283 (2021)
Therapeutic targeting of ATR yields durable regressions in small cell lung cancers with high replication stress Thomas, A; Takahashi, N; Rajapakse, VN et al. Cancer Cell, DOI://10.1016/j.ccell.2021.02.014 (2021)
Synthetic lethality-mediated precision oncology via the tumor transcriptome Lee, JS; Nair, NU; Dinstag, G et al. Cell, DOI://10.1016/j.cell.2021.03.030 (2021)

SomatoSim: precision simulation of somatic single nucleotide variants Hawari, MA; Hong, CS; Biesecker, LG; , BMC Bioinformatics, DOI://10.1186/s12859-021-04024-8 (2021)
Functional Anatomy of the Trimer Apex Reveals Key Hydrophobic Constraints That Maintain the HIV-1 Envelope Spike in a Closed State Zhang, P; Kwon, AL; Guzzo, C et al. mBio, DOI://10.1128/mBio.00090-21 (2021)
Beyond linearity in neuroimaging: Capturing nonlinear relationships with application to longitudinal studies Chen, G; Nash, TA; Cole, KM et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.117891 (2021)
CEM500K, a large-scale heterogeneous unlabeled cellular electron microscopy image dataset for deep learning Conrad, R; Narayan, K; Elife, DOI://10.7554/eLife.65894 (2021)
Martini 3: a general purpose force field for coarse-grained molecular dynamics Souza, PCT; Alessandri, R; Barnoud, J et al. Nat Methods, DOI://10.1038/s41592-021-01098-3 (2021)
SARS-CoV-2 drives JAK1/2-dependent local complement hyperactivation Yan, B; Freiwald, T; Chauss, D et al. Sci Immunol, DOI://10.1126/sciimmunol.abg0833 (2021)

A transcription-centric model of SNP-age interaction Wang, K; Basu, M; Malin, J; Hannenhalli, S; , PLoS Genet, DOI://10.1371/journal.pgen.1009427 (2021)
Conception by fertility treatment and offspring deoxyribonucleic acid methylation Yeung, EH; Mendola, P; Sundaram, R et al. Fertil Steril, DOI://10.1016/j.fertnstert.2021.03.011 (2021)
Network Analysis and Transcriptome Profiling Identify Autophagic and Mitochondrial Dysfunctions in SARS-CoV-2 Infection Singh, K; Chen, YC; Hassanzadeh, S et al. Front Genet, DOI://10.3389/fgene.2021.599261 (2021)
Genome-wide binding potential and regulatory activity of the glucocorticoid receptor's monomeric and dimeric forms Johnson, TA; Paakinaho, V; Kim, S; Hager, GL; Presman, DM; , Nat Commun, DOI://10.1038/s41467-021-22234-9 (2021)
Predicting tissue-specific gene expression from whole blood transcriptome Basu, M; Wang, K; Ruppin, E; Hannenhalli, S; , Sci Adv, DOI://10.1126/sciadv.abd6991 (2021)
Movie-watching outperforms rest for functional connectivity-based prediction of behavior Finn, ES; Bandettini, PA; , Neuroimage, DOI://10.1016/j.neuroimage.2021.117963 (2021)
Interplay of BAF and MLL4 promotes cell type-specific enhancer activation Park, YK; Lee, JE; Yan, Z et al. Nat Commun, DOI://10.1038/s41467-021-21893-y (2021)
Structure-Activity Relationship of Heterocyclic P2Y 14 Receptor Antagonists: Removal of the Zwitterionic Character with Piperidine Bioisosteres Jung, YH; Salmaso, V; Wen, Z et al. J Med Chem, DOI://10.1021/acs.jmedchem.1c00164 (2021)
Nascent Prostate Cancer Heterogeneity Drives Evolution and Resistance to Intense Hormonal Therapy Wilkinson, S; Ye, H; Karzai, F et al. Eur Urol, DOI://10.1016/j.eururo.2021.03.009 (2021)
Thousands of previously unknown phages discovered in whole-community human gut metagenomes Benler, S; Yutin, N; Antipov, D et al. Microbiome, DOI://10.1186/s40168-021-01017-w (2021)
Genomic insights into the host specific adaptation of the Pneumocystis genus Cissé, OH; Ma, L; Dekker, JP et al. Commun Biol, DOI://10.1038/s42003-021-01799-7 (2021)
New insights into modeling exposure measurements below the limit of detection Ortega-Villa, AM; Liu, D; Ward, MH; Albert, PS; , Environ Epidemiol, DOI://10.1097/EE9.0000000000000116 (2021)

The Structural Basis of Akt PH Domain Interaction with Calmodulin Weako, J; Jang, H; Keskin, O; Nussinov, R; Gursoy, A; , Biophys J, DOI://10.1016/j.bpj.2021.03.018 (2021)
The NIMH Intramural Longitudinal Study of the Endocrine and Neurobiological Events Accompanying Puberty: Protocol and Rationale for Methods and Measures Cole, KM; Wei, SM; Martinez, PE et al. Neuroimage, DOI://10.1016/j.neuroimage.2021.117970 (2021)
Performance in even a simple perceptual task depends on mouse secondary visual areas Goldbach, HC; Akitake, B; Leedy, CE; Histed, MH; , Elife, DOI://10.7554/eLife.62156 (2021)
Estimating transition path times and shapes from single-molecule photon trajectories: A simulation analysis Taumoefolau, GH; Best, RB; , J Chem Phys, DOI://10.1063/5.0040949 (2021)
SARS-CoV-2 infection of the oral cavity and saliva Huang, N; Pérez, P; Kato, T et al. Nat Med, DOI://10.1038/s41591-021-01296-8 (2021)
A Comprehensive Map of mRNAs and Their Isoforms across All 14 Renal Tubule Segments of Mouse Chen, L; Chou, CL; Knepper, MA; , J Am Soc Nephrol, DOI://10.1681/ASN.2020101406 (2021)
Integrative analysis of multiple case-control studies Zhang, H; Deng, L; Wheeler, W; Qin, J; Yu, K; , Biometrics, DOI://10.1111/biom.13461 (2021)
Epigenome-wide association study of whole blood gene expression in Framingham Heart Study participants provides molecular insight into the potential role of CHRNA5 in cigarette smoking-related lung diseases Yao, C; Joehanes, R; Wilson, R et al. Clin Epigenetics, DOI://10.1186/s13148-021-01041-5 (2021)
Genetically engineered myeloid cells rebalance the core immune suppression program in metastasis Kaczanowska, S; Beury, DW; Gopalan, V et al. Cell, DOI://10.1016/j.cell.2021.02.048 (2021)
Exploring dynamics and network analysis of spike glycoprotein of SARS-COV-2 Ghorbani, M; Brooks, BR; Klauda, JB; , Biophys J, DOI://10.1016/j.bpj.2021.02.047 (2021)
Genomic diversity of SARS-CoV-2 during early introduction into the Baltimore-Washington metropolitan area Thielen, PM; Wohl, S; Mehoke, T et al. JCI Insight, DOI://10.1172/jci.insight.144350 (2021)
Conformational Ensemble of Tte AdoCbl Riboswitch Provides Stable Structural Elements for Conformation Selection and Population Shift in Cobalamin Recognition Ma, B; Bai, G; Nussinov, R; Ding, J; Wang, YX; , J Phys Chem B, DOI://10.1021/acs.jpcb.1c00038 (2021)

Targeting natural splicing plasticity of APOBEC3B restricts its expression and mutagenic activity Rouf Banday, A; Onabajo, OO; Lin, SH et al. Commun Biol, DOI://10.1038/s42003-021-01844-5 (2021)
Structural and dynamic mechanisms of CBF3-guided centromeric nucleosome formation Guan, R; Lian, T; Zhou, BR et al. Nat Commun, DOI://10.1038/s41467-021-21985-9 (2021)
Tumor methionine metabolism drives T-cell exhaustion in hepatocellular carcinoma Hung, MH; Lee, JS; Ma, C et al. Nat Commun, DOI://10.1038/s41467-021-21804-1 (2021)
Iterative epigenomic analyses in the same single cell Ohnuki, H; Venzon, DJ; Lobanov, A; Tosato, G; , Genome Res, DOI://10.1101/gr.269068.120 (2021)
Correction to: The Haskins pediatric atlas: a magnetic-resonance-imaging-based pediatric template and atlas Molfese, PJ; Glen, D; Mesite, L et al. Pediatr Radiol, DOI://10.1007/s00247-020-04958-w (2021)
Ancestral haplotype reconstruction in endogamous populations using identity-by-descent Finke, K; Kourakos, M; Brown, G et al. PLoS Comput Biol, DOI://10.1371/journal.pcbi.1008638 (2021)

Chloride-dependent conformational changes in the GlyT1 glycine transporter Zhang, YW; Uchendu, S; Leone, V et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2017431118 (2021)
Death agonist antibody against TRAILR2/DR5/TNFRSF10B enhances birinapant anti-tumor activity in HPV-positive head and neck squamous cell carcinomas An, Y; Jeon, J; Sun, L et al. Sci Rep, DOI://10.1038/s41598-021-85589-5 (2021)
Structure of membrane diacylglycerol kinase in lipid bilayers Li, J; Shen, Y; Chen, Y et al. Commun Biol, DOI://10.1038/s42003-021-01802-1 (2021)
Comparative engraftment and clonality of macaque HSPCs expanded on human umbilical vein endothelial cells versus non-expanded cells Srivastava, SK; Truitt, LL; Wu, C et al. Mol Ther Methods Clin Dev, DOI://10.1016/j.omtm.2021.02.009 (2021)
Genetically inferred telomere length and testicular germ cell tumor risk Brown, DW; Lan, Q; Rothman, N et al. Cancer Epidemiol Biomarkers Prev, DOI://10.1158/1055-9965.EPI-20-1775 (2021)
Nascent RNA sequencing identifies a widespread sigma70-dependent pausing regulated by Gre factors in bacteria Sun, Z; Yakhnin, AV; FitzGerald, PC et al. Nat Commun, DOI://10.1038/s41467-021-21150-2 (2021)
Tumor IsomiR Encyclopedia (TIE): a pancancer database of miRNA isoforms Bofill-De Ros, X; Luke, B; Guthridge, R et al. Bioinformatics, DOI://10.1093/bioinformatics/btab172 (2021)
Fully automated CT imaging biomarkers of bone, muscle, and fat: correcting for the effect of intravenous contrast Perez, AA; Pickhardt, PJ; Elton, DC; Sandfort, V; Summers, RM; , Abdom Radiol (NY), DOI://10.1007/s00261-020-02755-5 (2021)
Retroviral Elements in Human Evolution and Neural Development Wang, T; Doucet-O'Hare, TT; Henderson, L et al. J Exp Neurol, 2692-2819 (2021)
B-Raf autoinhibition in the presence and absence of 14-3-3 Zhang, M; Jang, H; Li, Z; Sacks, DB; Nussinov, R; , Structure, DOI://10.1016/j.str.2021.02.005 (2021)
Single-Cell RNA Sequencing Analysis of the Drosophila Larval Ventral Cord Nguyen, TH; Vicidomini, R; Choudhury, SD et al. Curr Protoc, DOI://10.1002/cpz1.38 (2021)
Dose conversion coefficients for neutron external exposures with five postures: walking, sitting, bending, kneeling, and squatting Yeom, YS; Griffin, K; Han, H et al. Radiat Environ Biophys, DOI://10.1007/s00411-021-00900-2 (2021)

Multiplex indexing approach for the detection of DNase I hypersensitive sites in single cells Gao, W; Ku, WL; Pan, L et al. Nucleic Acids Res, DOI://10.1093/nar/gkab102 (2021)
MicroRNA-221 and -222 modulate intestinal inflammatory Th17 cell response as negative feedback regulators downstream of interleukin-23 Mikami, Y; Philips, RL; Sciumè, G et al. Immunity, DOI://10.1016/j.immuni.2021.02.015 (2021)
Mitochondrial Ca 2+, redox environment and ROS emission in heart failure: Two sides of the same coin? Cortassa, S; Juhaszova, M; Aon, MA et al. J Mol Cell Cardiol, DOI://10.1016/j.yjmcc.2020.11.013 (2021)
CHARMM36 Lipid Force Field with Explicit Treatment of Long-Range Dispersion: Parametrization and Validation for Phosphatidylethanolamine, Phosphatidylglycerol, and Ether Lipids Yu, Y; Krämer, A; Venable, RM et al. J Chem Theory Comput, DOI://10.1021/acs.jctc.0c01327 (2021)
Semi-automated Optimization of the CHARMM36 Lipid Force Field to Include Explicit Treatment of Long-Range Dispersion Yu, Y; Krämer, A; Venable, RM et al. J Chem Theory Comput, DOI://10.1021/acs.jctc.0c01326 (2021)
Midbrain activity shapes high-level visual properties in the primate temporal cortex Bogadhi, AR; Katz, LN; Bollimunta, A et al. Neuron, DOI://10.1016/j.neuron.2020.11.023 (2021)
Loop extrusion mediates physiological Igh locus contraction for RAG scanning Dai, HQ; Hu, H; Lou, J et al. Nature, DOI://10.1038/s41586-020-03121-7 (2021)
Mechanism of membrane-tethered mitochondrial protein synthesis Itoh, Y; Andréll, J; Choi, A et al. Science, DOI://10.1126/science.abe0763 (2021)
Gene-based analysis of bi-variate survival traits via functional regressions with applications to eye diseases Zhang, B; Chiu, CY; Yuan, F et al. Genet Epidemiol, DOI://10.1002/gepi.22381 (2021)
BACH2 enforces the transcriptional and epigenetic programs of stem-like CD8 + T cells Yao, C; Lou, G; Sun, HW et al. Nat Immunol, DOI://10.1038/s41590-021-00868-7 (2021)
Lysosome-associated membrane protein 3 misexpression in salivary glands induces a Sjögren's syndrome-like phenotype in mice Nakamura, H; Tanaka, T; Pranzatelli, T et al. Ann Rheum Dis, DOI://10.1136/annrheumdis-2020-219649 (2021)
Structure of an activated DNA-PK and its implications for NHEJ Chen, X; Xu, X; Chen, Y et al. Mol Cell, DOI://10.1016/j.molcel.2020.12.015 (2021)

Does the ATP-bound EQ mutant reflect the pre- or post-ATP hydrolysis state in the catalytic cycle of human P-glycoprotein (ABCB1)? Lusvarghi, S; Durell, SR; Ambudkar, SV; , FEBS Lett, DOI://10.1002/1873-3468.14054 (2021)
Audiovisual integration in macaque face patch neurons Khandhadia, AP; Murphy, AP; Romanski, LM; Bizley, JK; Leopold, DA; , Curr Biol, DOI://10.1016/j.cub.2021.01.102 (2021)
A Genome-First Approach to Characterize DICER1 Pathogenic Variant Prevalence, Penetrance, and Phenotype Mirshahi, UL; Kim, J; Best, AF et al. JAMA Netw Open, DOI://10.1001/jamanetworkopen.2021.0112 (2021)
The Myc-associated zinc finger protein (MAZ) works together with CTCF to control cohesin positioning and genome organization Xiao, T; Li, X; Felsenfeld, G; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2023127118 (2021)
Trans-ethnic meta-analysis identifies new loci associated with longitudinal blood pressure traits Gouveia, MH; Bentley, AR; Leonard, H et al. Sci Rep, DOI://10.1038/s41598-021-83450-3 (2021)
Deep-learning based multi-modal retinal image registration for the longitudinal analysis of patients with age-related macular degeneration De Silva, T; Chew, EY; Hotaling, N; Cukras, CA; , Biomed Opt Express, DOI://10.1364/BOE.408573 (2021)

TRF2-mediated telomere protection is dispensable in pluripotent stem cells Markiewicz-Potoczny, M; Lobanova, A; Loeb, AM et al. Nature, DOI://10.1038/s41586-020-2959-4 (2021)
The yeast ISW1b ATP-dependent chromatin remodeler is critical for nucleosome spacing and dinucleosome resolution Eriksson, PR; Clark, DJ; , Sci Rep, DOI://10.1038/s41598-021-82842-9 (2021)
Smoking modifies pancreatic cancer risk loci on 2q21.3 Mocci, E; Kundu, P; Wheeler, W et al. Cancer Res, DOI://10.1158/0008-5472.CAN-20-3267 (2021)
Whole genome sequencing of skull-base chordoma reveals genomic alterations associated with recurrence and chordoma-specific survival Bai, J; Shi, J; Li, C et al. Nat Commun, DOI://10.1038/s41467-021-21026-5 (2021)
Exome Sequencing of 21 Bardet-Biedl Syndrome (BBS) Genes to Identify Obesity Variants in 6,851 American Indians Day, SE; Muller, YL; Koroglu, C et al. Obesity (Silver Spring), DOI://10.1002/oby.23115 (2021)
Immune transcriptomes of highly exposed SARS-CoV-2 asymptomatic seropositive versus seronegative individuals from the Ischgl community Lee, HK; Knabl, L; Pipperger, L et al. Sci Rep, DOI://10.1038/s41598-021-83110-6 (2021)

The NF-κB regulator Bcl-3 restricts terminal differentiation and promotes memory cell formation of CD8+ T cells during viral infection Jaiswal, H; Ciucci, T; Wang, H et al. PLoS Pathog, DOI://10.1371/journal.ppat.1009249 (2021)
Gene Therapy of Dominant CRX-Leber Congenital Amaurosis using Patient Stem Cell-Derived Retinal Organoids Kruczek, K; Qu, Z; Gentry, J et al. Stem Cell Reports, DOI://10.1016/j.stemcr.2020.12.018 (2021)
Total Ortholog Median Matrix as an alternative unsupervised approach for phylogenomics based on evolutionary distance between protein coding genes Maruyama, SR; Rogerio, LA; Freitas, PD; Teixeira, MMG; Ribeiro, JMC; , Sci Rep, DOI://10.1038/s41598-021-81926-w (2021)
Dynamic sex chromosome expression in Drosophila male germ cells Mahadevaraju, S; Fear, JM; Akeju, M et al. Nat Commun, DOI://10.1038/s41467-021-20897-y (2021)
Admixture mapping identifies African and Amerindigenous local ancestry loci associated with fetal growth Tekola-Ayele, F; Ouidir, M; Shrestha, D et al. Hum Genet, DOI://10.1007/s00439-021-02265-4 (2021)
Genome sequencing analysis identifies new loci associated with Lewy body dementia and provides insights into its genetic architecture Chia, R; Sabir, MS; Bandres-Ciga, S et al. Nat Genet, DOI://10.1038/s41588-021-00785-3 (2021)

Genome-wide transcriptome study using deep RNA sequencing for myocardial infarction and coronary artery calcification Zhang, X; van Rooij, JGJ; Wakabayashi, Y et al. BMC Med Genomics, DOI://10.1186/s12920-020-00838-2 (2021)
Assessment of assumptions underlying models of prokaryotic pangenome evolution Sela, I; Wolf, YI; Koonin, EV; , BMC Biol, DOI://10.1186/s12915-021-00960-2 (2021)
Identification of Candidate Parkinson Disease Genes by Integrating Genome-Wide Association Study, Expression, and Epigenetic Data Sets Kia, DA; Zhang, D; Guelfi, S et al. JAMA Neurol, DOI://10.1001/jamaneurol.2020.5257 (2021)
Molecular structure of a prevalent amyloid-β fibril polymorph from Alzheimer's disease brain tissue Ghosh, U; Thurber, KR; Yau, WM; Tycko, R; , Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2023089118 (2021)
An open-source python library for detection of known and novel Kell, Duffy and Kidd variants from exome sequencing Montemayor, C; Simone, A; Long, J et al. Vox Sang, DOI://10.1111/vox.13035 (2021)
On the Role of a Conserved Methionine in the Na+-Coupling Mechanism of a Neurotransmitter Transporter Homolog Zhou, W; Trinco, G; Slotboom, DJ; Forrest, LR; Faraldo-Gómez, JD; , Neurochem Res, DOI://10.1007/s11064-021-03253-w (2021)

The genomic structure of a human chromosome 22 nucleolar organizer region determined by TAR cloning Kim, JH; Noskov, VN; Ogurtsov, AY et al. Sci Rep, DOI://10.1038/s41598-021-82565-x (2021)
Deep transcriptome sequencing of subgenual anterior cingulate cortex reveals cross-diagnostic and diagnosis-specific RNA expression changes in major psychiatric disorders Akula, N; Marenco, S; Johnson, K et al. Neuropsychopharmacology, DOI://10.1038/s41386-020-00949-5 (2021)
An examination of the relationships between attention/deficit hyperactivity disorder symptoms and functional connectivity over time Norman, LJ; Sudre, G; Bouyssi-Kobar, M; Sharp, W; Shaw, P; , Neuropsychopharmacology, DOI://10.1038/s41386-021-00958-y (2021)
Trastuzumab Blocks the Receiver Function of HER2 Leading to the Population Shifts of HER2-Containing Homodimers and Heterodimers Zhao, J; Mohan, N; Nussinov, R; Ma, B; Wu, WJ; , Antibodies (Basel), DOI://10.3390/antib10010007 (2021)
Infection trains the host for microbiota-enhanced resistance to pathogens Stacy, A; Andrade-Oliveira, V; McCulloch, JA et al. Cell, DOI://10.1016/j.cell.2020.12.011 (2021)
Active and Inactive Cdc42 Differ in Their Insert Region Conformational Dynamics Haspel, N; Jang, H; Nussinov, R; , Biophys J, DOI://10.1016/j.bpj.2020.12.007 (2021)

Linkage-specific deubiquitylation by OTUD5 defines an embryonic pathway intolerant to genomic variation Beck, DB; Basar, MA; Asmar, AJ et al. Sci Adv, DOI://10.1126/sciadv.abe2116 (2021)
Synthetic lethality across normal tissues is strongly associated with cancer risk, onset, and tumor suppressor specificity Cheng, K; Nair, NU; Lee, JS; Ruppin, E; , Sci Adv, DOI://10.1126/sciadv.abc2100 (2021)
Genetic analysis of amyotrophic lateral sclerosis identifies contributing pathways and cell types Saez-Atienzar, S; Bandres-Ciga, S; Langston, RG et al. Sci Adv, DOI://10.1126/sciadv.abd9036 (2021)
Self-organizing maps with variable neighborhoods facilitate learning of chromatin accessibility signal shapes associated with regulatory elements Eicher, T; Chan, J; Luu, H; Machiraju, R; Mathé, EA; , BMC Bioinformatics, DOI://10.1186/s12859-021-03976-1 (2021)
Associations of maternal blood pressure-raising polygenic risk scores with fetal weight Workalemahu, T; Rahman, ML; Ouidir, M; Wu, J; Zhang, C; Tekola-Ayele, F; , J Hum Hypertens, DOI://10.1038/s41371-021-00483-x (2021)
Cryo-EM structures of the SARS-CoV-2 endoribonuclease Nsp15 reveal insight into nuclease specificity and dynamics Pillon, MC; Frazier, MN; Dillard, LB et al. Nat Commun, DOI://10.1038/s41467-020-20608-z (2021)

Dense cellular segmentation for EM using 2D-3D neural network ensembles Guay, MD; Emam, ZAS; Anderson, AB et al. Sci Rep, DOI://10.1038/s41598-021-81590-0 (2021)
An optimized protocol for acquiring and processing cryo-EM data of human 26S proteasome with M1-Ub6 Chen, X; Shi, D; Zhang, P; Walters, KJ; , STAR Protoc, DOI://10.1016/j.xpro.2020.100278 (2021)
A small molecule compound with an indole moiety inhibits the main protease of SARS-CoV-2 and blocks virus replication Hattori, SI; Higashi-Kuwata, N; Hayashi, H et al. Nat Commun, DOI://10.1038/s41467-021-20900-6 (2021)
Whole-exome sequencing reveals germline-mutated small cell lung cancer subtype with favorable response to DNA repair-targeted therapies Tlemsani, C; Takahashi, N; Pongor, L et al. Sci Transl Med, DOI://10.1126/scitranslmed.abc7488 (2021)
Cenote-Taker 2 democratizes virus discovery and sequence annotation Tisza, MJ; Belford, AK; Domínguez-Huerta, G; Bolduc, B; Buck, CB; , Virus Evol, DOI://10.1093/ve/veaa100 (2021)
Interaction between SNAI2 and MYOD enhances oncogenesis and suppresses differentiation in Fusion Negative Rhabdomyosarcoma Pomella, S; Sreenivas, P; Gryder, BE et al. Nat Commun, DOI://10.1038/s41467-020-20386-8 (2021)

Glycolytic metabolism of pathogenic T cells enables early detection of GVHD by 13C-MRI Assmann, JC; Farthing, DE; Saito, K et al. Blood, DOI://10.1182/blood.2020005770 (2021)
TCF7L2 silencing results in altered gene expression patterns accompanied by local genomic reorganization Brown, MA; Dotson, GA; Ronquist, S; Emons, G; Rajapakse, I; Ried, T; , Neoplasia, DOI://10.1016/j.neo.2020.12.010 (2021)
Overexpression of the Bacteriophage T4 motB Gene Alters H-NS Dependent Repression of Specific Host DNA Patterson-West, J; Tai, CH; Son, B; Hsieh, ML; Iben, JR; Hinton, DM; , Viruses, DOI://10.3390/v13010084 (2021)
Regulatory roles of Escherichia coli 5'UTR and ORF-internal RNAs detected by 3'end mapping Adams, PP; Baniulyte, G; Esnault, C et al. Elife, DOI://10.7554/eLife.62438 (2021)
Survivin Expression is Differentially Regulated by a Selective Crosstalk between Rbm38 and miRNAs let-7b or miR-203a Lucchesi, CA; Zhang, J; Ma, B; Nussinov, R; Chen, X; , Cancer Res, DOI://10.1158/0008-5472.CAN-20-3157 (2021)
Image-based pooled whole-genome CRISPRi screening for subcellular phenotypes Kanfer, G; Sarraf, SA; Maman, Y et al. J Cell Biol, DOI://10.1083/jcb.202006180 (2021)

A Tumor Suppressor Enhancer of PTEN in T-cell development and leukemia Tottone, L; Lancho, O; Loh, JW et al. Blood Cancer Discov, DOI://10.1158/2643-3230.BCD-20-0201 (2021)
A high-throughput predictive method for sequence-similar fold switchers Kim, AK; Looger, LL; Porter, LL; , Biopolymers, DOI://10.1002/bip.23416 (2021)
Marmoset Brain Mapping V3: Population multi-modal standard volumetric and surface-based templates Liu, C; Yen, CC; Szczupak, D; Tian, X; Glen, D; Silva, AC; , Neuroimage, DOI://10.1016/j.neuroimage.2020.117620 (2021)
A collaborative resource platform for non-human primate neuroimaging Messinger, A; Sirmpilatze, N; Heuer, K et al. Neuroimage, DOI://10.1016/j.neuroimage.2020.117519 (2021)
Thymic stromal lymphopoietin limits primary and recall CD8 + T-cell anti-viral responses Ebina-Shibuya, R; West, EE; Spolski, R et al. Elife, DOI://10.7554/eLife.61912 (2021)
Transkingdom interactions between Lactobacilli and hepatic mitochondria attenuate western diet-induced diabetes Rodrigues, RR; Gurung, M; Li, Z et al. Nat Commun, DOI://10.1038/s41467-020-20313-x (2021)
Ambulatory Assessment Methods to Examine Momentary State-Based Predictors of Opioid Use Behaviors Burgess-Hull, A; Epstein, DH; , Curr Addict Rep, DOI://10.1007/s40429-020-00351-7 (2021)
Pleiotropic genetic influence on birth weight and childhood obesity Chatterjee, S; Ouidir, M; Tekola-Ayele, F; , Sci Rep, DOI://10.1038/s41598-020-80084-9 (2021)
A population scale analysis of rare SNCA variation in the UK Biobank Blauwendraat, C; Makarious, MB; Leonard, HL et al. Neurobiol Dis, DOI://10.1016/j.nbd.2020.105182 (2021)
Platypus and echidna genomes reveal mammalian biology and evolution Zhou, Y; Shearwin-Whyatt, L; Li, J et al. Nature, DOI://10.1038/s41586-020-03039-0 (2021)
Conserved binding site in the N-lobe of prokaryotic MATE transporters suggests a role for Na + in ion-coupled drug efflux Castellano, S; Claxton, DP; Ficici, E et al. J Biol Chem, DOI://10.1074/jbc.RA120.016792 (2021)
Malaria parasites use a soluble RhopH complex for erythrocyte invasion and an integral form for nutrient uptake Schureck, MA; Darling, JE; Merk, A et al. Elife, DOI://10.7554/eLife.65282 (2021)

Automated assessment of longitudinal biomarker changes at abdominal CT: correlation with subsequent cardiovascular events in an asymptomatic adult screening cohort Graffy, PM; Summers, RM; Perez, AA; Sandfort, V; Zea, R; Pickhardt, PJ; , Abdom Radiol (NY), DOI://10.1007/s00261-020-02885-w (2021)
Great Expectations: A Critical Review of and Suggestions for the Study of Reward Processing as a Cause and Predictor of Depression Nielson, DM; Keren, H; O'Callaghan, G et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2020.06.012 (2021)
END-seq: An Unbiased, High-Resolution, and Genome-Wide Approach to Map DNA Double-Strand Breaks and Resection in Human Cells Wong, N; John, S; Nussenzweig, A; Canela, A; , Methods Mol Biol, DOI://10.1007/978-1-0716-0644-5_2 (2021)

2020 (521 papers)

Activation of the SARS-CoV-2 receptor Ace2 by cytokines through pan JAK-STAT enhancers Hennighausen, L; Lee, HK; , SSRN, DOI://10.2139/ssrn.3601827 (2020)
Genomic profiling of primary histiocytic sarcoma reveals two molecular subgroups Egan, C; Nicolae, A; Lack, J et al. Haematologica, DOI://10.3324/haematol.2019.230375 (2020)
Higher prevalence of homologous recombination deficiency in tumors from African Americans versus European Americans Sinha, S; Mitchell, KA; Zingone, A et al. Nat Cancer, DOI://10.1038/s43018-019-0009-7 (2020)
Microbiota Supplementation with Bifidobacterium and Lactobacillus Modifies the Preterm Infant Gut Microbiota and Metabolome: An Observational Study Alcon-Giner, C; Dalby, MJ; Caim, S et al. Cell Rep Med, DOI://10.1016/j.xcrm.2020.100077 (2020)
Virome diversity analysis reveals novel enteroviruses and a human picobirnavirus in stool samples from African green monkeys with diarrhea Li, W; Qiang, X; Qin, S et al. Infect Genet Evol, DOI://10.1016/j.meegid.2020.104279 (2020)
Incorporation of α-methylated amino acids into Apolipoprotein A-I mimetic peptides improves their helicity and cholesterol efflux potential Islam, R; Sviridov, DO; Drake, SK et al. Biochem Biophys Res Commun, DOI://10.1016/j.bbrc.2020.03.070 (2020)
Phenotypic profiling with a living biobank of primary rhabdomyosarcoma unravels disease heterogeneity and AKT sensitivity Manzella, G; Schreck, LD; Breunis, WB et al. Nat Commun, DOI://10.1038/s41467-020-18388-7 (2020)
Novel, abundant Drosha isoforms are deficient in miRNA processing in cancer cells Dai, L; Hallmark, L; Bofill De Ros, X et al. RNA Biol, DOI://10.1080/15476286.2020.1813439 (2020)
Identification and functional validation of genetic variants in potential miRNA target sites of established BMI genes Kumar, P; Traurig, M; Baier, LJ; , Int J Obes (Lond), DOI://10.1038/s41366-019-0488-8 (2020)

Trans-ethnic and Ancestry-Specific Blood-Cell Genetics in 746,667 Individuals from 5 Global Populations Chen, MH; Raffield, LM; Mousas, A et al. Cell, DOI://10.1016/j.cell.2020.06.045 (2020)
The genomic landscape of Mongolian hepatocellular carcinoma Candia, J; Bayarsaikhan, E; Tandon, M et al. Nat Commun, DOI://10.1038/s41467-020-18186-1 (2020)
Author Correction: Mapping histone modifications in low cell number and single cells using antibody-guided chromatin tagmentation (ACT-seq) Carter, B; Ku, WL; Kang, JY et al. Nat Commun, DOI://10.1038/s41467-020-18309-8 (2020)
The GENDULF algorithm: mining transcriptomics to uncover modifier genes for monogenic diseases Auslander, N; Ramos, DM; Zelaya, I et al. Mol Syst Biol, DOI://10.15252/msb.20209701 (2020)
Exome Sequencing Identifies A Nonsense Variant in DAO Associated With Reduced Energy Expenditure in American Indians Piaggi, P; Köroğlu, Ç; Nair, AK et al. J Clin Endocrinol Metab, DOI://10.1210/clinem/dgaa548 (2020)
Retinal ganglion cell defects cause decision shifts in visually evoked defense responses Lees, RN; Akbar, AF; Badea, TC; , J Neurophysiol, DOI://10.1152/jn.00474.2019 (2020)
In vitro model of perimenopausal depression implicates steroid metabolic and proinflammatory genes Rudzinskas, S; Hoffman, JF; Martinez, P et al. Mol Psychiatry, DOI://10.1038/s41380-020-00860-x (2020)
NusG-dependent RNA polymerase pausing is a frequent function of this universally conserved transcription elongation factor Yakhnin, AV; Kashlev, M; Babitzke, P; , Crit Rev Biochem Mol Biol, DOI://10.1080/10409238.2020.1828261 (2020)
The Genetic Basis of Morphological Diversity in Domesticated Goldfish Kon, T; Omori, Y; Fukuta, K et al. Curr Biol, DOI://10.1016/j.cub.2020.04.034 (2020)
Safety and feasibility of anti-CD19 CAR T cells with fully human binding domains in patients with B-cell lymphoma Brudno, JN; Lam, N; Vanasse, D et al. Nat Med, DOI://10.1038/s41591-019-0737-3 (2020)
Genomic analyses of a livestock pest, the New World screwworm, find potential targets for genetic control programs Scott, MJ; Benoit, JB; Davis, RJ et al. Commun Biol, DOI://10.1038/s42003-020-01152-4 (2020)
Transcriptome analysis of desmoplastic small round cell tumors identifies actionable therapeutic targets: a report from the Children's Oncology Group Hingorani, P; Dinu, V; Zhang, X et al. Sci Rep, DOI://10.1038/s41598-020-69015-w (2020)
LSH mediates gene repression through macroH2A deposition Ni, K; Ren, J; Xu, X et al. Nat Commun, DOI://10.1038/s41467-020-19159-0 (2020)
Improved reference genome of the arboviral vector Aedes albopictus Palatini, U; Masri, RA; Cosme, LV et al. Genome Biol, DOI://10.1186/s13059-020-02141-w (2020)
Whole-Exome Profiling of NSCLC Among African Americans Arauz, RF; Byun, JS; Tandon, M et al. J Thorac Oncol, DOI://10.1016/j.jtho.2020.08.029 (2020)
HLA tapasin independence: broader peptide repertoire and HIV control Bashirova, AA; Viard, M; Naranbhai, V et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2013554117 (2020)
Disappearance of the polyelectrolyte peak in salt-free solutions Chremos, A; Horkay, F; , Phys Rev E, DOI://10.1103/PhysRevE.102.012611 (2020)
Somatic Mutations in UBA1 and Severe Adult-Onset Autoinflammatory Disease Beck, DB; Ferrada, MA; Sikora, KA et al. N Engl J Med, DOI://10.1056/NEJMoa2026834 (2020)

Biallelic variants in two complex I genes cause abnormal splicing defects in probands with mild Leigh syndrome Johnstone, T; Wang, J; Ross, D et al. Mol Genet Metab, DOI://10.1016/j.ymgme.2020.09.008 (2020)
Multilayer MEG functional connectivity as a potential marker for suicidal thoughts in major depressive disorder Nugent, AC; Ballard, ED; Gilbert, JR et al. Neuroimage Clin, DOI://10.1016/j.nicl.2020.102378 (2020)
Development and validation of prognostic gene signature for basal-like breast cancer and high-grade serous ovarian cancer Zhang, Y; Liu, J; Raj-Kumar, PK et al. Breast Cancer Res Treat, DOI://10.1007/s10549-020-05884-z (2020)
A Cutibacterium acnes antibiotic modulates human skin microbiota composition in hair follicles Claesen, J; Spagnolo, JB; Ramos, SF et al. Sci Transl Med, DOI://10.1126/scitranslmed.aay5445 (2020)
Therapeutic responses to Roseomonas mucosa in atopic dermatitis may involve lipid-mediated TNF-related epithelial repair Myles, IA; Castillo, CR; Barbian, KD et al. Sci Transl Med, DOI://10.1126/scitranslmed.aaz8631 (2020)
Comparative Transcriptomics Analyses in Livers of Mice, Humans, and Humanized Mice Define Human-Specific Gene Networks Jiang, C; Li, P; Ruan, X et al. Cells, DOI://10.3390/cells9122566 (2020)
IBEX: A versatile multiplex optical imaging approach for deep phenotyping and spatial analysis of cells in complex tissues Radtke, AJ; Kandov, E; Lowekamp, B et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2018488117 (2020)
The Central Role of Salivary Metalloproteases in Host Acquired Resistance to Tick Feeding Perner, J; Helm, D; Haberkant, P et al. Front Cell Infect Microbiol, DOI://10.3389/fcimb.2020.563349 (2020)
Deficiency in the endocytic adaptor proteins PHETA1/2 impairs renal and craniofacial development Ates, KM; Wang, T; Moreland, T et al. Dis Model Mech, DOI://10.1242/dmm.041913 (2020)
The outcome of TGFβ antagonism in metastatic breast cancer models in vivo reflects a complex balance between tumor-suppressive and pro-progression activities of TGFβ Yang, Y; Yang, HH; Tang, B et al. Clin Cancer Res, DOI://10.1158/1078-0432.CCR-19-2370 (2020)
APOBEC3A catalyzes mutation and drives carcinogenesis in vivo Law, EK; Levin-Klein, R; Jarvis, MC et al. J Exp Med, DOI://10.1084/jem.20200261 (2020)
Polygenic analysis of the effect of common and low-frequency genetic variants on serum uric acid levels in Korean individuals Cho, SK; Kim, B; Myung, W et al. Sci Rep, DOI://10.1038/s41598-020-66064-z (2020)

Dynamics of genomic and immune responses during primary immunotherapy resistance in mismatch repair-deficient tumors Takahashi, N; Rajapakse, VN; Pongor, L et al. Cold Spring Harb Mol Case Stud, DOI://10.1101/mcs.a005678 (2020)
Systematic investigation of synthetic polyelectrolyte bottlebrush solutions by neutron and dynamic light scattering, osmometry, and molecular dynamics simulation Horkay, F; Chremos, A; Douglas, JF et al. J Chem Phys, DOI://10.1063/5.0007271 (2020)
Sex chromosome and sex locus characterization in goldfish, Carassius auratus (Linnaeus, 1758) Wen, M; Feron, R; Pan, Q et al. BMC Genomics, DOI://10.1186/s12864-020-06959-3 (2020)
Structural insight into toxin secretion by contact-dependent growth inhibition transporters Guerin, J; Botos, I; Zhang, Z et al. Elife, DOI://10.7554/eLife.58100 (2020)
An RNA Repair Operon Regulated by Damaged tRNAs Hughes, KJ; Chen, X; Burroughs, AM et al. Cell Rep, DOI://10.1016/j.celrep.2020.108527 (2020)
Effect of sequence depth and length in long-read assembly of the maize inbred NC358 Ou, S; Liu, J; Chougule, KM et al. Nat Commun, DOI://10.1038/s41467-020-16037-7 (2020)
Gene-educational attainment interactions in a multi-ancestry genome-wide meta-analysis identify novel blood pressure loci de Las Fuentes, L; Sung, YJ; Noordam, R et al. Mol Psychiatry, DOI://10.1038/s41380-020-0719-3 (2020)
Rapid image deconvolution and multiview fusion for optical microscopy Guo, M; Li, Y; Su, Y et al. Nat Biotechnol, DOI://10.1038/s41587-020-0560-x (2020)
Language lateralization from task-based and resting state functional MRI in patients with epilepsy Rolinski, R; You, X; Gonzalez-Castillo, J et al. Hum Brain Mapp, DOI://10.1002/hbm.25003 (2020)
Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential Moser, KA; Drábek, EF; Dwivedi, A et al. Genome Med, DOI://10.1186/s13073-019-0708-9 (2020)
A Serum Proteomic Signature Predicting Survival in Patients with Glioblastoma Sproull, M; Mathen, P; Miller, CA et al. J Biochem Anal Stud, DOI://10.16966/2576-5833.117 (2020)
Impact of Conditioning Intensity of Allogeneic Transplantation for Acute Myeloid Leukemia With Genomic Evidence of Residual Disease Hourigan, CS; Dillon, LW; Gui, G et al. J Clin Oncol, DOI://10.1200/JCO.19.03011 (2020)
BAMscale: quantification of next-generation sequencing peaks and generation of scaled coverage tracks Pongor, LS; Gross, JM; Vera Alvarez, R et al. Epigenetics Chromatin, DOI://10.1186/s13072-020-00343-x (2020)
Uncoupling the Folding-Function Paradigm of Lytic Peptides to Deliver Impermeable Inhibitors of Intracellular Protein-Protein Interactions Miller, SE; Tsuji, K; Abrams, RPM et al. J Am Chem Soc, DOI://10.1021/jacs.0c07921 (2020)
Genome-Wide Analysis of the FOXA1 Transcriptional Network Identifies Novel Protein-Coding and Long Noncoding RNA Targets in Colorectal Cancer Cells Lazar, SB; Pongor, L; Li, XL et al. Mol Cell Biol, DOI://10.1128/MCB.00224-20 (2020)
Somatic structural variation targets neurodevelopmental genes and identifies SHANK2 as a tumor suppressor in neuroblastoma Lopez, G; Conkrite, KL; Doepner, M et al. Genome Res, DOI://10.1101/gr.252106.119 (2020)
Use of word and graph embedding to measure semantic relatedness between Unified Medical Language System concepts Mao, Y; Fung, KW; , J Am Med Inform Assoc, DOI://10.1093/jamia/ocaa136 (2020)
Zebrafish Posterior Lateral Line primordium migration requires interactions between a superficial sheath of motile cells and the skin Dalle Nogare, DE; Natesh, N; Vishwasrao, HD et al. Elife, DOI://10.7554/eLife.58251 (2020)
bZIP Dimers CREB1, ATF2, Zta, ATF3|cJun, and cFos|cJun Prefer to Bind to Some Double-Stranded DNA Sequences Containing 5-Formylcytosine and 5-Carboxylcytosine Ray, S; Tillo, D; Ufot, A et al. Biochemistry, DOI://10.1021/acs.biochem.0c00475 (2020)
Lipid flip-flop and desorption from supported lipid bilayers is independent of curvature Jing, H; Wang, Y; Desai, PR et al. PLoS One, DOI://10.1371/journal.pone.0244460 (2020)
Repeat expansions confer WRN dependence in microsatellite-unstable cancers van Wietmarschen, N; Sridharan, S; Nathan, WJ et al. Nature, DOI://10.1038/s41586-020-2769-8 (2020)
Metabolic but not transcriptional regulation by PKM2 is important for natural killer cell responses Walls, JF; Subleski, JJ; Palmieri, EM et al. Elife, DOI://10.7554/eLife.59166 (2020)
Inborn errors of type I IFN immunity in patients with life-threatening COVID-19 Zhang, Q; Bastard, P; Liu, Z et al. Science, DOI://10.1126/science.abd4570 (2020)
mRNA vaccine-induced neoantigen-specific T cell immunity in patients with gastrointestinal cancer Cafri, G; Gartner, JJ; Zaks, T et al. J Clin Invest, DOI://10.1172/JCI134915 (2020)
Age and Tumor Differentiation-Associated Gene Expression Based Analysis of Non-Familial Prostate Cancers Sharad, S; Allemang, TC; Li, H et al. Front Oncol, DOI://10.3389/fonc.2020.584280 (2020)
NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency Marques, JG; Gryder, BE; Pavlovic, B et al. Elife, DOI://10.7554/eLife.54993 (2020)
Scale-Free Dynamics in Animal Groups and Brain Networks Ribeiro, TL; Chialvo, DR; Plenz, D; , Front Syst Neurosci, DOI://10.3389/fnsys.2020.591210 (2020)
Progressive B Cell Loss in Revertant X-SCID Lin, CH; Kuehn, HS; Thauland, TJ et al. J Clin Immunol, DOI://10.1007/s10875-020-00825-3 (2020)
Correction to: A Nonsense N -Terminus NFKB2 Mutation Leading to Haploinsufficiency in a Patient with a Predominantly Antibody Deficiency Kuehn, HS; Bernasconi, A; Niemela, JE et al. J Clin Immunol, DOI://10.1007/s10875-020-00860-0 (2020)
Case Report: Single-Cell Transcriptomic Analysis of an Anaplastic Oligodendroglioma Post Immunotherapy Yu, G; Butler, MK; Abdelmaksoud, A et al. Front Oncol, DOI://10.3389/fonc.2020.601452 (2020)
Integrated analysis of genome-wide miRNAs and targeted gene expression in esophageal squamous cell carcinoma (ESCC) and relation to prognosis Yang, H; Su, H; Hu, N et al. BMC Cancer, DOI://10.1186/s12885-020-06901-6 (2020)
G-Protein biased opioid agonists: 3-hydroxy- N-phenethyl-5-phenylmorphans with three-carbon chain substituents at C9 Gutman, ES; Bow, E; Li, F et al. RSC Med Chem, DOI://10.1039/d0md00104j (2020)
Author Correction: Safety and feasibility of anti-CD19 CAR T cells with fully human binding domains in patients with B-cell lymphoma Brudno, JN; Lam, N; Vanasse, D et al. Nat Med, DOI://10.1038/s41591-020-0864-x (2020)
Mutations in CERKL and RP1 cause retinitis pigmentosa in Pakistani families Nadeem, R; Kabir, F; Li, J et al. Hum Genome Var, DOI://10.1038/s41439-020-0100-8 (2020)
Emx2 regulates hair cell rearrangement but not positional identity within neuromasts Ohta, S; Ji, YR; Martin, D; Wu, DK; , Elife, DOI://10.7554/eLife.60432 (2020)
NCINM: organ dose calculator for patients undergoing nuclear medicine procedures Villoing, D; Cuthbert, TA; Kitahara, CM; Lee, C; , Biomed Phys Eng Express, DOI://10.1088/2057-1976/aba41e (2020)

Genetic determinants of survival in progressive supranuclear palsy: a genome-wide association study Jabbari, E; Koga, S; Valentino, RR et al. Lancet Neurol, DOI://10.1016/S1474-4422(20)30394-X (2020)
Zika Virus-Induced Neuronal Apoptosis via Increased Mitochondrial Fragmentation Yang, S; Gorshkov, K; Lee, EM et al. Front Microbiol, DOI://10.3389/fmicb.2020.598203 (2020)
Assessment of LIN28A variants in Parkinson's disease in large European cohorts Diez-Fairen, M; Makarious, MB; Bandres-Ciga, S; Blauwendraat, C; , ; , Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2020.12.002 (2020)
Gene Expression Profiling of Mediastinal Gray Zone Lymphoma and Its Relationship to Primary Mediastinal B-cell Lymphoma and Classical Hodgkin Lymphoma Pittaluga, S; Nicolae, A; Wright, GW et al. Blood Cancer Discov, DOI://10.1158/2643-3230.BCD-20-0009 (2020)
Loss of myeloid-specific lamin A/C drives lung metastasis through Gfi-1 and C/EBPε-mediated granulocytic differentiation Ishii, H; Park, WY; So, J et al. Mol Carcinog, DOI://10.1002/mc.23147 (2020)
Lipidomic profiling identifies signatures of metabolic risk Yin, X; Willinger, CM; Keefe, J et al. EBioMedicine, DOI://10.1016/j.ebiom.2019.10.046 (2020)

Synthetic Lethal Drug Combinations Targeting Proteasome and Histone Deacetylase Inhibitors in TP53-Mutated Cancers Das, S; Deng, X; Camphausen, K; Shankavaram, U; , Arch Cancer Biol Ther (2020)
PAX1 is essential for development and function of the human thymus Yamazaki, Y; Urrutia, R; Franco, LM et al. Sci Immunol, DOI://10.1126/sciimmunol.aax1036 (2020)
A three-dimensional potential of mean force to improve backbone and sidechain hydrogen bond geometry in Xplor-NIH protein structure determination Schwieters, CD; Bermejo, GA; Clore, GM; , Protein Sci, DOI://10.1002/pro.3745 (2020)
IRBIT Directs Differentiation of Intestinal Stem Cell Progeny to Maintain Tissue Homeostasis Arnaoutov, A; Lee, H; Plevock Haase, K et al. iScience, DOI://10.1016/j.isci.2020.100954 (2020)
Longitudinal changes in network homogeneity in presymptomatic C9orf72 mutation carriers Waugh, RE; Danielian, LE; Shoukry, RFS; Floeter, MK; , Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2020.11.014 (2020)
Progressive multifocal leukoencephalopathy lesion and brain parenchymal segmentation from MRI using serial deep convolutional neural networks Al-Louzi, O; Roy, S; Osuorah, I et al. Neuroimage Clin, DOI://10.1016/j.nicl.2020.102499 (2020)

Pathogenic Huntingtin Repeat Expansions in Patients with Frontotemporal Dementia and Amyotrophic Lateral Sclerosis Dewan, R; Chia, R; Ding, J et al. Neuron, DOI://10.1016/j.neuron.2020.11.005 (2020)
The Evolutionary Dynamics of Influenza A Viruses Circulating in Mallards in Duck Hunting Preserves in Maryland, USA Trovão, NS; Nolting, JM; Slemons, RD; Nelson, MI; Bowman, AS; , Microorganisms, DOI://10.3390/microorganisms9010040 (2020)
Enhancing Question Answering by Injecting Ontological Knowledge through Regularization Goodwin, TR; Demner-Fushman, D; , Proc Conf Empir Methods Nat Lang Process, DOI://10.18653/v1/2020.deelio-1.7 (2020)
Towards Zero-Shot Conditional Summarization with Adaptive Multi-Task Fine-Tuning Goodwin, TR; Savery, ME; Demner-Fushman, D; , Proc Conf Empir Methods Nat Lang Process (2020)
Matrix Drug Screen Identifies Synergistic Drug Combinations to Augment SMAC Mimetic Activity in Ovarian Cancer Noonan, AM; Cousins, A; Anderson, D et al. Cancers (Basel), DOI://10.3390/cancers12123784 (2020)
Molecular Details of Protein Condensates Probed by Microsecond Long Atomistic Simulations Zheng, W; Dignon, GL; Jovic, N et al. J Phys Chem B, DOI://10.1021/acs.jpcb.0c10489 (2020)

Loss of endocytosis-associated RabGEF1 causes aberrant morphogenesis and altered autophagy in photoreceptors leading to retinal degeneration Hargrove-Grimes, P; Mondal, AK; Gumerson, J et al. PLoS Genet, DOI://10.1371/journal.pgen.1009259 (2020)
Evolving schema representations in orbitofrontal ensembles during learning Zhou, J; Jia, C; Montesinos-Cartagena, M; Gardner, MPH; Zong, W; Schoenbaum, G; , Nature, DOI://10.1038/s41586-020-03061-2 (2020)
Activation of Interferon-Stimulated Transcriptomes and ACE2 Isoforms in Human Airway Epithelium Is Curbed by Janus Kinase Inhibitors Lee, HK; Jung, O; Hennighausen, L; , Res Sq, DOI://10.21203/rs.3.rs-119695/v1 (2020)
Seeker: alignment-free identification of bacteriophage genomes by deep learning Auslander, N; Gussow, AB; Benler, S; Wolf, YI; Koonin, EV; , Nucleic Acids Res, DOI://10.1093/nar/gkaa856 (2020)
Cancer prognosis with shallow tumor RNA sequencing Milanez-Almeida, P; Martins, AJ; Germain, RN; Tsang, JS; , Nat Med, DOI://10.1038/s41591-019-0729-3 (2020)
LAMP3 induces apoptosis and autoantigen release in Sjögren's syndrome patients Tanaka, T; Warner, BM; Odani, T et al. Sci Rep, DOI://10.1038/s41598-020-71669-5 (2020)

Disseminated Mycobacterium marinum in HIV unmasked by Immune Reconstitution Inflammatory Syndrome Manion, M; Dulanto Chiang, A; Pei, L et al. J Infect Dis, DOI://10.1093/infdis/jiaa769 (2020)
Resting State Functional Connectivity Is Decreased Globally Across the C9orf72 Mutation Spectrum Smallwood Shoukry, RF; Clark, MG; Floeter, MK; , Front Neurol, DOI://10.3389/fneur.2020.598474 (2020)
An Integrated Epigenomic and Transcriptomic Map of Mouse and Human αβ T Cell Development Chopp, LB; Gopalan, V; Ciucci, T et al. Immunity, DOI://10.1016/j.immuni.2020.10.024 (2020)
Identification of a novel long-acting 4'-modified nucleoside reverse transcriptase inhibitor against HBV Higashi-Kuwata, N; Hayashi, S; Kumamoto, H et al. J Hepatol, DOI://10.1016/j.jhep.2020.12.006 (2020)
A Deep Learning Pipeline for Nucleus Segmentation Zaki, G; Gudla, PR; Lee, K et al. Cytometry A, DOI://10.1002/cyto.a.24257 (2020)
Identification of a pathogenic intronic KIF5A mutation in an ALS-FTD kindred Saez-Atienzar, S; Dalgard, CL; Ding, J et al. Neurology, DOI://10.1212/WNL.0000000000011064 (2020)

Ubiquitination of MHC Class II by March-I Regulates Dendritic Cell Fitness Kim, HJ; Bandola-Simon, J; Ishido, S et al. J Immunol, DOI://10.4049/jimmunol.2000975 (2020)
Peptide-MHC Binding Reveals Conserved Allosteric Sites in MHC Class I- and Class II-Restricted T Cell Receptors (TCRs) He, Y; Agnihotri, P; Rangarajan, S et al. J Mol Biol, DOI://10.1016/j.jmb.2020.10.031 (2020)
Generation of a Single-Cell RNAseq Atlas of Murine Salivary Gland Development Hauser, BR; Aure, MH; Kelly, MC; , ; Hoffman, MP; Chibly, AM; , iScience, DOI://10.1016/j.isci.2020.101838 (2020)
Plasma proteomic biomarker signature of age predicts health and life span Tanaka, T; Basisty, N; Fantoni, G et al. Elife, DOI://10.7554/eLife.61073 (2020)
Flight of the PEGASUS? Comparing Transformers on Few-Shot and Zero-Shot Multi-document Abstractive Summarization Goodwin, TR; Savery, ME; Demner-Fushman, D; , Proc Int Conf Comput Ling, 1525-2477 (2020)
Stem-like CD8 T cells mediate response of adoptive cell immunotherapy against human cancer Krishna, S; Lowery, FJ; Copeland, AR et al. Science, DOI://10.1126/science.abb9847 (2020)
Data sets on human histone interaction networks Peng, Y; Markov, Y; Goncearenco, A et al. Data Brief, DOI://10.1016/j.dib.2020.106555 (2020)
Identification of Genes Contributing to a Long Circadian Period in Drosophila Melanogaster Kumar, S; Tunc, I; Tansey, TR; Pirooznia, M; Harbison, ST; , J Biol Rhythms, DOI://10.1177/0748730420975946 (2020)
Natural selection on sleep duration in Drosophila melanogaster Souto-Maior, C; Serrano Negron, YL; Harbison, ST; , Sci Rep, DOI://10.1038/s41598-020-77680-0 (2020)
Polyelectrolyte interactions enable rapid association and dissociation in high-affinity disordered protein complexes Sottini, A; Borgia, A; Borgia, MB et al. Nat Commun, DOI://10.1038/s41467-020-18859-x (2020)
Molecular structure and interactions within amyloid-like fibrils formed by a low-complexity protein sequence from FUS Lee, M; Ghosh, U; Thurber, KR; Kato, M; Tycko, R; , Nat Commun, DOI://10.1038/s41467-020-19512-3 (2020)
Feedforward prediction error signals during episodic memory retrieval Haque, RU; Inati, SK; Levey, AI; Zaghloul, KA; , Nat Commun, DOI://10.1038/s41467-020-19828-0 (2020)

Computational Investigation of Gantenerumab and Crenezumab Recognition of Aβ Fibrils in Alzheimer's Disease Brain Tissue Chen, Y; Wei, G; Zhao, J; Nussinov, R; Ma, B; , ACS Chem Neurosci, DOI://10.1021/acschemneuro.0c00364 (2020)
Reliable segmentation of 2D cardiac magnetic resonance perfusion image sequences using time as the 3rd dimension Sandfort, V; Jacobs, M; Arai, AE; Hsu, LY; , Eur Radiol, DOI://10.1007/s00330-020-07474-5 (2020)
A generalized workflow for conducting electric field-optimized, fMRI-guided, transcranial magnetic stimulation Balderston, NL; Roberts, C; Beydler, EM et al. Nat Protoc, DOI://10.1038/s41596-020-0387-4 (2020)
Emergence of non-canonical parvalbumin-containing interneurons in hippocampus of a murine model of type I lissencephaly Ekins, TG; Mahadevan, V; Zhang, Y et al. Elife, DOI://10.7554/eLife.62373 (2020)
Distinct Structures and Dynamics of Chromatosomes with Different Human Linker Histone Isoforms Zhou, BR; Feng, H; Kale, S et al. Mol Cell, DOI://10.1016/j.molcel.2020.10.038 (2020)
A series of five population-specific Indian brain templates and atlases spanning ages 6-60 years Holla, B; Taylor, PA; Glen, DR et al. Hum Brain Mapp, DOI://10.1002/hbm.25182 (2020)

A Heterogeneous Swine Show Circuit Drives Zoonotic Transmission of Influenza A Viruses in the United States Nelson, MI; Perofsky, A; McBride, DS et al. J Virol, DOI://10.1128/JVI.01453-20 (2020)
Novel TMEM98, MFRP, PRSS56 variants in a large United States high hyperopia and nanophthalmos cohort Prasov, L; Guan, B; Ullah, E et al. Sci Rep, DOI://10.1038/s41598-020-76725-8 (2020)
An immune-based biomarker signature is associated with mortality in COVID-19 patients Abers, MS; Delmonte, OM; Ricotta, EE et al. JCI Insight, DOI://10.1172/jci.insight.144455 (2020)
Neanderthal-derived genetic variation is associated with functional connectivity in the brains of living humans Gregory, MD; Kippenhan, JS; Kohn, P et al. Brain Connect, DOI://10.1089/brain.2020.0809 (2020)
SAVI, in silico generation of billions of easily synthesizable compounds through expert-system type rules Patel, H; Ihlenfeldt, WD; Judson, PN et al. Sci Data, DOI://10.1038/s41597-020-00727-4 (2020)
Network Changes in Insula and Amygdala Connectivity Accompany Implicit Suicidal Associations Ballard, ED; Gilbert, JR; Fields, JS; Nugent, AC; Zarate, CA; , Front Psychiatry, DOI://10.3389/fpsyt.2020.577628 (2020)
Statistical approaches using longitudinal biomarkers for disease early detection: A comparison of methodologies Han, Y; Albert, PS; Berg, CD; Wentzensen, N; Katki, HA; Liu, D; , Stat Med, DOI://10.1002/sim.8731 (2020)
The sialotranscriptome of the gopher-tortoise tick, Amblyomma tuberculatum Karim, S; Kumar, D; Adamson, S; Ennen, JR; Qualls, CP; Ribeiro, JMC; , Ticks Tick Borne Dis, DOI://10.1016/j.ttbdis.2020.101560 (2020)
Lack of pathogenic germline DICER1 variants in males with testicular germ-cell tumors Vasta, LM; McMaster, ML; Harney, LA et al. Cancer Genet, DOI://10.1016/j.cancergen.2020.10.002 (2020)
Author Correction: Cryo-EM structure of the bacterial Ton motor subcomplex ExbB-ExbD provides information on structure and stoichiometry Celia, H; Botos, I; Ni, X et al. Commun Biol, DOI://10.1038/s42003-020-01427-w (2020)
Accommodation of In-Register N-Linked Glycans on Prion Protein Amyloid Cores Artikis, E; Roy, A; Verli, H; Cordeiro, Y; Caughey, B; , ACS Chem Neurosci, DOI://10.1021/acschemneuro.0c00635 (2020)
Coarse-grained modelling of DNA plectoneme pinning in the presence of base-pair mismatches Desai, PR; Brahmachari, S; Marko, JF; Das, S; Neuman, KC; , Nucleic Acids Res, DOI://10.1093/nar/gkaa836 (2020)

Predicting the course of ADHD symptoms through the integration of childhood genomic, neural, and cognitive features Sudre, G; Sharp, W; Kundzicz, P et al. Mol Psychiatry, DOI://10.1038/s41380-020-00941-x (2020)
Reversing the direction of drug transport mediated by the human multidrug transporter P-glycoprotein Sajid, A; Lusvarghi, S; Murakami, M et al. Proc Natl Acad Sci U S A, DOI://10.1073/pnas.2016270117 (2020)
Rapid Enhancer Remodeling and Transcription Factor Repurposing Enable High Magnitude Gene Induction upon Acute Activation of NK Cells Sciumè, G; Mikami, Y; Jankovic, D et al. Immunity, DOI://10.1016/j.immuni.2020.09.008 (2020)
Patients with anxiety disorders rely on bilateral dlPFC activation during verbal working memory Balderston, NL; Flook, E; Hsiung, A et al. Soc Cogn Affect Neurosci, DOI://10.1093/scan/nsaa146 (2020)
Genetically predicted telomere length is associated with clonal somatic copy number alterations in peripheral leukocytes Brown, DW; Lin, SH; Loh, PR; Chanock, SJ; Savage, SA; Machiela, MJ; , PLoS Genet, DOI://10.1371/journal.pgen.1009078 (2020)
Characterizing transcriptional regulatory sequences in coronaviruses and their role in recombination Yang, Y; Yan, W; Hall, AB; Jiang, X; , Mol Biol Evol, DOI://10.1093/molbev/msaa281 (2020)

Vestibular phenotype-genotype correlation in a cohort of 90 patients with Usher syndrome Wafa, TT; Faridi, R; King, KA et al. Clin Genet, DOI://10.1111/cge.13868 (2020)
FoxO maintains a genuine muscle stem-cell quiescent state until geriatric age García-Prat, L; Perdiguero, E; Alonso-Martín, S et al. Nat Cell Biol, DOI://10.1038/s41556-020-00593-7 (2020)
Mouse Models of Human Pathogenic Variants of TBC1D24 Associated with Non-Syndromic Deafness DFNB86 and DFNA65 and Syndromes Involving Deafness Tona, R; Lopez, IA; Fenollar-Ferrer, C et al. Genes (Basel), DOI://10.3390/genes11101122 (2020)
Prevalent and sex-biased breathing patterns modify functional connectivity MRI in young adults Lynch, CJ; Silver, BM; Dubin, MJ et al. Nat Commun, DOI://10.1038/s41467-020-18974-9 (2020)
Transcriptomes of Major Proximal Tubule Cell Culture Models Khundmiri, SJ; Chen, L; Lederer, ED; Yang, CR; Knepper, MA; , J Am Soc Nephrol, DOI://10.1681/ASN.2020010009 (2020)
Tumor Phylogeny Topology Inference via Deep Learning Sadeqi Azer, E; Haghir Ebrahimabadi, M; Malikić, S et al. iScience, DOI://10.1016/j.isci.2020.101655 (2020)

Critical Sequence Hotspots for Binding of Novel Coronavirus to Angiotensin Converter Enzyme as Evaluated by Molecular Simulations Ghorbani, M; Brooks, BR; Klauda, JB; , J Phys Chem B, DOI://10.1021/acs.jpcb.0c05994 (2020)
Cancer-Specific Immune Prognostic Signature in Solid Tumors and Its Relation to Immune Checkpoint Therapies Das, S; Camphausen, K; Shankavaram, U; , Cancers (Basel), DOI://10.3390/cancers12092476 (2020)
A physiologic overview of the organ-specific transcriptome of the cattle tick Rhipicephalus microplus Tirloni, L; Braz, G; Nunes, RD et al. Sci Rep, DOI://10.1038/s41598-020-75341-w (2020)
An optimized protocol for retina single-cell RNA sequencing Fadl, BR; Brodie, SA; Malasky, M et al. Mol Vis, 1090-0535 (2020)
Distinct contributions of cathelin-related antimicrobial peptide (CRAMP) derived from epithelial cells and macrophages to colon mucosal homeostasis Chen, K; Yoshimura, T; Yao, X et al. J Pathol, DOI://10.1002/path.5572 (2020)
Embryonic erythropoiesis and hemoglobin switching require transcriptional repressor ETO2 to modulate chromatin organization Guo, X; Plank-Bazinet, J; Krivega, I; Dale, RK; Dean, A; , Nucleic Acids Res, DOI://10.1093/nar/gkaa736 (2020)

Characterization of rare spindle and root cell transcriptional profiles in the stria vascularis of the adult mouse cochlea Gu, S; Olszewski, R; Taukulis, I et al. Sci Rep, DOI://10.1038/s41598-020-75238-8 (2020)
Permutation inference for canonical correlation analysis Winkler, AM; Renaud, O; Smith, SM; Nichols, TE; , Neuroimage, DOI://10.1016/j.neuroimage.2020.117065 (2020)
RNA-sequencing of the Nyssomyia neivai sialome: a sand fly-vector from a Brazilian endemic area for tegumentary leishmaniasis and pemphigus foliaceus Vernal, S; Oliveira, F; Oliveira, WHC et al. Sci Rep, DOI://10.1038/s41598-020-74343-y (2020)
Whole genome sequencing data of multiple individuals of Pakistani descent Khan, SY; Ali, M; Lee, MW et al. Sci Data, DOI://10.1038/s41597-020-00664-2 (2020)
Direct Comparison of (N)-Methanocarba and Ribose-Containing 2-Arylalkynyladenosine Derivatives as A 3 Receptor Agonists Tosh, DK; Salmaso, V; Rao, H et al. ACS Med Chem Lett, DOI://10.1021/acsmedchemlett.9b00637 (2020)
Exploring the sequence fitness landscape of a bridge between protein folds Tian, P; Best, RB; , PLoS Comput Biol, DOI://10.1371/journal.pcbi.1008285 (2020)

lncRNAKB, a knowledgebase of tissue-specific functional annotation and trait association of long noncoding RNA Seifuddin, F; Singh, K; Suresh, A et al. Sci Data, DOI://10.1038/s41597-020-00659-z (2020)
Using whole-exome sequencing and protein interaction networks to prioritize candidate genes for germline cutaneous melanoma susceptibility Yepes, S; Tucker, MA; Koka, H et al. Sci Rep, DOI://10.1038/s41598-020-74293-5 (2020)
Long-Term Cocaine Self-administration Produces Structural Brain Changes That Correlate With Altered Cognition Jedema, HP; Song, X; Aizenstein, HJ et al. Biol Psychiatry, DOI://10.1016/j.biopsych.2020.08.008 (2020)
Interferons and viruses induce a novel truncated ACE2 isoform and not the full-length SARS-CoV-2 receptor Onabajo, OO; Banday, AR; Stanifer, ML et al. Nat Genet, DOI://10.1038/s41588-020-00731-9 (2020)
Low-frequency variation near common germline susceptibility loci are associated with risk of Ewing sarcoma Lin, SH; Sampson, JN; Grünewald, TGP et al. PLoS One, DOI://10.1371/journal.pone.0237792 (2020)
Dynamic Suppression of Average Facial Structure Shapes Neural Tuning in Three Macaque Face Patches Koyano, KW; Jones, AP; McMahon, DBT; Waidmann, EN; Russ, BE; Leopold, DA; , Curr Biol, DOI://10.1016/j.cub.2020.09.070 (2020)

Response nonlinearities in networks of spiking neurons Sanzeni, A; Histed, MH; Brunel, N; , PLoS Comput Biol, DOI://10.1371/journal.pcbi.1008165 (2020)
Body-size-dependent Iodine-131 S values Yeom, YS; Griffin, KT; Shin, B; Choi, C; Han, H; Moon, S; , J Radiol Prot, DOI://10.1088/1361-6498/abc053 (2020)
Structural snapshots of the cellular folded protein translocation machinery Bcs1 Xia, D FEBS J, DOI://10.1111/febs.15576 (2020)
Androgen receptor signaling regulates the transcriptome of prostate cancer cells by modulating global alternative splicing Shah, K; Gagliano, T; Garland, L et al. Oncogene, DOI://10.1038/s41388-020-01429-2 (2020)
Activation of the SARS-CoV-2 Receptor Ace2 through JAK/STAT-Dependent Enhancers during Pregnancy Hennighausen, L; Lee, HK; , Cell Rep, DOI://10.1016/j.celrep.2020.108199 (2020)
Exponential-Family Random Graph Models for Multi-Layer Networks Krivitsky, PN; Koehly, LM; Marcum, CS; , Psychometrika, DOI://10.1007/s11336-020-09720-7 (2020)

Transcriptomic profiling of the digestive tract of the rat flea, Xenopsylla cheopis, following blood feeding and infection with Yersinia pestis Bland, DM; Martens, CA; Virtaneva, K et al. PLoS Negl Trop Dis, DOI://10.1371/journal.pntd.0008688 (2020)
Genetic rescue of X-linked retinoschisis mouse (Rs1-/y) retina induces quiescence of the retinal microglial inflammatory state following AAV8-RS1 gene transfer and identifies gene networks underlying retinal recovery Vijayasarathy, C; Zeng, Y; Brooks, M; Fariss, RN; Sieving, PA; , Hum Gene Ther, DOI://10.1089/hum.2020.213 (2020)
Membrane permeability of small molecules from unbiased molecular dynamics simulations Krämer, A; Ghysels, A; Wang, E et al. J Chem Phys, DOI://10.1063/5.0013429 (2020)
Multiple capsid protein binding sites mediate selective packaging of the alphavirus genomic RNA Brown, RS; Anastasakis, DG; Hafner, M; Kielian, M; , Nat Commun, DOI://10.1038/s41467-020-18447-z (2020)
Deregulated immune cell recruitment orchestrated by FOXM1 impairs human diabetic wound healing Sawaya, AP; Stone, RC; Brooks, SR et al. Nat Commun, DOI://10.1038/s41467-020-18276-0 (2020)
Single-Cell RNA-Sequencing From Mouse Incisor Reveals Dental Epithelial Cell-Type Specific Genes Chiba, Y; Saito, K; Martin, D et al. Front Cell Dev Biol, DOI://10.3389/fcell.2020.00841 (2020)
Projected Cancer Risks to Residents of New Mexico from Exposure to Trinity Radioactive Fallout Cahoon, EK; Zhang, R; Simon, SL; Bouville, A; Pfeiffer, RM; , Health Phys, DOI://10.1097/HP.0000000000001333 (2020)
Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies Rhie, A; Walenz, BP; Koren, S; Phillippy, AM; , Genome Biol, DOI://10.1186/s13059-020-02134-9 (2020)
Synthetic lethal combination targeting BET uncovered intrinsic susceptibility of TNBC to ferroptosis Verma, N; Vinik, Y; Saroha, A et al. Sci Adv, DOI://10.1126/sciadv.aba8968 (2020)
Polygenic risk score for the prediction of breast cancer is related to lesser terminal duct lobular unit involution of the breast Bodelon, C; Oh, H; Derkach, A et al. , DOI://10.1038/s41523-020-00184-7 (2020)
Hybrid-DCA: A double asynchronous approach for stochastic dual coordinate ascent Pal, S; Xu, T; Yang, T; Rajasekaran, S; Bi, J; , , DOI://10.1016/j.jpdc.2020.04.002 (2020)
In silico Drug Repurposing to combat COVID-19 based on Pharmacogenomics of Patient Transcriptomic Data Das, S; Camphausen, K; Shankavaram, U; , Res Sq, DOI://10.21203/rs.3.rs-39128/v1 (2020)
Maternal-fetal genetic interactions, imprinting, and risk of placental abruption Workalemahu, T; Enquobahrie, DA; Gelaye, B et al. J Matern Fetal Neonatal Med, DOI://10.1080/14767058.2020.1822314 (2020)
Subsequent Neoplasm Risk Associated With Rare Variants in DNA Damage Response and Clinical Radiation Sensitivity Syndrome Genes in the Childhood Cancer Survivor Study Morton, LM; Karyadi, DM; Hartley, SW et al. JCO Precis Oncol, DOI://10.1200/PO.20.00141 (2020)
Organ Dose Conversion Coefficients Calculated for Korean Pediatric and Adult Voxel Phantoms Exposed to External Photon Fields Choonsik Lee, Yeon Soo Yeom, Keith Griffin, Choonik Lee, Ae-Kyoung Lee, Hyung-do Choi J. Radiat. Prot. Res, doi://10.14407/jrpr.2020.45.2.69 (2020)
Power of Microbiome Beta-Diversity Analyses Based on Standard Reference Samples Gail, MH; Wan, Y; Shi, J; , Am J Epidemiol, DOI://10.1093/aje/kwaa204 (2020)
The Rag GTPase Regulates the Dynamic Behavior of TSC Downstream of Both Amino Acid and Growth Factor Restriction Yang, S; Zhang, Y; Ting, CY et al. Dev. Cell, DOI://10.1016/j.devcel.2020.08.006 (2020)
Immune correlates analysis using vaccinees from test negative designs Follmann, DA; Dodd, L; , Biostatistics, DOI://10.1093/biostatistics/kxaa037 (2020)

Atherosclerotic Plaque Burden on Abdominal CT: Automated Assessment With Deep Learning on Noncontrast and Contrast-enhanced Scans Summers, RM; Elton, DC; Lee, S et al. Acad Radiol, DOI://10.1016/j.acra.2020.08.022 (2020)
Untangling the relatedness among correlations, part III: Inter-subject correlation analysis through Bayesian multilevel modeling for naturalistic scanning Chen, G; Taylor, PA; Qu, X et al. Neuroimage, DOI://10.1016/j.neuroimage.2019.116474 (2020)
The role of RHOT1 and RHOT2 genetic variation on Parkinson disease risk and onset Periñán, MT; Gómez-Garre, P; Blauwendraat, C; Mir, P; Bandres-Ciga, S; , ; , Neurobiol Aging, DOI://10.1016/j.neurobiolaging.2020.07.003 (2020)
Formation and Properties of a Self-Assembled Nanoparticle-Supported Lipid Bilayer Probed through Molecular Dynamics Simulations Jing, H; Wang, Y; Desai, PR; Ramamurthi, KS; Das, S; , Langmuir, DOI://10.1021/acs.langmuir.0c00593 (2020)
Functional Dissection of Basal Ganglia Inhibitory Inputs onto Substantia Nigra Dopaminergic Neurons Evans, RC; Twedell, EL; Zhu, M; Ascencio, J; Zhang, R; Khaliq, ZM; , Cell Rep, DOI://10.1016/j.celrep.2020.108156 (2020)
Liver Steatosis Categorization on Contrast-Enhanced CT Using a Fully-Automated Deep Learning Volumetric Segmentation Tool: Evaluation in 1,204 Heathy Adults Using Unenhanced CT as Reference Standard Pickhardt, PJ; Blake, GM; Graffy, PM et al. AJR Am J Roentgenol, DOI://10.2214/AJR.20.24415 (2020)

RUNX1 and CBFβ-SMMHC transactivate target genes together in abnormal myeloid progenitors for leukemia development Zhen, T; Cao, Y; Ren, G et al. Blood, DOI://10.1182/blood.2020007747 (2020)
Ketamine modulates fronto-striatal circuitry in depressed and healthy individuals Mkrtchian, A; Evans, JW; Kraus, C et al. Mol Psychiatry, DOI://10.1038/s41380-020-00878-1 (2020)
Pan-cancer analysis of whole genomes ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium Nature, DOI://10.1038/s41586-020-1969-6 (2020)
[Imaging of Tumor-Specific Hypoxia Dynamics and Its Significance in Radiation Biology] Yasui, H; Matsumoto, S; Inanami, O; Krishna, MC; , Igaku Butsuri, DOI://10.11323/jjmp.40.1_13 (2020)
Structural Features that Distinguish Inactive and Active PI3K Lipid Kinases Zhang, M; Jang, H; Nussinov, R; , J. Mol. Biol., DOI://10.1016/j.jmb.2020.09.002 (2020)
Targeting the PI3K/AKT Pathway Overcomes Enzalutamide Resistance by Inhibiting Induction of the Glucocorticoid Receptor Adelaiye-Ogala, R; Gryder, BE; Nguyen, YTM et al. Mol. Cancer Ther., DOI://10.1158/1535-7163.MCT-19-0936 (2020)

Knockout of the caspase 8 associated protein 2 gene improves recombinant protein expression in HEK293 cells through up-regulation of the cyclin-dependent kinase inhibitor 2A gene Abaandou, L; Sharma, AK; Shiloach, J; , Biotechnol. Bioeng., DOI://10.1002/bit.27561 (2020)
Voriconazole and the Risk of Keratinocyte Carcinomas Among Lung Transplant Recipients in the United States D'Arcy, ME; Pfeiffer, RM; Rivera, DR et al. JAMA Dermatol, DOI://10.1001/jamadermatol.2020.1141 (2020)
Polygenic risk for anxiety influences anxiety comorbidity and suicidal behavior in bipolar disorder Lopes, FL; Zhu, K; Purves, KL et al. Transl Psychiatry, DOI://10.1038/s41398-020-00981-5 (2020)
Contacting domains segregate a lipid transporter from a solute transporter in the malarial host-parasite interface Garten, M; Beck, JR; Roth, R et al. Nat Commun, DOI://10.1038/s41467-020-17506-9 (2020)
Theta-burst TMS to the posterior superior temporal sulcus decreases resting-state fMRI connectivity across the face processing network Handwerker, DA; Ianni, G; Gutierrez, B et al. Netw Neurosci, DOI://10.1162/netn_a_00145 (2020)
A mega-analysis of expression quantitative trait loci in retinal tissue Strunz, T; Kiel, C; Grassmann, F et al. PLoS Genet., DOI://10.1371/journal.pgen.1008934 (2020)

Pharmacologic fibroblast reprogramming into photoreceptors restores vision Mahato, B; Kaya, KD; Fan, Y et al. Nature, DOI://10.1038/s41586-020-2201-4 (2020)
Tracking the adaptation and compensation processes of patients brain arterial network to an evolving glioblastoma Zhu, J; Teolis, S; Biassou, N et al. IEEE Trans Pattern Anal Mach Intell, DOI://10.1109/TPAMI.2020.3008379 (2020)
High throughput assessment of biomarkers in tissue microarrays using artificial intelligence: PTEN loss as a proof-of-principle in multi-center prostate cancer cohorts Harmon, SA; Patel, PG; Sanford, TH et al. Mod. Pathol., DOI://10.1038/s41379-020-00674-w (2020)
Miswired Enhancer Logic Drives a Cancer of the Muscle Lineage Gryder, BE; Wachtel, M; Chang, K et al. iScience, DOI://10.1016/j.isci.2020.101103 (2020)
Robust Accurate Identification and Biomass Estimates of Microorganisms via Tandem Mass Spectrometry Alves, G; Yu, YK; , J. Am. Soc. Mass Spectrom., DOI://10.1021/jasms.9b00035 (2020)
Overexpression of ABCB1 and ABCG2 contributes to reduced efficacy of the PI3K/mTOR inhibitor samotolisib (LY3023414) in cancer cell lines Wu, CP; Hung, CY; Lusvarghi, S et al. Biochem. Pharmacol., DOI://10.1016/j.bcp.2020.114137 (2020)
Automated CT biomarkers for opportunistic prediction of future cardiovascular events and mortality in an asymptomatic screening population: a retrospective cohort study Pickhardt, PJ; Graffy, PM; Zea, R et al. Lancet Digit Health, DOI://10.1016/S2589-7500(20)30025-X (2020)
Lsh/HELLS is required for B lymphocyte development and immunoglobulin class switch recombination He, Y; Ren, J; Xu, X et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.2004112117 (2020)
New Guinea highland wild dogs are the original New Guinea singing dogs Surbakti, S; Parker, HG; McIntyre, JK et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.2007242117 (2020)
G-protein coupled receptor Gpr115 ( Adgrf4) is required for enamel mineralization mediated by ameloblasts Chiba, Y; Yoshizaki, K; Saito, K et al. J. Biol. Chem., DOI://10.1074/jbc.RA120.014281 (2020)
TickSialoFam (TSFam): A Database That Helps to Classify Tick Salivary Proteins, a Review on Tick Salivary Protein Function and Evolution, With Considerations on the Tick Sialome Switching Phenomenon Ribeiro, JMC; Mans, BJ; Front Cell Infect Microbiol, DOI://10.3389/fcimb.2020.00374 (2020)
Bedaquiline inhibits the yeast and human mitochondrial ATP synthases Luo, M; Zhou, W; Patel, H et al. Commun Biol, DOI://10.1038/s42003-020-01173-z (2020)
Power calculation for the general two-sample Mendelian randomization analysis Deng, L; Zhang, H; Yu, K; , Genet Epidemiol, DOI://10.1002/gepi.22284 (2020)
ATM and PRDM9 regulate SPO11-bound recombination intermediates during meiosis Paiano, J; Wu, W; Yamada, S et al. Nat Commun, DOI://10.1038/s41467-020-14654-w (2020)
Disome and Trisome Profiling Reveal Genome-wide Targets of Ribosome Quality Control Meydan, S; Guydosh, NR; Mol. Cell, DOI://10.1016/j.molcel.2020.06.010 (2020)
A Peptide Derived from Lens Epithelium-Derived Growth Factor Stimulates HIV-1 DNA Integration and Facilitates Intasome Structural Studies Li, M; Chen, X; Wang, H; Jurado, KA; Engelman, AN; Craigie, R; J. Mol. Biol., DOI://10.1016/j.jmb.2020.01.040 (2020)
Pathway identification through transcriptome analysis Terabayashi, T; Germino, GG; Menezes, LF; Cell. Signal., DOI://10.1016/j.cellsig.2020.109701 (2020)
Phase-plate Cryo-electron Tomography Facilitates the Identification of Influenza Virus Condensed Core Structures John Gallagher , Neetu Gulati and Audray Harris Microscopy and Microanalysis, doi:10.1017/S1431927620017651 (2020)

Phenotype stability under dynamic brain-tumor environment stimuli maps glioblastoma progression in patients Rajapakse, VN; Herrada, S; Lavi, O; , Sci Adv, DOI://10.1126/sciadv.aaz4125 (2020)
GRL-0920, an Indole Chloropyridinyl Ester, Completely Blocks SARS-CoV-2 Infection Hattori, SI; Higshi-Kuwata, N; Raghavaiah, J et al. mBio, DOI://10.1128/mBio.01833-20 (2020)
AGO-bound mature miRNAs are oligouridylated by TUTs and subsequently degraded by DIS3L2 Yang, A; Shao, TJ; Bofill-De Ros, X et al. Nat Commun, DOI://10.1038/s41467-020-16533-w (2020)
Protein kinase A inhibitor proteins (PKIs) divert GPCR-Gαs-cAMP signaling toward EPAC and ERK activation and are involved in tumor growth Hoy, JJ; Salinas Parra, N; Park, J; Kuhn, S; Iglesias-Bartolome, R; FASEB J., DOI://10.1096/fj.202001515R (2020)
Whole Blood DNA Methylation Signatures of Diet Are Associated With Cardiovascular Disease Risk Factors and All-Cause Mortality Ma, J; Rebholz, CM; Braun, KVE et al. Circ Genom Precis Med, DOI://10.1161/CIRCGEN.119.002766 (2020)
A Platelet Function Modulator of Thrombin Activation Is Causally Linked to Cardiovascular Disease and Affects PAR4 Receptor Signaling Rodriguez, BAT; Bhan, A; Beswick, A et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2020.06.008 (2020)

Structure and Mechanism of DHHC Protein Acyltransferases Stix, R; Lee, CJ; Faraldo-Gómez, JD; Banerjee, A; J. Mol. Biol., DOI://10.1016/j.jmb.2020.05.023 (2020)
Genome-wide Association Study Identifies HLA-DPB1 as a Significant Risk Factor for Severe Aplastic Anemia Savage, SA; Viard, M; O'hUigin, C et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2020.01.004 (2020)
Retinal pigment epithelium transcriptome analysis in chronic smoking reveals a suppressed innate immune response and activation of differentiation pathways Wang, L; Kaya, KD; Kim, S et al. Free Radic. Biol. Med., DOI://10.1016/j.freeradbiomed.2020.06.004 (2020)
A protocol for preparing explicitly solvated systems for stable molecular dynamics simulations Roe, DR; Brooks, BR; , J Chem Phys, DOI://10.1063/5.0013849 (2020)
Transcription factor AP2 controls cnidarian germ cell induction DuBuc, TQ; Schnitzler, CE; Chrysostomou, E et al. Science, DOI://10.1126/science.aay6782 (2020)
DONSON and FANCM associate with different replisomes distinguished by replication timing and chromatin domain Zhang, J; Bellani, MA; James, RC et al. Nat Commun, DOI://10.1038/s41467-020-17449-1 (2020)

HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads Nurk, S; Walenz, BP; Rhie, A et al. Genome Res., DOI://10.1101/gr.263566.120 (2020)
High Levels of Chromosomal Copy Number Alterations and TP53 Mutations Correlate with Poor Outcome in Younger Breast Cancer Patients Koçak, A; Heselmeyer-Haddad, K; Lischka, A et al. Am. J. Pathol., DOI://10.1016/j.ajpath.2020.04.015 (2020)
Estimating the Heritability of Developmental Change in Neural Connectivity, and Its Association With Changing Symptoms of Attention-Deficit/Hyperactivity Disorder Sudre, G; Bouyssi-Kobar, M; Norman, L; Sharp, W; Choudhury, S; Shaw, P; Biol. Psychiatry, DOI://10.1016/j.biopsych.2020.06.007 (2020)
Diploid genome architecture revealed by multi-omic data of hybrid mice Han, Z; Cui, K; Placek, K et al. Genome Res., DOI://10.1101/gr.257568.119 (2020)
Cryptic genetic variation enhances primate L1 retrotransposon survival by enlarging the functional coiled coil sequence space of ORF1p Furano, AV; Jones, CE; Periwal, V; Callahan, KE; Walser, JC; Cook, PR; PLoS Genet., DOI://10.1371/journal.pgen.1008991 (2020)
Adapting CHMTRN (CHeMistry TRaNslator) for a New Use Judson, PN; Ihlenfeldt, WD; Patel, H; Delann�e, V; Tarasova, N; Nicklaus, MC; , J Chem Inf Model, DOI://10.1021/acs.jcim.0c00448 (2020)

Molecular mechanisms underlying menthol binding and activation of TRPM8 ion channel Xu, L; Han, Y; Chen, X et al. Nat Commun, DOI://10.1038/s41467-020-17582-x (2020)
White matter microstructure in youth with and at risk for bipolar disorder Linke, JO; Stavish, C; Adleman, NE et al. Bipolar Disord, DOI://10.1111/bdi.12885 (2020)
Dose-dependent activation of gene expression is achieved using CRISPR and small molecules that recruit endogenous chromatin machinery Chiarella, AM; Butler, KV; Gryder, BE et al. Nat. Biotechnol., DOI://10.1038/s41587-019-0296-7 (2020)
Licochalcone A Selectively Resensitizes ABCG2-Overexpressing Multidrug-Resistant Cancer Cells to Chemotherapeutic Drugs Wu, CP; Lusvarghi, S; Hsiao, SH et al. J. Nat. Prod., DOI://10.1021/acs.jnatprod.9b01022 (2020)
Cryo-EM Reveals Unanchored M1-Ubiquitin Chain Binding at hRpn11 of the 26S Proteasome Chen, X; Dorris, Z; Shi, D et al. Structure, DOI://10.1016/j.str.2020.07.011 (2020)
Exploration of Alternative Scaffolds for P2Y 14 Receptor Antagonists Containing a Biaryl Core Jung, YH; Yu, J; Wen, Z et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.0c00745 (2020)

A preliminary study on functional activation and connectivity during frustration in youths with bipolar disorder Ross, AJ; Roule, AL; Deveney, CM et al. Bipolar Disord, DOI://10.1111/bdi.12985 (2020)
Impact of Cysteine Residues on MHC Binding Predictions and Recognition by Tumor-Reactive T Cells Sachs, A; Moore, E; Kosaloglu-Yalcin, Z et al. J. Immunol., DOI://10.4049/jimmunol.1901173 (2020)
Integrative Genomic Analysis Reveals Four Protein Biomarkers for Platelet Traits Lee, DH; Yao, C; Bhan, A et al. Circ. Res., DOI://10.1161/CIRCRESAHA.119.316447 (2020)
Topoisomerase 3β knockout mice show transcriptional and behavioural impairments associated with neurogenesis and synaptic plasticity Joo, Y; Xue, Y; Wang, Y et al. Nat Commun, DOI://10.1038/s41467-020-16884-4 (2020)
Hsd17b13 Deficiency Does not Protect Mice From Obesogenic Diet Injury Ma, Y; Brown, PM; Lin, DD et al. Hepatology, DOI://10.1002/hep.31517 (2020)
Automated Abdominal CT Imaging Biomarkers for Opportunistic Prediction of Future Major Osteoporotic Fractures in Asymptomatic Adults Pickhardt, PJ; Graffy, PM; Zea, R et al. Radiology, DOI://10.1148/radiol.2020200466 (2020)
Opportunistic Screening for Metabolic Syndrome in Asymptomatic Adults Utilizing Fully Automated Abdominal CT-based Biomarkers Pickhardt, PJ; Graffy, PM; Zea, R et al. AJR Am J Roentgenol, DOI://10.2214/AJR.20.23049 (2020)
Transcriptional variation of sensory-related genes in natural populations of Aedes albopictus Gomulski, LM; Manni, M; Carraretto, D et al. BMC Genomics, DOI://10.1186/s12864-020-06956-6 (2020)
Artificial neural networks for the inverse design of nanoparticles with preferential nano-bio behaviors Hassan, SA J Chem Phys, DOI://10.1063/5.0013990 (2020)
Longitudinal changes in resting state networks in early presymptomatic carriers of C9orf72 expansions Shoukry, RS; Waugh, R; Bartlett, D; Raitcheva, D; Floeter, MK; Neuroimage Clin, DOI://10.1016/j.nicl.2020.102354 (2020)
SOS1 interacts with Grb2 through regions that induce closed nSH3 conformations Liao, TJ; Jang, H; Fushman, D; Nussinov, R; J Chem Phys, DOI://10.1063/5.0013926 (2020)
Impaired angiogenesis and extracellular matrix metabolism in autosomal-dominant hyper-IgE syndrome Dmitrieva, NI; Walts, AD; Nguyen, DP et al. J. Clin. Invest., DOI://10.1172/JCI135490 (2020)
Blood DNA methylation sites predict death risk in a longitudinal study of 12, 300 individuals Colicino, E; Marioni, R; Ward-Caviness, C et al. Aging (Albany NY), DOI://10.18632/aging.103408 (2020)
TREML4 Promotes Inflammatory Programs in Human and Murine Macrophages and Alters Atherosclerosis Lesion Composition in the Apolipoprotein E Deficient Mouse Gonzalez-Cotto, M; Guo, L; Karwan, M et al. Front Immunol, DOI://10.3389/fimmu.2020.00397 (2020)
Integrative structural, functional, and transcriptomic analyses of sex-biased brain organization in humans Liu, S; Seidlitz, J; Blumenthal, JD; Clasen, LS; Raznahan, A; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1919091117 (2020)
A structural basis for how ligand binding site changes can allosterically regulate GPCR signaling and engender functional selectivity Sanchez-Soto, M; Verma, RK; Willette, BKA et al. Sci Signal, DOI://10.1126/scisignal.aaw5885 (2020)
Quantitative method for estimating stain density in electron microscopy of conventionally prepared biological specimens Fera, A; He, Q; Zhang, G; Leapman, RD; J Microsc, DOI://10.1111/jmi.12865 (2020)
Transcriptomic and cellular decoding of regional brain vulnerability to neurogenetic disorders Seidlitz, J; Nadig, A; Liu, S et al. Nat Commun, DOI://10.1038/s41467-020-17051-5 (2020)

Cutting antiparallel DNA strands in a single active site Chen, X; Cui, Y; Best, RB et al. Nat. Struct. Mol. Biol., DOI://10.1038/s41594-019-0363-2 (2020)
Single-Cell Analyses Reveal Megakaryocyte-Biased Hematopoiesis in Myelofibrosis and Identify Mutant Clone-Specific Targets Psaila, B; Wang, G; Rodriguez-Meira, A et al. Mol. Cell, DOI://10.1016/j.molcel.2020.04.008 (2020)
RNA-RNA Interactomes of ProQ and Hfq Reveal Overlapping and Competing Roles Melamed, S; Adams, PP; Zhang, A; Zhang, H; Storz, G; Mol. Cell, DOI://10.1016/j.molcel.2019.10.022 (2020)
HIV-associated gut dysbiosis is independent of sexual practice and correlates with noncommunicable diseases Vujkovic-Cvijin, I; Sortino, O; Verheij, E et al. Nat Commun, DOI://10.1038/s41467-020-16222-8 (2020)
In Silico Drug Design for Purinergic GPCRs: Overview on Molecular Dynamics Applied to Adenosine and P2Y Receptors Salmaso, V; Jacobson, KA; Biomolecules, DOI://10.3390/biom10060812 (2020)
In vitro and in vivo identification of clinically approved drugs that modify ACE2 expression Sinha, S; Cheng, K; Schäffer, AA; Aldape, K; Schiff, E; Ruppin, E; Mol. Syst. Biol., DOI://10.15252/msb.20209628 (2020)

Novel metabolic role for BDNF in pancreatic β-cell insulin secretion Fulgenzi, G; Hong, Z; Tomassoni-Ardori, F et al. Nat Commun, DOI://10.1038/s41467-020-15833-5 (2020)
Studying Triple Negative Breast Cancer Using Orthotopic Breast Cancer Model Cheng, RYS; Patel, NL; Back, T et al. J Vis Exp, DOI://10.3791/60316 (2020)
Sex differences in neutrophil biology modulate response to type I interferons and immunometabolism Gupta, S; Nakabo, S; Blanco, LP et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.2003603117 (2020)
A dose voxel kernel method for rapid reconstruction of out-of-field neutron dose of patients in pencil beam scanning (PBS) proton therapy Yeom, YS; Griffin, KT; Mille, M; Jung, JW; Lee, C; Lee, C; Phys Med Biol, DOI://10.1088/1361-6560/abaa5f (2020)
An embedded lipid in the multidrug transporter LmrP suggests a mechanism for polyspecificity Debruycker, V; Hutchin, A; Masureel, M et al. Nat. Struct. Mol. Biol., DOI://10.1038/s41594-020-0464-y (2020)
Genotype of CDC73 germline mutation determines risk of parathyroid cancer Li, Y; Zhang, J; Adikaram, PR et al. Endocr. Relat. Cancer, DOI://10.1530/ERC-20-0149 (2020)
EXOSC10 sculpts the transcriptome during the growth-to-maturation transition in mouse oocytes Wu, D; Dean, J; Nucleic Acids Res., DOI://10.1093/nar/gkaa249 (2020)
Different mechanisms for translocation by monomeric and hexameric helicases Gao, Y; Yang, W; Curr. Opin. Struct. Biol., DOI://10.1016/j.sbi.2019.10.003 (2020)
SARS-CoV2 drives JAK1/2-dependent local and systemic complement hyper-activation Yan, B; Freiwald, T; et al researchsquare, doi://10.21203/rs.3.rs-33390/v1 (2020)
A Viral Exposure Signature Defines Early Onset of Hepatocellular Carcinoma Liu, J; Tang, W; Budhu, A et al. Cell, DOI://10.1016/j.cell.2020.05.038 (2020)
Discovery of SARS-CoV-2 antiviral drugs through large-scale compound repurposing Riva, L; Yuan, S; Yin, X et al. Nature, DOI://10.1038/s41586-020-2577-1 (2020)
Laterally Resolved Small-Angle Scattering Intensity from Lipid Bilayer Simulations: An Exact and a Limited-Range Treatment Dorrell, MW; Heberle, FA; Katsaras, J; Maibaum, L; Lyman, E; Sodt, AJ; J Chem Theory Comput, DOI://10.1021/acs.jctc.0c00132 (2020)

Activation and inhibition of nonsense-mediated mRNA decay control the abundance of alternative polyadenylation products Kishor, A; Fritz, SE; Haque, N et al. Nucleic Acids Res., DOI://10.1093/nar/gkaa491 (2020)
Trehalose as an alternative to glycerol as a glassing agent for in vivo DNP MRI Brender, JR; Kishimoto, S; Eaton, GR et al. Magn Reson Med, DOI://10.1002/mrm.28405 (2020)
Molecular mechanisms underlying milk production and viviparity in the cockroach, Diploptera punctata Jennings, EC; Korthauer, MW; Hendershot, JM et al. Insect Biochem. Mol. Biol., DOI://10.1016/j.ibmb.2020.103333 (2020)
Broad immune activation underlies shared set point signatures for vaccine responsiveness in healthy individuals and disease activity in patients with lupus Kotliarov, Y; Sparks, R; Martins, AJ et al. Nat. Med., DOI://10.1038/s41591-020-0769-8 (2020)
Positioning Heterochromatin at the Nuclear Periphery Suppresses Histone Turnover to Promote Epigenetic Inheritance Holla, S; Dhakshnamoorthy, J; Folco, HD et al. Cell, DOI://10.1016/j.cell.2019.12.004 (2020)
Automated glioma grading on conventional MRI images using deep convolutional neural networks Zhuge, Y; Ning, H; Mathen, P et al. Med Phys, DOI://10.1002/mp.14168 (2020)
Penetrance of Parkinson's Disease in LRRK2 p.G2019S Carriers Is Modified by a Polygenic Risk Score Iwaki, H; Blauwendraat, C; Makarious, MB et al. Mov. Disord., DOI://10.1002/mds.27974 (2020)
Resource: A multi-species multi-timepoint transcriptome database and webpage for the pineal gland and retina Chang, E; Fu, C; Coon, SL et al. J. Pineal Res., DOI://10.1111/jpi.12673 (2020)
Targeted therapy guided by single-cell transcriptomic analysis in drug-induced hypersensitivity syndrome: a case report Kim, D; Kobayashi, T; Voisin, B et al. Nat. Med., DOI://10.1038/s41591-019-0733-7 (2020)
Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes Shafin, K; Pesout, T; Lorig-Roach, R et al. Nat. Biotechnol., DOI://10.1038/s41587-020-0503-6 (2020)
An integrative view of the regulatory and transcriptional landscapes in mouse hematopoiesis Xiang, G; Keller, CA; Heuston, E et al. Genome Res., DOI://10.1101/gr.255760.119 (2020)
PLD2-PI(4,5)P2 interactions in fluid phase membranes: Structural modeling and molecular dynamics simulations Han, K; Pastor, RW; Fenollar-Ferrer, C; PLoS ONE, DOI://10.1371/journal.pone.0236201 (2020)

Age Differences in the Neural Correlates of Anxiety Disorders: An fMRI Study of Response to Learned Threat Gold, AL; Abend, R; Britton, JC et al. Am J Psychiatry, DOI://10.1176/appi.ajp.2019.19060650 (2020)
Differential Expression of the Transcription Factor GATA3 Specifies Lineage and Functions of Innate Lymphoid Cells Zhong, C; Zheng, M; Cui, K et al. Immunity, DOI://10.1016/j.immuni.2019.12.001 (2020)
MEIS1 down-regulation by MYC mediates prostate cancer development through elevated HOXB13 expression and AR activity Whitlock, NC; Trostel, SY; Wilkinson, S et al. Oncogene, DOI://10.1038/s41388-020-01389-7 (2020)
Maternal cardiometabolic factors and genetic ancestry influence epigenetic aging of the placenta Workalemahu, T; Shrestha, D; Tajuddin, SM; Tekola-Ayele, F; J Dev Orig Health Dis, DOI://10.1017/S2040174419000801 (2020)
Identification of conserved evolutionary trajectories in tumors Hodzic, E; Shrestha, R; Malikic, S et al. Bioinformatics, DOI://10.1093/bioinformatics/btaa453 (2020)
Drugs Targeting Tumor-Initiating Cells Prolong Survival in a Post-Surgery, Post-Chemotherapy Ovarian Cancer Relapse Model Harrington, BS; Ozaki, MK; Caminear, MW et al. Cancers (Basel), DOI://10.3390/cancers12061645 (2020)

PhISCS-BnB: a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem Sadeqi Azer, E; Rashidi Mehrabadi, F; Malikić, S et al. Bioinformatics, DOI://10.1093/bioinformatics/btaa464 (2020)
Early pregnancy dyslipidemia is associated with placental DNA methylation at loci relevant for cardiometabolic diseases Ouidir, M; Zeng, X; Workalemahu, T et al. Epigenomics, DOI://10.2217/epi-2019-0293 (2020)
The mechanism of a high-affinity allosteric inhibitor of the serotonin transporter Plenge, P; Abramyan, AM; Sørensen, G et al. Nat Commun, DOI://10.1038/s41467-020-15292-y (2020)
Epigenome-wide association study of DNA methylation and microRNA expression highlights novel pathways for human complex traits Huan, T; Mendelson, M; Joehanes, R et al. Epigenetics, DOI://10.1080/15592294.2019.1640547 (2020)
Integrated analysis of sialotranscriptome and sialoproteome of the brown dog tick Rhipicephalus sanguineus (s.l.): Insights into gene expression during blood feeding Tirloni, L; Lu, S; Calvo, E et al. J Proteomics, DOI://10.1016/j.jprot.2020.103899 (2020)
Structural basis of seamless excision and specific targeting by piggyBac transposase Chen, Q; Luo, W; Veach, RA; Hickman, AB; Wilson, MH; Dyda, F; Nat Commun, DOI://10.1038/s41467-020-17128-1 (2020)

Telomere-to-telomere assembly of a complete human X chromosome Miga, KH; Koren, S; Rhie, A et al. Nature, DOI://10.1038/s41586-020-2547-7 (2020)
Chromatin remodeler Ino80C acts independently of H2A.Z to evict promoter nucleosomes and stimulate transcription of highly expressed genes in yeast Qiu, H; Biernat, E; Govind, CK et al. Nucleic Acids Res., DOI://10.1093/nar/gkaa571 (2020)
Human Herpesvirus 6 Detection in Alzheimer's Disease Cases and Controls across Multiple Cohorts Allnutt, MA; Johnson, K; Bennett, DA et al. Neuron, DOI://10.1016/j.neuron.2019.12.031 (2020)
Interferon lambda promotes immune dysregulation and tissue inflammation in TLR7-induced lupus Goel, RR; Wang, X; O'Neil, LJ et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1916897117 (2020)
Genome-wide admixture mapping of DSM-IV alcohol dependence, criterion count, and the self-rating of the effects of ethanol in African American populations Lai, D; Kapoor, M; Wetherill, L et al. Am. J. Med. Genet. B Neuropsychiatr. Genet., DOI://10.1002/ajmg.b.32805 (2020)
Concentrations of persistent organic pollutants in maternal plasma and epigenome-wide placental DNA methylation Ouidir, M; Mendola, P; Buck Louis, GM; Kannan, K; Zhang, C; Tekola-Ayele, F; Clin Epigenetics, DOI://10.1186/s13148-020-00894-6 (2020)

Structural insight into mitochondrial β-barrel outer membrane protein biogenesis Diederichs, KA; Ni, X; Rollauer, SE et al. Nat Commun, DOI://10.1038/s41467-020-17144-1 (2020)
Epigenetic Regulation of DNA Repair Pathway Choice by MacroH2A1 Splice Variants Ensures Genome Stability Sebastian, R; Hosogane, EK; Sun, EG et al. Mol. Cell, DOI://10.1016/j.molcel.2020.06.028 (2020)
XAF1 as a modifier of p53 function and cancer susceptibility Pinto, EM; Figueiredo, BC; Chen, W et al. Sci Adv, DOI://10.1126/sciadv.aba3231 (2020)
Evaluation of the Anti-Tumor Activity of the Humanized Monoclonal Antibody NEO-201 in Preclinical Models of Ovarian Cancer Zeligs, KP; Morelli, MP; David, JM et al. Front Oncol, DOI://10.3389/fonc.2020.00805 (2020)
Genome-wide association study data reveal genetic susceptibility to chronic inflammatory intestinal diseases and pancreatic ductal adenocarcinoma risk Yuan, F; Hung, RJ; Walsh, N et al. Cancer Res., DOI://10.1158/0008-5472.CAN-20-0447 (2020)
Soy protein nanofiber scaffolds for uniform maturation of hiPSC-derived retinal pigment epithelium Phelan, MA; Kruczek, K; Wilson, JP et al. Tissue Eng Part C Methods, DOI://10.1089/ten.TEC.2020.0072 (2020)

Enhancer and super-enhancer dynamics in repair after ischemic acute kidney injury Wilflingseder, J; Willi, M; Lee, HK et al. Nat Commun, DOI://10.1038/s41467-020-17205-5 (2020)
Deficiency of Adenosine Deaminase 2 (DADA2): Hidden Variants, Reduced Penetrance, and Unusual Inheritance Schnappauf, O; Zhou, Q; Moura, NS et al. J. Clin. Immunol., DOI://10.1007/s10875-020-00817-3 (2020)
Comparison of Oral Microbiota Collected Using Multiple Methods and Recommendations for New Epidemiologic Studies Yano, Y; Hua, X; Wan, Y et al. mSystems, DOI://10.1128/mSystems.00156-20 (2020)
Update of the CHARMM36 United Atom Chain Model for Hydrocarbons and Phospholipids Yu, Y; Klauda, JB; J Phys Chem B, DOI://10.1021/acs.jpcb.0c04795 (2020)
The Intriguing Effects of Substituents in the N-Phenethyl Moiety of Norhydromorphone: A Bifunctional Opioid from a Set of 'Tail Wags Dog' Experiments Wang, M; Irvin, TC; Herdman, CA et al. Molecules, DOI://10.3390/molecules25112640 (2020)
FIGLA, LHX8 and SOHLH1 transcription factor networks regulate mouse oocyte growth and differentiation Wang, Z; Liu, CY; Zhao, Y; Dean, J; Nucleic Acids Res., DOI://10.1093/nar/gkaa101 (2020)

Structure of E3 ligase E6AP with a proteasome-binding site provided by substrate receptor hRpn10 Buel, GR; Chen, X; Chari, R et al. Nat Commun, DOI://10.1038/s41467-020-15073-7 (2020)
Single atom changes in newly synthesized HIV protease inhibitors reveal structural basis for extreme affinity, high genetic barrier, and adaptation to the HIV protease plasticity Bulut, H; Hattori, SI; Aoki-Ogata, H et al. Sci Rep, DOI://10.1038/s41598-020-65993-z (2020)
Single-cell ATAC-Seq in human pancreatic islets and deep learning upscaling of rare cells reveals cell-specific type 2 diabetes regulatory signatures Rai, V; Quang, DX; Erdos, MR et al. Mol Metab, DOI://10.1016/j.molmet.2019.12.006 (2020)
Group testing in mediation analysis Derkach, A; Moore, SC; Boca, SM; Sampson, JN; , Stat Med, DOI://10.1002/sim.8546 (2020)
Inhibition stabilization is a widespread property of cortical networks Sanzeni, A; Akitake, B; Goldbach, HC; Leedy, CE; Brunel, N; Histed, MH; Elife, DOI://10.7554/eLife.54875 (2020)
Large-scale pathway specific polygenic risk and transcriptomic community network analysis identifies novel functional pathways in Parkinson disease Bandres-Ciga, S; Saez-Atienzar, S; Kim, JJ et al. Acta Neuropathol., DOI://10.1007/s00401-020-02181-3 (2020)
Sample-weighted semiparametric estimation of cause-specific cumulative risk and incidence using left- or interval-censored data from electronic health records Hyun, N; Katki, HA; Graubard, BI; Stat Med, DOI://10.1002/sim.8544 (2020)
A New Molecular-Mechanics Model for Simulations of Hydrogen Fluoride in Chemistry and Biology Orabi, EA; Faraldo-Gomez, JD; J Chem Theory Comput, DOI://10.1021/acs.jctc.0c00247 (2020)
Single-Cell-Derived Primary Rectal Carcinoma Cell Lines Reflect Intratumor Heterogeneity Associated with Treatment Response Braun, R; Anthuber, L; Hirsch, D et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-19-1984 (2020)
Cotranslational folding cooperativity of contiguous domains of α-spectrin Kemp, G; Nilsson, OB; Tian, P; Best, RB; von Heijne, G; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1909683117 (2020)
Analysis of Thyroid Hormone Receptor α-Knockout Tadpoles Reveals That the Activation of Cell Cycle Program Is Involved in Thyroid Hormone-Induced Larval Epithelial Cell Death and Adult Intestinal Stem Cell Development During Xenopus tropicalis Metamorphosis Tanizaki, Y; Shibata, Y; Zhang, H; Shi, YB; Thyroid, DOI://10.1089/thy.2020.0022 (2020)
Distinct interferon signatures and cytokine patterns define additional systemic autoinflammatory diseases de Jesus, AA; Hou, Y; Brooks, S et al. J. Clin. Invest., DOI://10.1172/JCI129301 (2020)

Structure of Human ATG9A, the Only Transmembrane Protein of the Core Autophagy Machinery Guardia, CM; Tan, XF; Lian, T et al. Cell Rep, DOI://10.1016/j.celrep.2020.107837 (2020)
Mutations in FYCO1 identified in families with congenital cataracts Iqbal, H; Khan, SY; Zhou, L et al. Mol. Vis., 1090-0535 (2020)
Ancient familial Mediterranean fever mutations in human pyrin and resistance to Yersinia pestis Park, YH; Remmers, EF; Lee, W et al. Nat. Immunol., DOI://10.1038/s41590-020-0705-6 (2020)
Metabolic reprogramming associated with aggressiveness occurs in the G-CIMP-high molecular subtypes of IDH1mut lower grade gliomas Ruiz-Rodado, V; Malta, TM; Seki, T et al. Neuro-oncology, DOI://10.1093/neuonc/noz207 (2020)
Genome-wide association meta-analysis identifies GP2 gene risk variants for pancreatic cancer Lin, Y; Nakatochi, M; Hosono, Y et al. Nat Commun, DOI://10.1038/s41467-020-16711-w (2020)
The genomic and epigenomic evolutionary history of papillary renal cell carcinomas Zhu, B; Poeta, ML; Costantini, M et al. Nat Commun, DOI://10.1038/s41467-020-16546-5 (2020)
Oral microbial community composition is associated with pancreatic cancer: A case-control study in Iran Vogtmann, E; Han, Y; Caporaso, JG et al. Cancer Med, DOI://10.1002/cam4.2660 (2020)
True S-cones are concentrated in the ventral mouse retina and wired for color detection in the upper visual field Nadal-Nicolás, FM; Kunze, VP; Ball, JM et al. Elife, DOI://10.7554/eLife.56840 (2020)
The RNA-binding protein PTBP1 promotes ATPase-dependent dissociation of the RNA helicase UPF1 to protect transcripts from nonsense-mediated mRNA decay Fritz, SE; Ranganathan, S; Wang, CD; Hogg, JR; J. Biol. Chem., DOI://10.1074/jbc.RA120.013824 (2020)
Induction of DNMT3B by PGE2 and IL6 at Distant Metastatic Sites Promotes Epigenetic Modification and Breast Cancer Colonization So, JY; Skrypek, N; Yang, HH et al. Cancer Res., DOI://10.1158/0008-5472.CAN-19-3339 (2020)
fs(1)A1304 1 Is a 5' UTR Deletion of the Essential Gene small ovary in Drosophila Hammond, M; Gomez, JG; Oliver, B; Kucera, S; Benner, L; MicroPubl Biol, DOI://10.17912/micropub.biology.000246 (2020)
Activity-dependent tuning of intrinsic excitability in mouse and human neurogliaform cells Chittajallu, R; Auville, K; Mahadevan, V et al. Elife, DOI://10.7554/eLife.57571 (2020)
eIF1 discriminates against suboptimal initiation sites to prevent excessive uORF translation genome-wide Zhou, F; Zhang, H; Kulkarni, SD; Lorsch, JR; Hinnebusch, AG; RNA, DOI://10.1261/rna.073536.119 (2020)
An improved pig reference genome sequence to enable pig genetics and genomics research Warr, A; Affara, N; Aken, B et al. Gigascience, DOI://10.1093/gigascience/giaa051 (2020)
Integrated VASO and perfusion contrast: A new tool for laminar functional MRI Chai, Y; Li, L; Huber, L; Poser, BA; Bandettini, PA; Neuroimage, DOI://10.1016/j.neuroimage.2019.116358 (2020)
KRAB-zinc finger protein gene expansion in response to active retrotransposons in the murine lineage Wolf, G; de Iaco, A; Sun, MA et al. Elife, DOI://10.7554/eLife.56337 (2020)
Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI Glen, DR; Taylor, PA; Buchsbaum, BR; Cox, RW; Reynolds, RC; Front Neuroinform, DOI://10.3389/fninf.2020.00018 (2020)
Cell-Specific Transcriptional Responses to Heat Shock in the Mouse Utricle Epithelium Sadler, E; Ryals, MM; May, LA et al. Front Cell Neurosci, DOI://10.3389/fncel.2020.00123 (2020)
Tensor image enhancement and optimal multichannel receiver combination analyses for human hyperpolarized 13 C MRSI Chen, HY; Autry, AW; Brender, JR et al. Magn Reson Med, DOI://10.1002/mrm.28328 (2020)
Multi-phenotype CRISPR-Cas9 Screen Identifies p38 Kinase as a Target for Adoptive Immunotherapies Gurusamy, D; Henning, AN; Yamamoto, TN et al. Cancer Cell, DOI://10.1016/j.ccell.2020.05.004 (2020)
The genomic landscape of metastasis in treatment-naive breast cancer models Ross, C; Szczepanek, K; Lee, M et al. PLoS Genet., DOI://10.1371/journal.pgen.1008743 (2020)
An imputation approach for fitting two-part mixed effects models for longitudinal semi-continuous data Choo-Wosoba, H; Kundu, D; Albert, PS; Stat Methods Med Res, DOI://10.1177/0962280220927720 (2020)
Variability in the analysis of a single neuroimaging dataset by many teams Botvinik-Nezer, R; Holzmeister, F; Camerer, CF et al. Nature, DOI://10.1038/s41586-020-2314-9 (2020)
Common genetic susceptibility loci link PFAPA syndrome, Behçet's disease, and recurrent aphthous stomatitis Manthiram, K; Preite, S; Dedeoglu, F et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.2002051117 (2020)

Metastasis-specific gene expression in autochthonous and allograft mouse mammary tumor models: stratification and identification of targetable signatures Ross, C; Szczepanek, K; Lee, M et al. Mol. Cancer Res., DOI://10.1158/1541-7786.MCR-20-0046 (2020)
Layer-dependent functional connectivity methods Huber, L; Finn, ES; Chai, Y et al. Prog. Neurobiol., DOI://10.1016/j.pneurobio.2020.101835 (2020)
Dynamic morphogenesis of a pioneer axon in Drosophila and its regulation by Abl tyrosine kinase Clarke, A; McQueen, PG; Fang, HY et al. Mol. Biol. Cell, DOI://10.1091/mbc.E19-10-0563 (2020)
The structure of emotional support networks in families affected by Lynch syndrome Marcum, CS; Lea, D; Eliezer, D; Hadley, DW; Koehly, LM Network Science, doi:10.1017/nws.2020.13 (2020)
Clonal Evolution and Heterogeneity of Osimertinib Acquired Resistance Mechanisms in EGFR Mutant Lung Cancer Roper, N; Brown, AL; Wei, JS et al. Cell Rep Med, DOI://10.1016/j.xcrm.2020.100007 (2020)
Ensuring meiotic DNA break formation in the mouse pseudoautosomal region Acquaviva, L; Boekhout, M; Karasu, ME et al. Nature, DOI://10.1038/s41586-020-2327-4 (2020)
The undiagnosed diseases program: Approach to diagnosis Macnamara, EF; D'Souza, P; , ; Tifft, CJ; , Transl Sci Rare Dis, DOI://10.3233/TRD-190045 (2020)
DNA methylation loci in placenta associated with birthweight and expression of genes relevant for early development and adult diseases Tekola-Ayele, F; Zeng, X; Ouidir, M et al. Clin Epigenetics, DOI://10.1186/s13148-020-00873-x (2020)
Atomistic mechanism of transmembrane helix association Domański, J; Sansom, MSP; Stansfeld, PJ; Best, RB; PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1007919 (2020)
Peptidylarginine Deiminase IV Regulates Breast Cancer Stem Cells via a Novel Tumor Cell-Autonomous Suppressor Role Moshkovich, N; Ochoa, HJ; Tang, B et al. Cancer Res., DOI://10.1158/0008-5472.CAN-19-3018 (2020)
Discovery, Optimization, and Characterization of ML417: A Novel and Highly Selective D 3 Dopamine Receptor Agonist Moritz, AE; Free, RB; Weiner, WS et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.0c00424 (2020)
Multiresolution Application of Artificial Intelligence in Digital Pathology for Prediction of Positive Lymph Nodes From Primary Tumors in Bladder Cancer Harmon, SA; Sanford, TH; Brown, GT et al. JCO Clin Cancer Inform, DOI://10.1200/CCI.19.00155 (2020)
Dynorphin and Enkephalin Opioid Peptides and Transcripts in Spinal Cord and Dorsal Root Ganglion During Peripheral Inflammatory Hyperalgesia and Allodynia Sapio, MR; Iadarola, MJ; Loydpierson, AJ et al. J Pain, DOI://10.1016/j.jpain.2020.01.001 (2020)
Predicting RNA SHAPE scores with deep learning Bliss, N; Bindewald, E; Shapiro, BA; RNA Biol, DOI://10.1080/15476286.2020.1760534 (2020)
The Heterogeneity of Anxious Phenotypes: Neural Responses to Errors in Treatment-Seeking Anxious and Behaviorally Inhibited Youths Smith, AR; White, LK; Leibenluft, E et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2019.05.014 (2020)
Infant behavioral reactivity predicts change in amygdala volume 12 years later Filippi, CA; Sachs, JF; Phillips, D et al. Dev Cogn Neurosci, DOI://10.1016/j.dcn.2020.100776 (2020)
ORCA/LRWD1 Regulates Homologous Recombination at ALT-Telomeres by Modulating Heterochromatin Organization Hsu, RYC; Lin, YC; Redon, C et al. iScience, DOI://10.1016/j.isci.2020.101038 (2020)
Trans-ethnic meta-analysis of genome-wide association studies identifies maternal ITPR1 as a novel locus influencing fetal growth during sensitive periods in pregnancy Tekola-Ayele, F; Zhang, C; Wu, J et al. PLoS Genet., DOI://10.1371/journal.pgen.1008747 (2020)
Synthesis and evaluation of the anti-hepatitis B virus activity of 4'-Azido-thymidine analogs and 4'-Azido-2'-deoxy-5-methylcytidine analogs: structural insights for the development of a novel anti-HBV agent Onitsuka, K; Tokuda, R; Kuwata-Higashi, N et al. Nucleosides Nucleotides Nucleic Acids, DOI://10.1080/15257770.2019.1664749 (2020)
Plasmodium vivax and Human Hexokinases Share Similar Active Sites but Display Distinct Quaternary Architectures Srivastava, SS; Darling, JE; Suryadi, J; Morris, JC; Drew, ME; Subramaniam, S; IUCrJ, DOI://10.1107/S2052252520002456 (2020)
Genetic and epigenetic intratumor heterogeneity impacts prognosis of lung adenocarcinoma Hua, X; Zhao, W; Pesatori, AC et al. Nat Commun, DOI://10.1038/s41467-020-16295-5 (2020)
Dual histone methyl reader ZCWPW1 facilitates repair of meiotic double strand breaks in male mice Mahgoub, M; Paiano, J; Bruno, M et al. Elife, DOI://10.7554/eLife.53360 (2020)
Nitric oxide orchestrates metabolic rewiring in M1 macrophages by targeting aconitase 2 and pyruvate dehydrogenase Palmieri, EM; Gonzalez-Cotto, M; Baseler, WA et al. Nat Commun, DOI://10.1038/s41467-020-14433-7 (2020)
Fast detection and reduction of local transient artifacts in resting-state fMRI Jo, HJ; Reynolds, RC; Gotts, SJ et al. Comput. Biol. Med., DOI://10.1016/j.compbiomed.2020.103742 (2020)
Accelerated epigenetic age and cognitive decline among urban-dwelling adults Beydoun, MA; Shaked, D; Tajuddin, SM; Weiss, J; Evans, MK; Zonderman, AB; Neurology, DOI://10.1212/WNL.0000000000008756 (2020)
Conserved protein Pir2 ARS2 mediates gene repression through cryptic introns in lncRNAs. Thillainadesan, G; Xiao, H; Holla, S et al. Nat Commun, DOI://10.1038/s41467-020-16280-y (2020)
Patients infected with Mycobacterium africanum versus Mycobacterium tuberculosis possess distinct intestinal microbiota Namasivayam, S; Diarra, B; Diabate, S et al. PLoS Negl Trop Dis, DOI://10.1371/journal.pntd.0008230 (2020)
Assessment of Genetic Association Between Parkinson Disease and Bipolar Disorder Bandres-Ciga, S; Blauwendraat, C; Singleton, AB; JAMA Neurol, DOI://10.1001/jamaneurol.2020.0248 (2020)
Dissecting the phenotypic and functional heterogeneity of mouse inflammatory osteoclasts by the expression of Cx3cr1 Madel, MB; Ibáñez, L; Ciucci, T et al. Elife, DOI://10.7554/eLife.54493 (2020)
Characterization of the development of the mouse cochlear epithelium at the single cell level Kolla, L; Kelly, MC; Mann, ZF et al. Nat Commun, DOI://10.1038/s41467-020-16113-y (2020)

Whole exome sequencing in patients with Williams-Beuren syndrome followed by disease modeling in mice points to four novel pathways that may modify stenosis risk Parrish, PCR; Liu, D; Knutsen, RH et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddaa093 (2020)
Medin Oligomer Membrane Pore Formation: A Potential Mechanism of Vascular Dysfunction Younger, S; Jang, H; Davies, HA et al. Biophys. J., DOI://10.1016/j.bpj.2020.04.026 (2020)
Assessing established BMI variants for a role in nighttime eating behavior in robustly phenotyped Southwestern American Indians Köroğlu, Ç; Gluck, ME; Traurig, M et al. Eur J Clin Nutr, DOI://10.1038/s41430-020-0654-z (2020)
Distinct gene expression patterns in vector-residing Leishmania infantum identify parasite stage-enriched markers Coutinho-Abreu, IV; Serafim, TD; Meneses, C; Kamhawi, S; Oliveira, F; Valenzuela, JG; PLoS Negl Trop Dis, DOI://10.1371/journal.pntd.0008014 (2020)
Somatic SMAD3-activating mutations cause melorheostosis by up-regulating the TGF-β/SMAD pathway Kang, H; Jha, S; Ivovic, A et al. J. Exp. Med., DOI://10.1084/jem.20191499 (2020)
Genome-wide association studies of the self-rating of effects of ethanol (SRE) Lai, D; Wetherill, L; Kapoor, M et al. Addict Biol, DOI://10.1111/adb.12800 (2020)

Dimensionality, information and learning in prefrontal cortex Bartolo, R; Saunders, RC; Mitz, AR; Averbeck, BB; PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1007514 (2020)
Ductal Carcinoma In Situ Progression in Dog Model of Breast Cancer Mohammed, SI; Utturkar, S; Lee, M et al. Cancers (Basel), DOI://10.3390/cancers12020418 (2020)
Amelotin is expressed in retinal pigment epithelium and localizes to hydroxyapatite deposits in dry age-related macular degeneration Rajapakse, D; Peterson, K; Mishra, S et al. Transl Res, DOI://10.1016/j.trsl.2020.02.007 (2020)
Creating 2D Occupancy Plots Using plot2DO Beati, P; Chereji, RV; Methods Mol. Biol., DOI://10.1007/978-1-0716-0301-7_5 (2020)
Haplotype-resolved genomes provide insights into structural variation and gene content in Angus and Brahman cattle Low, WY; Tearle, R; Liu, R et al. Nat Commun, DOI://10.1038/s41467-020-15848-y (2020)
Quantitative Proteomics of All 14 Renal Tubule Segments in Rat Limbutara, K; Chou, CL; Knepper, MA; J. Am. Soc. Nephrol., DOI://10.1681/ASN.2020010071 (2020)

Id1 and Id3 Maintain Steady-State Hematopoiesis by Promoting Sinusoidal Endothelial Cell Survival and Regeneration Gadomski, S; Singh, SK; Singh, S et al. Cell Rep, DOI://10.1016/j.celrep.2020.107572 (2020)
Genetic model of MS severity predicts future accumulation of disability Jackson, KC; Sun, K; Barbour, C et al. Ann. Hum. Genet., DOI://10.1111/ahg.12342 (2020)
Stress keratin 17 enhances papillomavirus infection-induced disease by downregulating T cell recruitment Wang, W; Uberoi, A; Spurgeon, M et al. PLoS Pathog., DOI://10.1371/journal.ppat.1008206 (2020)
Survey of ribose ring pucker of signaling nucleosides and nucleotides Salmaso, V; Jacobson, KA; Nucleosides Nucleotides Nucleic Acids, DOI://10.1080/15257770.2019.1658115 (2020)
The interdependence of mammary-specific super-enhancers and their native promoters facilitates gene activation during pregnancy Zeng, X; Lee, HK; Wang, C; Achikeh, P; Liu, C; Hennighausen, L; Exp. Mol. Med., DOI://10.1038/s12276-020-0425-x (2020)
Truncated (N)-Methanocarba Nucleosides as Partial Agonists at Mouse and Human A 3 Adenosine Receptors: Affinity Enhancement by N6-(2-Phenylethyl) Substitution Tosh, DK; Salmaso, V; Rao, H et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.0c00235 (2020)
Expression of the muscle-associated gene MYF6 in hairy cell leukemia Arons, E; Zhou, H; Sokolsky, M et al. PLoS ONE, DOI://10.1371/journal.pone.0227586 (2020)
Genome-wide Profiling Identifies DNA Methylation Signatures of Aging in Rod Photoreceptors Associated with Alterations in Energy Metabolism Corso-Díaz, X; Gentry, J; Rebernick, R et al. Cell Rep, DOI://10.1016/j.celrep.2020.107525 (2020)
Protonation state of the selectivity filter of bacterial voltage-gated sodium channels is modulated by ions Damjanovic, A; Chen, AY; Rosenberg, RL; Roe, DR; Wu, X; Brooks, BR; , Proteins, DOI://10.1002/prot.25831 (2020)
Sperm Head-Tail Linkage Requires Restriction of Pericentriolar Material to the Proximal Centriole End Galletta, BJ; Ortega, JM; Smith, SL et al. Dev. Cell, DOI://10.1016/j.devcel.2020.02.006 (2020)
Prefrontal Cortex Predicts State Switches during Reversal Learning Bartolo, R; Averbeck, BB; Neuron, DOI://10.1016/j.neuron.2020.03.024 (2020)
Phase-plate cryo-EM structure of the Widom 601 CENP-A nucleosome core particle reveals differential flexibility of the DNA ends Boopathi, R; Danev, R; Khoshouei, M et al. Nucleic Acids Res., DOI://10.1093/nar/gkaa246 (2020)

How mouse RAG recombinase avoids DNA transposition Chen, X; Cui, Y; Wang, H; Zhou, ZH; Gellert, M; Yang, W; Nat. Struct. Mol. Biol., DOI://10.1038/s41594-019-0366-z (2020)
Intrinsic connections between thalamic sub-regions and the lateral prefrontal cortex are differentially impacted by acute methylphenidate Gorka, AX; Lago, TR; Balderston, N et al. Psychopharmacology (Berl.), DOI://10.1007/s00213-020-05505-z (2020)
7-Deaza-7-fluoro modification confers on 4'-cyano-nucleosides potent activity against entecavir/adefovir-resistant HBV variants and favorable safety Hayashi, S; Higashi-Kuwata, N; Das, D et al. Antiviral Res., DOI://10.1016/j.antiviral.2020.104744 (2020)
Casposase structure and the mechanistic link between DNA transposition and spacer acquisition by CRISPR-Cas Hickman, AB; Kailasan, S; Genzor, P; Haase, AD; Dyda, F; Elife, DOI://10.7554/eLife.50004 (2020)
AGO2 Mediates MYC mRNA Stability in Hepatocellular Carcinoma Zhang, K; Pomyen, Y; Barry, AE et al. Mol. Cancer Res., DOI://10.1158/1541-7786.MCR-19-0805 (2020)
Systematic integration of GATA transcription factors and epigenomes via IDEAS paints the regulatory landscape of hematopoietic cells Hardison, RC; Zhang, Y; Keller, CA et al. IUBMB Life, DOI://10.1002/iub.2195 (2020)

Confidence intervals for the difference between two relative risks Sampson, JN; Gail, MH; Stat Methods Med Res, DOI://10.1177/0962280220915737 (2020)
High density of unrepaired genomic ribonucleotides leads to Topoisomerase 1-mediated severe growth defects in absence of ribonucleotide reductase Cerritelli, SM; Iranzo, J; Sharma, S et al. Nucleic Acids Res., DOI://10.1093/nar/gkaa103 (2020)
Ketamine metabolites, clinical response, and gamma power in a randomized, placebo-controlled, crossover trial for treatment-resistant major depression Farmer, CA; Gilbert, JR; Moaddel, R et al. Neuropsychopharmacology, DOI://10.1038/s41386-020-0663-6 (2020)
Erasure machine: Inverse Ising inference from reweighting of observation frequencies Jo, J; Hoang, DT; Periwal, V; , Phys Rev E, DOI://10.1103/PhysRevE.101.032107 (2020)
Skin Microbiota Perturbations Are Distinct and Disease Severity-Dependent in Hidradenitis Suppurativa Naik, HB; Jo, JH; Paul, M; Kong, HH; , J. Invest. Dermatol., DOI://10.1016/j.jid.2019.08.445 (2020)
Investigation of the Influence of Thyroid Location on Iodine-131 S Values Yeom, YS; Villoing, D; Greenstein, N et al. Radiat Prot Dosimetry, DOI://10.1093/rpd/ncaa027 (2020)

A Probabilistic Classification Tool for Genetic Subtypes of Diffuse Large B Cell Lymphoma with Therapeutic Implications Wright, GW; Huang, DW; Phelan, JD et al. Cancer Cell, DOI://10.1016/j.ccell.2020.03.015 (2020)
In vivo functional analysis of non-conserved human lncRNAs associated with cardiometabolic traits Ruan, X; Li, P; Chen, Y et al. Nat Commun, DOI://10.1038/s41467-019-13688-z (2020)
A hidden Markov modeling approach for identifying tumor subclones in next-generation sequencing studies Choo-Wosoba, H; Albert, PS; Zhu, B; Biostatistics, DOI://10.1093/biostatistics/kxaa013 (2020)
Quantum chemical predictions of water-octanol partition coefficients applied to the SAMPL6 logP blind challenge Jones, MR; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-020-00286-1 (2020)
Multi-phase Boltzmann weighting: accounting for local inhomogeneity in molecular simulations of water-octanol partition coefficients in the SAMPL6 challenge Krämer, A; Hudson, PS; Jones, MR; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-020-00285-2 (2020)
Feedback inhibition and its control in an insect olfactory circuit Ray, S; Aldworth, ZN; Stopfer, MA; Elife, DOI://10.7554/eLife.53281 (2020)

Interpretation of HDX Data by Maximum-Entropy Reweighting of Simulated Structural Ensembles Bradshaw, RT; Marinelli, F; Faraldo-Gómez, JD; Forrest, LR; Biophys. J., DOI://10.1016/j.bpj.2020.02.005 (2020)
A Shared Regulatory Element Controls the Initiation of Tcf7 Expression During Early T Cell and Innate Lymphoid Cell Developments Harly, C; Kenney, D; Wang, Y et al. Front Immunol, DOI://10.3389/fimmu.2020.00470 (2020)
Idiosynchrony: From shared responses to individual differences during naturalistic neuroimaging Finn, ES; Glerean, E; Khojandi, AY et al. Neuroimage, DOI://10.1016/j.neuroimage.2020.116828 (2020)
The quaternary assembly of KRas4B with Raf-1 at the membrane Jang, H; Zhang, M; Nussinov, R; Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2020.03.018 (2020)
Continuous chromosome-scale haplotypes assembled from a single interspecies F1 hybrid of yak and cattle Rice, ES; Koren, S; Rhie, A et al. Gigascience, DOI://10.1093/gigascience/giaa029 (2020)
Structures of AAA protein translocase Bcs1 suggest translocation mechanism of a folded protein Tang, WK; Borgnia, MJ; Hsu, AL et al. Nat. Struct. Mol. Biol., DOI://10.1038/s41594-020-0373-0 (2020)
Predisposition to hematologic malignancies in patients with xeroderma pigmentosum Oetjen, KA; Levoska, MA; Tamura, D et al. Haematologica, DOI://10.3324/haematol.2019.223370 (2020)
Levels of early-childhood behavioral inhibition predict distinct neurodevelopmental pathways to pediatric anxiety Abend, R; Swetlitz, C; White, LK et al. Psychol Med, DOI://10.1017/S0033291718003999 (2020)
Structure elucidation and absolute configuration of metabolites from the soil-derived fungus Dictyosporium digitatum using spectroscopic and computational methods Tran, TD; Wilson, BAP; Henrich, CJ et al. Phytochemistry, DOI://10.1016/j.phytochem.2020.112278 (2020)
Differential DNA Methylation in Placenta Associated With Maternal Blood Pressure During Pregnancy Workalemahu, T; Ouidir, M; Shrestha, D; Wu, J; Grantz, KL; Tekola-Ayele, F; Hypertension, DOI://10.1161/HYPERTENSIONAHA.119.14509 (2020)
Family-based exome sequencing identifies rare coding variants in age-related macular degeneration Ratnapriya, R; Acar, İE; Geerlings, MJ et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddaa057 (2020)
Next-generation sequencing of the intrahepatic antibody repertoire delineates a unique B-cell response in HBV-associated acute liver failure Chen, Z; Shen, CH; Engle, RE et al. J. Viral Hepat., DOI://10.1111/jvh.13290 (2020)
CRISPR-Cas9/phosphoproteomics identifies multiple noncanonical targets of myosin light chain kinase Isobe, K; Raghuram, V; Krishnan, L; Chou, CL; Yang, CR; Knepper, MA; Am. J. Physiol. Renal Physiol., DOI://10.1152/ajprenal.00431.2019 (2020)
Genotype-phenotype association and variant characterization in Diamond-Blackfan anemia caused by pathogenic variants in RPL35A Gianferante, DM; Wlodarski, MW; Atsidaftos, E et al. Haematologica, DOI://10.3324/haematol.2020.246629 (2020)
Comprehensive RNA-Seq analysis of notochord-enriched genes induced during Xenopus tropicalis tail resorption Nakajima, K; Tanizaki, Y; Luu, N; Zhang, H; Shi, YB; Gen. Comp. Endocrinol., DOI://10.1016/j.ygcen.2019.113349 (2020)
Retinal Organoids derived from hiPSCs of an AIPL1-LCA Patient Maintain Cytoarchitecture despite Reduced levels of Mutant AIPL1 Lukovic, D; Artero Castro, A; Kaya, KD et al. Sci Rep, DOI://10.1038/s41598-020-62047-2 (2020)
mTORC2/Rac1 Pathway Predisposes Cancer Aggressiveness in IDH1-Mutated Glioma Liu, Y; Lu, Y; Li, A et al. Cancers (Basel), DOI://10.3390/cancers12040787 (2020)
Gene co-expression networks are associated with obesity-related traits in kidney transplant recipients Jaime-Lara, RB; Roy, A; Wang, Y; Stanfill, A; Cashion, AK; Joseph, PV; BMC Med Genomics, DOI://10.1186/s12920-020-0702-5 (2020)

RNAseq expression patterns of canine invasive urothelial carcinoma reveal two distinct tumor clusters and shared regions of dysregulation with human bladder tumors Parker, HG; Dhawan, D; Harris, AC et al. BMC Cancer, DOI://10.1186/s12885-020-06737-0 (2020)
Chromatin Remodeling and Immediate Early Gene Activation by SLFN11 in Response to Replication Stress Murai, J; Zhang, H; Pongor, L et al. Cell Rep, DOI://10.1016/j.celrep.2020.02.117 (2020)
Suppressing proteasome mediated processing of topoisomerase II DNA-protein complexes preserves genome integrity Sciascia, N; Wu, W; Zong, D et al. Elife, DOI://10.7554/eLife.53447 (2020)
Understanding the Cause and Consequence of Tumor Heterogeneity Khatib, S; Pomyen, Y; Dang, H; Wang, XW; , Trends Cancer, DOI://10.1016/j.trecan.2020.01.010 (2020)
YAP1/TAZ-TEAD transcriptional networks maintain skin homeostasis by regulating cell proliferation and limiting KLF4 activity Yuan, Y; Park, J; Feng, A et al. Nat Commun, DOI://10.1038/s41467-020-15301-0 (2020)
De novo assembly of the cattle reference genome with single-molecule sequencing Rosen, BD; Bickhart, DM; Schnabel, RD et al. Gigascience, DOI://10.1093/gigascience/giaa021 (2020)
Association of polygenic score for major depression with response to lithium in patients with bipolar disorder Amare, AT; Schubert, KO; Hou, L et al. Mol. Psychiatry, DOI://10.1038/s41380-020-0689-5 (2020)
Stylized versus voxel phantoms: a juxtaposition of organ depth distributions Griffin, KT; Cuthbert, TA; Dewji, SA; Lee, C; Phys Med Biol, DOI://10.1088/1361-6560/ab7686 (2020)
Tautomer Database: A Comprehensive Resource for Tautomerism Analyses Dhaked, DK; Guasch, L; Nicklaus, MC; J Chem Inf Model, DOI://10.1021/acs.jcim.9b01156 (2020)
Toward a Comprehensive Treatment of Tautomerism in Chemoinformatics Including in InChI V2 Dhaked, DK; Ihlenfeldt, WD; Patel, H; Delannée, V; Nicklaus, MC; J Chem Inf Model, DOI://10.1021/acs.jcim.9b01080 (2020)
Multiple testing correction overcontrasts for brain imaging Alberton, BAV; Nichols, TE; Gamba, HR; Winkler, AM; Neuroimage, DOI://10.1016/j.neuroimage.2020.116760 (2020)
Prediction of stress and drug craving ninety minutes in the future with passively collected GPS data Epstein, DH; Tyburski, M; Kowalczyk, WJ et al. NPJ Digit Med, DOI://10.1038/s41746-020-0234-6 (2020)

Analysis of DNA methylation patterns in the tumor immune microenvironment of metastatic melanoma Mitra, S; Lauss, M; Cabrita, R et al. Mol Oncol, DOI://10.1002/1878-0261.12663 (2020)
Distinct inactive conformations of the dopamine D2 and D3 receptors correspond to different extents of inverse agonism Lane, JR; Abramyan, AM; Adhikari, P et al. Elife, DOI://10.7554/eLife.52189 (2020)
Modulating the Stiffness of the Myosin VI Single α-Helical Domain Barnes, CA; Shen, Y; Ying, J; Bax, A; Biophys. J., DOI://10.1016/j.bpj.2020.01.003 (2020)
Interplay between DNA damage repair and apoptosis shapes cancer evolution through aneuploidy and microsatellite instability Auslander, N; Wolf, YI; Koonin, EV; Nat Commun, DOI://10.1038/s41467-020-15094-2 (2020)
Outcome-related signatures identified by Whole Transcriptome Sequencing of Resectable Stage III/IV Melanoma Evaluated After Starting Hu14.18-IL2 Yang, RK; Kuznetsov, IB; Ranheim, EA et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-19-3294 (2020)
Longitudinal Positron Emission Tomography of Dopamine Synthesis in Subjects with GBA1 Mutations Lopez, G; Eisenberg, DP; Gregory, MD et al. Ann. Neurol., DOI://10.1002/ana.25692 (2020)

Combining fMRI during resting state and an attention bias task in children Harrewijn, A; Abend, R; Linke, J et al. Neuroimage, DOI://10.1016/j.neuroimage.2019.116301 (2020)
Sex-biased trajectories of amygdalo-hippocampal morphology change over human development Fish, AM; Nadig, A; Seidlitz, J et al. Neuroimage, DOI://10.1016/j.neuroimage.2019.116122 (2020)
Stem Cell-Derived Endothelial Cell Model that Responds to Tobacco Smoke Like Primary Endothelial Cells Chu, PH; Chen, G; Kuo, D et al. Chem. Res. Toxicol., DOI://10.1021/acs.chemrestox.9b00363 (2020)
Multiple lipid binding sites determine the affinity of PH domains for phosphoinositide-containing membranes Yamamoto, E; Domanski, J; Naughton, FB et al. Sci Adv, DOI://10.1126/sciadv.aay5736 (2020)
Tick-Borne Encephalitis Virus Infection Alters the Sialome of Ixodes ricinus Ticks During the Earliest Stages of Feeding Hart, CE; Ribeiro, JM; Kazimirova, M; Thangamani, S; Front Cell Infect Microbiol, DOI://10.3389/fcimb.2020.00041 (2020)
Low-frequency parietal repetitive transcranial magnetic stimulation reduces fear and anxiety Balderston, NL; Beydler, EM; Goodwin, M et al. Transl Psychiatry, DOI://10.1038/s41398-020-0751-8 (2020)

Molecular and cellular determinants of motor asymmetry in zebrafish Horstick, EJ; Bayleyen, Y; Burgess, HA; Nat Commun, DOI://10.1038/s41467-020-14965-y (2020)
C. elegans pronuclei fuse after fertilization through a novel membrane structure Rahman, M; Chang, IY; Harned, A et al. J. Cell Biol., DOI://10.1083/jcb.201909137 (2020)
Measurement of differential chromatin interactions with absolute quantification of architecture (AQuA-HiChIP) Gryder, BE; Khan, J; Stanton, BZ; Nat Protoc, DOI://10.1038/s41596-019-0285-9 (2020)
Characterizing Adult Cochlear Supporting Cell Transcriptional Diversity Using Single-Cell RNA-Seq: Validation in the Adult Mouse and Translational Implications for the Adult Human Cochlea Hoa, M; Olszewski, R; Li, X et al. Front Mol Neurosci, DOI://10.3389/fnmol.2020.00013 (2020)
Oncogenic K-Ras4B Dimerization Enhances Downstream Mitogen-activated Protein Kinase Signaling Muratcioglu, S; Aydin, C; Odabasi, E et al. J. Mol. Biol., DOI://10.1016/j.jmb.2020.01.002 (2020)
Modeling repeated labor curves in consecutive pregnancies: Individualized prediction of labor progression from previous pregnancy data Buhule, OD; Choo-Wosoba, H; Albert, PS; Stat Med, DOI://10.1002/sim.8462 (2020)

Serial evaluation of CD19 surface expression in pediatric B-cell malignancies following CD19-targeted therapy Libert, D; Yuan, CM; Masih, KE et al. Leukemia, DOI://10.1038/s41375-020-0760-x (2020)
Integrative analysis suggests cell type-specific decoding of NF-κB dynamics Martin, EW; Pacholewska, A; Patel, H; Dashora, H; Sung, MH; Sci Signal, DOI://10.1126/scisignal.aax7195 (2020)
Dense Transposon Integration Reveals Essential Cleavage and Polyadenylation Factors Promote Heterochromatin Formation Lee, SY; Hung, S; Esnault, C et al. Cell Rep, DOI://10.1016/j.celrep.2020.01.094 (2020)
Low Serum Insulinlike Growth Factor II Levels Correlate with High BMI in American Indian Adults Muller, YL; Hanson, RL; Mahkee, D et al. Obesity (Silver Spring), DOI://10.1002/oby.22741 (2020)
CASZ1 induces skeletal muscle and rhabdomyosarcoma differentiation through a feed-forward loop with MYOD and MYOG Liu, Z; Zhang, X; Lei, H et al. Nat Commun, DOI://10.1038/s41467-020-14684-4 (2020)
A case report of multiple primary prostate tumors with differential drug sensitivity Wilkinson, S; Harmon, SA; Terrigino, NT et al. Nat Commun, DOI://10.1038/s41467-020-14657-7 (2020)

A resource for the detailed 3D mapping of white matter pathways in the marmoset brain Liu, C; Ye, FQ; Newman, JD et al. Nat. Neurosci., DOI://10.1038/s41593-019-0575-0 (2020)
The Pharmacopea within Triatomine Salivary Glands Santiago, PB; de Araújo, CN; Charneau, S et al. Trends Parasitol., DOI://10.1016/j.pt.2019.12.014 (2020)
MY-5445, a phosphodiesterase type 5 inhibitor, resensitizes ABCG2-overexpressing multidrug-resistant cancer cells to cytotoxic anticancer drugs Wu, CP; Lusvarghi, S; Tseng, PJ et al. Am J Cancer Res, 2156-6976 (2020)
The Glu102 mutation disrupts higher-order oligomerization of the sigma 1 receptor Abramyan, AM; Yano, H; Xu, M et al. Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2019.12.012 (2020)
High-Affinity Interactions of the nSH3/cSH3 Domains of Grb2 with the C-Terminal Proline-Rich Domain of SOS1 Liao, TJ; Jang, H; Nussinov, R; Fushman, D; J. Am. Chem. Soc., DOI://10.1021/jacs.9b10710 (2020)
Placental DNA methylation changes associated with maternal prepregnancy BMI and gestational weight gain Shrestha, D; Ouidir, M; Workalemahu, T; Zeng, X; Tekola-Ayele, F; Int J Obes (Lond), DOI://10.1038/s41366-020-0546-2 (2020)

Refining genome-wide associated loci for serum uric acid in individuals with African ancestry Chen, G; Shriner, D; Doumatey, AP et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddz272 (2020)
A customizable deep learning model for nosocomial risk prediction from critical care notes with indirect supervision Goodwin, TR; Demner-Fushman, D; J Am Med Inform Assoc, DOI://10.1093/jamia/ocaa004 (2020)
Transcriptional profiling and physiological roles of Aedes aegypti spermathecal-related genes Pascini, TV; Ramalho-Ortigão, M; Ribeiro, JM; Jacobs-Lorena, M; Martins, GF; BMC Genomics, DOI://10.1186/s12864-020-6543-y (2020)
Author Correction: Recurrent PTPRT/JAK2 mutations in lung adenocarcinoma among African Americans Mitchell, KA; Nichols, N; Tang, W et al. Nat Commun, DOI://10.1038/s41467-020-14448-0 (2020)
Comprehensive Transcriptome Profiling of Cryptic CBFA2T3-GLIS2 Fusion-Positive AML Defines Novel Therapeutic Options: A COG and TARGET Pediatric AML Study Smith, JL; Ries, RE; Hylkema, T et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-19-1800 (2020)
TCR Repertoires of Thymic Conventional and Regulatory T Cells: Identification and Characterization of Both Unique and Shared TCR Sequences Ko, A; Watanabe, M; Nguyen, T et al. J. Immunol., DOI://10.4049/jimmunol.1901006 (2020)

Whole Exome Sequencing of Highly Aggregated Lung Cancer Families Reveals Linked Loci for Increased Cancer Risk on Chromosomes 12q, 7p, and 4q Musolf, AM; Moiz, BA; Sun, H et al. Cancer Epidemiol. Biomarkers Prev., DOI://10.1158/1055-9965.EPI-19-0887 (2020)
Evaluating global brain connectivity as an imaging marker for depression: influence of preprocessing strategies and placebo-controlled ketamine treatment Kraus, C; Mkrtchian, A; Kadriu, B; Nugent, AC; Zarate, CA; Evans, JW; Neuropsychopharmacology, DOI://10.1038/s41386-020-0624-0 (2020)
CTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention Pugacheva, EM; Kubo, N; Loukinov, D et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1911708117 (2020)
Discovery of several thousand highly diverse circular DNA viruses Tisza, MJ; Pastrana, DV; Welch, NL et al. Elife, DOI://10.7554/eLife.51971 (2020)
Sub-millimeter fMRI reveals multiple topographical digit representations that form action maps in human motor cortex Huber, L; Finn, ES; Handwerker, DA et al. Neuroimage, DOI://10.1016/j.neuroimage.2019.116463 (2020)
Truncated tetrahedral RNA nanostructures exhibit enhanced features for delivery of RNAi substrates Zakrevsky, P; Kasprzak, WK; Heinz, WF et al. Nanoscale, DOI://10.1039/c9nr08197f (2020)

SAMPL6 logP challenge: machine learning and quantum mechanical approaches Patel, P; Kuntz, DM; Jones, MR; Brooks, BR; Wilson, AK; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-020-00287-0 (2020)
A deep learning approach for the blind logP prediction in SAMPL6 challenge Prasad, S; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-020-00292-3 (2020)
Whole Genome Sequence-Based Haplotypes Reveal a Single Origin of the 1393 Bp HBB Deletion Wang, X; Xu, JZ; Conrey, A et al. J. Med. Genet., DOI://10.1136/jmedgenet-2019-106698 (2020)
Complete Genome Sequence of Myophage Ec_Makalu_002, Which Infects Uropathogenic Escherichia coli Dhungana, G; Malla, R; Rajaure, M; Adhya, S; Microbiol Resour Announc, DOI://10.1128/MRA.01530-19 (2020)
A dual apolipoprotein C-II mimetic-apolipoprotein C-III antagonist peptide lowers plasma triglycerides Wolska, A; Lo, L; Sviridov, DO et al. Sci Transl Med, DOI://10.1126/scitranslmed.aaw7905 (2020)
Characterization of Specific Ion Effects on PI(4,5)P 2 Clustering: Molecular Dynamics Simulations and Graph-Theoretic Analysis Han, K; Gericke, A; Pastor, RW; J Phys Chem B, DOI://10.1021/acs.jpcb.9b10951 (2020)

In search of genetic factors predisposing to familial hairy cell leukemia (HCL): exome-sequencing of four multiplex HCL pedigrees Pemov, A; Pathak, A; Jones, SJ et al. Leukemia, DOI://10.1038/s41375-019-0702-7 (2020)
ABC-transporter upregulation mediates resistance to the CDK7 inhibitors THZ1 and ICEC0942 Sava, GP; Fan, H; Fisher, RA et al. Oncogene, DOI://10.1038/s41388-019-1008-y (2020)
Abl Signaling Directs Growth of a Pioneer Axon in Drosophila by Shaping the Intrinsic Fluctuations of Actin Clarke, A; McQueen, PG; Fang, HY et al. Mol. Biol. Cell, DOI://10.1091/mbc.E19-10-0564 (2020)
Information-limiting correlations in large neural populations Bartolo, R; Saunders, RC; Mitz, AR; Averbeck, BB; J. Neurosci., DOI://10.1523/JNEUROSCI.2072-19.2019 (2020)
Cytosine base editor 4 but not adenine base editor generates off-target mutations in mouse embryos Lee, HK; Smith, HE; Liu, C; Willi, M; Hennighausen, L; Commun Biol, DOI://10.1038/s42003-019-0745-3 (2020)
A Transcriptome-Wide Association Study (TWAS) Identifies Novel Candidate Susceptibility Genes for Pancreatic Cancer Zhong, J; Jermusyk, A; Wu, L et al. J. Natl. Cancer Inst., DOI://10.1093/jnci/djz246 (2020)

Mutations that prevent caspase cleavage of RIPK1 cause autoinflammatory disease Lalaoui, N; Boyden, SE; Oda, H et al. Nature, DOI://10.1038/s41586-019-1828-5 (2020)
Endogenous oxidized phospholipids reprogram cellular metabolism and boost hyperinflammation Di Gioia, M; Spreafico, R; Springstead, JR et al. Nat. Immunol., DOI://10.1038/s41590-019-0539-2 (2020)

2019 (520 papers)

Emerging consensus on the mechanism of polyspecific substrate recognition by the multidrug transporter P-glycoprotein Xia, D; Zhou, F; Esser, L; , Cancer Drug Resist, DOI://10.20517/cdr.2019.22 (2019)
Renal-Tubule Epithelial Cell Nomenclature for Single-Cell RNA-Sequencing Studies Chen, L; Clark, JZ; Nelson, JW et al. J Am Soc Nephrol, DOI://10.1681/ASN.2019040415 (2019)
Probing the Structural Organization of Virions and Genomic Ribonucleoprotein Complexes from Type B Influenza Virus by Cryo-electron Microscopy Gulati, NM; Gallagher, JR; McCraw, DM; Harris, AK; , Microsc Microanal, DOI://10.1017/S1431927619007244 (2019)
A novel HIV-1 protease inhibitor, GRL-044, has potent activity against various HIV-1s with an extremely high genetic barrier to the emergence of HIV-1 drug resistance Aoki, M; Chang, SB; Das, D et al. Glob Health Med, DOI://10.35772/ghm.2019.01003 (2019)

MAIT cells are imprinted by the microbiota in early life and promote tissue repair Constantinides, MG; Link, VM; Tamoutounour, S et al. Science, DOI://10.1126/science.aax6624 (2019)
Amphetamines signal through intracellular TAAR1 receptors coupled to Gα13 and GαS in discrete subcellular domains Underhill, SM; Hullihen, PD; Chen, J et al. Mol. Psychiatry, DOI://10.1038/s41380-019-0469-2 (2019)
GATA3-Controlled Nucleosome Eviction Drives MYC Enhancer Activity in T-cell Development and Leukemia Belver, L; Yang, AY; Albero, R et al. Cancer Discov, DOI://10.1158/2159-8290.CD-19-0471 (2019)
Sptlc1 is essential for myeloid differentiation and hematopoietic homeostasis Parthibane, V; Acharya, D; Srideshikan, SM et al. Blood Adv, DOI://10.1182/bloodadvances.2019000729 (2019)
Genome-Wide Association Study in Irradiated Childhood Cancer Survivors Identifies HTR2A for Subsequent Basal Cell Carcinoma Sapkota, Y; Turcotte, LM; Ehrhardt, MJ et al. J. Invest. Dermatol., DOI://10.1016/j.jid.2019.02.029 (2019)
Mapping histone modifications in low cell number and single cells using antibody-guided chromatin tagmentation (ACT-seq) Carter, B; Ku, WL; Kang, JY et al. Nat Commun, DOI://10.1038/s41467-019-11559-1 (2019)

Cryo-EM reveals active site coordination within a multienzyme pre-rRNA processing complex Pillon, MC; Hsu, AL; Krahn, JM et al. Nat. Struct. Mol. Biol., DOI://10.1038/s41594-019-0289-8 (2019)
Beyond Synthetic Lethality: Charting the Landscape of Pairwise Gene Expression States Associated with Survival in Cancer Magen, A; Das Sahu, A; Lee, JS et al. Cell Rep, DOI://10.1016/j.celrep.2019.06.067 (2019)
ATP-dependent thermostabilization of human P-glycoprotein (ABCB1) is blocked by modulators Lusvarghi, S; Ambudkar, SV; , Biochem. J., DOI://10.1042/BCJ20190736 (2019)
Organ Doses from Chest Radiographs in Tuberculosis Patients in Canada and Their Uncertainties in Periods from 1930 to 1969 Kocher, DC; Apostoaei, AI; Thomas, BA; Borrego, D; Lee, C; Zablotska, LB; , Health Phys, DOI://10.1097/HP.0000000000001171 (2019)
Association of dietary folate and vitamin B-12 intake with genome-wide DNA methylation in blood: a large-scale epigenome-wide association analysis in 5841 individuals Mandaviya, PR; Joehanes, R; Brody, J et al. Am. J. Clin. Nutr., DOI://10.1093/ajcn/nqz031 (2019)
PARP1 inhibition alleviates injury in ARH3-deficient mice and human cells Mashimo, M; Bu, X; Aoyama, K et al. JCI Insight, DOI://10.1172/jci.insight.124519 (2019)
Placental malaria vaccine candidate antigen VAR2CSA displays atypical domain architecture in some Plasmodium falciparum strains Doritchamou, JYA; Morrison, R; Renn, JP et al. Commun Biol, DOI://10.1038/s42003-019-0704-z (2019)
The Selective Class IIa Histone Deacetylase Inhibitor TMP195 Resensitizes ABCB1- and ABCG2-Overexpressing Multidrug-Resistant Cancer Cells to Cytotoxic Anticancer Drugs Wu, CP; Lusvarghi, S; Wang, JC et al. Int J Mol Sci, DOI://10.3390/ijms21010238 (2019)
Assessment of APOE in atypical parkinsonism syndromes Sabir, MS; Blauwendraat, C; Ahmed, S et al. Neurobiol. Dis., DOI://10.1016/j.nbd.2019.02.016 (2019)
SLC35A2-CDG: Functional characterization, expanded molecular, clinical, and biochemical phenotypes of 30 unreported Individuals Ng, BG; Sosicka, P; Agadi, S et al. Hum. Mutat., DOI://10.1002/humu.23731 (2019)
Association between epigenetic age acceleration and depressive symptoms in a prospective cohort study of urban-dwelling adults Beydoun, MA; Hossain, S; Chitrala, KN et al. J Affect Disord, DOI://10.1016/j.jad.2019.06.032 (2019)
Time-lapse Live Imaging and Quantification of Fast Dendritic Branch Dynamics in Developing Drosophila Neurons Sheng, C; Javed, U; Rosenthal, J; Yin, J; Qin, B; Yuan, Q; J Vis Exp, DOI://10.3791/60287 (2019)
The Genetic Architecture of Parkinson Disease in Spain: Characterizing Population-Specific Risk, Differential Haplotype Structures, and Providing Etiologic Insight Bandres-Ciga, S; Ahmed, S; Sabir, MS et al. Mov. Disord., DOI://10.1002/mds.27864 (2019)
Anoctamin 8 tethers endoplasmic reticulum and plasma membrane for assembly of Ca2+ signaling complexes at the ER/PM compartment Jha, A; Chung, WY; Vachel, L et al. EMBO J, DOI://10.15252/embj.2018101452 (2019)
Gene signature predictive of hepatocellular carcinoma patient response to transarterial chemoembolization Fako, V; Martin, SP; Pomyen, Y et al. Int. J. Biol. Sci., DOI://10.7150/ijbs.39534 (2019)
Assessment of the Association of D2 Dopamine Receptor Gene and Reported Allele Frequencies With Alcohol Use Disorders: A Systematic Review and Meta-analysis Jung, Y; Montel, RA; Shen, PH; Mash, DC; Goldman, D; JAMA Netw Open, DOI://10.1001/jamanetworkopen.2019.14940 (2019)
Identification of novel risk loci, causal insights, and heritable risk for Parkinson's disease: a meta-analysis of genome-wide association studies Nalls, MA; Blauwendraat, C; Vallerga, CL et al. Lancet Neurol, DOI://10.1016/S1474-4422(19)30320-5 (2019)
Resistin-like Molecule α Provides Vitamin-A-Dependent Antimicrobial Protection in the Skin Harris, TA; Gattu, S; Propheter, DC et al. Cell Host Microbe, DOI://10.1016/j.chom.2019.04.004 (2019)
Complementary Task Structure Representations in Hippocampus and Orbitofrontal Cortex during an Odor Sequence Task Zhou, J; Montesinos-Cartagena, M; Wikenheiser, AM; Gardner, MPH; Niv, Y; Schoenbaum, G; Curr. Biol., DOI://10.1016/j.cub.2019.08.040 (2019)
Negative-Stain Transmission Electron Microscopy of Molecular Complexes for Image Analysis by 2D Class Averaging Gallagher, JR; Kim, AJ; Gulati, NM; Harris, AK; Curr Protoc Microbiol, DOI://10.1002/cpmc.90 (2019)
NAA10 polyadenylation signal variants cause syndromic microphthalmia Johnston, JJ; Williamson, KA; Chou, CM et al. J. Med. Genet., DOI://10.1136/jmedgenet-2018-105836 (2019)
Immunoelectron Microscopy of Viral Antigens Gulati, NM; Torian, U; Gallagher, JR; Harris, AK; Curr Protoc Microbiol, DOI://10.1002/cpmc.86 (2019)
The nucleoporin ELYS regulates nuclear size by controlling NPC number and nuclear import capacity Jevtić, P; Schibler, AC; Wesley, CC; Pegoraro, G; Misteli, T; Levy, DL; , EMBO Rep., DOI://10.15252/embr.201847283 (2019)
Histone hyperacetylation disrupts core gene regulatory architecture in rhabdomyosarcoma Gryder, BE; Pomella, S; Sayers, C et al. Nat. Genet., DOI://10.1038/s41588-019-0534-4 (2019)

Targeting Glycolysis through Inhibition of Lactate Dehydrogenase Impairs Tumor Growth in Preclinical Models of Ewing Sarcoma Yeung, C; Gibson, AE; Issaq, SH et al. Cancer Res., DOI://10.1158/0008-5472.CAN-19-0217 (2019)
Intra-Vκ Cluster Recombination Shapes the Ig Kappa Locus Repertoire Shinoda, K; Maman, Y; Canela, A; Schatz, DG; Livak, F; Nussenzweig, A; , Cell Rep, DOI://10.1016/j.celrep.2019.11.088 (2019)
Targeting the Chromosomal Passenger Complex Subunit INCENP Induces Polyploidization, Apoptosis, and Senescence in Neuroblastoma Sun, M; Veschi, V; Bagchi, S et al. Cancer Res., DOI://10.1158/0008-5472.CAN-19-0695 (2019)
Meta-analysis of Chromatin Programming by Steroid Receptors Paakinaho, V; Swinstead, EE; Presman, DM; Grøntved, L; Hager, GL; , Cell Rep, DOI://10.1016/j.celrep.2019.08.039 (2019)
Sympathetic activity contributes to the fMRI signal Özbay, PS; Chang, C; Picchioni, D et al. Commun Biol, DOI://10.1038/s42003-019-0659-0 (2019)
Evidence for a Causal Role of the SH2B3-β 2 M Axis in Blood Pressure Regulation Keefe, JA; Hwang, SJ; Huan, T et al. Hypertension, DOI://10.1161/HYPERTENSIONAHA.118.12094 (2019)
Transcriptomic, epigenetic, and functional analyses implicate neutrophil diversity in the pathogenesis of systemic lupus erythematosus Mistry, P; Nakabo, S; O'Neil, L et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1908576116 (2019)
The Bone Marrow Protects and Optimizes Immunological Memory during Dietary Restriction Collins, N; Han, SJ; Enamorado, M et al. Cell, DOI://10.1016/j.cell.2019.07.049 (2019)
Relationship between human leukocyte antigen alleles and risk of Kaposi's sarcoma in Cameroon Cornejo Castro, EM; Morrison, BJ; Marshall, VA et al. Genes Immun., DOI://10.1038/s41435-019-0077-9 (2019)
Integration of TGF-β-induced Smad signaling in the insulin-induced transcriptional response in endothelial cells Budi, EH; Hoffman, S; Gao, S; Zhang, YE; Derynck, R; , Sci Rep, DOI://10.1038/s41598-019-53490-x (2019)
Development of R7BP inhibitors through cross-linking coupled mass spectrometry and integrated modeling Adikaram, PR; Zhang, JH; Kittock, CM et al. Commun Biol, DOI://10.1038/s42003-019-0585-1 (2019)
Differential expression and subcellular localization of Copines in mouse retina Goel, M; Li, T; Badea, TC; J. Comp. Neurol., DOI://10.1002/cne.24684 (2019)

Identification of Novel Pathways Associated with Patterned Cerebellar Purkinje Neuron Degeneration in Niemann-Pick Disease, Type C1 Martin, KB; Williams, IM; Cluzeau, CV et al. Int J Mol Sci, DOI://10.3390/ijms21010292 (2019)
A Pliable Mediator Acts as a Functional Rather Than an Architectural Bridge between Promoters and Enhancers El Khattabi, L; Zhao, H; Kalchschmidt, J et al. Cell, DOI://10.1016/j.cell.2019.07.011 (2019)
Temperature-dependent regulation of upstream open reading frame translation in S. cerevisiae Kulkarni, SD; Zhou, F; Sen, ND; Zhang, H; Hinnebusch, AG; Lorsch, JR; BMC Biol., DOI://10.1186/s12915-019-0718-5 (2019)
A trans-ancestral meta-analysis of genome-wide association studies reveals loci associated with childhood obesity Bradfield, JP; Vogelezang, S; Felix, JF et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddz161 (2019)
Sertoli cell-only phenotype and scRNA-seq define PRAMEF12 as a factor essential for spermatogenesis in mice Wang, Z; Xu, X; Li, JL; Palmer, C; Maric, D; Dean, J; Nat Commun, DOI://10.1038/s41467-019-13193-3 (2019)
A Peripheral Blood DNA Methylation Signature of Hepatic Fat Reveals a Potential Causal Pathway for Nonalcoholic Fatty Liver Disease Ma, J; Nano, J; Ding, J et al. Diabetes, DOI://10.2337/DB18-1193 (2019)

Liver- and Microbiome-derived Bile Acids Accumulate in Human Breast Tumors and Inhibit Growth and Improve Patient Survival Tang, W; Putluri, V; Ambati, CR; Dorsey, TH; Putluri, N; Ambs, S; , Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-19-0094 (2019)
ARSA variants in α-synucleinopathies Makarious, MB; Diez-Fairen, M; Krohn, L et al. Brain, DOI://10.1093/brain/awz340 (2019)
A New Lineage of Cryptococcus gattii (VGV) Discovered in the Central Zambezian Miombo Woodlands Farrer, RA; Chang, M; Davis, MJ et al. mBio, DOI://10.1128/mBio.02306-19 (2019)
Contribution of SLC22A12 on hypouricemia and its clinical significance for screening purposes Cha, DH; Gee, HY; Cachau, R et al. Sci Rep, DOI://10.1038/s41598-019-50798-6 (2019)
Dose coefficients of mesh-type ICRP reference computational phantoms for external exposures of neutrons, protons, and helium ions Yeom YS, Choi C, et al. Nuc. Engg. Tech., doi://10.1016/j.net.2019.12.020 (2019)
White Blood Cell Count and Risk of Incident Lung Cancer in the UK Biobank Wong JYY, Bassig BA et al. JNCI Cancer Spectrum, doi://10.1093/jncics/pkz102 (2019)

Cryo-EM structure of substrate-free E. coli Lon protease provides insights into the dynamics of Lon machinery Botos I, Lountos GT et al. Cur. Res. Struct. Biol. , doi://0.1016/j.crstbi.2019.10.001 (2019)
Dosimetric impact of voxel resolutions of computational human phantoms for external photon exposure Choonsik Lee, Andreu Badal, Yeon Soo Yeom, Keith T Griffin and Dayton McMillan Biomed. Phys. Engg. Exp. , doi://10.1088/2057-1976/ab2850 (2019)
Joint modelling of competing risks and current status data: an application to a spontaneous labour study Youjin Lee Mei; Cheng Wang; Katherine L. Grantz; Rajeshwari Sundaram Royal Statistical Society, doi://10.1111/rssc.12351 (2019)
Keratinocyte-intrinsic MHCII expression controls microbiota-induced Th1 cell responses Tamoutounour, S; Han, SJ; Deckers, J et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1912432116 (2019)
Mammographic breast density and its association with urinary estrogens and the fecal microbiota in postmenopausal women Jones, GS; Spencer Feigelson, H; Falk, RT et al. PLoS ONE, DOI://10.1371/journal.pone.0216114 (2019)
NMR Analysis of Apo Glutamine-Binding Protein Exposes Challenges in the Study of Interdomain Dynamics Kooshapur, H; Ma, J; Tjandra, N; Bermejo, GA; Angew. Chem. Int. Ed. Engl., DOI://10.1002/anie.201911015 (2019)
Proteomics Pipeline for Identifying Variant Proteins in Plasmodium falciparum Parasites Isolated from Children Presenting with Malaria Gonzales Hurtado, PA; Morrison, R; Ribeiro, JMC et al. J. Proteome Res., DOI://10.1021/acs.jproteome.9b00169 (2019)
Oncoviruses Can Drive Cancer by Rewiring Signaling Pathways Through Interface Mimicry Guven-Maiorov, E; Tsai, CJ; Nussinov, R; , Front Oncol, DOI://10.3389/fonc.2019.01236 (2019)
Rat Orbitofrontal Ensemble Activity Contains Multiplexed but Dissociable Representations of Value and Task Structure in an Odor Sequence Task Zhou, J; Gardner, MPH; Stalnaker, TA et al. Curr. Biol., DOI://10.1016/j.cub.2019.01.048 (2019)
Non-Leishmania Parasite in Fatal Visceral Leishmaniasis-Like Disease, Brazil Maruyama, SR; de Santana, AKM; Takamiya, NT et al. Emerging Infect. Dis., DOI://10.3201/eid2511.181548 (2019)
A Phase II Study of Tumor-infiltrating Lymphocyte Therapy for Human Papillomavirus-associated Epithelial Cancers Stevanovic, S; Helman, SR; Wunderlich, JR et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-2722 (2019)
Recurrent PTPRT/JAK2 mutations in lung adenocarcinoma among African Americans Mitchell, KA; Nichols, N; Tang, W et al. Nat Commun, DOI://10.1038/s41467-019-13732-y (2019)
The endocytic membrane trafficking pathway plays a major role in the risk of Parkinson's disease Bandres-Ciga, S; Saez-Atienzar, S; Bonet-Ponce, L et al. Mov. Disord., DOI://10.1002/mds.27614 (2019)
The GATOR complex regulates an essential response to meiotic double-stranded breaks in Drosophila Wei, Y; Bettedi, L; Ting, CY et al. Elife, DOI://10.7554/eLife.42149 (2019)
Next generation sequencing and the classical HLA loci in full heritage Pima Indians of Arizona: Defining the core HLA variation for North American Paleo-Indians Williams, RC; Knowler, WC; Shuldiner, AR et al. Hum Immunol, DOI://10.1016/j.humimm.2019.10.002 (2019)
Autosomal recessive congenital cataracts linked to HSF4 in a consanguineous Pakistani family Jiao, X; Khan, SY; Kaul, H et al. PLoS ONE, DOI://10.1371/journal.pone.0225010 (2019)
White Matter Microstructure in Pediatric Bipolar Disorder and Disruptive Mood Dysregulation Disorder Linke, JO; Adleman, NE; Sarlls, J et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2019.05.035 (2019)
DENND5B Regulates Intestinal Triglyceride Absorption and Body Mass Gordon, SM; Neufeld, EB; Yang, Z et al. Sci Rep, DOI://10.1038/s41598-019-40296-0 (2019)
Reply to Spreng et al.: Multiecho fMRI denoising does not remove global motion-associated respiratory signals Power, JD; Lynch, CJ; Gilmore, AW; Gotts, SJ; Martin, A; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1909852116 (2019)
HiPLA: High-throughput imaging proximity ligation assay Serebryannyy, LA; Misteli, T; , Methods, DOI://10.1016/j.ymeth.2018.11.004 (2019)
Single molecule analysis of lamin dynamics Serebryannyy, LA; Ball, DA; Karpova, TS; Misteli, T; , Methods, DOI://10.1016/j.ymeth.2018.08.009 (2019)
HNRNPH1-dependent splicing of a fusion oncogene reveals a targetable RNA G-quadruplex interaction Neckles, C; Boer, RE; Aboreden, N et al. RNA, DOI://10.1261/rna.072454.119 (2019)
Correction to: ATAC2GRN: optimized ATAC-seq and DNase1-seq pipelines for rapid and accurate genome regulatory network inference Pranzatelli, TJF; Michae, DG; Chiorini, JA; , BMC Genomics, DOI://10.1186/s12864-019-5441-7 (2019)
Head and Neck Cancers Promote an Inflammatory Transcriptome Through Coactivation of Classic and Alternative NF-κB Pathways Yang, X; Cheng, H; Chen, J et al. Cancer Immunol Res, DOI://10.1158/2326-6066.CIR-18-0832 (2019)
Enhancement of LIN28B-induced hematopoietic reprogramming by IGF2BP3 Wang, S; Chim, B; Su, Y et al. Genes Dev., DOI://10.1101/gad.325100.119 (2019)
Genome-Wide Profiling of Cervical RNA-Binding Proteins Identifies Human Papillomavirus Regulation of RNASEH2A Expression by Viral E7 and E2F1 Xu, J; Liu, H; Yang, Y et al. mBio, DOI://10.1128/mBio.02687-18 (2019)
Classification of GBA Variants and Their Effects in Synucleinopathies Gan-Or, Z; Alcalay, RN; Makarious, MB; Scholz, SW; Blauwendraat, C; , ; Mov. Disord., DOI://10.1002/mds.27803 (2019)
H3.3K4M destabilizes enhancer H3K4 methyltransferases MLL3/MLL4 and impairs adipose tissue development Jang, Y; Broun, A; Wang, C et al. Nucleic Acids Res., DOI://10.1093/nar/gky982 (2019)
MicroRNA-mediated control of developmental lymphangiogenesis Jung, HM; Hu, CT; Fister, AM et al. Elife, DOI://10.7554/eLife.46007 (2019)
Immunoprecipitation and Sequencing of Acetylated RNA Arango, D; Sturgill, D; Oberdoerffer, S; , Bio Protoc, DOI://10.21769/BioProtoc.3278 (2019)
Correction: Conserved mRNA-granule component Scd6 targets Dhh1 to repress translation initiation and activates Dcp2-mediated mRNA decay in vivo Zeidan, Q; He, F; Zhang, F; Zhang, H; Jacobson, A; Hinnebusch, AG; PLoS Genet., DOI://10.1371/journal.pgen.1008299 (2019)
Understanding Cancer Through the Lens of Epigenetic Inheritance, Allele-Specific Gene Expression, and High-Throughput Technology Lee, MP Front Oncol, DOI://10.3389/fonc.2019.00794 (2019)
A deconvolution algorithm for multi-echo functional MRI: Multi-echo Sparse Paradigm Free Mapping Caballero-Gaudes, C; Moia, S; Panwar, P; Bandettini, PA; Gonzalez-Castillo, J; Neuroimage, DOI://10.1016/j.neuroimage.2019.116081 (2019)
A tail of two sides: Artificially doubled false positive rates in neuroimaging due to the sidedness choice with t-tests Chen, G; Cox, RW; Glen, DR; Rajendra, JK; Reynolds, RC; Taylor, PA; Hum Brain Mapp, DOI://10.1002/hbm.24399 (2019)
Association of Maternal Exposure to Persistent Organic Pollutants in Early Pregnancy With Fetal Growth Ouidir, M; Buck Louis, GM; Kanner, J et al. JAMA Pediatr, DOI://10.1001/jamapediatrics.2019.5104 (2019)
Modeling ligand docking to RNA in the design of RNA-based nanostructures Kasprzak, WK; Ahmed, NA; Shapiro, BA; Curr. Opin. Biotechnol., DOI://10.1016/j.copbio.2019.10.010 (2019)

Integrating Hi-C links with assembly graphs for chromosome-scale assembly Ghurye, J; Rhie, A; Walenz, BP et al. PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1007273 (2019)
Magnetoencephalographic Correlates of Suicidal Ideation in Major Depression Gilbert, JR; Ballard, ED; Galiano, CS; Nugent, AC; Zarate, CA; Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2019.11.011 (2019)
Single Cell and Single Nucleus RNA-Seq Reveal Cellular Heterogeneity and Homeostatic Regulatory Networks in Adult Mouse Stria Vascularis Korrapati, S; Taukulis, I; Olszewski, R et al. Front Mol Neurosci, DOI://10.3389/fnmol.2019.00316 (2019)
Analysis of Group IV Viral SSHHPS Using In Vitro and In Silico Methods Hu, X; Compton, JR; Legler, PM; J Vis Exp, DOI://10.3791/60421 (2019)
Single-Cell Profiling Defines Transcriptomic Signatures Specific to Tumor-Reactive versus Virus-Responsive CD4+ T Cells Magen, A; Nie, J; Ciucci, T et al. Cell Rep, DOI://10.1016/j.celrep.2019.10.131 (2019)
Transcriptome-based molecular staging of human stem cell-derived retinal organoids uncovers accelerated photoreceptor differentiation by 9-cis retinal Kaya KD, Chen HY, Brooks MJ et al Mol Vis (2019)

Novel Protease Inhibitors Containing C-5-Modified bis-Tetrahydrofuranylurethane and Aminobenzothiazole as P2 and P2' Ligands That Exert Potent Antiviral Activity against Highly Multidrug-Resistant HIV-1 with a High Genetic Barrier against the Emergence of Drug Resistance Takamatsu, Y; Aoki, M; Bulut, H et al. Antimicrob. Agents Chemother., DOI://10.1128/AAC.00372-19 (2019)
Benchmarking the Performance of Time-Dependent Density Functional Theory Methods on Biochromophores Shao, Y; Mei, Y; Sundholm, D; Kaila, VRI; J Chem Theory Comput, DOI://10.1021/acs.jctc.9b00823 (2019)
Novel Central Nervous System (CNS)-Targeting Protease Inhibitors for Drug-Resistant HIV Infection and HIV-Associated CNS Complications Amano, M; Salcedo-Gómez, PM; Yedidi, RS et al. Antimicrob. Agents Chemother., DOI://10.1128/AAC.00466-19 (2019)
HLA and autoantibodies define scleroderma subtypes and risk in African and European Americans and suggest a role for molecular mimicry Gourh, P; Safran, SA; Alexander, T et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1906593116 (2019)
Maternal fatty acid concentrations and newborn DNA methylation Robinson, SL; Mumford, SL; Guan, W et al. Am. J. Clin. Nutr., DOI://10.1093/ajcn/nqz311 (2019)
DHHC20 Palmitoyl-Transferase Reshapes the Membrane to Foster Catalysis Stix, R; Song, J; Banerjee, A; Faraldo-Gómez, JD; Biophys. J., DOI://10.1016/j.bpj.2019.11.003 (2019)

Analysis of ordered composite endpoints Follmann, D; Fay, MP; Hamasaki, T; Evans, S; Stat Med, DOI://10.1002/sim.8431 (2019)
Large-scale state-dependent membrane remodeling by a transporter protein Zhou, W; Fiorin, G; Anselmi, C et al. Elife, DOI://10.7554/eLife.50576 (2019)
CNVScope: Visually Exploring Copy Number Aberrations in Cancer Genomes Dalgleish, JL; Wang, Y; Zhu, J; Meltzer, PS; Cancer Inform, DOI://10.1177/1176935119890290 (2019)
Identification of 102 Correlations between Serum Metabolites and Habitual Diet in a Metabolomics Study of the Prostate, Lung, Colorectal, and Ovarian Cancer Trial Mazzilli, KM; McClain, KM; Lipworth, L et al. J. Nutr., DOI://10.1093/jn/nxz300 (2019)
Permeability of membranes in the liquid ordered and liquid disordered phases Ghysels, A; Krämer, A; Venable, RM et al. Nat Commun, DOI://10.1038/s41467-019-13432-7 (2019)
A Thpok-Directed Transcriptional Circuitry Promotes Bcl6 and Maf Expression to Orchestrate T Follicular Helper Differentiation Vacchio, MS; Ciucci, T; Gao, Y et al. Immunity, DOI://10.1016/j.immuni.2019.06.023 (2019)

SummaryAUC: a tool for evaluating the performance of polygenic risk prediction models in validation datasets with only summary level statistics Song, L; Liu, A; Shi, J; , ; Bioinformatics, DOI://10.1093/bioinformatics/btz176 (2019)
Accurate Prediction for Antibody Resistance of Clinical HIV-1 Isolates Rawi, R; Mall, R; Shen, CH et al. Sci Rep, DOI://10.1038/s41598-019-50635-w (2019)
Gene gain and loss push prokaryotes beyond the homologous recombination barrier and accelerate genome sequence divergence Iranzo, J; Wolf, YI; Koonin, EV; Sela, I; Nat Commun, DOI://10.1038/s41467-019-13429-2 (2019)
Mash Screen: high-throughput sequence containment estimation for genome discovery Ondov, BD; Starrett, GJ; Sappington, A et al. Genome Biol., DOI://10.1186/s13059-019-1841-x (2019)
The scale-invariant, temporal profile of neuronal avalanches in relation to cortical γ-oscillations Miller, SR; Yu, S; Plenz, D; Sci Rep, DOI://10.1038/s41598-019-52326-y (2019)
Myc controls a distinct transcriptional program in fetal thymic epithelial cells that determines thymus growth Cowan, JE; Malin, J; Zhao, Y et al. Nat Commun, DOI://10.1038/s41467-019-13465-y (2019)

Ca2+-Dependent Switch of Calmodulin Interaction Mode with Tandem IQ Motifs in the Scaffolding Protein IQGAP1 Zhang, M; Li, Z; Jang, H; Hedman, AC; Sacks, DB; Nussinov, R; Biochemistry, DOI://10.1021/acs.biochem.9b00854 (2019)
Contribution of Common Genetic Variants to Familial Aggregation of Disease and Implications for Sequencing Studies Schlafly, A; Pfeiffer, RM; Nagore, E et al. PLoS Genet., DOI://10.1371/journal.pgen.1008490 (2019)
Mechanistic link between right prefrontal cortical activity and anxious arousal revealed using transcranial magnetic stimulation in healthy subjects Balderston, NL; Beydler, EM; Roberts, C et al. Neuropsychopharmacology, DOI://10.1038/s41386-019-0583-5 (2019)
Race-specific alterations in DNA methylation among middle-aged African Americans and Whites with metabolic syndrome Chitrala, KN; Hernandez, DG; Nalls, MA et al. Epigenetics, DOI://10.1080/15592294.2019.1695340 (2019)
A3 adenosine receptor activation mechanisms: molecular dynamics analysis of inactive, active, and fully active states Ciancetta, A; Rubio, P; Lieberman, DI; Jacobson, KA; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-019-00246-4 (2019)
Exome sequencing of 20,791 cases of type 2 diabetes and 24,440 controls Flannick, J; Mercader, JM; Fuchsberger, C et al. Nature, DOI://10.1038/s41586-019-1231-2 (2019)

Knowing What You Know in Brain Segmentation Using Bayesian Deep Neural Networks McClure, P; Rho, N; Lee, JA et al. Front Neuroinform, DOI://10.3389/fninf.2019.00067 (2019)
Commensal microbiota drive the functional diversification of colon macrophages Kang, B; Alvarado, LJ; Kim, T et al. Mucosal Immunol, DOI://10.1038/s41385-019-0228-3 (2019)
Single cell analysis of adult mouse skeletal muscle stem cells in homeostatic and regenerative conditions Dell'Orso, S; Juan, AH; Ko, KD et al. Development, DOI://10.1242/dev.174177 (2019)
Integrative analysis of gene expression, DNA methylation, physiological traits, and genetic variation in human skeletal muscle Taylor, DL; Jackson, AU; Narisu, N et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1814263116 (2019)
Author Correction: Mosaic nanoparticle display of diverse influenza virus hemagglutinins elicits broad B cell responses Kanekiyo, M; Joyce, MG; Gillespie, RA et al. Nat. Immunol., DOI://10.1038/s41590-019-0395-0 (2019)
Correction: CAPN1 is a novel binding partner and regulator of the tumor suppressor NF1 in melanoma Alon, M; Arafeh, R; Lee, JS et al. Oncotarget, DOI://10.18632/oncotarget.26685 (2019)
Correction: The zinc-finger protein CLAMP promotes gypsy chromatin insulator function in Drosophila (doi:10.1242/jcs.226092) Bag, I; Dale, RK; Palmer, C; Lei, EP; J. Cell. Sci., DOI://10.1242/jcs.231977 (2019)
Multiomic Profiling Identifies cis-Regulatory Networks Underlying Human Pancreatic β Cell Identity and Function Lawlor, N; Márquez, EJ; Orchard, P et al. Cell Rep, DOI://10.1016/j.celrep.2018.12.083 (2019)
Second Case of HOIP Deficiency Expands Clinical Features and Defines Inflammatory Transcriptome Regulated by LUBAC Oda, H; Beck, DB; Kuehn, HS et al. Front Immunol, DOI://10.3389/fimmu.2019.00479 (2019)
Katanin Grips the β-Tubulin Tail through an Electropositive Double Spiral to Sever Microtubules Zehr, EA; Szyk, A; Szczesna, E; Roll-Mecak, A; Dev. Cell, DOI://10.1016/j.devcel.2019.10.010 (2019)
Data augmentation using generative adversarial networks (CycleGAN) to improve generalizability in CT segmentation tasks Sandfort, V; Yan, K; Pickhardt, PJ; Summers, RM; Sci Rep, DOI://10.1038/s41598-019-52737-x (2019)
Author Correction: In vivo tropism of Salmonella Typhi toxin to cells expressing a multiantennal glycan receptor Yang, YA; Lee, S; Zhao, J et al. Nat Microbiol, DOI://10.1038/s41564-019-0505-7 (2019)
Genome-wide association study of panic disorder reveals genetic overlap with neuroticism and depression Forstner, AJ; Awasthi, S; Wolf, C et al. Mol. Psychiatry, DOI://10.1038/s41380-019-0590-2 (2019)
Preventing dysbiosis of the neonatal mouse intestinal microbiome protects against late-onset sepsis Singer, JR; Blosser, EG; Zindl, CL et al. Nat. Med., DOI://10.1038/s41591-019-0640-y (2019)
Splicing factor DHX15 affects tp53 and mdm2 expression via alternate splicing and promoter usage McElderry, J; Carrington, B; Bishop, K et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddz261 (2019)
Tango1 coordinates the formation of ER/Golgi docking sites to mediate secretory granule formation Reynolds, HM; Zhang, L; Tran, DT; Ten Hagen, KG; J. Biol. Chem., DOI://10.1074/jbc.RA119.011063 (2019)
Williams syndrome hemideletion and LIMK1 variation both affect dorsal stream functional connectivity Gregory, MD; Mervis, CB; Elliott, ML et al. Brain, DOI://10.1093/brain/awz323 (2019)
Reducing motion sensitivity in 3D high-resolution T2*-weighted MRI by navigator-based motion and nonlinear magnetic field correction Liu, J; van Gelderen, P; de Zwart, JA; Duyn, JH; Neuroimage, DOI://10.1016/j.neuroimage.2019.116332 (2019)

Single-Cell Transcriptome Analysis Reveals Gene Signatures Associated with T-cell Persistence Following Adoptive Cell Therapy Lu, YC; Jia, L; Zheng, Z; Tran, E; Robbins, PF; Rosenberg, SA; Cancer Immunol Res, DOI://10.1158/2326-6066.CIR-19-0299 (2019)
Dose coefficients of percentile-specific computational phantoms for photon external exposures Yeom, YS; Han, H; Choi, C; Shin, B; Kim, CH; Lee, C; Radiat Environ Biophys, DOI://10.1007/s00411-019-00818-w (2019)
Characteristics of respiratory measures in young adults scanned at rest, including systematic changes and "missed" deep breaths Power, JD; Lynch, CJ; Dubin, MJ; Silver, BM; Martin, A; Jones, RM; Neuroimage, DOI://10.1016/j.neuroimage.2019.116234 (2019)
Impact of CMV Infection on Natural Killer Cell Clonal Repertoire in CMV-Naïve Rhesus Macaques Truitt, LL; Yang, D; Espinoza, DA et al. Front Immunol, DOI://10.3389/fimmu.2019.02381 (2019)
Prepontine non-giant neurons drive flexible escape behavior in zebrafish Marquart, GD; Tabor, KM; Bergeron, SA; Briggman, KL; Burgess, HA; PLoS Biol., DOI://10.1371/journal.pbio.3000480 (2019)
Approximation of Bias and Mean Squared Error in Two-sample Mendelian Randomization Analyses Deng, L; Zhang, H; Song, L; Yu, K; Biometrics, DOI://10.1111/biom.13169 (2019)

AI Meets Exascale Computing: Advancing Cancer Research With Large-Scale High Performance Computing Bhattacharya, T; Brettin, T; Doroshow, JH et al. Front Oncol, DOI://10.3389/fonc.2019.00984 (2019)
Plasmid Dissemination and Selection of a Multidrug-Resistant Klebsiella pneumoniae Strain during Transplant-Associated Antibiotic Therapy Conlan, S; Lau, AF; Deming, C et al. MBio, DOI://10.1128/mBio.00652-19 (2019)
Stereotyped transcriptomic transformation of somatosensory neurons in response to injury Nguyen, MQ; Le Pichon, CE; Ryba, N; Elife, DOI://10.7554/eLife.49679 (2019)
Cryo-EM structure of the bacterial Ton motor subcomplex ExbB-ExbD provides information on structure and stoichiometry Celia, H; Botos, I; Ni, X et al. Commun Biol, DOI://10.1038/s42003-019-0604-2 (2019)
Dog10K: an international sequencing effort to advance studies of canine domestication, phenotypes and health Ostrander, EA; Wang, GD; Larson, G et al. Natl Sci Rev, DOI://10.1093/nsr/nwz049 (2019)
Single-Cell RNA-seq Identifies Cell Diversity in Embryonic Salivary Glands Sekiguchi, R; Martin, D; , ; Yamada, KM; J. Dent. Res., DOI://10.1177/0022034519883888 (2019)

Embryo polarity in moth flies and mosquitoes relies on distinct old genes with localized transcript isoforms Yoon, Y; Klomp, J; Martin-Martin, I et al. Elife, DOI://10.7554/eLife.46711 (2019)
Differential Nucleosome Spacing in Neurons and Glia Clark, SC; Chereji, RV; Lee, PR; Fields, RD; Clark, DJ; Neurosci. Lett., DOI://10.1016/j.neulet.2019.134559 (2019)
Improved Retinal Organoid Differentiation by Modulating Signaling Pathways Revealed by Comparative Transcriptome Analyses with Development In Vivo Brooks, MJ; Chen, HY; Kelley, RA et al. Stem Cell Reports, DOI://10.1016/j.stemcr.2019.09.009 (2019)
Gata2 deficiency delays leukemogenesis while contributing to aggressive leukemia phenotype in Cbfb-MYH11 knockin mice Saida, S; Zhen, T; Kim, E et al. Leukemia, DOI://10.1038/s41375-019-0605-7 (2019)
Cell Type- and Sex-Dependent Transcriptome Profiles of Rat Anterior Pituitary Cells Fletcher, PA; Smiljanic, K; Maso Prévide, R et al. Front Endocrinol (Lausanne), DOI://10.3389/fendo.2019.00623 (2019)
Differences in Genome-wide DNA Methylation Profiles in Breast Milk by Race and Lactation Duration Davis Lynn, BC; Bodelon, C; Pfeiffer, RM et al. Cancer Prev Res (Phila), DOI://10.1158/1940-6207.CAPR-19-0169 (2019)

Strong dependence of the nano-bio interactions on core morphology and layer composition of ultrasmall nanostructures Hassan, SA J Chem Phys, DOI://10.1063/1.5115192 (2019)
Discovery and Development of Anti-HIV Therapeutic Agents: Progress Towards Improved HIV Medication Maeda, K; Das, D; Kobayakawa, T; Tamamura, H; Takeuchi, H; Curr Top Med Chem, DOI://10.2174/1568026619666190712204603 (2019)
Direct Derivation of Free Energies of Membrane Deformation and Other Solvent Density Variations From Enhanced Sampling Molecular Dynamics Fiorin, G; Marinelli, F; Faraldo-Gómez, JD; J Comput Chem, DOI://10.1002/jcc.26075 (2019)
Clonal tracking of erythropoiesis in rhesus macaques Fan, X; Wu, C; Truitt, LL et al. Haematologica, DOI://10.3324/haematol.2019.231811 (2019)
Molecular Classification of Epithelial Ovarian Cancer Based on Methylation Profiling: Evidence for Survival Heterogeneity Bodelon, C; Killian, JK; Sampson, JN et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-3720 (2019)
Layer-dependent activity in human prefrontal cortex during working memory Finn, ES; Huber, L; Jangraw, DC; Molfese, PJ; Bandettini, PA; Nat. Neurosci., DOI://10.1038/s41593-019-0487-z (2019)

Protein-coding variants implicate novel genes related to lipid homeostasis contributing to body-fat distribution Justice, AE; Karaderi, T; Highland, HM et al. Nat. Genet., DOI://10.1038/s41588-018-0334-2 (2019)
Dynamic Emergence of Mismatch Repair Deficiency Facilitates Rapid Evolution of Ceftazidime-Avibactam Resistance in Pseudomonas aeruginosa Acute Infection Khil, PP; Dulanto Chiang, A; Ho, J et al. MBio, DOI://10.1128/mBio.01822-19 (2019)
Drosophila Heterochromatin Stabilization Requires the Zinc-Finger Protein Small Ovary Benner, L; Castro, EA; Whitworth, C et al. Genetics, DOI://10.1534/genetics.119.302590 (2019)
Dual antagonist of cIAP/XIAP ASTX660 sensitizes HPV-and HPV+ head and neck cancers to TNFα, TRAIL, and radiation Therapy Xiao, R; An, Y; Ye, W et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-3802 (2019)
Gene-based association analysis of survival traits via functional regression-based mixed effect cox models for related samples Chiu, CY; Zhang, B; Wang, S et al. Genet. Epidemiol., DOI://10.1002/gepi.22254 (2019)
Molecular characterization of respiratory syncytial viruses circulating in a paediatric cohort in Amman, Jordan Trovão, NS; Khuri-Bulos, N; Tan, Y et al. Microb Genom, DOI://10.1099/mgen.0.000292 (2019)

A Novel Bromine-Containing Paroxetine Analogue Provides Mechanistic Clues for Binding Ambiguity at the Central Primary Binding Site of the Serotonin Transporter Slack, RD; Abramyan, AM; Tang, H et al. ACS Chem Neurosci, DOI://10.1021/acschemneuro.9b00375 (2019)
Low Abundance of Circulating Tumor DNA in Localized Prostate Cancer Hennigan, ST; Trostel, SY; Terrigino, NT et al. JCO Precis Oncol, DOI://10.1200/PO.19.00176 (2019)
Automated Liver Fat Quantification at Nonenhanced Abdominal CT for Population-based Steatosis Assessment Graffy, PM; Sandfort, V; Summers, RM; Pickhardt, PJ; Radiology, DOI://10.1148/radiol.2019190512 (2019)
lncRNA expression predicts mRNA abundance Pacholewska, A; Sung, MH; Epigenomics, DOI://10.2217/epi-2019-0003 (2019)
Quantitative MNase-seq accurately maps nucleosome occupancy levels Chereji, RV; Bryson, TD; Henikoff, S; Genome Biol., DOI://10.1186/s13059-019-1815-z (2019)
Synthesis and Characterization of Bodipy-FL-Cyclosporine A as a Substrate for Multidrug Resistance-Linked P-Glycoprotein (ABCB1) Sajid, A; Raju, N; Lusvarghi, S; Vahedi, S; Swenson, RE; Ambudkar, SV; Drug Metab. Dispos., DOI://10.1124/dmd.119.087734 (2019)

Accessibility of promoter DNA is not the primary determinant of chromatin-mediated gene regulation Chereji, RV; Eriksson, PR; Ocampo, J; Prajapati, HK; Clark, DJ; Genome Res., DOI://10.1101/gr.249326.119 (2019)
Structure of the primed state of the ATPase domain of chromatin remodeling factor ISWI bound to the nucleosome Chittori, S; Hong, J; Bai, Y; Subramaniam, S; Nucleic Acids Res., DOI://10.1093/nar/gkz670 (2019)
De Novo Variants in WDR37 Are Associated with Epilepsy, Colobomas, Dysmorphism, Developmental Delay, Intellectual Disability, and Cerebellar Hypoplasia Kanca, O; Andrews, JC; Lee, PT et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2019.06.014 (2019)
A Monte Carlo model for organ dose reconstruction of patients in Pencil Beam Scanning (PBS) proton therapy for epidemiologic studies of late effects Yeom, YS; Kuzmin, G; Griffin, KT et al. J Radiol Prot, DOI://10.1088/1361-6498/ab437d (2019)
NMR characterization of rearranged staurosporine aglycone analogues from the marine sponge Damiria sp Tran, TD; Cartner, LK; Bokesch, HR et al. Magn Reson Chem, DOI://10.1002/mrc.4932 (2019)
The Spodoptera frugiperda Sf9 cell line is a heterogeneous population of rhabdovirus-infected and virus-negative cells: Isolation and characterization of cell clones containing rhabdovirus X-gene variants and virus-negative cell clones Ma, H; Nandakumar, S; Bae, EH; Chin, PJ; Khan, AS; Virology, DOI://10.1016/j.virol.2019.08.001 (2019)
Genome-wide DNA methylation analysis of colorectal adenomas with and without recurrence reveals an association between cytosine-phosphate-guanine methylation and histological subtypes Fiedler, D; Hirsch, D; El Hajj, N et al. Genes Chromosomes Cancer, DOI://10.1002/gcc.22787 (2019)
The Structural Basis of the Farnesylated and Methylated KRas4B Interaction with Calmodulin Jang, H; Banerjee, A; Marcus, K et al. Structure, DOI://10.1016/j.str.2019.08.009 (2019)
Imaging the spontaneous flow of thought: Distinct periods of cognition contribute to dynamic functional connectivity during rest Gonzalez-Castillo, J; Caballero-Gaudes, C; Topolski, N; Handwerker, DA; Pereira, F; Bandettini, PA; Neuroimage, DOI://10.1016/j.neuroimage.2019.116129 (2019)
Papillomavirus can be transmitted through the blood and produce infections in blood recipients: Evidence from two animal models Cladel, NM; Jiang, P; Li, JJ et al. Emerg Microbes Infect, DOI://10.1080/22221751.2019.1637072 (2019)
Cysteinyl-tRNA Synthetase Mutations Cause a Multi-System, Recessive Disease That Includes Microcephaly, Developmental Delay, and Brittle Hair and Nails Kuo, ME; Theil, AF; Kievit, A et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2019.01.006 (2019)
Sex differences in the associations of placental epigenetic aging with fetal growth Tekola-Ayele, F; Workalemahu, T; Gorfu, G et al. Aging (Albany NY), DOI://10.18632/aging.102124 (2019)

Genome-wide association study for proliferative diabetic retinopathy in Africans Liu, C; Chen, G; Bentley, AR et al. NPJ Genom Med, DOI://10.1038/s41525-019-0094-7 (2019)
Cohesin Impedes Heterochromatin Assembly in Fission Yeast Cells Lacking Pds5 Folco, HD; McCue, A; Balachandran, V; Grewal, SIS; Genetics, DOI://10.1534/genetics.119.302256 (2019)
T-Cell Deletion of MyD88 Connects IL17 and IκBζ to RAS Oncogenesis Cataisson, C; Salcedo, R; Michalowski, AM et al. Mol. Cancer Res., DOI://10.1158/1541-7786.MCR-19-0227 (2019)
Novel pathogenic COX20 variants causing dysarthria, ataxia, and sensory neuropathy Otero, MG; Tiongson, E; Diaz, F et al. Ann Clin Transl Neurol, DOI://10.1002/acn3.661 (2019)
Glucocorticoid receptor quaternary structure drives chromatin occupancy and transcriptional outcome Paakinaho, V; Johnson, TA; Presman, DM; Hager, GL; Genome Res., DOI://10.1101/gr.244814.118 (2019)
Modulation of Target Antigen Density Improves CAR T-cell Functionality and Persistence Ramakrishna, S; Highfill, SL; Walsh, Z et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-3784 (2019)
Pathogenic TERT promoter variants in telomere diseases Gutierrez-Rodrigues, F; Donaires, FS; Pinto, A et al. Genet. Med., DOI://10.1038/s41436-018-0385-x (2019)
Epigenetic aging is accelerated in alcohol use disorder and regulated by genetic variation in APOL2 Luo, A; Jung, J; Longley, M et al. Neuropsychopharmacology, DOI://10.1038/s41386-019-0500-y (2019)
Relationship of DNA methylation to mutational changes and transcriptional organization in fusion-positive and fusion-negative rhabdomyosarcoma Sun, W; Chatterjee, B; Shern, JF et al. Int. J. Cancer, DOI://10.1002/ijc.32006 (2019)
Structural basis of cooling agent and lipid sensing by the cold-activated TRPM8 channel Yin, Y; Le, SC; Hsu, AL; Borgnia, MJ; Yang, H; Lee, SY; Science, DOI://10.1126/science.aav9334 (2019)
Genomic analyses in African populations identify novel risk loci for cleft palate Butali, A; Mossey, PA; Adeyemo, WL et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddy402 (2019)
Laboratory mice born to wild mice have natural microbiota and model human immune responses Rosshart, SP; Herz, J; Vassallo, BG et al. Science, DOI://10.1126/science.aaw4361 (2019)

T cell stemness and dysfunction in tumors are triggered by a common mechanism Vodnala, SK; Eil, R; Kishton, RJ et al. Science, DOI://10.1126/science.aau0135 (2019)
Dynamical modeling of multi-scale variability in neuronal competition Cohen, BP; Chow, CC; Vattikuti, S; Commun Biol, DOI://10.1038/s42003-019-0555-7 (2019)
Organ-specific dose coefficients derived from Monte Carlo simulations for historical (1930s to 1960s) fluoroscopic and radiographic examinations of tuberculosis patients Borrego, D; Apostoaei, AI; Thomas, BA et al. J Radiol Prot, DOI://10.1088/1361-6498/ab2f10 (2019)
Cell-type-specific genomics reveals histone modification dynamics in mammalian meiosis Lam, KG; Brick, K; Cheng, G; Pratto, F; Camerini-Otero, RD; Nat Commun, DOI://10.1038/s41467-019-11820-7 (2019)
The bZIP mutant CEBPB (V285A) has sequence specific DNA binding propensities similar to CREB1 Ray, S; Ufot, A; Assad, N et al. Biochim Biophys Acta Gene Regul Mech, DOI://10.1016/j.bbagrm.2019.02.002 (2019)
Novel age-associated DNA methylation changes and epigenetic age acceleration in middle-aged African Americans and whites Tajuddin, SM; Hernandez, DG; Chen, BH et al. Clin Epigenetics, DOI://10.1186/s13148-019-0722-1 (2019)
Resting-state connectivity of the bed nucleus of the stria terminalis and the central nucleus of the amygdala in clinical anxiet Torrisi, S; Alvarez, GM; Gorka, AX et al. J Psychiatry Neurosci, DOI://10.1503/jpn.180150 (2019)
Insights into pediatric rhabdomyosarcoma research: Challenges and goals Yohe, ME; Heske, CM; Stewart, E et al. Pediatr Blood Cancer, DOI://10.1002/pbc.27869 (2019)
Longitudinal Development of Social-Cognition Regions Covaries With Amygdala Volume in Children With Williams Syndrome Kuhney F, Kippenhan S et al Biol. Psych., doi:///10.1016/j.biopsych.2019.03.584 (2019)
Mannobiose-Grafting Shifts PEI Charge and Biphasic Dependence on pH S Basu, R Venable et al Macro. Mat. Engg., doi://10.1002/macp.201800423 (2019)
Visualizing structural transitions of ligand-dependent gating of the TRPM2 channel Yin, Y; Wu, M; Hsu, AL et al. Nat Commun, DOI://10.1038/s41467-019-11733-5 (2019)
TET-Catalyzed 5-Carboxylcytosine Promotes CTCF Binding to Suboptimal Sequences Genome-wide Nanan, KK; Sturgill, DM; Prigge, MF et al. iScience, DOI://10.1016/j.isci.2019.07.041 (2019)

Transcriptome signature of cellular senescence Casella, G; Munk, R; Kim, KM et al. Nucleic Acids Res., DOI://10.1093/nar/gkz555 (2019)
Longitudinal Analysis Reveals Early Development of Three MPER-Directed Neutralizing Antibody Lineages from an HIV-1-Infected Individual Krebs, SJ; Kwon, YD; Schramm, CA et al. Immunity, DOI://10.1016/j.immuni.2019.02.008 (2019)
Large-Scale Communication in the Human Brain Is Rhythmically Modulated through Alpha Coherence Chapeton, JI; Haque, R; Wittig, JH; Inati, SK; Zaghloul, KA; Curr. Biol., DOI://10.1016/j.cub.2019.07.014 (2019)
Transcriptional Bursting and Co-bursting Regulation by Steroid Hormone Release Pattern and Transcription Factor Mobility Stavreva, DA; Garcia, DA; Fettweis, G et al. Mol. Cell, DOI://10.1016/j.molcel.2019.06.042 (2019)
Pathogenic variants in the AFG3L2 proteolytic domain cause SCA28 through haploinsufficiency and proteostatic stress-driven OMA1 activation Tulli, S; Del Bondio, A; Baderna, V et al. J. Med. Genet., DOI://10.1136/jmedgenet-2018-105766 (2019)
Histone methyltransferase PRDM9 is not essential for meiosis in male mice Mihola, O; Pratto, F; Brick, K et al. Genome Res., DOI://10.1101/gr.244426.118 (2019)
CRISPR/Cas9-mediated Knockout and In Situ Inversion of ORF57 Gene from All Copies of The KSHV Genome in BCBL-1 Cells BeltCappellino, A; Majerciak, V; Lobanov, A; Lack, J; Cam, M; Zheng, ZM; J. Virol., DOI://10.1128/JVI.00628-19 (2019)
Kilquist syndrome: A novel syndromic hearing loss disorder caused by homozygous deletion of SLC12A2 Macnamara, EF; Koehler, AE; D'Souza, P et al. Hum. Mutat., DOI://10.1002/humu.23722 (2019)
3' Uridylation Confers miRNAs with Non-canonical Target Repertoires Yang, A; Bofill-De Ros, X; Shao, TJ et al. Mol. Cell, DOI://10.1016/j.molcel.2019.05.014 (2019)
Pilot Trial of Adoptive Transfer of Chimeric Antigen Receptor-transduced T Cells Targeting EGFRvIII in Patients With Glioblastoma Goff, SL; Morgan, RA; Yang, JC et al. J. Immunother., DOI://10.1097/CJI.0000000000000260 (2019)
Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation Bickhart, DM; Watson, M; Koren, S et al. Genome Biol., DOI://10.1186/s13059-019-1760-x (2019)
Host conditioning with IL-1β improves the antitumor function of adoptively transferred T cells Lee, PH; Yamamoto, TN; Gurusamy, D et al. J. Exp. Med., DOI://10.1084/jem.20181218 (2019)

Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome Wenger, AM; Peluso, P; Rowell, WJ et al. Nat. Biotechnol., DOI://10.1038/s41587-019-0217-9 (2019)
Transcriptome profiling of Plasmodium vivax in Saimiri monkeys identifies potential ligands for invasion Gunalan, K; Sá, JM; Moraes Barros, RR et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1818485116 (2019)
Fully automated patellofemoral MRI segmentation using holistically nested networks: Implications for evaluating patellofemoral osteoarthritis, pain, injury, pathology, and adolescent development Cheng, R; Alexandridi, NA; Smith, RM et al. Magn Reson Med, DOI://10.1002/mrm.27920 (2019)
Distinctions among real and apparent respiratory motions in human fMRI data Power, JD; Lynch, CJ; Silver, BM; Dubin, MJ; Martin, A; Jones, RM; Neuroimage, DOI://10.1016/j.neuroimage.2019.116041 (2019)
Visual temporal frequency preference shows a distinct cortical architecture using fMRI Chai, Y; Handwerker, DA; Marrett, S et al. Neuroimage, DOI://10.1016/j.neuroimage.2019.04.048 (2019)
The RNA exosome nuclease complex regulates human embryonic stem cell differentiation Belair, C; Sim, S; Kim, KY et al. J. Cell Biol., DOI://10.1083/jcb.201811148 (2019)

Neuropeptide CGRP Limits Group 2 Innate Lymphoid Cell Responses and Constrains Type 2 Inflammation Nagashima, H; Mahlakõiv, T; Shih, HY et al. Immunity, DOI://10.1016/j.immuni.2019.06.009 (2019)
GATA-2-deficient mast cells limit IgE-mediated immediate hypersensitivity reactions in human subjects Desai, A; Sowerwine, K; Liu, Y et al. J. Allergy Clin. Immunol., DOI://10.1016/j.jaci.2019.05.007 (2019)
Circulating Lymphangioleiomyomatosis Tumor Cells With Loss of Heterozygosity in the TSC2 Gene Show Increased Aldehyde Dehydrogenase Activity Pacheco-Rodríguez, G; Steagall, WK; Samsel, L et al. Chest, DOI://10.1016/j.chest.2019.03.040 (2019)
A suite of automated sequence analyses reduces the number of candidate deleterious variants and reveals a difference between probands and unaffected siblings Gu, F; Wu, A; Gordon, MG et al. Genet. Med., DOI://10.1038/s41436-019-0434-0 (2019)
Immunologic Recognition of a Shared p53 Mutated Neoantigen in a Patient with Metastatic Colorectal Cancer Lo, W; Parkhurst, M; Robbins, PF et al. Cancer Immunol Res, DOI://10.1158/2326-6066.CIR-18-0686 (2019)
Novel mutations in CLN6 cause late-infantile neuronal ceroid lipofuscinosis without visual impairment in two unrelated patients Chin, JJ; Behnam, B; Davids, M et al. Mol. Genet. Metab., DOI://10.1016/j.ymgme.2018.12.001 (2019)
Tumor-infiltrating human CD4+ regulatory T cells display a distinct TCR repertoire and exhibit tumor and neoantigen reactivity Ahmadzadeh, M; Pasetto, A; Jia, L et al. Sci Immunol, DOI://10.1126/sciimmunol.aao4310 (2019)
Exploring induced pluripotency in human fibroblasts via construction, validation, and application of a gene regulatory network Hamaneh, MB; Yu, YK; PLoS ONE, DOI://10.1371/journal.pone.0220742 (2019)
Multimodal imaging reveals a complex pattern of dysfunction in corticolimbic pathways in major depressive disorder Nugent, AC; Farmer, C; Evans, JW; Snider, SL; Banerjee, D; Zarate, CA; Hum Brain Mapp, DOI://10.1002/hbm.24679 (2019)
An insight into the sialome, mialome and virome of the horn fly, Haematobia irritans Ribeiro, JM; Debat, HJ; Boiani, M; Ures, X; Rocha, S; Breijo, M; BMC Genomics, DOI://10.1186/s12864-019-5984-7 (2019)
Analysis of somatic mutations identifies signs of selection during in vitro aging of primary dermal fibroblasts Narisu, N; Rothwell, R; Vrtačnik, P et al. Aging Cell, DOI://10.1111/acel.13010 (2019)
Structures and operating principles of the replisome Gao, Y; Cui, Y; Fox, T et al. Science, DOI://10.1126/science.aav7003 (2019)
Race-ethnic differences in the associations of maternal lipid trait genetic risk scores with longitudinal fetal growth Ouidir, M; Mendola, P; Workalemahu, T et al. J Clin Lipidol, DOI://10.1016/j.jacl.2019.06.007 (2019)
The seizure onset zone drives state-dependent epileptiform activity in susceptible brain regions Diamond, JM; Chapeton, JI; Theodore, WH; Inati, SK; Zaghloul, KA; Clin Neurophysiol, DOI://10.1016/j.clinph.2019.05.032 (2019)
Immune regulation by glucocorticoids can be linked to cell type-dependent transcriptional responses Franco, LM; Gadkari, M; Howe, KN et al. J. Exp. Med., DOI://10.1084/jem.20180595 (2019)
Subtle predictive movements reveal actions regardless of social context McMahon, EG; Zheng, CY; Pereira, F; Gonzalez, R; Ungerleider, LG; Vaziri-Pashkam, M; J Vis, DOI://10.1167/19.7.16 (2019)
The Magnitude of IFN-γ Responses Is Fine-Tuned by DNA Architecture and the Non-coding Transcript of Ifng-as1 Petermann, F; Pękowska, A; Johnson, CA et al. Mol. Cell, DOI://10.1016/j.molcel.2019.06.025 (2019)
Pseudodominance of autoinflammatory disease in a single Turkish family explained by co-inheritance of haploinsufficiency of A20 and familial Mediterranean fever Horita, N; Gül, A; Aksentijevich, I; Kastner, D; Remmers, EF; Clin. Exp. Rheumatol., 0392-856X (2019)

Engineered Bcor mutations lead to acute leukemia of progenitor B-1 lymphocyte origin in a sensitized background Yin, M; Chung, YJ; Lindsley, RC et al. Blood, DOI://10.1182/blood.2018864173 (2019)
Discovering new antiretroviral compounds in Big Data chemical space of the SAVI library Savosina, PI; Stolbov, LA; Druzhilovskiy, DS; Filimonov, DA; Nicklaus, MC; Poroikov, VV; Biomed Khim, DOI://10.18097/PBMC20196502073 (2019)
Unique Neoantigens Arise from Somatic Mutations in Patients with Gastrointestinal Cancers Parkhurst, MR; Robbins, PF; Tran, E et al. Cancer Discov, DOI://10.1158/2159-8290.CD-18-1494 (2019)
Eye in a Disk: eyeIntegration Human Pan-Eye and Body Transcriptome Database Version 1.0 Swamy, V; McGaughey, D; Invest. Ophthalmol. Vis. Sci., DOI://10.1167/iovs.19-27106 (2019)
The transcription factor TCF-1 enforces commitment to the innate lymphoid cell lineage Harly, C; Kenney, D; Ren, G et al. Nat. Immunol., DOI://10.1038/s41590-019-0445-7 (2019)
Mapping associations between polygenic risks for childhood neuropsychiatric disorders, symptoms of attention deficit hyperactivity disorder, cognition, and the brain Sudre, G; Frederick, J; Sharp, W et al. Mol. Psychiatry, DOI://10.1038/s41380-019-0350-3 (2019)

Evidence for the interaction of A3 adenosine receptor agonists at the drug-binding site (s) of Human P-glycoprotein (ABCB1) Abel, B; Tosh, DK; Durell, SR et al. Mol. Pharmacol., DOI://10.1124/mol.118.115295 (2019)
Antibody Lineages with Vaccine-Induced Antigen-Binding Hotspots Develop Broad HIV Neutralization Kong, R; Duan, H; Sheng, Z et al. Cell, DOI://10.1016/j.cell.2019.06.030 (2019)
Association Between Reduced Brain Glucose Metabolism and Cortical Thickness in Alcoholics: Evidence of Neurotoxicity Tomasi, DG; Wiers, CE; Shokri-Kojori, E et al. Int. J. Neuropsychopharmacol., DOI://10.1093/ijnp/pyz036 (2019)
Structural Survey of Broadly Neutralizing Antibodies Targeting the HIV-1 Env Trimer Delineates Epitope Categories and Characteristics of Recognition Chuang, GY; Zhou, J; Acharya, P et al. Structure, DOI://10.1016/j.str.2018.10.007 (2019)
A role for the CD38 rs3796863 polymorphism in alcohol and monetary reward: evidence from CD38 knockout mice and alcohol self-administration, [11C]-raclopride binding, and functional MRI in humans Lee, MR; Shin, JH; Deschaine, S et al. Am J Drug Alcohol Abuse, DOI://10.1080/00952990.2019.1638928 (2019)
Maternal dyslipidemia during early pregnancy and epigenetic ageing of the placenta Shrestha, D; Workalemahu, T; Tekola-Ayele, F; Epigenetics, DOI://10.1080/15592294.2019.1629234 (2019)

Spatial control of oxygen delivery to three-dimensional cultures alters cancer cell growth and gene expression Wulftange, WJ; Rose, MA; Garmendia-Cedillos, M et al. J. Cell. Physiol., DOI://10.1002/jcp.28665 (2019)
RNA-seq analysis of the salivary glands and midgut of the Argasid tick Ornithodoros rostratus Araujo, RN; Silva, NCS; Mendes-Sousa, A et al. Sci Rep, DOI://10.1038/s41598-019-42899-z (2019)
Learning deep similarity metric for 3D MR-TRUS image registration Haskins, G; Kruecker, J; Kruger, U et al. Int J Comput Assist Radiol Surg, DOI://10.1007/s11548-018-1875-7 (2019)
Blood DNA methylation and breast cancer risk: a meta-analysis of four prospective cohort studies Bodelon, C; Ambatipudi, S; Dugué, PA et al. Breast Cancer Res., DOI://10.1186/s13058-019-1145-9 (2019)
A multi-ancestry genome-wide study incorporating gene-smoking interactions identifies multiple new loci for pulse pressure and mean arterial pressure Sung, YJ; de Las Fuentes, L; Winkler, TW et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddz070 (2019)
Molecular recognition of nucleosomes by binding partners Kale, S; Goncearenco, A; Markov, Y; Landsman, D; Panchenko, AR; Curr. Opin. Struct. Biol., DOI://10.1016/j.sbi.2019.03.010 (2019)

Topoisomerase II-Induced Chromosome Breakage and Translocation Is Determined by Chromosome Architecture and Transcriptional Activity Canela, A; Maman, Y; Huang, SN et al. Mol. Cell, DOI://10.1016/j.molcel.2019.04.030 (2019)
RNA Sequencing in B-Cell Lymphomas Huang, DW; Dawood, M; Johnson, CA; Schmitz, R; Methods Mol. Biol., DOI://10.1007/978-1-4939-9151-8_13 (2019)
Meta-analysis of GWA studies provides new insights on the genetic architecture of skin pigmentation in recently admixed populations Lona-Durazo, F; Hernandez-Pacheco, N; Fan, S et al. BMC Genet., DOI://10.1186/s12863-019-0765-5 (2019)
Hair of the Dog: Identification of a Cis-Regulatory Module Predicted to Influence Canine Coat Composition Whitaker, DT; Ostrander, EA; Genes (Basel), DOI://10.3390/genes10050323 (2019)
Multi-ancestry study of blood lipid levels identifies four loci interacting with physical activity Kilpeläinen, TO; Bentley, AR; Noordam, R et al. Nat Commun, DOI://10.1038/s41467-018-08008-w (2019)
RNA-Seq and protein mass spectrometry in microdissected kidney tubules reveal signaling processes initiating lithium-induced nephrogenic diabetes insipidus Sung, CC; Chen, L; Limbutara, K et al. Kidney Int., DOI://10.1016/j.kint.2019.02.015 (2019)

Multiancestry Genome-Wide Association Study of Lipid Levels Incorporating Gene-Alcohol Interactions de Vries, PS; Brown, MR; Bentley, AR et al. Am. J. Epidemiol., DOI://10.1093/aje/kwz005 (2019)
Multi-ancestry genome-wide gene-smoking interaction study of 387,272 individuals identifies new loci associated with serum lipids Bentley, AR; Sung, YJ; Brown, MR et al. Nat. Genet., DOI://10.1038/s41588-019-0378-y (2019)
Developments in integrative modeling with dynamical interfaces Ozdemir, ES; Nussinov, R; Gursoy, A; Keskin, O; Curr. Opin. Struct. Biol., DOI://10.1016/j.sbi.2018.10.007 (2019)
Multiplicative fitness, rapid haplotype discovery, and fitness decay explain evolution of human MHC Lobkovsky, AE; Levi, L; Wolf, YI et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1714436116 (2019)
Correction: Single cell analysis of adult mouse skeletal muscle stem cells in homeostatic and regenerative conditions (doi: 10.1242/dev.174177) Dell'Orso, S; Juan, AH; Ko, KD et al. Development, DOI://10.1242/dev.181743 (2019)
Sexual dimorphisms in the transcriptomes of murine salivary glands Mukaibo, T; Gao, X; Yang, NY; Oei, MS; Nakamoto, T; Melvin, JE; FEBS Open Bio, DOI://10.1002/2211-5463.12625 (2019)

ZRANB3 is an African-specific type 2 diabetes locus associated with beta-cell mass and insulin response Adeyemo, AA; Zaghloul, NA; Chen, G et al. Nat Commun, DOI://10.1038/s41467-019-10967-7 (2019)
Structural Insights into α-Synuclein Fibril Polymorphism: Effects of Parkinson's Disease-Related C-Terminal Truncations Ni, X; McGlinchey, RP; Jiang, J; Lee, JC; J. Mol. Biol., DOI://10.1016/j.jmb.2019.07.001 (2019)
The ribosomal prolyl-hydroxylase OGFOD1 decreases during cardiac differentiation and modulates translation and splicing Stoehr, A; Kennedy, L; Yang, Y et al. JCI Insight, DOI://10.1172/jci.insight.128496 (2019)
PTM-Logo: a program for generation of sequence logos based on position-specific background amino-acid probabilities Saethang, T; Hodge, K; Yang, CR et al. Bioinformatics, DOI://10.1093/bioinformatics/btz568 (2019)
Phosphoproteomic Identification of Vasopressin V2 Receptor-Dependent Signaling in the Renal Collecting Duct Deshpande, V; Kao, AR; Raghuram, V; Datta, A; Chou, CL; Knepper, MA; Am. J. Physiol. Renal Physiol., DOI://10.1152/ajprenal.00281.2019 (2019)
Correction: Exploratory genome-wide association analysis of response to ketamine and a polygenic analysis of response to scopolamine in depression Guo, W; Machado-Vieira, R; Mathew, S et al. Transl Psychiatry, DOI://10.1038/s41398-019-0442-5 (2019)

Gata6+ Pericardial Cavity Macrophages Relocate to the Injured Heart and Prevent Cardiac Fibrosis Deniset, JF; Belke, D; Lee, WY et al. Immunity, DOI://10.1016/j.immuni.2019.06.010 (2019)
Pathogenic Autoreactive T and B Cells Cross-React with Mimotopes Expressed by a Common Human Gut Commensal to Trigger Autoimmunity Ruff, WE; Dehner, C; Kim, WJ et al. Cell Host Microbe, DOI://10.1016/j.chom.2019.05.003 (2019)
Functional interplay between DEAD-box RNA helicases Ded1 and Dbp1 in preinitiation complex attachment and scanning on structured mRNAs in vivo Sen, ND; Gupta, N; K Archer, S; Preiss, T; Lorsch, JR; Hinnebusch, AG; Nucleic Acids Res., DOI://10.1093/nar/gkz595 (2019)
Parsing neurodevelopmental features of irritability and anxiety: Replication and validation of a latent variable approach Cardinale, EM; Kircanski, K; Brooks, J et al. Dev. Psychopathol., DOI://10.1017/S095457941900035X (2019)
Chemical genomics reveals histone deacetylases are required for core regulatory transcription Gryder, BE; Wu, L; Woldemichael, GM et al. Nat Commun, DOI://10.1038/s41467-019-11046-7 (2019)
Avapritinib: A Selective Inhibitor of KIT and PDGFRα that Reverses ABCB1 and ABCG2-Mediated Multidrug Resistance in Cancer Cell Lines Wu, CP; Lusvarghi, S; Wang, JC et al. Mol. Pharm., DOI://10.1021/acs.molpharmaceut.9b00274 (2019)

BORIS expression in ovarian cancer precursor cells alters the CTCF cistrome and enhances invasiveness through GALNT14 Hillman, JC; Pugacheva, EM; Barger, CJ et al. Mol. Cancer Res., DOI://10.1158/1541-7786.MCR-19-0310 (2019)
Cancer-testis antigens as biomarkers for Merkel cell carcinoma: Pitfalls and opportunities Dasgeb, B; Mehregan, D; Ring, C; Nartker, N; Brownell, I; J. Cutan. Pathol., DOI://10.1111/cup.13528 (2019)
The KRAB-zinc-finger protein ZFP708 mediates epigenetic repression at RMER19B retrotransposons Seah, MKY; Wang, Y; Goy, PA et al. Development, DOI://10.1242/dev.170266 (2019)
Maternal Exposure to Non-nutritive Sweeteners Impacts Progeny's Metabolism and Microbiome Olivier-Van Stichelen, S; Rother, KI; Hanover, JA; Front Microbiol, DOI://10.3389/fmicb.2019.01360 (2019)
Plerixafor for the Treatment of WHIM Syndrome McDermott, DH; Pastrana, DV; Calvo, KR et al. N. Engl. J. Med., DOI://10.1056/NEJMoa1808575 (2019)
Impact of APOL1 Genetic Variants on HIV-1 Infection and Disease Progression An, P; Kirk, GD; Limou, S; Binns-Roemer, E; Kopp, JB; Winkler, CA; Front Immunol, DOI://10.3389/fimmu.2019.00053 (2019)

Amino-acid inserts of HIV-1 capsid (CA) induce CA degradation and abrogate viral infectivity: Insights for the dynamics and mechanisms of HIV-1 CA decomposition Amano, M; Bulut, H; Tamiya, S; Nakamura, T; Koh, Y; Mitsuya, H; Sci Rep, DOI://10.1038/s41598-019-46082-2 (2019)
Cholesterol-Dependent Bending Energy Is Important in Cholesterol Distribution of the Plasma Membrane Allender, DW; Sodt, AJ; Schick, M; Biophys. J., DOI://10.1016/j.bpj.2019.03.028 (2019)
Effects of Ketamine on Brain Activity During Emotional Processing: Differential Findings in Depressed Versus Healthy Control Participants Reed, JL; Nugent, AC; Furey, ML; Szczepanik, JE; Evans, JW; Zarate, CA; Biol Psychiatry Cogn Neurosci Neuroimaging, DOI://10.1016/j.bpsc.2019.01.005 (2019)
Single-cell RNA-seq reveals TOX as a key regulator of CD8+ T cell persistence in chronic infection Yao, C; Sun, HW; Lacey, NE et al. Nat. Immunol., DOI://10.1038/s41590-019-0403-4 (2019)
Novel Heterozygous Variants in KMT2D Associated with Holoprosencephaly Tekendo-Ngongang, C; Kruszka, P; Martinez, AF; Muenke, M; Clin. Genet., DOI://10.1111/cge.13598 (2019)
Deep neural network predicts emotional responses of the human brain from functional magnetic resonance imaging Kim, HC; Bandettini, PA; Lee, JH; Neuroimage, DOI://10.1016/j.neuroimage.2018.10.054 (2019)

A critical review of five machine learning-based algorithms for predicting protein stability changes upon mutation Fang, J Brief. Bioinformatics, DOI://10.1093/bib/bbz071 (2019)
A Genome-Wide Epstein-Barr Virus Polyadenylation Map and Its Antisense RNA to EBNA Majerciak, V; Yang, W; Zheng, J; Zhu, J; Zheng, ZM; J. Virol., DOI://10.1128/JVI.01593-18 (2019)
Interactions of Water and Alkanes: Modifying Additive Force Fields to Account for Polarization Effects Krämer, A; Pickard, FC; Huang, J et al. J Chem Theory Comput, DOI://10.1021/acs.jctc.9b00016 (2019)
CPF Recruitment to Non-canonical Transcription Termination Sites Triggers Heterochromatin Assembly and Gene Silencing Vo, TV; Dhakshnamoorthy, J; Larkin, M et al. Cell Rep, DOI://10.1016/j.celrep.2019.05.107 (2019)
Author Correction: Anchoring cortical granules in the cortex ensures trafficking to the plasma membrane for post-fertilization exocytosis Vogt, EJ; Tokuhiro, K; Guo, M et al. Nat Commun, DOI://10.1038/s41467-019-10935-1 (2019)
The structure-activity profile of mercaptobenzamides' anti-HIV activity suggests that thermodynamics of metabolism is more important than binding affinity to the target Nikolayevskiy, H; Robello, M; Scerba, MT et al. Eur J Med Chem, DOI://10.1016/j.ejmech.2019.06.020 (2019)

Large-scale purification of functional human P-glycoprotein (ABCB1) Nandigama, K; Lusvarghi, S; Shukla, S; Ambudkar, SV; Protein Expr. Purif., DOI://10.1016/j.pep.2019.03.002 (2019)
De novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole-genome duplication Chen, Z; Omori, Y; Koren, S et al. Sci Adv, DOI://10.1126/sciadv.aav0547 (2019)
Molecular dissection of cone photoreceptor-enriched genes encoding transmembrane and secretory proteins Papal, S; Monti, CE; Tennison, ME; Swaroop, A; J. Neurosci. Res., DOI://10.1002/jnr.24329 (2019)
Transposable element insertions in fission yeast drive adaptation to environmental stress Esnault, C; Lee, M; Ham, C; Levin, HL; Genome Res., DOI://10.1101/gr.239699.118 (2019)
The splicing factor U2AF1 contributes to cancer progression through a noncanonical role in translation regulation Palangat, M; Anastasakis, DG; Fei, DL et al. Genes Dev., DOI://10.1101/gad.319590.118 (2019)
RASA2 and NF1; two-negative regulators of Ras with complementary functions in melanoma Arafeh, R; Di Pizio, A; Elkahloun, AG; Dym, O; Niv, MY; Samuels, Y; Oncogene, DOI://10.1038/s41388-018-0578-4 (2019)
Maternal BMI-Increasing Genetic Risk Score and Fetal Weights among Diverse US Ethnic Groups Shrestha, D; Rahman, ML; Hinkle, SN; Workalemahu, T; Tekola-Ayele, F; Obesity (Silver Spring), DOI://10.1002/oby.22499 (2019)
Author Correction: Retinal transcriptome and eQTL analyses identify genes associated with age-related macular degeneration Ratnapriya, R; Sosina, OA; Starostik, MR et al. Nat. Genet., DOI://10.1038/s41588-019-0430-y (2019)
Molecular mechanisms of human P2X3 receptor channel activation and modulation by divalent cation bound ATP Li, M; Wang, Y; Banerjee, R et al. Elife, DOI://10.7554/eLife.47060 (2019)
Induced Chromosomal Aneuploidy Results in Global and Consistent Deregulation of the Transcriptome of Cancer Cells Wangsa, D; Braun, R; Stuelten, CH et al. Neoplasia, DOI://10.1016/j.neo.2019.04.009 (2019)
Sodium valproate rescues expression of TRANK1 in iPSC-derived neural cells that carry a genetic variant associated with serious mental illness Jiang, X; Detera-Wadleigh, SD; Akula, N et al. Mol. Psychiatry, DOI://10.1038/s41380-018-0207-1 (2019)
Deep learning-based muscle segmentation and quantification at abdominal CT: application to a longitudinal adult screening cohort for sarcopenia assessment Graffy, PM; Liu, J; Pickhardt, PJ; Burns, JE; Yao, J; Summers, RM; Br J Radiol, DOI://10.1259/bjr.20190327 (2019)

A parameterized digital 3D model of the Rhesus macaque face for investigating the visual processing of social cues Murphy, AP; Leopold, DA; J. Neurosci. Methods, DOI://10.1016/j.jneumeth.2019.06.001 (2019)
Association of Step Volume and Intensity With All-Cause Mortality in Older Women Lee, IM; Shiroma, EJ; Kamada, M; Bassett, DR; Matthews, CE; Buring, JE; JAMA Intern Med, DOI://10.1001/jamainternmed.2019.0899 (2019)
Small posterior fossa in Chiari I malformation affected families is significantly linked to 1q43-44 and 12q23-24.11 using whole exome sequencing Musolf, AM; Ho, WSC; Long, KA et al. Eur. J. Hum. Genet., DOI://10.1038/s41431-019-0457-7 (2019)
Effects of Calcium, Magnesium, and Potassium Concentrations on Ventricular Repolarization in Unselected Individuals Noordam, R; Young, WJ; Salman, R et al. J. Am. Coll. Cardiol., DOI://10.1016/j.jacc.2019.03.519 (2019)
The Impact of Anthelmintic Treatment on Human Gut Microbiota Based on Cross-Sectional and Pre- and Postdeworming Comparisons in Western Kenya Easton, AV; Quiñones, M; Vujkovic-Cvijin, I et al. MBio, DOI://10.1128/mBio.00519-19 (2019)
Novel Inter-omic Analysis Reveals Relationships Between Diverse Gut Microbiota and Host Immune Dysregulation in HLA-B27-Induced Experimental Spondyloarthritis Gill, T; Brooks, SR; Rosenbaum, JT; Asquith, M; Colbert, RA; , DOI://10.1002/art.41018 (2019)

Agouti-Related Protein 2 Is a New Player in the Teleost Stress Response System Shainer, I; Michel, M; Marquart, GD et al. Curr. Biol., DOI://10.1016/j.cub.2019.05.021 (2019)
Aberrant expression of select piRNA-pathway genes does not reactivate piRNA silencing in cancer cells Genzor, P; Cordts, SC; Bokil, NV; Haase, AD; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1904498116 (2019)
Disordered RNA chaperones can enhance nucleic acid folding via local charge screening Holmstrom, ED; Liu, Z; Nettels, D; Best, RB; Schuler, B; Nat Commun, DOI://10.1038/s41467-019-10356-0 (2019)
Long-Range RNA Structural Information via a Paramagnetically Tagged Reporter Protein Strickland, M; Catazaro, J; Rajasekaran, R et al. J. Am. Chem. Soc., DOI://10.1021/jacs.8b11384 (2019)
Lysosomal Storage and Albinism Due to Effects of a De Novo CLCN7 Variant on Lysosomal Acidification Nicoli, ER; Weston, MR; Hackbarth, M et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2019.04.008 (2019)
Aicardi-Goutières syndrome gene Rnaseh2c is a metastasis susceptibility gene in breast cancer Deasy, SK; Uehara, R; Vodnala, SK et al. PLoS Genet., DOI://10.1371/journal.pgen.1008020 (2019)

One-carbon metabolism gene polymorphisms are associated with cognitive trajectory among African-American adults Beydoun, MA; Tajuddin, SM; Shaked, D; Beydoun, HA; Evans, MK; Zonderman, AB; Neurobiol. Aging, DOI://10.1016/j.neurobiolaging.2019.05.013 (2019)
Structural Basis of p97 Inhibition by the Site-Selective Anticancer Compound CB-5083 Tang, WK; Odzorig, T; Jin, W; Xia, D; Mol. Pharmacol., DOI://10.1124/mol.118.114256 (2019)
Fully automated prostate whole gland and central gland segmentation on MRI using holistically nested networks with short connections Cheng, R; Lay, N; Roth, HR et al. J Med Imaging (Bellingham), DOI://10.1117/1.JMI.6.2.024007 (2019)
Correlation between Disease Severity and the Intestinal Microbiome in Mycobacterium tuberculosis-Infected Rhesus Macaques Namasivayam, S; Kauffman, KD; McCulloch, JA et al. MBio, DOI://10.1128/mBio.01018-19 (2019)
Smartphone Level Test Measures Disability in Several Neurological Domains for Patients With Multiple Sclerosis Boukhvalova, AK; Fan, O; Weideman, AM et al. Front Neurol, DOI://10.3389/fneur.2019.00358 (2019)
Integrating multiple biomarkers to increase sensitivity for the detection of Onchocerca volvulus infection Bennuru, S; Oduro-Boateng, G; Osigwe, C et al. J. Infect. Dis., DOI://10.1093/infdis/jiz307 (2019)
Neutrophil Subsets, Platelets, and Vascular Disease in Psoriasis Teague, HL; Varghese, NJ; Tsoi, LC et al. JACC Basic Transl Sci, DOI://10.1016/j.jacbts.2018.10.008 (2019)
Efficacy of different dynamic functional connectivity methods to capture cognitively relevant information Xie, H; Zheng, CY; Handwerker, DA et al. Neuroimage, DOI://10.1016/j.neuroimage.2018.12.037 (2019)
TPMCalculator: one-step software to quantify mRNA abundance of genomic features Vera Alvarez, R; Pongor, LS; Mariño-Ramírez, L; Landsman, D; Bioinformatics, DOI://10.1093/bioinformatics/bty896 (2019)
The structural basis for Ras activation of PI3Kα lipid kinase Zhang, M; Jang, H; Nussinov, R; Phys Chem Chem Phys, DOI://10.1039/c9cp00101h (2019)
A chromosome-scale assembly of the major African malaria vector Anopheles funestus Ghurye, J; Koren, S; Small, ST et al. Gigascience, DOI://10.1093/gigascience/giz063 (2019)
Extensive Heterogeneity and Intrinsic Variation in Spatial Genome Organization Finn, EH; Pegoraro, G; Brandão, HB et al. Cell, DOI://10.1016/j.cell.2019.01.020 (2019)

Methylphenidate's effects on thalamic metabolism and functional connectivity in cannabis abusers and healthy controls Demiral, ŞB; Tomasi, D; Wiers, CE et al. Neuropsychopharmacology, DOI://10.1038/s41386-018-0287-2 (2019)
Neighbourhood disadvantage and depressive symptoms among adolescents followed into emerging adulthood Goldstein, RB; Lee, AK; Haynie, DL et al. J Epidemiol Community Health, DOI://10.1136/jech-2018-212004 (2019)
Symmetry transitions during gating of the TRPV2 ion channel in lipid membranes Zubcevic, L; Hsu, AL; Borgnia, MJ; Lee, SY; Elife, DOI://10.7554/eLife.45779 (2019)
Methods for Discovering and Targeting Druggable Protein-Protein Interfaces and Their Application to Repurposing Ozdemir, ES; Halakou, F; Nussinov, R; Gursoy, A; Keskin, O; Methods Mol. Biol., DOI://10.1007/978-1-4939-8955-3_1 (2019)
The transcription factor CBFB suppresses breast cancer through orchestrating translation and transcription Malik, N; Yan, H; Moshkovich, N et al. Nat Commun, DOI://10.1038/s41467-019-10102-6 (2019)
Remarkable Rigidity of the Single α-Helical Domain of Myosin-VI As Revealed by NMR Spectroscopy Barnes, CA; Shen, Y; Ying, J et al. J. Am. Chem. Soc., DOI://10.1021/jacs.9b03116 (2019)

An integrative Bayesian approach to matrix-based analysis in neuroimaging Chen, G; Bürkner, PC; Taylor, PA et al. Hum Brain Mapp, DOI://10.1002/hbm.24686 (2019)
Crystal Structure of Bacterial Cytochrome bc1 in Complex with Azoxystrobin Reveals a Conformation Switch of the Rieske Iron-Sulfur Protein Subunit Esser, L; Zhou, F; Yu, CA; Xia, D; J. Biol. Chem., DOI://10.1074/jbc.RA119.008381 (2019)
Aberrant Clonal Hematopoiesis following Lentiviral Vector Transduction of HSPCs in a Rhesus Macaque Espinoza, DA; Fan, X; Yang, D et al. Mol. Ther., DOI://10.1016/j.ymthe.2019.04.003 (2019)
Mechanisms of Calcium Leak from Cardiac Sarcoplasmic Reticulum Revealed by Statistical Mechanics Maltsev, AV; Stern, MD; Maltsev, VA; Biophys. J., DOI://10.1016/j.bpj.2019.04.031 (2019)
REC114 Partner ANKRD31 Controls Number, Timing, and Location of Meiotic DNA Breaks Boekhout, M; Karasu, ME; Wang, J et al. Mol. Cell, DOI://10.1016/j.molcel.2019.03.023 (2019)
Mucosal vaccine efficacy against intrarectal SHIV is independent of anti-Env antibody response Sui, Y; Lewis, GK; Wang, Y et al. J. Clin. Invest., DOI://10.1172/JCI122110 (2019)

Layer-specific activation of sensory input and predictive feedback in the human primary somatosensory cortex Yu, Y; Huber, L; Yang, J et al. Sci Adv, DOI://10.1126/sciadv.aav9053 (2019)
Opportunistic Osteoporosis Screening at Routine Abdominal and Thoracic CT: Normative L1 Trabecular Attenuation Values in More than 20 000 Adults Jang, S; Graffy, PM; Ziemlewicz, TJ; Lee, SJ; Summers, RM; Pickhardt, PJ; Radiology, DOI://10.1148/radiol.2019181648 (2019)
Regulatory switch at the cytoplasmic interface controls TRPV channel gating Zubcevic, L; Borschel, WF; Hsu, AL; Borgnia, MJ; Lee, SY; Elife, DOI://10.7554/eLife.47746 (2019)
Biallelic HEPHL1 variants impair ferroxidase activity and cause an abnormal hair phenotype Sharma, P; Reichert, M; Lu, Y et al. PLoS Genet., DOI://10.1371/journal.pgen.1008143 (2019)
Heterogeneity in refractory acute myeloid leukemia Horibata, S; Gui, G; Lack, J; DeStefano, CB; Gottesman, MM; Hourigan, CS; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1902375116 (2019)
The relapsing fever spirochete Borrelia turicatae persists in the highly oxidative environment of its soft-bodied tick vector Bourret, TJ; Boyle, WK; Zalud, AK; Valenzuela, JG; Oliveira, F; Lopez, JE; Cell. Microbiol., DOI://10.1111/cmi.12987 (2019)

The skin transcriptome in hidradenitis suppurativa uncovers an antimicrobial and sweat gland gene signature which has distinct overlap with wounded skin Coates, M; Mariottoni, P; Corcoran, DL et al. PLoS ONE, DOI://10.1371/journal.pone.0216249 (2019)
Atomic resolution cryo-EM structure of a native-like CENP-A nucleosome aided by an antibody fragment Zhou, BR; Yadav, KNS; Borgnia, M et al. Nat Commun, DOI://10.1038/s41467-019-10247-4 (2019)
A Suite of Therapeutically-Inspired Nucleic Acid Logic Systems for Conditional Generation of Single-Stranded and Double-Stranded Oligonucleotides Zakrevsky, P; Bindewald, E; Humbertson, H; Viard, M; Dorjsuren, N; Shapiro, BA; Nanomaterials (Basel), DOI://10.3390/nano9040615 (2019)
XL-DNase-seq: improved footprinting of dynamic transcription factors Oh, KS; Ha, J; Baek, S; Sung, MH; Epigenetics Chromatin, DOI://10.1186/s13072-019-0277-6 (2019)
Potential Regulatory Role of Competitive Encounter Complexes in Paralogous Phosphotransferase Systems Strickland, M; Kale, S; Strub, MP et al. J. Mol. Biol., DOI://10.1016/j.jmb.2019.04.040 (2019)
Apparent diffusion coefficient changes in human brain during sleep - Does it inform on the existence of a glymphatic system Demiral, ŞB; Tomasi, D; Sarlls, J et al. Neuroimage, DOI://10.1016/j.neuroimage.2018.10.043 (2019)

Homeostatic Control of Sebaceous Glands by Innate Lymphoid Cells Regulates Commensal Bacteria Equilibrium Kobayashi, T; Voisin, B; Kim, DY et al. Cell, DOI://10.1016/j.cell.2018.12.031 (2019)
Artificial intelligence at the intersection of pathology and radiology in prostate cancer Harmon, SA; Tuncer, S; Sanford, T; Choyke, PL; Türkbey, B; Diagn Interv Radiol, DOI://10.5152/dir.2019.19125 (2019)
Neocortical Projection Neurons Instruct Inhibitory Interneuron Circuit Development in a Lineage-Dependent Manner Wester, JC; Mahadevan, V; Rhodes, CT et al. Neuron, DOI://10.1016/j.neuron.2019.03.036 (2019)
The oral microbiome of patients undergoing treatment for severe aplastic anemia: a pilot study Ames, NJ; Barb, JJ; Ranucci, A et al. Ann. Hematol., DOI://10.1007/s00277-019-03599-w (2019)
eNetXplorer: an R package for the quantitative exploration of elastic net families for generalized linear models Candia, J; Tsang, JS; BMC Bioinformatics, DOI://10.1186/s12859-019-2778-5 (2019)
Nucleosome spacing periodically modulates nucleosome chain folding and DNA topology in circular nucleosome arrays Bass, MV; Nikitina, T; Norouzi, D; Zhurkin, VB; Grigoryev, SA; J. Biol. Chem., DOI://10.1074/jbc.RA118.006412 (2019)
The Transcriptome of the Salivary Glands of Amblyomma aureolatum Reveals the Antimicrobial Peptide Microplusin as an Important Factor for the Tick Protection Against Rickettsia rickettsii Infection Martins, LA; Malossi, CD; Galletti, MFBM et al. Front Physiol, DOI://10.3389/fphys.2019.00529 (2019)
TFE3 Xp11.2 Translocation Renal Cell Carcinoma Mouse Model Reveals Novel Therapeutic Targets and Identifies GPNMB as a Diagnostic Marker for Human Disease Baba, M; Furuya, M; Motoshima, T et al. Mol. Cancer Res., DOI://10.1158/1541-7786.MCR-18-1235 (2019)
Whole-Genome Sequences of Salmonella enterica Serovar I 4,[5],12:i:- Isolates from Swine Gonzalez, S; Harvey, RB; Scott, HM et al. Microbiol Resour Announc, DOI://10.1128/MRA.00223-19 (2019)
A Frizzled-Like Cysteine-Rich Domain in Glypican-3 Mediates Wnt Binding and Regulates Hepatocellular Carcinoma Tumor Growth in Mice Li, N; Wei, L; Liu, X et al. Hepatology, DOI://10.1002/hep.30646 (2019)
Maternal and Offspring Genetic Risk of Type 2 Diabetes and Offspring Birthweight Among African Ancestry Populations Rahman, ML; Shrestha, D; Workalemahu, T et al. J. Clin. Endocrinol. Metab., DOI://10.1210/jc.2018-02756 (2019)
Equitable Thresholding and Clustering (ETAC): A novel method for FMRI clustering in AFNI Cox, RW Brain Connect, DOI://10.1089/brain.2019.0666 (2019)
Evaluating corrections for Eddy-currents and other EPI distortions in diffusion MRI: methodology and a dataset for benchmarking Irfanoglu, MO; Sarlls, J; Nayak, A; Pierpaoli, C; Magn Reson Med, DOI://10.1002/mrm.27577 (2019)
Banana (Musa acuminata) transcriptome profiling in response to rhizobacteria: Bacillus amyloliquefaciens Bs006 and Pseudomonas fluorescens Ps006 Gamez, RM; Rodríguez, F; Vidal, NM et al. BMC Genomics, DOI://10.1186/s12864-019-5763-5 (2019)
Data-driven inference of hidden nodes in networks Hoang, DT; Jo, J; Periwal, V; Phys Rev E, DOI://10.1103/PhysRevE.99.042114 (2019)
Identifying Small Proteins by Ribosome Profiling with Stalled Initiation Complexes Weaver, J; Mohammad, F; Buskirk, AR; Storz, G; MBio, DOI://10.1128/mBio.02819-18 (2019)
Epigenetic regulation of REX1 expression and chromatin binding specificity by HMGNs Zhang, S; Deng, T; Tang, W et al. Nucleic Acids Res., DOI://10.1093/nar/gkz161 (2019)
Early-childhood social reticence predicts SCR-BOLD coupling during fear extinction recall in preadolescent youth Michalska, KJ; Feldman, JS; Ivie, EJ et al. Dev Cogn Neurosci, DOI://10.1016/j.dcn.2018.12.003 (2019)

miR-155 harnesses Phf19 to potentiate cancer immunotherapy through epigenetic reprogramming of CD8+ T cell fate Ji, Y; Fioravanti, J; Zhu, W et al. Nat Commun, DOI://10.1038/s41467-019-09882-8 (2019)
Physical Activity Patterns and Mortality: The Weekend Warrior and Activity Bouts Shiroma, EJ; Lee, IM; Schepps, MA; Kamada, M; Harris, TB; Med Sci Sports Exerc, DOI://10.1249/MSS.0000000000001762 (2019)
Defective IgA response to atypical intestinal commensals in IL-21 receptor deficiency reshapes immune cell homeostasis and mucosal immunity Cho, H; Jaime, H; de Oliveira, RP et al. Mucosal Immunol, DOI://10.1038/s41385-018-0056-x (2019)
Heritability and genetic variance of dementia with Lewy bodies Guerreiro, R; Escott-Price, V; Hernandez, DG et al. Neurobiol. Dis., DOI://10.1016/j.nbd.2019.04.004 (2019)
Differential Brain Mechanisms of Selection and Maintenance of Information during Working Memory Quentin, R; King, JR; Sallard, E et al. J. Neurosci., DOI://10.1523/JNEUROSCI.2764-18.2019 (2019)
High dimensional mediation analysis with latent variables Derkach, A; Pfeiffer, RM; Chen, TH; Sampson, JN; Biometrics, DOI://10.1111/biom.13053 (2019)

Consistent elicitation of cross-clade HIV-neutralizing responses achieved in guinea pigs after fusion peptide priming by repetitive envelope trimer boosting Cheng, C; Xu, K; Kong, R et al. PLoS ONE, DOI://10.1371/journal.pone.0215163 (2019)
Integrated Genomic and Functional microRNA Analysis Identifies miR-30-5p as a Tumor Suppressor and Potential Therapeutic Nanomedicine in Head and Neck Cancer Saleh, AD; Cheng, H; Martin, SE et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-0716 (2019)
Computation-guided analysis of paroxetine binding to hSERT reveals functionally important structural elements and dynamics Abramyan, AM; Slack, RD; Meena, S et al. Neuropharmacology, DOI://10.1016/j.neuropharm.2018.10.040 (2019)
Frontal alpha asymmetry moderates the relations between behavioral inhibition and social-effect ERN Harrewijn, A; Buzzell, GA; Debnath, R; Leibenluft, E; Pine, DS; Fox, NA; Biol Psychol, DOI://10.1016/j.biopsycho.2018.12.014 (2019)
Characterization of the Phosphorylation Site of GRTH/DDX25 and Protein Kinase A Binding Interface Provides Structural Basis for the Design of a Non-Hormonal Male Contraceptive Raju, M; Hassan, SA; Kavarthapu, R; Anbazhagan, R; Dufau, ML; Sci Rep, DOI://10.1038/s41598-019-42857-9 (2019)
Identification of Neoantigen-Reactive Tumor-Infiltrating Lymphocytes in Primary Bladder Cancer Leko, V; McDuffie, LA; Zheng, Z et al. J. Immunol., DOI://10.4049/jimmunol.1801022 (2019)
Assessing the Role of 98 Established Loci for BMI in American Indians Muller, YL; Hanson, RL; Piaggi, P et al. Obesity (Silver Spring), DOI://10.1002/oby.22433 (2019)
A Rapid Form of Offline Consolidation in Skill Learning Bönstrup, M; Iturrate, I; Thompson, R; Cruciani, G; Censor, N; Cohen, LG; Curr. Biol., DOI://10.1016/j.cub.2019.02.049 (2019)
Whole genome sequencing of canids reveals genomic regions under selection and variants influencing morphology Plassais, J; Kim, J; Davis, BW et al. Nat Commun, DOI://10.1038/s41467-019-09373-w (2019)
Molecular constraints on CDR3 for thymic selection of MHC-restricted TCRs from a random pre-selection repertoire Lu, J; Van Laethem, F; Bhattacharya, A et al. Nat Commun, DOI://10.1038/s41467-019-08906-7 (2019)
An African-specific haplotype in MRGPRX4 is associated with menthol cigarette smoking Kozlitina, J; Risso, D; Lansu, K et al. PLoS Genet., DOI://10.1371/journal.pgen.1007916 (2019)
Evolution of All-Atom Protein Force Fields to Improve Local and Global Properties Zerze, GH; Zheng, W; Best, RB; Mittal, J; J Phys Chem Lett, DOI://10.1021/acs.jpclett.9b00850 (2019)

The mechanism of PI3Kα activation at the atomic level Zhang, M; Jang, H; Nussinov, R; Chem Sci, DOI://10.1039/c8sc04498h (2019)
Design and in Vivo Characterization of A1 Adenosine Receptor Agonists in the Native Ribose and Conformationally Constrained (N)-Methanocarba Series Tosh, DK; Rao, H; Bitant, A et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.8b01662 (2019)
Association Between Childhood Anhedonia and Alterations in Large-Scale Resting-State Networks and Task-Evoked Activation Pornpattananangkul, N; Leibenluft, E; Pine, DS; Stringaris, A; JAMA Psychiatry, DOI://10.1001/jamapsychiatry.2019.0020 (2019)
SOX2 Epidermal Overexpression Promotes Cutaneous Wound Healing via Activation of EGFR/MEK/ERK Signaling Mediated by EGFR Ligands Uchiyama, A; Nayak, S; Graf, R et al. J. Invest. Dermatol., DOI://10.1016/j.jid.2019.02.004 (2019)
APOBEC Mutagenesis and Copy-Number Alterations Are Drivers of Proteogenomic Tumor Evolution and Heterogeneity in Metastatic Thoracic Tumors Roper, N; Gao, S; Maity, TK et al. Cell Rep, DOI://10.1016/j.celrep.2019.02.028 (2019)
Cases from the Undiagnosed Diseases Network: The continued value of counseling skills in a new genomic era Macnamara, EF; Schoch, K; Kelley, EG et al. J Genet Couns, DOI://10.1002/jgc4.1091 (2019)

Automated segmentation and quantification of aortic calcification at abdominal CT: application of a deep learning-based algorithm to a longitudinal screening cohort Graffy, PM; Liu, J; O'Connor, S; Summers, RM; Pickhardt, PJ; Abdom Radiol (NY), DOI://10.1007/s00261-019-02014-2 (2019)
Improvement of antibody functionality by structure-guided paratope engraftment Liu, Q; Lai, YT; Zhang, P et al. Nat Commun, DOI://10.1038/s41467-019-08658-4 (2019)
A Tail-Based Mechanism Drives Nucleosome Demethylation by the LSD2/NPAC Multimeric Complex Marabelli, C; Marrocco, B; Pilotto, S et al. Cell Rep, DOI://10.1016/j.celrep.2019.03.061 (2019)
Halogen bond interactions of novel HIV-1 protease inhibitors (PI)(GRL-001-15 and GRL-003-15) with the flap of protease are critical for their potent activity against wild-type and multi-PI-resistant HIV-1 variants Hattori, SI; Hayashi, H; Bulut, H et al. Antimicrob. Agents Chemother., DOI://10.1128/AAC.02635-18 (2019)
Local unfolding of the HSP27 monomer regulates chaperone activity Alderson, TR; Roche, J; Gastall, HY et al. Nat Commun, DOI://10.1038/s41467-019-08557-8 (2019)
Cryo-EM structure of the essential ribosome assembly AAA-ATPase Rix7 Lo, YH; Sobhany, M; Hsu, AL et al. Nat Commun, DOI://10.1038/s41467-019-08373-0 (2019)
Absolute risks of cervical precancer among women who fulfill exiting guidelines based on HPV and cytology cotesting Landy, R; Schiffman, M; Sasieni, PD et al. Int. J. Cancer, DOI://10.1002/ijc.32268 (2019)
Decoding the 5' nucleotide bias of PIWI-interacting RNAs Stein, CB; Genzor, P; Mitra, S et al. Nat Commun, DOI://10.1038/s41467-019-08803-z (2019)
Parkinson's disease age at onset genome-wide association study: Defining heritability, genetic loci, and α-synuclein mechanisms Blauwendraat, C; Heilbron, K; Vallerga, CL et al. Mov. Disord., DOI://10.1002/mds.27659 (2019)
Inference for case-control studies with incident and prevalent cases Maziarz, M; Liu, Y; Qin, J; Pfeiffer, RM; Biometrics, DOI://10.1111/biom.13023 (2019)
Human Influenza A Virus Hemagglutinin Glycan Evolution Follows a Temporal Pattern to a Glycan Limit Altman, MO; Angel, M; Košík, I et al. MBio, DOI://10.1128/mBio.00204-19 (2019)
Network inference in stochastic systems from neurons to currencies: Improved performance at small sample size Hoang, DT; Song, J; Periwal, V; Jo, J; Phys Rev E, DOI://10.1103/PhysRevE.99.023311 (2019)

Shared genetic underpinnings of childhood obesity and adult cardiometabolic diseases Tekola-Ayele, F; Lee, A; Workalemahu, T; Sánchez-Pozos, K; Hum. Genomics, DOI://10.1186/s40246-019-0202-x (2019)
Human-Origin Influenza A (H3N2) Reassortant Viruses in Swine, Southeast Mexico Nelson, MI; Souza, CK; Trovão, NS et al. Emerging Infect. Dis., DOI://10.3201/eid2504.180779 (2019)
Posture-dependent dose coefficients of mesh-type ICRP reference computational phantoms for photon external exposures Yeom, YS; Han, H; Choi, C et al. Phys Med Biol, DOI://10.1088/1361-6560/ab0917 (2019)
Revisiting Volumes of Lipid Components in Bilayers Nagle, JF; Venable, RM; Maroclo-Kemmerling, E; Tristram-Nagle, S; Harper, PE; Pastor, RW; J Phys Chem B, DOI://10.1021/acs.jpcb.8b12010 (2019)
Synaptic potentiation and rapid antidepressant response to ketamine in treatment-resistant major depression: A replication study Nugent, AC; Wills, KE; Gilbert, JR; Zarate, CA; Psychiatry Res Neuroimaging, DOI://10.1016/j.pscychresns.2018.09.001 (2019)
Biophysical mechanisms in the mammalian respiratory oscillator re-examined with a new data-driven computational model Phillips, RS; John, TT; Koizumi, H; Molkov, YI; Smith, JC; Elife, DOI://10.7554/eLife.41555 (2019)

A Bayesian hierarchical logistic regression model of multiple informant family health histories Lin, J; Myers, MF; Koehly, LM; Marcum, CS; BMC Med Res Methodol, DOI://10.1186/s12874-019-0700-5 (2019)
Automated Computational Detection, Quantitation, and Mapping of Mitosis in Whole-Slide Images for Clinically Actionable Surgical Pathology Decision Support Puri, M; Hoover, SB; Hewitt, SM et al. J Pathol Inform, DOI://10.4103/jpi.jpi_59_18 (2019)
Control and Regulation of Substrate Selection in Cytoplasmic and Mitochondrial Catabolic Networks. A Systems Biology Analysis Cortassa, S; Aon, MA; Sollott, SJ; Front Physiol, DOI://10.3389/fphys.2019.00201 (2019)
Contrasting roles of the RSC and ISW1/CHD1 chromatin remodelers in RNA polymerase II elongation and termination Ocampo, J; Chereji, RV; Eriksson, PR; Clark, DJ; Genome Res., DOI://10.1101/gr.242032.118 (2019)
The zinc-finger protein CLAMP promotes gypsy chromatin insulator function in Drosophila Bag, I; Dale, RK; Palmer, C; Lei, EP; J. Cell. Sci., DOI://10.1242/jcs.226092 (2019)
Brain Mechanisms of Attention Orienting Following Frustration: Associations With Irritability and Age in Youths Tseng, WL; Deveney, CM; Stoddard, J et al. Am J Psychiatry, DOI://10.1176/appi.ajp.2018.18040491 (2019)

Single-cell chromatin immunocleavage sequencing (scChIC-seq) to profile histone modification Ku, WL; Nakamura, K; Gao, W et al. Nat. Methods, DOI://10.1038/s41592-019-0361-7 (2019)
Rapid and reversible suppression of ALT by DAXX in osteosarcoma cells Yost, KE; Clatterbuck Soper, SF; Walker, RL et al. Sci Rep, DOI://10.1038/s41598-019-41058-8 (2019)
Subset testing and analysis of multiple phenotypes Derkach, A; Pfeiffer, RM; Genet. Epidemiol., DOI://10.1002/gepi.22199 (2019)
CMCdG, a Novel Nucleoside Analog with Favorable Safety Features, Exerts Potent Activity against Wild-Type and Entecavir-Resistant Hepatitis B Virus Higashi-Kuwata, N; Hayashi, S; Das, D et al. Antimicrob. Agents Chemother., DOI://10.1128/AAC.02143-18 (2019)
Semi-Automated 3D Segmentation of Human Skeletal Muscle Using Focused Ion Beam-Scanning Electron Microscopic Images Caffrey, B; Maltsev, AV; Gonzalez-Freire, M; Hartnell, LM; Ferrucci, L; Subramaniam, S; J. Struct. Biol., DOI://10.1016/j.jsb.2019.03.008 (2019)
Representation and relative abundance of cell-type selective markers in whole-kidney RNA-Seq data Clark, JZ; Chen, L; Chou, CL; Jung, HJ; Lee, JW; Knepper, MA; Kidney Int., DOI://10.1016/j.kint.2018.11.028 (2019)

Activity and structural analysis of GRL-117C: a novel small molecule CCR5 inhibitor active against R5-tropic HIV-1s Nakata, H; Maeda, K; Das, D et al. Sci Rep, DOI://10.1038/s41598-019-41080-w (2019)
Inactivating Mutation in IRF8 Promotes Osteoclast Transcriptional Programs and Increases Susceptibility to Tooth Root Resorption Thumbigere-Math, V; Foster, BL; Bachu, M et al. J. Bone Miner. Res., DOI://10.1002/jbmr.3690 (2019)
S Values for neuroimaging procedures on Korean pediatric and adult head computational phantoms Villoing, D; Lee, AK; Choi, HD; Lee, C; Radiat Prot Dosimetry, DOI://10.1093/rpd/ncy287 (2019)
Population-based opportunistic osteoporosis screening: Validation of a fully automated CT tool for assessing longitudinal BMD changes Pickhardt, PJ; Lee, SJ; Liu, J et al. Br J Radiol, DOI://10.1259/bjr.20180726 (2019)
Genetic overlap between birthweight and adult cardiometabolic diseases has implications for genomic medicine Tekola-Ayele, F; Lee, A; Workalemahu, T et al. Sci Rep, DOI://10.1038/s41598-019-40834-w (2019)
Accounting for random observation time in risk prediction with longitudinal markers: An imputation approach Han, Y; Liu, D; Stat Methods Med Res, DOI://10.1177/0962280219833089 (2019)

Genomic deletions upstream of lamin B1 lead to atypical autosomal dominant leukodystrophy Nmezi, B; Giorgio, E; Raininko, R et al. Neurol Genet, DOI://10.1212/NXG.0000000000000305 (2019)
NELFE-Dependent MYC Signature Identifies a Unique Cancer Subtype in Hepatocellular Carcinoma Dang, H; Pomyen, Y; Martin, SP et al. Sci Rep, DOI://10.1038/s41598-019-39727-9 (2019)
Synthesis and evaluation of two new candidate high-affinity full agonist PET radioligands for imaging 5-HT1B receptors Lindberg, A; Lu, S; Nag, S et al. Nucl. Med. Biol., DOI://10.1016/j.nucmedbio.2019.01.005 (2019)
An insight into the sialotranscriptome and virome of Amazonian anophelines Scarpassa, VM; Debat, HJ; Alencar, RB et al. BMC Genomics, DOI://10.1186/s12864-019-5545-0 (2019)
Phosphorylation Changes in Response to Kinase Inhibitor H89 in PKA-Null Cells Limbutara, K; Kelleher, A; Yang, CR; Raghuram, V; Knepper, MA; Sci Rep, DOI://10.1038/s41598-019-39116-2 (2019)
Structural Basis for Recognition of Ubiquitylated Nucleosome by Dot1L Methyltransferase Anderson, CJ; Baird, MR; Hsu, A et al. Cell Rep, DOI://10.1016/j.celrep.2019.01.058 (2019)
DiscoverSL: an R package for multi-omic data driven prediction of synthetic lethality in cancers Das, S; Deng, X; Camphausen, K; Shankavaram, U; Bioinformatics, DOI://10.1093/bioinformatics/bty673 (2019)
Genetic and lifestyle risk factors for MRI-defined brain infarcts in a population-based setting Chauhan, G; Adams, HHH; Satizabal, CL et al. Neurology, DOI://10.1212/WNL.0000000000006851 (2019)
Isothermal Titration Calorimetry of Be2+ with Phosphatidylserine Models Guides All-Atom Force-Field Development for LipidIon Interactions Leonard, AN; Klauda, JB; Sukharev, S; J Phys Chem B, DOI://10.1021/acs.jpcb.8b11884 (2019)
The transcription factor c-Myb regulates CD8+ T cell stemness and antitumor immunity Gautam, S; Fioravanti, J; Zhu, W et al. Nat. Immunol., DOI://10.1038/s41590-018-0311-z (2019)
Dosimetric Impact of a New Computational Voxel Phantom Series for the Japanese Atomic Bomb Survivors: Children and Adults Griffin, K; Paulbeck, C; Bolch, W et al. Radiat. Res., DOI://10.1667/RR15267.1 (2019)
Nanovesicles Versus Nanoparticle-Supported Lipid Bilayers: Massive Differences in Bilayer Structures and in Diffusivities of Lipid Molecules and Nanoconfined Water Jing, H; Wang, Y; Desai, PR; Ramamurthi, KS; Das, S; Langmuir, DOI://10.1021/acs.langmuir.8b03805 (2019)
ComPaSS-GWAS: A method to reduce type I error in genome-wide association studies when replication data are not available Sabourin, JA; Cropp, CD; Sung, H; Brody, LC; Bailey-Wilson, JE; Wilson, AF; Genet. Epidemiol., DOI://10.1002/gepi.22168 (2019)
Mosaic nanoparticle display of diverse influenza virus hemagglutinins elicits broad B cell responses Kanekiyo, M; Joyce, MG; Gillespie, RA et al. Nat. Immunol., DOI://10.1038/s41590-018-0305-x (2019)
Spatial Attention Deficits Are Causally Linked to an Area in Macaque Temporal Cortex Bogadhi, AR; Bollimunta, A; Leopold, DA; Krauzlis, RJ; Curr. Biol., DOI://10.1016/j.cub.2019.01.028 (2019)
Memory T cells targeting oncogenic mutations detected in peripheral blood of epithelial cancer patients Cafri, G; Yossef, R; Pasetto, A et al. Nat Commun, DOI://10.1038/s41467-019-08304-z (2019)
Gustatory responses in macaque monkeys revealed with fMRI: Comments on taste, taste preference, and internal state Kaskan, PM; Dean, AM; Nicholas, MA; Mitz, AR; Murray, EA; Neuroimage, DOI://10.1016/j.neuroimage.2018.10.005 (2019)
Structural Differences between Pri-miRNA Paralogs Promote Alternative Drosha Cleavage and Expand Target Repertoires Bofill-De Ros, X; Kasprzak, WK; Bhandari, Y et al. Cell Rep, DOI://10.1016/j.celrep.2018.12.054 (2019)

Simultaneous targeting of linked loci in mouse embryos using base editing Lee, HK; Willi, M; Smith, HE et al. Sci Rep, DOI://10.1038/s41598-018-33533-5 (2019)
Molecular Dynamics Simulations of Membrane Permeability Venable, RM; Krämer, A; Pastor, RW; Chem. Rev., DOI://10.1021/acs.chemrev.8b00486 (2019)
Retinal transcriptome and eQTL analyses identify genes associated with age-related macular degeneration Ratnapriya, R; Sosina, OA; Starostik, MR et al. Nat. Genet., DOI://10.1038/s41588-019-0351-9 (2019)
Exome genotyping and linkage analysis identifies two novel linked regions and replicates two others for myopia in Ashkenazi Jewish families Simpson, CL; Musolf, AM; Li, Q et al. BMC Med. Genet., DOI://10.1186/s12881-019-0752-8 (2019)
Brain-wide cellular resolution imaging of Cre transgenic zebrafish lines for functional circuit-mapping Tabor, KM; Marquart, GD; Hurt, C et al. Elife, DOI://10.7554/eLife.42687 (2019)
Interpretation of spectroscopic data using molecular simulations for the secondary active transporter BetP Leone, V; Waclawska, I; Kossmann, K et al. J. Gen. Physiol., DOI://10.1085/jgp.201812111 (2019)

Shared polygenic risk and causal inferences in amyotrophic lateral sclerosis Bandres-Ciga, S; Noyce, AJ; Hemani, G et al. Ann. Neurol., DOI://10.1002/ana.25431 (2019)
High Quality ATAC-Seq Data Recovered from Cryopreserved Breast Cell Lines and Tissue Fujiwara, S; Baek, S; Varticovski, L; Kim, S; Hager, GL; Sci Rep, DOI://10.1038/s41598-018-36927-7 (2019)
Pregnancy-Associated Plasma Protein-A (PAPP-A) in Ewing Sarcoma: Role in Tumor Growth and Immune Evasion Heitzeneder, S; Sotillo, E; Shern, JF et al. J. Natl. Cancer Inst., DOI://10.1093/jnci/djy209 (2019)
The FLT3 inhibitor midostaurin selectively resensitizes ABCB1-overexpressing multidrug-resistant cancer cells to conventional chemotherapeutic agents Hsiao, SH; Lusvarghi, S; Huang, YH; Ambudkar, SV; Hsu, SC; Wu, CP; Cancer Lett., DOI://10.1016/j.canlet.2019.01.001 (2019)
Antimicrobial Chrysophaentin Analogs Identified from Laboratory Cultures of the Marine Microalga Chrysophaeum taylorii Davison, JR; Bewley, CA; J. Nat. Prod., DOI://10.1021/acs.jnatprod.8b00858 (2019)
Distinct Clinical and Pathological Features of Melorheostosis Associated With Somatic MAP2K1 Mutations Jha, S; Fratzl-Zelman, N; Roschger, P et al. J. Bone Miner. Res., DOI://10.1002/jbmr.3577 (2019)
The prevalence of germline DICER1 pathogenic variation in cancer populations Kim, J; Schultz, KAP; Hill, DA; Stewart, DR; Mol Genet Genomic Med, DOI://10.1002/mgg3.555 (2019)
Sequence Variation Associated with SLC12A5 Gene Expression Is Linked to Brain Structure and Function in Healthy Adults Gregory, MD; Kippenhan, JS; Callicott, JH et al. Cereb. Cortex, DOI://10.1093/cercor/bhy344 (2019)
Structure and function of an ectopic Polycomb chromatin domain De, S; Cheng, Y; Sun, MA; Gehred, ND; Kassis, JA; Sci Adv, DOI://10.1126/sciadv.aau9739 (2019)
A conserved dimer interface connects ERH and YTH family proteins to promote gene silencing Xie, G; Vo, TV; Thillainadesan, G et al. Nat Commun, DOI://10.1038/s41467-018-08273-9 (2019)
Retinoic Acid Receptor Alpha Represses a Th9 Transcriptional and Epigenomic Program to Reduce Allergic Pathology Schwartz, DM; Farley, TK; Richoz, N et al. Immunity, DOI://10.1016/j.immuni.2018.12.014 (2019)
The Emergence and Functional Fitness of Memory CD4+ T Cells Require the Transcription Factor Thpok Ciucci, T; Vacchio, MS; Gao, Y et al. Immunity, DOI://10.1016/j.immuni.2018.12.019 (2019)
Next-Generation Sequencing to Diagnose Suspected Genetic Disorders Adams, DR; Eng, CM; N. Engl. J. Med., DOI://10.1056/NEJMc1814955 (2019)
Effect of amino acids on transcription and translation of key genes in E. coli K and B grown at a steady state in minimal medium Baez, A; Kumar, A; Sharma, AK; Anderson, ED; Shiloach, J; N Biotechnol, DOI://10.1016/j.nbt.2018.10.004 (2019)
The mitochondrial type IB topoisomerase drives mitochondrial translation and carcinogenesis Baechler, SA; Factor, VM; Dalla Rosa, I et al. Nat Commun, DOI://10.1038/s41467-018-07922-3 (2019)
Secondary Metabolites from the Fungus Dictyosporium sp. and Their MALT1 Inhibitory Activities Tran, TD; Wilson, BAP; Henrich, CJ et al. J. Nat. Prod., DOI://10.1021/acs.jnatprod.8b00871 (2019)
The phenotypic landscape of a Tbc1d24 mutant mouse includes convulsive seizures resembling human early infantile epileptic encephalopathy Tona, R; Chen, W; Nakano, Y et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddy445 (2019)
Hydrogen-bond dependent conformational switching: a computational challenge from experimental thermochemistry Luccarelli, J; Paton, RS; J. Org. Chem., DOI://10.1021/acs.joc.8b02436 (2019)

Early infantile-onset epileptic encephalopathy 28 due to a homozygous microdeletion involving the WWOX gene in a region of uniparental disomy Davids, M; Markello, T; Wolfe, LA et al. Hum. Mutat., DOI://10.1002/humu.23675 (2019)
A versatile mouse model of epitope-tagged histone H3.3 to study epigenome dynamics Bachu, M; Tamura, T; Chen, C et al. J. Biol. Chem., DOI://10.1074/jbc.RA118.005550 (2019)
Genetic analysis of neurodegenerative diseases in a pathology cohort Blauwendraat C, Pletnikova O, Geiger, JT et al Neurobiology of Aging, 10.1016/j.neurobiolaging.2018.11.007 (2019)
Conformational stability and dynamics of the cancer-associated isoform δ133p53β are modulated by p53 peptides and p53-specific DNA Lei, J; Qi, R; Tang, Y et al. FASEB J., DOI://10.1096/fj.201801973R (2019)
hnRNP L-dependent protection of normal mRNAs from NMD subverts quality control in B cell lymphoma Kishor, A; Ge, Z; Hogg, JR; EMBO J., DOI://10.15252/embj.201899128 (2019)
Linear mixed models for association analysis of quantitative traits with next-generation sequencing data Chiu, CY; Yuan, F; Zhang, BS et al. Genet. Epidemiol., DOI://10.1002/gepi.22177 (2019)

Structural Characterization of Biomolecules through Atomistic Simulations Guided by DEER Measurements Marinelli, F; Fiorin, G; Structure, DOI://10.1016/j.str.2018.10.013 (2019)
Commensal-specific T cell plasticity promotes rapid tissue adaptation to injury Harrison, OJ; Linehan, JL; Shih, HY et al. Science, DOI://10.1126/science.aat6280 (2019)
Mosaic Y loss is moderately associated with solid tumor risk Loftfield, E; Zhou, W; Yeager, M; Chanock, SJ; Freedman, ND; Machiela, MJ; Cancer Res., DOI://10.1158/0008-5472.CAN-18-2566 (2019)
Targeted deletion of an NRL- and CRX-regulated alternative promoter specifically silences FERM and PDZ domain containing 1 (Frmpd1) in rod photoreceptors Campla, CK; Mast, H; Dong, L et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddy388 (2019)
Practical issues in using generalized estimating equations for inference on transitions in longitudinal data: What is being estimated Bible, J; Albert, PS; Simons-Morton, BG; Liu, D; Stat Med, DOI://10.1002/sim.8014 (2019)
Integrated Epigenetic Mapping of Human and Mouse Salivary Gene Regulation Michael, DG; Pranzatelli, TJF; Warner, BM; Yin, H; Chiorini, JA; J. Dent. Res., DOI://10.1177/0022034518806518 (2019)

Organ Dose Estimation accounting for uncertainty for pediatric and young adult CT scans in the United Kingdom Lee, C; Journy, N; Moroz, BE et al. Radiat Prot Dosimetry, DOI://10.1093/rpd/ncy184 (2019)
Optimizing and evaluating biomarker combinations as trial-level general surrogates Gabriel, EE; Sachs, MC; Daniels, MJ; Halloran, ME; Stat Med, DOI://10.1002/sim.7996 (2019)
Interface-Based Structural Prediction of Novel Host-Pathogen Interactions Guven-Maiorov, E; Tsai, CJ; Ma, B; Nussinov, R; Methods Mol. Biol., DOI://10.1007/978-1-4939-8736-8_18 (2019)
QuagmiR: A Cloud-based Application for IsomiR Big Data Analytics Bofill-De Ros, X; Chen, K; Chen, S et al. Bioinformatics, DOI://10.1093/bioinformatics/bty843 (2019)
Early life disadvantage and adult adiposity: tests of sensitive periods during childhood and behavioural mediation in adulthood Gilman, SE; Huang, YT; Jimenez, MP et al. Int J Epidemiol, DOI://10.1093/ije/dyy199 (2019)
A Bayesian multi-dimensional couple-based latent risk model with an application to infertility Hwang, BS; Chen, Z; Louis, GMB; Albert, PS; Biometrics, DOI://10.1111/biom.12972 (2019)

Half blind superiority tests for clinical trials of anti-infective drugs Follmann, D; Brittain, E; Lumbard, K; Stat Med, DOI://10.1002/sim.7954 (2019)
Time-varying whole-brain functional network connectivity coupled to task engagement Xie H, Gonzalez-Castillo J, Handwerker D, Bandettini P Network Neuro Science, doi://10.1162/netn_a_00051 (2019)
Neurophysiological Changes Associated with Antidepressant Response to Ketamine Not Observed in a Negative Trial of Scopolamine in Major Depressive Disorder Park, L; Furey, M; Nugent, AC et al. Int. J. Neuropsychopharmacol., DOI://10.1093/ijnp/pyy051 (2019)
Targeted RNA-sequencing for the quantification of measurable residual disease in acute myeloid leukemia Dillon, LW; Hayati, S; Roloff, GW et al. Haematologica, DOI://10.3324/haematol.2018.203133 (2019)
Whole Blood Gene Expression Associated with Clinical Biological Age Lin, H; Lunetta, KL; Zhao, Q et al. J. Gerontol. A Biol. Sci. Med. Sci., DOI://10.1093/gerona/gly164 (2019)
Deep-learning-assisted Volume Visualization Cheng, HC; Cardone, A; Jain, S et al. IEEE Trans Vis Comput Graph, DOI://10.1109/TVCG.2018.2796085 (2019)

A feasibility study to reduce misclassification error in occupational dose estimates for epidemiological studies using body size-dependent computational phantoms Sarah Kim, Lienard Chang, Elizabeth Mosher, Choonik Lee, and Choonsik IEEE Transactions on Radiation and Plasma Medical Sciences, 0.1109/TRPMS.2018.2847227 (2019)
Genome-wide meta-analysis of macronutrient intake of 91,114 European ancestry participants from the cohorts for heart and aging research in genomic epidemiology consortium Merino, J; Dashti, HS; Li, SX et al. Mol. Psychiatry, DOI://10.1038/s41380-018-0079-4 (2019)
Tightly Integrated Genomic and Epigenomic Data Mining Using Tensor Decomposition Fang, J Bioinformatics, DOI://10.1093/bioinformatics/bty513 (2019)
Mapping the neuroanatomic substrates of cognition in familial attention deficit hyperactivity disorder Muster, R; Choudhury, S; Sharp, W; Kasparek, S; Sudre, G; Shaw, P; Psychol Med, DOI://10.1017/S0033291718001241 (2019)
A joint spatial factor analysis model to accommodate data from misaligned areal units with application to Louisiana social vulnerability Nethery, RC; Sandler, DP; Zhao, S; Engel, LS; Kwok, RK; Biostatistics, DOI://10.1093/biostatistics/kxy016 (2019)
Ketamine has distinct electrophysiological and behavioral effects in depressed and healthy subjects Nugent, AC; Ballard, ED; Gould, TD et al. Mol. Psychiatry, DOI://10.1038/s41380-018-0028-2 (2019)

2018 (482 papers)

BRG1 governs glucocorticoid receptor interactions with chromatin and pioneer factors across the genome Hoffman, JA; Trotter, KW; Ward, JM; Archer, TK; , Elife, DOI://10.7554/eLife.35073 (2018)
Collecting duct principal, but not intercalated, cell prorenin receptor regulates renal sodium and water excretion Ramkumar, N; Stuart, D; Mironova, E et al. Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00122.2018 (2018)
Whole genome sequencing data for two individuals of Pakistani descent Khan, SY; Kabir, F; M'Hamdi, O et al. Sci Data, DOI://10.1038/sdata.2018.174 (2018)
An approximate joint model for multiple paired longitudinal outcomes and time-to-event data Elmi, AF; Grantz, KL; Albert, PS; , Biometrics, DOI://10.1111/biom.12862 (2018)
Methylomic profiling and replication implicates deregulation of PCSK9 in alcohol use disorder Lohoff, FW; Sorcher, JL; Rosen, AD et al. Mol. Psychiatry, DOI://10.1038/mp.2017.168 (2018)
Molecular Recognition between Aβ-Specific Single-Domain Antibody and Aβ Misfolded Aggregates Zhang, M; Zheng, J; Nussinov, R; Ma, B; Antibodies (Basel), DOI://10.3390/antib7030025 (2018)
Comment on "Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water" Best, RB; Zheng, W; Borgia, A et al. Science, DOI://10.1126/science.aar7101 (2018)
Discovery of Kaposi's sarcoma herpesvirus-encoded circular RNAs and a human antiviral circular RNA Tagawa, T; Gao, S; Koparde, VN et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1816183115 (2018)
Biallelic mutations in mitochondrial tryptophanyl-tRNA synthetase cause Levodopa-responsive infantile-onset Parkinsonism Burke, EA; Frucht, SJ; Thompson, K et al. Clin. Genet., DOI://10.1111/cge.13172 (2018)
Urea Cycle Dysregulation Generates Clinically Relevant Genomic and Biochemical Signatures Lee, JS; Adler, L; Karathia, H et al. Cell, DOI://10.1016/j.cell.2018.07.019 (2018)
Commensal bacteria contribute to insulin resistance in aging by activating innate B1a cells Bodogai, M; O'Connell, J; Kim, K et al. Sci Transl Med, DOI://10.1126/scitranslmed.aat4271 (2018)
Genetic analysis of over 1 million people identifies 535 new loci associated with blood pressure traits Evangelou, E; Warren, HR; Mosen-Ansorena, D et al. Nat. Genet., DOI://10.1038/s41588-018-0205-x (2018)

Fully automated segmentation and quantification of visceral and subcutaneous fat at abdominal CT: application to a longitudinal adult screening cohort Lee, SJ; Liu, J; Yao, J; Kanarek, A; Summers, RM; Pickhardt, PJ; Br J Radiol, DOI://10.1259/bjr.20170968 (2018)
Analysis of type 2 diabetes and obesity genetic variants in Mexican Pima Indians: Marked allelic differentiation among Amerindians at HLA Hsueh, WC; Bennett, PH; Esparza-Romero, J et al. Ann. Hum. Genet., DOI://10.1111/ahg.12252 (2018)
A Recurrent De Novo Heterozygous COG4 Substitution Leads to Saul-Wilson Syndrome, Disrupted Vesicular Trafficking, and Altered Proteoglycan Glycosylation Ferreira, CR; Xia, ZJ; Clément, A et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2018.09.003 (2018)
Reservoir pH replica exchange Damjanovic, A; Miller, BT; Okur, A; Brooks, BR; J Chem Phys, DOI://10.1063/1.5027413 (2018)
Conformational analysis of replica exchange MD: Temperature-dependent Markov networks for FF amyloid peptides Narayan, B; Herbert, C; Yuan, Y; Rodriguez, BJ; Brooks, BR; Buchete, NV; J Chem Phys, DOI://10.1063/1.5027580 (2018)
EXP2 is a nutrient-permeable channel in the vacuolar membrane of Plasmodium and is essential for protein export via PTEX Garten, M; Nasamu, AS; Niles, JC; Zimmerberg, J; Goldberg, DE; Beck, JR; Nat Microbiol, DOI://10.1038/s41564-018-0222-7 (2018)

Non-classical monocytes as mediators of tissue destruction in arthritis Puchner, A; Saferding, V; Bonelli, M et al. Ann. Rheum. Dis., DOI://10.1136/annrheumdis-2018-213250 (2018)
Abruptio placentae risk and genetic variations in mitochondrial biogenesis and oxidative phosphorylation: replication of a candidate gene association study Workalemahu, T; Enquobahrie, DA; Gelaye, B et al. Am. J. Obstet. Gynecol., DOI://10.1016/j.ajog.2018.08.042 (2018)
Activation of Th1 Immunity within the Tumor Microenvironment Is Associated with Clinical Response to Lenalidomide in Chronic Lymphocytic Leukemia Aue, G; Sun, C; Liu, D et al. J. Immunol., DOI://10.4049/jimmunol.1800570 (2018)
Comparison of normal tissue dose calculation methods for epidemiological studies of radiotherapy patients Mille, MM; Jung, JW; Lee, C; Kuzmin, GA; Lee, C; J Radiol Prot, DOI://10.1088/1361-6498/aabd4f (2018)
Novel variants in SPTAN1 without epilepsy: An expansion of the phenotype Gartner, V; Markello, TC; Macnamara, E et al. Am. J. Med. Genet. A, DOI://10.1002/ajmg.a.40628 (2018)
Novel truncating mutation in TENM3 in siblings with motor developmental delay, ocular coloboma, oval cornea, without microphthalmia Stephen, J; Nampoothiri, S; Kuppa, S et al. Am. J. Med. Genet. A, DOI://10.1002/ajmg.a.40658 (2018)

Exogenous ghrelin administration increases alcohol self-administration and modulates brain functional activity in heavy-drinking alcohol-dependent individuals Farokhnia, M; Grodin, EN; Lee, MR et al. Mol. Psychiatry, DOI://10.1038/mp.2017.226 (2018)
Structural insights into the mechanism of double strand break formation by Hermes, a hAT family eukaryotic DNA transposase Hickman, AB; Voth, AR; Ewis, H; Li, X; Craig, NL; Dyda, F; Nucleic Acids Res., DOI://10.1093/nar/gky838 (2018)
Reprogramming of regulatory network using expression uncovers sex-specific gene regulation in Drosophila Wang, Y; Cho, DY; Lee, H; Fear, J; Oliver, B; Przytycka, TM; Nat Commun, DOI://10.1038/s41467-018-06382-z (2018)
High density lipoprotein proteome is associated with cardiovascular risk factors and atherosclerosis burden as evaluated by coronary CT angiography Gordon, SM; Chung, JH; Playford, MP et al. Atherosclerosis, DOI://10.1016/j.atherosclerosis.2018.09.032 (2018)
Agreement in Histological Assessment of Mitotic Activity Between Microscopy and Digital Whole Slide Images Informs Conversion for Clinical Diagnosis Wei, BR; Halsey, CH; Hoover, SB et al. Acad Pathol, DOI://10.1177/2374289519859841 (2018)
Dynamics of Chromatin Fibers: Comparison of Monte Carlo Simulations with Force Spectroscopy Norouzi, D; Zhurkin, VB; Biophys. J., DOI://10.1016/j.bpj.2018.06.032 (2018)
GCN5L1 interacts with αTAT1 and RanBP2 to regulate hepatic α-tubulin acetylation and lysosome trafficking Wu, K; Wang, L; Chen, Y et al. J. Cell. Sci., DOI://10.1242/jcs.221036 (2018)
Sequential loss of tumor surface antigens following chimeric antigen receptor T-cell therapies in diffuse large B-cell lymphoma Shalabi, H; Kraft, IL; Wang, HW et al. Haematologica, DOI://10.3324/haematol.2017.183459 (2018)
GATA2 deficiency and human hematopoietic development modeled using induced pluripotent stem cells Jung, M; Cordes, S; Zou, J et al. Blood Adv, DOI://10.1182/bloodadvances.2018017137 (2018)
Interdomain Stabilization Impairs CD4 Binding and Improves Immunogenicity of the HIV-1 Envelope Trimer Zhang, P; Gorman, J; Geng, H et al. Cell Host Microbe, DOI://10.1016/j.chom.2018.05.002 (2018)
Genetic variations and risk of placental abruption: A genome-wide association study and meta-analysis of genome-wide association studies Workalemahu, T; Enquobahrie, DA; Gelaye, B et al. Placenta, DOI://10.1016/j.placenta.2018.04.008 (2018)
Role of humoral immunity against hepatitis B virus core antigen in the pathogenesis of acute liver failure Chen, Z; Diaz, G; Pollicino, T et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1809028115 (2018)

Bi-allelic TMEM94 Truncating Variants Are Associated with Neurodevelopmental Delay, Congenital Heart Defects, and Distinct Facial Dysmorphism Stephen, J; Maddirevula, S; Nampoothiri, S et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2018.11.001 (2018)
Using Devices to Assess Physical Activity and Sedentary Behavior in a Large Cohort Study, the Women's Health Study Lee, IM; Shiroma, EJ; Evenson, KR; Kamada, M; LaCroix, AZ; Buring, JE; J Meas Phys Behav, DOI://10.1123/jmpb.2018-0005 (2018)
Co-activation patterns in resting-state fMRI signals Liu, X; Zhang, N; Chang, C; Duyn, JH; Neuroimage, DOI://10.1016/j.neuroimage.2018.01.041 (2018)
Using mobile location data in biomedical research while preserving privacy Goldenholz, DM; Goldenholz, SR; Krishnamurthy, KB et al. J Am Med Inform Assoc, DOI://10.1093/jamia/ocy071 (2018)
Effect of Genetic Diagnosis on Patients with Previously Undiagnosed Disease Splinter, K; Adams, DR; Bacino, CA et al. N. Engl. J. Med., DOI://10.1056/NEJMoa1714458 (2018)
GWAS and colocalization analyses implicate carotid intima-media thickness and carotid plaque loci in cardiovascular outcomes Franceschini, N; Giambartolomei, C; de Vries, PS et al. Nat Commun, DOI://10.1038/s41467-018-07340-5 (2018)

Hallmarks of primate lentiviral immunodeficiency infection recapitulate loss of innate lymphoid cells Mudd, JC; Busman-Sahay, K; DiNapoli, SR et al. Nat Commun, DOI://10.1038/s41467-018-05528-3 (2018)
The transcription factors TFE3 and TFEB amplify p53 dependent transcriptional programs in response to DNA damage Brady, OA; Jeong, E; Martina, JA; Pirooznia, M; Tunc, I; Puertollano, R; Elife, DOI://10.7554/eLife.40856 (2018)
Tenectin recruits integrin to stabilize bouton architecture and regulate vesicle release at the Drosophila neuromuscular junction Wang, Q; Han, TH; Nguyen, P; Jarnik, M; Serpe, M; Elife, DOI://10.7554/eLife.35518 (2018)
CD22-targeted CAR T cells induce remission in B-ALL that is naive or resistant to CD19-targeted CAR immunotherapy Fry, TJ; Shah, NN; Orentas, RJ et al. Nat. Med., DOI://10.1038/nm.4441 (2018)
Mutant IL-7Rα and mutant NRas are sufficient to induce murine T cell acute lymphoblastic leukemia Cramer, SD; Hixon, JA; Andrews, C et al. Leukemia, DOI://10.1038/s41375-017-0001-0 (2018)
Bi-allelic CCDC47 Variants Cause a Disorder Characterized by Woolly Hair, Liver Dysfunction, Dysmorphic Features, and Global Developmental Delay Morimoto, M; Waller-Evans, H; Ammous, Z et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2018.09.014 (2018)
De Novo Missense Variants in TRAF7 Cause Developmental Delay, Congenital Anomalies, and Dysmorphic Features Tokita, MJ; Chen, CA; Chitayat, D et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2018.06.005 (2018)
Evaluation of Recipients of Positive and Negative Secondary Findings Evaluations in a Hybrid CLIA-Research Sequencing Pilot Sapp, JC; Johnston, JJ; Driscoll, K et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2018.07.018 (2018)
Exploratory genome-wide association analysis of response to ketamine and a polygenic analysis of response to scopolamine in depression Guo, W; Machado-Vieira, R; Mathew, S et al. Transl Psychiatry, DOI://10.1038/s41398-018-0311-7 (2018)
IFIT1 Exerts Opposing Regulatory Effects on the Inflammatory and Interferon Gene Programs in LPS-Activated Human Macrophages John, SP; Sun, J; Carlson, RJ et al. Cell Rep, DOI://10.1016/j.celrep.2018.09.002 (2018)
GWAS of epigenetic aging rates in blood reveals a critical role for TERT Lu, AT; Xue, L; Salfati, EL et al. Nat Commun, DOI://10.1038/s41467-017-02697-5 (2018)
Identification of seven novel loci associated with amino acid levels using single-variant and gene-based tests in 8545 Finnish men from the METSIM study Teslovich, TM; Kim, DS; Yin, X et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddy067 (2018)
Altered DNA Methylation Patterns Associated With Clinically Relevant Increases in PTSD Symptoms and PTSD Symptom Profiles in Military Personnel Martin, C; Cho, YE; Kim, H et al. Biol Res Nurs, DOI://10.1177/1099800418758951 (2018)
Human retinoic acid-regulated CD161+ regulatory T cells support wound repair in intestinal mucosa Povoleri, GAM; Nova-Lamperti, E; Scottà, C et al. Nat. Immunol., DOI://10.1038/s41590-018-0230-z (2018)
Anthropoid primate-specific retroviral element THE1B controls expression of CRH in placenta and alters gestation length Dunn-Fletcher, CE; Muglia, LM; Pavlicev, M et al. PLoS Biol., DOI://10.1371/journal.pbio.2006337 (2018)
Interactions between genetic variation and cellular environment in skeletal muscle gene expression Taylor, DL; Knowles, DA; Scott, LJ et al. PLoS ONE, DOI://10.1371/journal.pone.0195788 (2018)
Analysis of Meiotic Double-Strand Break Initiation in Mammals Brick, K; Pratto, F; Sun, CY; Camerini-Otero, RD; Petukhova, G; Meth. Enzymol., DOI://10.1016/bs.mie.2017.11.037 (2018)
Genome-wide Identification of Structure-Forming Repeats as Principal Sites of Fork Collapse upon ATR Inhibition Shastri, N; Tsai, YC; Hile, S et al. Mol. Cell, DOI://10.1016/j.molcel.2018.08.047 (2018)
Automated Cervical Screening and Triage, Based on HPV Testing and Computer-Interpreted Cytology Yu, K; Hyun, N; Fetterman, B et al. J. Natl. Cancer Inst., DOI://10.1093/jnci/djy044 (2018)
Genome-wide analyses identify a role for SLC17A4 and AADAT in thyroid hormone regulation Teumer, A; Chaker, L; Groeneweg, S et al. Nat Commun, DOI://10.1038/s41467-018-06356-1 (2018)
Molecular basis of Mitomycin C enhanced corneal sensory nerve repair after debridement wounding Stepp, MA; Pal-Ghosh, S; Tadvalkar, G; Li, L; Brooks, SR; Morasso, MI; Sci Rep, DOI://10.1038/s41598-018-35090-3 (2018)
MAVS deficiency induces gut dysbiotic microbiota conferring a proallergic phenotype Plantamura, E; Dzutsev, A; Chamaillard, M et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1722372115 (2018)
Subcutaneous adipose tissue imaging of human obesity reveals two types of adipocyte membranes: Insulin-responsive and -nonresponsive McCormick, CD; Waters, HN; Bezrukov, L et al. J. Biol. Chem., DOI://10.1074/jbc.RA118.003751 (2018)
SPT6 interacts with NSD2 and facilitates interferon-induced transcription Ouda, R; Sarai, N; Nehru, V et al. FEBS Lett., DOI://10.1002/1873-3468.13069 (2018)
Isolation of Adult Spinal Cord Nuclei for Massively Parallel Single-nucleus RNA Sequencing Matson, KJE; Sathyamurthy, A; Johnson, KR; Kelly, MC; Kelley, MW; Levine, AJ; J Vis Exp, DOI://10.3791/58413 (2018)
Generation of Tumor Antigen-Specific iPSC-Derived Thymic Emigrants Using a 3D Thymic Culture System Vizcardo, R; Klemen, ND; Islam, SMR et al. Cell Rep, DOI://10.1016/j.celrep.2018.02.087 (2018)
Transcriptional profiling reveals gland-specific differential expression in the three major salivary glands of the adult mouse Gao, X; Oei, MS; Ovitt, CE; Sincan, M; Melvin, JE; Physiol. Genomics, DOI://10.1152/physiolgenomics.00124.2017 (2018)
Replacing C189 in the bZIP domain of Zta with S, T, V, or A changes DNA binding specificity to four types of double-stranded DNA Ray, S; Tillo, D; Assad, N et al. Biochem. Biophys. Res. Commun., DOI://10.1016/j.bbrc.2018.05.080 (2018)
Interferon stimulation creates chromatin marks and establishes transcriptional memory Kamada, R; Yang, W; Zhang, Y et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1720930115 (2018)
Lipid-dependence of target membrane stability during influenza viral fusion Haldar, S; Mekhedov, E; McCormick, CD; Blank, PS; Zimmerberg, J; J. Cell. Sci., DOI://10.1242/jcs.218321 (2018)

Human bone marrow assessment by single-cell RNA sequencing, mass cytometry, and flow cytometry Oetjen, KA; Lindblad, KE; Goswami, M et al. JCI Insight, DOI://10.1172/jci.insight.124928 (2018)
Structural disorder in four-repeat Tau fibrils reveals a new mechanism for barriers to cross-seeding of Tau isoforms Weismiller, HA; Murphy, R; Wei, G; Ma, B; Nussinov, R; Margittai, M; J. Biol. Chem., DOI://10.1074/jbc.RA118.005316 (2018)
Enhanced detection of neoantigen-reactive T cells targeting unique and shared oncogenes for personalized cancer immunotherapy Yossef, R; Tran, E; Deniger, DC et al. JCI Insight, DOI://10.1172/jci.insight.122467 (2018)
Dynamic analysis of human tyrosinase intra-melanosomal domain and mutant variants to further understand oculocutaneous albinism type 1 Farney, SK; Dolinska, MB; Sergeev, YV; J Anal Pharm Res, DOI://10.15406/japlr.2018.07.00293 (2018)
Structural Constraints at the Trimer Apex Stabilize the HIV-1 Envelope in a Closed, Antibody-Protected Conformation Guzzo, C; Zhang, P; Liu, Q et al. MBio, DOI://10.1128/mBio.00955-18 (2018)
Complement receptor CD46 co-stimulates optimal human CD8+ T cell effector function via fatty acid metabolism Arbore, G; West, EE; Rahman, J et al. Nat Commun, DOI://10.1038/s41467-018-06706-z (2018)

Conserved mRNA-granule component Scd6 targets Dhh1 to repress translation initiation and activates Dcp2-mediated mRNA decay in vivo Zeidan, Q; He, F; Zhang, F; Zhang, H; Jacobson, A; Hinnebusch, AG; PLoS Genet., DOI://10.1371/journal.pgen.1007806 (2018)
Intraclass correlation: Improved modeling approaches and applications for neuroimaging Chen, G; Taylor, PA; Haller, SP et al. Hum Brain Mapp, DOI://10.1002/hbm.23909 (2018)
Exome sequencing of a large family identifies potential candidate genes contributing risk to bipolar disorder Zhang, T; Hou, L; Chen, DT; McMahon, FJ; Wang, JC; Rice, JP; Gene, DOI://10.1016/j.gene.2017.12.025 (2018)
Human defects in STAT3 promote oral mucosal fungal and bacterial dysbiosis Abusleme, L; Diaz, PI; Freeman, AF et al. JCI Insight, DOI://10.1172/jci.insight.122061 (2018)
Integrative analysis of the epigenetic basis of muscle-invasive urothelial carcinoma Sanford, T; Meng, MV; Railkar, R; Agarwal, PK; Porten, SP; Clin Epigenetics, DOI://10.1186/s13148-018-0451-x (2018)
Pain control through selective chemo-axotomy of centrally projecting TRPV1+ sensory neurons Sapio, MR; Neubert, JK; LaPaglia, DM et al. J. Clin. Invest., DOI://10.1172/JCI94331 (2018)
Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity Turcot, V; Lu, Y; Highland, HM et al. Nat. Genet., DOI://10.1038/s41588-017-0011-x (2018)
Whole genome screen reveals a novel relationship between Wolbachia levels and Drosophila host translation Grobler, Y; Yun, CY; Kahler, DJ et al. PLoS Pathog., DOI://10.1371/journal.ppat.1007445 (2018)
Topoisomerase 3β interacts with RNAi machinery to promote heterochromatin formation and transcriptional silencing in Drosophila Lee, SK; Xue, Y; Shen, W et al. Nat Commun, DOI://10.1038/s41467-018-07101-4 (2018)
Frequency-dependent tACS modulation of BOLD signal during rhythmic visual stimulation Chai, Y; Sheng, J; Bandettini, PA; Gao, JH; Hum Brain Mapp, DOI://10.1002/hbm.23990 (2018)
Refining the accuracy of validated target identification through coding variant fine-mapping in type 2 diabetes Mahajan, A; Wessel, J; Willems, SM et al. Nat. Genet., DOI://10.1038/s41588-018-0084-1 (2018)
Neurological soft signs and cognitive performance in early childhood Alamiri, B; Nelson, C; Fitzmaurice, GM; Murphy, JM; Gilman, SE; Dev Psychol, DOI://10.1037/dev0000566 (2018)
Identifying HIPK1 as Target of miR-22-3p Enhancing Recombinant Protein Production From HEK 293 Cell by Using Microarray and HTP siRNA Screen Inwood, S; Buehler, E; Betenbaugh, M; Lal, M; Shiloach, J; Biotechnol J, DOI://10.1002/biot.201700342 (2018)
Learning recurrent dynamics in spiking networks Kim, CM; Chow, CC; Elife, DOI://10.7554/eLife.37124 (2018)
Decrypting the Heat Activation Mechanism of TRPV1 Channel by Molecular Dynamics Simulation Wen, H; Zheng, W; Biophys. J., DOI://10.1016/j.bpj.2017.10.034 (2018)
Two RNase H2 Mutants with Differential rNMP Processing Activity Reveal a Threshold of Ribonucleotide Tolerance for Embryonic Development Uehara, R; Cerritelli, SM; Hasin, N et al. Cell Rep, DOI://10.1016/j.celrep.2018.10.019 (2018)
Patterns of Physical Activity and Sedentary Behavior for Older Adults with Alzheimer's Disease, Mild Cognitive Impairment, and Cognitively Normal in Hong Kong Lu, Z; Harris, TB; Shiroma, EJ; Leung, J; Kwok, T; J. Alzheimers Dis., DOI://10.3233/JAD-180805 (2018)
Re-annotation of eight Drosophila genomes Yang, H; Jaime, M; Polihronakis, M et al. Life Sci Alliance, DOI://10.26508/lsa.201800156 (2018)

Breakthrough in GPCR Crystallography and Its Impact on Computer-Aided Drug Design Ciancetta, A; Jacobson, KA; Methods Mol. Biol., DOI://10.1007/978-1-4939-7465-8_3 (2018)
A small single-domain protein folds through the same pathway on and off the ribosome Guinn, EJ; Tian, P; Shin, M; Best, RB; Marqusee, S; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1810517115 (2018)
Development and differentiation of early innate lymphoid progenitors Harly, C; Cam, M; Kaye, J; Bhandoola, A; J. Exp. Med., DOI://10.1084/jem.20170832 (2018)
Metabolic remodelling of glucose, fatty acid and redox pathways in the heart of type 2 diabetic mice Cortassa, S; Caceres, V; Tocchetti, CG et al. J. Physiol. (Lond.), DOI://10.1113/JP276824 (2018)
The shape of the bacterial ribosome exit tunnel affects cotranslational protein folding Kudva, R; Tian, P; Pardo-Avila, F et al. Elife, DOI://10.7554/eLife.36326 (2018)
Dose coefficients of mesh-type ICRP reference computational phantoms for idealized external exposures of photons and electrons Yeom YS; Choi C; et al Nuclear Engineering and Technology, doi://10.1016/j.net.2018.12.006 (2018)
A Common Type 2 Diabetes Risk Variant Potentiates Activity of an Evolutionarily Conserved Islet Stretch Enhancer and Increases C2CD4A and C2CD4B Expression Kycia, I; Wolford, BN; Huyghe, JR et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2018.02.020 (2018)
On the convergence of multi-scale free energy simulations König, G; Brooks, BR; Thiel, W; York, DM; Mol Simul, DOI://10.1080/08927022.2018.1475741 (2018)
Accelerated and Improved Differentiation of Retinal Organoids from Pluripotent Stem Cells in Rotating-Wall Vessel Bioreactors DiStefano, T; Chen, HY; Panebianco, C et al. Stem Cell Reports, DOI://10.1016/j.stemcr.2017.11.001 (2018)
Investigation of a Cluster of Sphingomonas koreensis Infections Johnson, RC; Deming, C; Conlan, S et al. N. Engl. J. Med., DOI://10.1056/NEJMoa1803238 (2018)
Intrinsic Dynamics of a Human Gene Reveal the Basis of Expression Heterogeneity Rodriguez, J; Ren, G; Day, CR; Zhao, K; Chow, CC; Larson, DR; Cell, DOI://10.1016/j.cell.2018.11.026 (2018)
Prevalence of pathogenic/likely pathogenic variants in the 24 cancer genes of the ACMG Secondary Findings v2.0 list in a large cancer cohort and ethnicity-matched controls Kim, J; Luo, W; Wang, M et al. Genome Med, DOI://10.1186/s13073-018-0607-5 (2018)
A dysbiotic microbiome triggers TH17 cells to mediate oral mucosal immunopathology in mice and humans Nicolas Dutzan, Tetsuhiro Kajikawa, Loreto Abusleme et al. Mucosal Immunity, 10.1126/scitranslmed.aat0797 (2018)
Amyloid Fibril Design: Limiting Structural Polymorphism in Alzheimer's Aβ Protofilaments Bartomiej Tywoniuk, Ye Yuan, Sarah McCartan, Beata Maria Szyd&#;owska, Florentina Tofoleanu, Bernard R. Brooks, and Nicolae-Viorel Buchete J. Phys. Chem B, 10.1021/acs.jpcb.8b07423 (2018)
Probing the hras-1Y i-motif with small molecules Sara N. Journey, Stephanie L. Alden, Will M. Hewitt, Megan L. Peach, Marc C. Nicklaus and John S. Schneekloth Jr Med. Chem. Commun.,, 10.1039/C8MD00311D (2018)
Structure activity relationship of 2-arylalkynyl-adenine derivatives as human A3 adenosine receptor antagonist Yu, J; Mannes, P; Jung, YH et al. Medchemcomm, DOI://10.1039/c8md00317c (2018)
Finding the baby in the bath water - evidence for task-specific changes in resting state functional connectivity evoked by training Steel, A; Thomas, C; Trefler, A; Chen, G; Baker, CI; Neuroimage, DOI://10.1016/j.neuroimage.2018.12.038 (2018)
From Molecules to Mechanisms: Functional Proteomics and Its Application to Renal Tubule Physiology Rinschen, MM; Limbutara, K; Knepper, MA; Payne, DM; Pisitkun, T; Physiol. Rev., DOI://10.1152/physrev.00057.2017 (2018)

RNA-Protein Interactions Prevent Long RNA Duplex Formation: Implications for the Design of RNA-Based Therapeutics Bindewald, E; Dai, L; Kasprzak, WK; Kim, T; Gu, S; Shapiro, BA; Molecules, DOI://10.3390/molecules23123329 (2018)
CRISPR/Cas9-mediated gene knockin in the hydroid Hydractinia symbiolongicarpus Sanders, SM; Ma, Z; Hughes, JM et al. BMC Genomics, DOI://10.1186/s12864-018-5032-z (2018)
BoostMe accurately predicts DNA methylation values in whole-genome bisulfite sequencing of multiple human tissues Zou, LS; Erdos, MR; Taylor, DL et al. BMC Genomics, DOI://10.1186/s12864-018-4766-y (2018)
Barcoding of Macaque Hematopoietic Stem and Progenitor Cells: A Robust Platform to Assess Vector Genotoxicity Yabe, IM; Truitt, LL; Espinoza, DA et al. Mol Ther Methods Clin Dev, DOI://10.1016/j.omtm.2018.10.009 (2018)
The Inner Ear Heat Shock Transcriptional Signature Identifies Compounds That Protect Against Aminoglycoside Ototoxicity Ryals, M; Morell, RJ; Martin, D et al. Front Cell Neurosci, DOI://10.3389/fncel.2018.00445 (2018)
A Divergent Strain of Culex pipiens-Associated Tunisia Virus in the Malaria Vector Anopheles epiroticus Debat, HJ; Ribeiro, JMC; Microbiol Resour Announc, DOI://10.1128/MRA.01026-18 (2018)
The replication initiation determinant protein (RepID) modulates replication by recruiting CUL4 to chromatin Jang, SM; Zhang, Y; Utani, K et al. Nat Commun, DOI://10.1038/s41467-018-05177-6 (2018)
Metagenomic Discovery of 83 New Human Papillomavirus Types in Patients with Immunodeficiency Pastrana, DV; Peretti, A; Welch, NL et al. mSphere, DOI://10.1128/mSphereDirect.00645-18 (2018)
Functional and association analysis of an Amerindian-derived population-specific p.(Thr280Met) variant in RBPJL, a component of the PTF1 complex Nair, AK; Sutherland, JR; Traurig, M et al. Eur. J. Hum. Genet., DOI://10.1038/s41431-017-0062-6 (2018)
Persistent upregulation of the β-tubulin tubb6, linked to muscle regeneration, is a source of microtubule disorganization in dystrophic muscle Randazzo, D; Khalique, U; Belanto, JJ et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddy418 (2018)
Peptidylarginine deiminases 2 and 4 modulate innate and adaptive immune responses in TLR-7-dependent lupus Liu, Y; Lightfoot, YL; Seto, N et al. JCI Insight, DOI://10.1172/jci.insight.124729 (2018)
A temporal deconvolution algorithm for multiecho functional MRI Cesar Caballero Gaudes ; Peter A. Bandettini ; Javier Gonzalez-Castillo 2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018), 10.1109/ISBI.2018.8363649 (2018)

Folding pathway of an Ig domain is conserved on and off the ribosome Tian, P; Steward, A; Kudva, R et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1810523115 (2018)
Reply to Edemir: Physiological regulation and single-cell RNA sequencing Chen, L; Lee, JW; Chou, CL et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1720333115 (2018)
AbDesigner3D: a structure-guided tool for peptide-based antibody production Saethang, T; Hodge, K; Kimkong, I; Payne, DM; Knepper, MA; Pisitkun, T; Bioinformatics, DOI://10.1093/bioinformatics/bty055 (2018)
Whole-genome sequencing of 175 Mongolians uncovers population-specific genetic architecture and gene flow throughout North and East Asia Bai, H; Guo, X; Narisu, N et al. Nat. Genet., DOI://10.1038/s41588-018-0250-5 (2018)
Helios is a key transcriptional regulator of outer hair cell maturation Chessum, L; Matern, MS; Kelly, MC et al. Nature, DOI://10.1038/s41586-018-0728-4 (2018)
Comparing the performance of selected variant callers using synthetic data and genome segmentation Bian, X; Zhu, B; Wang, M et al. BMC Bioinformatics, DOI://10.1186/s12859-018-2440-7 (2018)

Direct observation of topoisomerase IA gate dynamics Mills, M; Tse-Dinh, YC; Neuman, KC; Nat. Struct. Mol. Biol., DOI://10.1038/s41594-018-0158-x (2018)
Proximity-CLIP provides a snapshot of protein-occupied RNA elements in subcellular compartments Benhalevy, D; Anastasakis, DG; Hafner, M; Nat. Methods, DOI://10.1038/s41592-018-0220-y (2018)
Identification and functional analysis of a novel G310D variant in the insulin-like growth factor 1 receptor (IGF1R) gene associated with type 2 diabetes in American Indians Muller, YL; Skelton, G; Piaggi, P et al. Diabetes Metab. Res. Rev., DOI://10.1002/dmrr.2994 (2018)
TRPV1 pore turret dictates distinct DkTx and capsaicin gating Geron, M; Kumar, R; Zhou, W; Faraldo-Gómez, JD; Vásquez, V; Priel, A; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1809662115 (2018)
Acetylation of Cytidine in mRNA Promotes Translation Efficiency Arango, D; Sturgill, D; Alhusaini, N et al. Cell, DOI://10.1016/j.cell.2018.10.030 (2018)
Mutational and Phenotypic Spectra of KCNE1 deficiency in Jervell and Lange-Nielsen Syndrome and Romano-Ward Syndrome Faridi, R; Tona, R; Brofferio, A et al. Hum. Mutat., DOI://10.1002/humu.23689 (2018)

Self-adaptive multiscaling algorithm for efficient simulations of many-protein systems in crowded conditions Hassan, SA Phys Chem Chem Phys, DOI://10.1039/c8cp05517c (2018)
Influence of Fetal and Maternal Genetic Susceptibility to Obesity on Birthweight in African Ancestry Populations Shrestha, D; Rahman, ML; Workalemahu, T; Zhu, C; Tekola-Ayele, F; Front Genet, DOI://10.3389/fgene.2018.00511 (2018)
hsegHMM: hidden Markov model-based allele-specific copy number alteration analysis accounting for hypersegmentation Choo-Wosoba, H; Albert, PS; Zhu, B; BMC Bioinformatics, DOI://10.1186/s12859-018-2412-y (2018)
Single-cell RNA sequencing of the mammalian pineal gland identifies two pinealocyte subtypes and cell type-specific daily patterns of gene expression Mays, JC; Kelly, MC; Coon, SL et al. PLoS ONE, DOI://10.1371/journal.pone.0205883 (2018)
HJURP antagonizes CENP-A mislocalization driven by the H3.3 chaperones HIRA and DAXX Nye, J; Sturgill, D; Athwal, R; Dalal, Y; PLoS ONE, DOI://10.1371/journal.pone.0205948 (2018)
Characterization of spatial and temporal development of Type I and Type II hair cells in the mouse utricle using new cell-type-specific markers McInturff, S; Burns, JC; Kelley, MW; Biol Open, DOI://10.1242/bio.038083 (2018)
Current progress and future opportunities in applications of bioinformatics for biodefense and pathogen detection: report from the Winter Mid-Atlantic Microbiome Meet-up, College Park, MD, January 10, 2018 Meisel, JS; Nasko, DJ; Brubach, B et al. Microbiome, DOI://10.1186/s40168-018-0582-5 (2018)
Mutations in LZTR1 drive human disease by dysregulating RAS ubiquitination Steklov, M; Pandolfi, S; Baietti, MF et al. Science, DOI://10.1126/science.aap7607 (2018)
The effect of repeated stimulated granulocyte donations on hematopoietic indexes in donors: a 24-year donor center experience Szymanski, J; Troendle, J; Leitman, S; Hong, H; Yau, YY; Cantilena, C; Transfusion, DOI://10.1111/trf.15000 (2018)
Mechanism of FACT removal from transcribed genes by anticancer drugs curaxins Chang, HW; Valieva, ME; Safina, A et al. Sci Adv, DOI://10.1126/sciadv.aav2131 (2018)
Quantifying differences between passive and task-evoked intrinsic functional connectivity in a large-scale brain simulation Ulloa, A; Horwitz, B; Brain Connect, DOI://10.1089/brain.2018.0620 (2018)
Genome Sequences of 15 Klebsiella sp. Isolates from Sugarcane Fields in Colombia's Cauca Valley Medina-Cordoba, LK; Chande, AT; Rishishwar, L et al. Genome Announc, DOI://10.1128/genomeA.00104-18 (2018)

Amycomicin is a potent and specific antibiotic discovered with a targeted interaction screen Pishchany, G; Mevers, E; Ndousse-Fetter, S et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1807613115 (2018)
ONC201 kills breast cancer cells in vitro by targeting mitochondria Greer, YE; Porat-Shliom, N; Nagashima, K et al. Oncotarget, DOI://10.18632/oncotarget.24862 (2018)
RNA sequencing of kidney distal tubule cells reveals multiple mediators of chronic aldosterone action Poulsen, SB; Limbutara, K; Fenton, RA; Pisitkun, T; Christensen, BM; Physiol. Genomics, DOI://10.1152/physiolgenomics.00084.2017 (2018)
Repurposing of a Nucleoside Scaffold from Adenosine Receptor Agonists to Opioid Receptor Antagonists Tosh, DK; Ciancetta, A; Mannes, P et al. ACS Omega, DOI://10.1021/acsomega.8b01237 (2018)
Effect of over expressing protective antigen on global gene transcription in Bacillus anthracis BH500 Sharma, AK; Leppla, SH; Pomerantsev, AP; Shiloach, J; Sci Rep, DOI://10.1038/s41598-018-34196-y (2018)
Genetic Ancestry of Hadza and Sandawe Peoples Reveals Ancient Population Structure in Africa Shriner, D; Tekola-Ayele, F; Adeyemo, A; Rotimi, CN; Genome Biol Evol, DOI://10.1093/gbe/evy051 (2018)
Correction: A Novel, Noncanonical BMP Pathway Modulates Synapse Maturation at the Drosophila Neuromuscular Junction Sulkowski, MJ; Han, TH; Ott, C et al. PLoS Genet., DOI://10.1371/journal.pgen.1007343 (2018)
--Mitochondrial ATP synthase dimers spontaneously associate due to a long-range membrane-induced force Anselmi, C; Davies, KM; Faraldo-Gómez, JD; J. Gen. Physiol., DOI://10.1085/jgp.201812033 (2018)
Phenotypic expansion in DDX3X - a common cause of intellectual disability in females Wang, X; Posey, JE; Rosenfeld, JA et al. Ann Clin Transl Neurol, DOI://10.1002/acn3.622 (2018)
A Comparison of QM/MM Simulations with and without the Drude Oscillator Model Based on Hydration Free Energies of Simple Solutes König, G; Pickard, FC; Huang, J et al. Molecules, DOI://10.3390/molecules23102695 (2018)
Mitochondrial chaotic dynamics: Redox-energetic behavior at the edge of stability Kembro, JM; Cortassa, S; Lloyd, D; Sollott, SJ; Aon, MA; Sci Rep, DOI://10.1038/s41598-018-33582-w (2018)
Towards Personalized Medicine: An Improved De Novo Assembly Procedure for Early Detection of Drug Resistant HIV Minor Quasispecies in Patient Samples Huang, C; Sam, V; Du, S et al. Bioinformation, DOI://10.6026/97320630014449 (2018)

JAK1/2 inhibition with baricitinib in the treatment of autoinflammatory interferonopathies Sanchez, GAM; Reinhardt, A; Ramsey, S et al. J. Clin. Invest., DOI://10.1172/JCI98814 (2018)
Detection and Distinction of Mild Brain Injury Effects in a Ferret Model Using Diffusion Tensor MRI (DTI) and DTI-Driven Tensor-Based Morphometry (D-TBM) Hutchinson, EB; Schwerin, SC; Radomski, KL et al. Front Neurosci, DOI://10.3389/fnins.2018.00573 (2018)
Sequence-based searching of custom proteome and transcriptome databases Medvar, B; Sarkar, A; Knepper, M; Pisitkun, T; Physiol Rep, DOI://10.14814/phy2.13846 (2018)
STAT5B: A Differential Regulator of the Life and Death of CD4+ Effector Memory T Cells Majri, SS; Fritz, JM; Villarino, AV et al. J. Immunol., DOI://10.4049/jimmunol.1701133 (2018)
Tilted, Uninterrupted, Monomeric HIV-1 gp41 Transmembrane Helix from Residual Dipolar Couplings Chiliveri, SC; Louis, JM; Ghirlando, R; Baber, JL; Bax, A; J. Am. Chem. Soc., DOI://10.1021/jacs.7b10245 (2018)
A function-blocking CD47 antibody modulates extracellular vesicle-mediated intercellular signaling between breast carcinoma cells and endothelial cells Kaur, S; Elkahloun, AG; Singh, SP; Arakelyan, A; Roberts, DD; J Cell Commun Signal, DOI://10.1007/s12079-017-0428-0 (2018)

Identification and functional analysis of SOX10 phosphorylation sites in melanoma Cronin, JC; Loftus, SK; Baxter, LL; Swatkoski, S; Gucek, M; Pavan, WJ; PLoS ONE, DOI://10.1371/journal.pone.0190834 (2018)
Whole-exome sequencing of nevoid basal cell carcinoma syndrome families and review of Human Gene Mutation Database PTCH1 mutation data Gianferante, DM; Rotunno, M; Dean, M et al. Mol Genet Genomic Med, DOI://10.1002/mgg3.498 (2018)
Expanded skin virome in DOCK8-deficient patients Tirosh, O; Conlan, S; Deming, C et al. Nat. Med., DOI://10.1038/s41591-018-0211-7 (2018)
Nuclear Transcriptomes of the Seven Neuronal Cell Types That Constitute the Drosophila Mushroom Bodies Shih, MM; Davis, FP; Henry, GL; Dubnau, J; G3 (Bethesda), DOI://10.1534/g3.118.200726 (2018)
A fast adaptive algorithm for computing whole-genome homology maps Chirag Jain, Sergey Koren, Alexander Dilthey, Adam M Phillippy, and Srinivas Aluru Bioinformatics, doi://10.1093/bioinformatics/bty597 (2018)
Clonal expansion and compartmentalized maintenance of rhesus macaque NK cell subsets Wu, C; Espinoza, DA; Koelle, SJ et al. Sci Immunol, DOI://10.1126/sciimmunol.aat9781 (2018)

Expanding the phenotype of COPA syndrome: a kindred with typical and atypical features Taveira-DaSilva, AM; Markello, TC; Kleiner, DE et al. J. Med. Genet., DOI://10.1136/jmedgenet-2018-105560 (2018)
RefSeq database growth influences the accuracy of k-mer-based lowest common ancestor species identification Nasko, DJ; Koren, S; Phillippy, AM; Treangen, TJ; Genome Biol., DOI://10.1186/s13059-018-1554-6 (2018)
Non-canonical Drosophila X chromosome dosage compensation and repressive topologically associated domains Lee, H; Oliver, B; Epigenetics Chromatin, DOI://10.1186/s13072-018-0232-y (2018)
Genetics of the thrombomodulin-endothelial cell protein C receptor system and the risk of early-onset ischemic stroke Cole, JW; Xu, H; Ryan, K et al. PLoS ONE, DOI://10.1371/journal.pone.0206554 (2018)
Genomic and Transcriptomic Characterization Links Cell Lines with Aggressive Head and Neck Cancers Cheng, H; Yang, X; Si, H et al. Cell Rep, DOI://10.1016/j.celrep.2018.10.007 (2018)
Modulation of Cl- signaling and ion transport by recruitment of kinases and phosphatases mediated by the regulatory protein IRBIT Vachel, L; Shcheynikov, N; Yamazaki, O et al. Sci Signal, DOI://10.1126/scisignal.aat5018 (2018)

Body-weight dependent dose coefficients for adults exposed to idealised external photon fields Lienard A Chang David Borrego and Choonsik Lee J. Radiological Protection, vol 38, no 4 (2018)
Molecular Determinants of Aβ42 Adsorption to Amyloid Fibril Surfaces Bellaiche, MMJ; Best, RB; J Phys Chem Lett, DOI://10.1021/acs.jpclett.8b02375 (2018)
Argonaute2 attenuates active transcription by limiting RNA Polymerase II elongation in Drosophila melanogaster Nazer, E; Dale, RK; Palmer, C; Lei, EP; Sci Rep, DOI://10.1038/s41598-018-34115-1 (2018)
Enhanced expression and distinctive characterization of a long-acting FGF21 and its potential to alleviate nonalcoholic steatohepatitis Yin, J; Bao, L; Chen, R; Gao, W; Gao, X; Yao, W; Biochimie, DOI://10.1016/j.biochi.2018.05.020 (2018)
Brain regions modulated during covert visual attention in the macaque Bogadhi, AR; Bollimunta, A; Leopold, DA; Krauzlis, RJ; Sci Rep, DOI://10.1038/s41598-018-33567-9 (2018)
Variable population prevalence estimates of germline TP53 variants: A gnomAD-based analysis de Andrade, KC; Frone, MN; Wegman-Ostrosky, T et al. Hum. Mutat., DOI://10.1002/humu.23673 (2018)

De novo assembly of haplotype-resolved genomes with trio binning Koren, S; Rhie, A; Walenz, BP et al. Nat. Biotechnol., DOI://10.1038/nbt.4277 (2018)
Structural interpretation of DNA-protein hydroxyl-radical footprinting experiments with high resolution using HYDROID Shaytan, AK; Xiao, H; Armeev, GA et al. Nat Protoc, DOI://10.1038/s41596-018-0048-z (2018)
Cell-type-specific eQTL of primary melanocytes facilitates identification of melanoma susceptibility genes Zhang, T; Choi, J; Kovacs, MA et al. Genome Res., DOI://10.1101/gr.233304.117 (2018)
Peptide-MHC (pMHC) binding to a human antiviral T cell receptor induces long-range allosteric communication between pMHC- and CD3-binding sites Rangarajan, S; He, Y; Chen, Y et al. J. Biol. Chem., DOI://10.1074/jbc.RA118.003832 (2018)
Comparison of the umbrella sampling and the double decoupling method in binding free energy predictions for SAMPL6 octa-acid host-guest challenges Nishikawa, N; Han, K; Wu, X; Tofoleanu, F; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-018-0166-2 (2018)
Molecular Recognition between Aβ-Specific Single-Domain Antibody and Aβ Misfolded Aggregates Mingzhen Zhang, Jie Zheng, Ruth Nussinov and Buyong Ma Antibodies, doi:10.3390/antib7030025 (2018)

Single-Molecule Analysis Reveals Linked Cycles of RSC Chromatin Remodeling and Ace1p Transcription Factor Binding in Yeast Mehta, GD; Ball, DA; Eriksson, PR et al. Mol. Cell, DOI://10.1016/j.molcel.2018.09.009 (2018)
Global genetic insight contributed by consanguineous Pakistani families segregating hearing loss Richard, EM; Santos-Cortez, RL; Faridi, R et al. Hum. Mutat., DOI://10.1002/humu.23666 (2018)
Accelerating QM/MM Free Energy Computations via Intramolecular Force Matching Hudson, PS; Boresch, S; Rogers, DM; Woodcock, HL; J Chem Theory Comput, DOI://10.1021/acs.jctc.8b00517 (2018)
Loss of functional connectivity is an early imaging marker in primary lateral sclerosis Clark, MG; Smallwood Shoukry, R; Huang, CJ; Danielian, LE; Bageac, D; Floeter, MK; Amyotroph Lateral Scler Frontotemporal Degener, DOI://10.1080/21678421.2018.1517180 (2018)
Estimating onset time from longitudinal data in the presence of measurement error with application to estimating gestational age from maternal anthropometry during pregnancy Ortega-Villa, AM; Albert, PS; Stat Med, DOI://10.1002/sim.7955 (2018)
CRISPro: An Automated Pipeline for Protein Conformation Stabilization by Proline Rawi, R; Shen, CH; Kwong, PD; Chuang, GY; J Chem Inf Model, DOI://10.1021/acs.jcim.8b00592 (2018)
Impact of induced anxiety on neural responses to monetary incentives Gorka, AX; Fuchs, B; Grillon, C; Ernst, M; Soc Cogn Affect Neurosci, DOI://10.1093/scan/nsy082 (2018)
Antigen binding allosterically promotes Fc receptor recognition Zhao, J; Nussinov, R; Ma, B; MAbs, DOI://10.1080/19420862.2018.1522178 (2018)
Progressing super-enhancer landscape during mammary differentiation controls tissue-specific gene regulation Lee, HK; Willi, M; Shin, HY; Liu, C; Hennighausen, L; Nucleic Acids Res., DOI://10.1093/nar/gky891 (2018)
Origin of Internal Friction in Disordered Proteins Depends on Solvent Quality Zheng, W; Hofmann, H; Schuler, B; Best, RB; J Phys Chem B, DOI://10.1021/acs.jpcb.8b07425 (2018)
Mutation frequency is not increased in CRISPR-Cas9-edited mice Willi, M; Smith, HE; Wang, C; Liu, C; Hennighausen, L; Nat. Methods, DOI://10.1038/s41592-018-0148-2 (2018)
Force matching as a stepping stone to QM/MM CB[8] host/guest binding free energies: a SAMPL6 cautionary tale Hudson, PS; Han, K; Woodcock, HL; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-018-0165-3 (2018)

An explicit-solvent hybrid QM and MM approach for predicting pKa of small molecules in SAMPL6 challenge Prasad, S; Huang, J; Zeng, Q; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-018-0167-1 (2018)
Nutrient-Driven O-GlcNAcylation at Promoters Impacts Genome-Wide RNA Pol II Distribution Krause, MW; Love, DC; Ghosh, SK et al. Front Endocrinol (Lausanne), DOI://10.3389/fendo.2018.00521 (2018)
Evidence for the critical role of transmembrane helices 1 and 7 in substrate transport by human P-glycoprotein (ABCB1) Sajid, A; Lusvarghi, S; Chufan, EE; Ambudkar, SV; PLoS ONE, DOI://10.1371/journal.pone.0204693 (2018)
Principles of nucleosome organization revealed by single-cell micrococcal nuclease sequencing Lai, B; Gao, W; Cui, K et al. Nature, DOI://10.1038/s41586-018-0567-3 (2018)
Genetic history of Chad Shriner, D; Rotimi, CN; Am. J. Phys. Anthropol., DOI://10.1002/ajpa.23711 (2018)
Visualization and Interpretation of Convolutional Neural Network Predictions in Detecting Pneumonia in Pediatric Chest Radiographs S. Rajaraman, S. Candemir, I. Kim, G. Thoma, S. Antani Appl. Sci. , doi://10.3390/app8101715 (2018)

Identifying core biological processes distinguishing human eye tissues with precise systems-level gene expression analyses and weighted correlation networks Bryan, JM; Fufa, TD; Bharti, K; Brooks, BP; Hufnagel, RB; McGaughey, DM; Hum. Mol. Genet., DOI://10.1093/hmg/ddy239 (2018)
Structural elements required for coupling ion and substrate transport in the neurotransmitter transporter homolog LeuT Zhang, YW; Tavoulari, S; Sinning, S; Aleksandrova, AA; Forrest, LR; Rudnick, G; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1716870115 (2018)
Genetic Inactivation of CD33 in Hematopoietic Stem Cells to Enable CAR T Cell Immunotherapy for Acute Myeloid Leukemia Kim, MY; Yu, KR; Kenderian, SS et al. Cell, DOI://10.1016/j.cell.2018.05.013 (2018)
Extensive sex differences at the initiation of genetic recombination Brick, K; Thibault-Sennett, S; Smagulova, F et al. Nature, DOI://10.1038/s41586-018-0492-5 (2018)
Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation Zhao, M; Joy, J; Zhou, W et al. PLoS Biol., DOI://10.1371/journal.pbio.2006347 (2018)
Peptide and Protein Structure Prediction with a Simplified Continuum Solvent Model Steinbach, PJ J Phys Chem B, DOI://10.1021/acs.jpcb.8b07264 (2018)

Relation between single-molecule properties and phase behavior of intrinsically disordered proteins Dignon, GL; Zheng, W; Best, RB; Kim, YC; Mittal, J; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1804177115 (2018)
Robust Hund rule without Coulomb repulsion and exclusion principle in quantum antiferromagnetic chains of composite half spins Duki, SF; Yu, YK; J Phys Condens Matter, DOI://10.1088/1361-648X/aae169 (2018)
Random forest based classification of alcohol dependence patients and healthy controls using resting state MRI Zhu, X; Du, X; Kerich, M; Lohoff, FW; Momenan, R; Neurosci. Lett., DOI://10.1016/j.neulet.2018.04.007 (2018)
A Genome-Wide Screen Reveals a Role for the HIR Histone Chaperone Complex in Preventing Mislocalization of Budding Yeast CENP-A Ciftci-Yilmaz, S; Au, WC; Mishra, PK et al. Genetics, DOI://10.1534/genetics.118.301305 (2018)
DNA methylation age is accelerated in alcohol dependence Rosen, AD; Robertson, KD; Hlady, RA et al. Transl Psychiatry, DOI://10.1038/s41398-018-0233-4 (2018)
Dynamics of Genome Alterations in Crohn's Disease-Associated Colorectal Carcinogenesis Hirsch, D; Wangsa, D; Zhu, YJ et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-0630 (2018)

EWS-FLI1 reprograms the metabolism of Ewing sarcoma cells via positive regulation of glutamine import and serine-glycine biosynthesis Sen, N; Cross, AM; Lorenzi, PL et al. Mol. Carcinog., DOI://10.1002/mc.22849 (2018)
Aneuploidy, TP53 mutation, and amplification of MYC correlate with increased intratumor heterogeneity and poor prognosis of breast cancer patients Oltmann, J; Heselmeyer-Haddad, K; Hernandez, LS et al. Genes Chromosomes Cancer, DOI://10.1002/gcc.22515 (2018)
Multiple claudin-claudin cis interfaces are required for tight junction strand formation and inherent flexibility Zhao, J; Krystofiak, ES; Ballesteros A et al. Comm. Biol. , doi://10.1038/s42003-018-0051-5 (2018)
Calmodulin (CaM) Activates PI3Kα by Targeting the "Soft" CaM-Binding Motifs in Both the nSH2 and cSH2 Domains of p85α Zhang M, Li Z, Wang G et al. J. Phys. Chem B, doi://10.1021/acs.jpcb.8b05982 (2018)
Functional and physical interaction between yeast Hsp90 and Hsp70 Kravats, AN; Hoskins, JR; Reidy, M et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1719969115 (2018)
The High Genetic Barrier of EFdA/MK-8591 Stems from Strong Interactions with the Active Site of Drug-Resistant HIV-1 Reverse Transcriptase Takamatsu, Y; Das, D; Kohgo, S et al. Cell Chem Biol, DOI://10.1016/j.chembiol.2018.07.014 (2018)

Mapping discontinuous epitopes for MRK-16, UIC2 and 4E3 antibodies to extracellular loops 1 and 4 of human P-glycoprotein Vahedi, S; Lusvarghi, S; Pluchino, K et al. Sci Rep, DOI://10.1038/s41598-018-30984-8 (2018)
A Large-Scale Multi-ancestry Genome-wide Study Accounting for Smoking Behavior Identifies Multiple Significant Loci for Blood Pressure Sung, YJ; Winkler, TW; de Las Fuentes, L et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2018.01.015 (2018)
Heterogeneity of calcium clock functions in dormant, dysrhythmically and rhythmically firing single pacemaker cells isolated from SA node Kim, MS; Maltsev, AV; Monfredi, O et al. Cell Calcium, DOI://10.1016/j.ceca.2018.07.002 (2018)
Trac-looping measures genome structure and chromatin accessibility Lai, B; Tang, Q; Jin, W et al. Nat. Methods, DOI://10.1038/s41592-018-0107-y (2018)
Experience-dependent structural plasticity targets dynamic filopodia in regulating dendrite maturation and synaptogenesis Sheng, C; Javed, U; Gibbs, M et al. Nat Commun, DOI://10.1038/s41467-018-05871-5 (2018)
Proteomic determination of the lysine acetylome and phosphoproteome in the rat native inner medullary collecting duct Hyndman, KA; Yang, CR; Jung, HJ; Umejiego, EN; Chou, CL; Knepper, MA; Physiol. Genomics, DOI://10.1152/physiolgenomics.00029.2018 (2018)

Pan-cancer genome and transcriptome analyses of 1,699 paediatric leukaemias and solid tumours Ma, X; Liu, Y; Liu, Y et al. Nature, DOI://10.1038/nature25795 (2018)
Mutation in the intracellular chloride channel CLCC1 associated with autosomal recessive retinitis pigmentosa Li, L; Jiao, X; D'Atri, I et al. PLoS Genet., DOI://10.1371/journal.pgen.1007504 (2018)
Argonaute-miRNA Complexes Silence Target mRNAs in the Nucleus of Mammalian Stem Cells Sarshad, AA; Juan, AH; Muler, AIC et al. Mol. Cell, DOI://10.1016/j.molcel.2018.07.020 (2018)
Identification of Retinal Ganglion Cell Firing Patterns Using Clustering Analysis Supplied with Failure Diagnosis Ghahari, A; Kumar, SR; Badea, TC; Int J Neural Syst, DOI://10.1142/S0129065718500089 (2018)
A recessive form of hyper-IgE syndrome by disruption of ZNF341-dependent STAT3 transcription and activity Béziat, V; Li, J; Lin, JX et al. Sci Immunol, DOI://10.1126/sciimmunol.aat4956 (2018)
TM6SF2 Promotes Lipidation and Secretion of Hepatitis C Virus in Infected Hepatocytes Boyer, A; Park, SB; de Boer, Y; Li, Q; Liang, TJ; Gastroenterology, DOI://10.1053/j.gastro.2018.08.027 (2018)

Genome-wide mapping of plasma protein QTLs identifies putatively causal genes and pathways for cardiovascular disease Yao, C; Chen, G; Song, C et al. Nat Commun, DOI://10.1038/s41467-018-05512-x (2018)
Distributed cortical structural properties contribute to motor cortical excitability and inhibition Dayan, E; López-Alonso, V; Liew, SL; Cohen, LG; Brain Struct Funct, DOI://10.1007/s00429-018-1722-1 (2018)
Dysregulated neutrophil responses and neutrophil extracellular trap formation and degradation in PAPA syndrome Mistry, P; Carmona-Rivera, C; Ombrello, AK et al. Ann. Rheum. Dis., DOI://10.1136/annrheumdis-2018-213746 (2018)
Absolute and relative pKa predictions via a DFT approach applied to the SAMPL6 blind challenge Zeng, Q; Jones, MR; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-018-0150-x (2018)
Conformational ensemble of disordered proteins probed by solvent Paramagnetic Relaxation Enhancement (sPRE) Kooshapur, H; Schwieters, C; Tjandra, N; Angew. Chem. Int. Ed. Engl., DOI://10.1002/anie.201807365 (2018)
On testing for spatial correspondence between maps of human brain structure and function Alexander-Bloch, AF; Shou, H; Liu, S et al. Neuroimage, DOI://10.1016/j.neuroimage.2018.05.070 (2018)
Predictors of mosaic chromosome Y loss and associations with mortality in the UK Biobank Loftfield, E; Zhou, W; Graubard, BI et al. Sci Rep, DOI://10.1038/s41598-018-30759-1 (2018)
Single-particle cryo-EM structure of a voltage-activated potassium channel in lipid nanodiscs Matthies, D; Bae, C; Toombes, GE et al. Elife, DOI://10.7554/eLife.37558 (2018)
A DNA methylation biomarker of alcohol consumption Liu, C; Marioni, RE; Hedman, ÅK et al. Mol. Psychiatry, DOI://10.1038/mp.2016.192 (2018)
Targeting the HTLV-I-Regulated BATF3/IRF4 Transcriptional Network in Adult T Cell Leukemia/Lymphoma Nakagawa, M; Shaffer, AL; Ceribelli, M et al. Cancer Cell, DOI://10.1016/j.ccell.2018.06.014 (2018)
Feasibility and accuracy of UF/NCI phantoms and Monte Carlo retrospective dosimetry in children treated on National Wilms Tumor Study protocols Kalapurakal, JA; Gopalakrishnan, M; Mille, M et al. Pediatr Blood Cancer, DOI://10.1002/pbc.27395 (2018)
Structure and energetic basis of overrepresented λ light chain in systemic light chain amyloidosis patients Zhao, J; Zhang, B; Zhu, J; Nussinov, R; Ma, B; Biochim. Biophys. Acta, DOI://10.1016/j.bbadis.2017.12.009 (2018)

Allosteric KRas4B Can Modulate SOS1 Fast and Slow Ras Activation Cycles Liao, TJ; Jang, H; Fushman, D; Nussinov, R; Biophys. J., DOI://10.1016/j.bpj.2018.07.016 (2018)
A coevolution-guided model for the rotor of the bacterial flagellar motor Khan, S; Guo, TW; Misra, S; Sci Rep, DOI://10.1038/s41598-018-30293-0 (2018)
A Muscle-Specific Enhancer RNA Mediates Cohesin Recruitment and Regulates Transcription In trans Tsai, PF; Dell'Orso, S; Rodriguez, J et al. Mol. Cell, DOI://10.1016/j.molcel.2018.06.008 (2018)
Effects of Human Sex Chromosome Dosage on Spatial Chromosome Organization Jowhar, Z; Shachar, S; Gudla, PR et al. Mol. Biol. Cell, DOI://10.1091/mbc.E18-06-0359 (2018)
Reliably picking the best endpoint Follmann, D Stat Med, DOI://10.1002/sim.7927 (2018)
A multiprotein supercomplex controlling oncogenic signalling in lymphoma Phelan, JD; Young, RM; Webster, DE et al. Nature, DOI://10.1038/s41586-018-0290-0 (2018)

Glutamatergic Signaling Drives Ketamine-Mediated Response in Depression: Evidence from Dynamic Causal Modeling Gilbert, JR; Yarrington, JS; Wills, KE; Nugent, AC; Zarate, CA; Int. J. Neuropsychopharmacol., DOI://10.1093/ijnp/pyy041 (2018)
Re-analysis of Whole Genome Sequence Data From 279 Ancient Eurasians Reveals Substantial Ancestral Heterogeneity Shriner, D Front Genet, DOI://10.3389/fgene.2018.00268 (2018)
Association of Coffee Drinking With Mortality by Genetic Variation in Caffeine Metabolism: Findings From the UK Biobank Loftfield, E; Cornelis, MC; Caporaso, N; Yu, K; Sinha, R; Freedman, N; JAMA Intern Med, DOI://10.1001/jamainternmed.2018.2425 (2018)
Cone-rod homeobox CRX controls presynaptic active zone formation in photoreceptors of mammalian retina Assawachananont, J; Kim, SY; Kaya, KD; Fariss, R; Roger, JE; Swaroop, A; Hum. Mol. Genet., DOI://10.1093/hmg/ddy272 (2018)
Prediction of CB[8] host-guest binding free energies in SAMPL6 using the double-decoupling method Han, K; Hudson, PS; Jones, MR; Nishikawa, N; Tofoleanu, F; Brooks, BR; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-018-0144-8 (2018)
ATAC2GRN: optimized ATAC-seq and DNase1-seq pipelines for rapid and accurate genome regulatory network inference Pranzatelli, TJF; Michael, DG; Chiorini, JA; BMC Genomics, DOI://10.1186/s12864-018-4943-z (2018)

Modelling the structure of a ceRNA-theoretical, bipartite microRNA-mRNA interaction network regulating intestinal epithelial cellular pathways using R programming Robinson, JM; Henderson, WA; BMC Res Notes, DOI://10.1186/s13104-018-3126-y (2018)
Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse Tubbs, A; Sridharan, S; van Wietmarschen, N et al. Cell, DOI://10.1016/j.cell.2018.07.011 (2018)
Presynaptic Inhibition Selectively Gates Auditory Transmission to the Brainstem Startle Circuit Tabor, KM; Smith, TS; Brown, M; Bergeron, SA; Briggman, KL; Burgess, HA; Curr. Biol., DOI://10.1016/j.cub.2018.06.020 (2018)
Establishment of regulatory elements during erythro-megakaryopoiesis identifies hematopoietic lineage-commitment points Heuston, EF; Keller, CA; Lichtenberg, J et al. Epigenetics Chromatin, DOI://10.1186/s13072-018-0195-z (2018)
Decoding microglia responses to psychosocial stress reveals blood-brain barrier breakdown that may drive stress susceptibility Lehmann, ML; Weigel, TK; Cooper, HA; Elkahloun, AG; Kigar, SL; Herkenham, M; Sci Rep, DOI://10.1038/s41598-018-28737-8 (2018)
A Fast Approximate Algorithm for Mapping Long Reads to Large Reference Databases Jain, C; Dilthey, A; Koren, S; Aluru, S; Phillippy, AM; J. Comput. Biol., DOI://10.1089/cmb.2018.0036 (2018)

Cryo-EM of the dynamin polymer assembled on lipid membrane Kong, L; Sochacki, KA; Wang, H et al. Nature, DOI://10.1038/s41586-018-0378-6 (2018)
Dual Roles for Ikaros in Regulation of Macrophage Chromatin State and Inflammatory Gene Expression Oh, KS; Gottschalk, RA; Lounsbury, NW et al. J. Immunol., DOI://10.4049/jimmunol.1800158 (2018)
Genetic selection of athletic success in sport-hunting dogs Kim, J; Williams, FJ; Dreger, DL et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1800455115 (2018)
NLM at ImageCLEF 2018 Visual Question Answering in the Medical Domain Asma Ben Abacha, Soumya Gayen, Jason J Lau, Sivaramakrishnan Rajaraman, and Dina Demner-Fushman ImageCLEF 2018 (2018)
Scalable Biomedical Image Synthesis with GAN Canas, K; Ubiera, B; Liu, X; Liu Y Proceedings of the Practice and Experience on Advanced Research Computing Article No. 95 , doi://10.1145/3219104.3229261 (2018)
The Energetics and Physiological Impact of Cohesin Extrusion Vian, L; Pekowska, A; Rao, SSP et al. Cell, DOI://10.1016/j.cell.2018.03.072 (2018)

Transcriptional signature primes human oral mucosa for rapid wound healing Iglesias-Bartolome, R; Uchiyama, A; Molinolo, AA et al. Sci Transl Med, DOI://10.1126/scitranslmed.aap8798 (2018)
Efficient experimental designs for isotropic generalized diffusion tensor MRI (IGDTI) Avram, AV; Sarlls, JE; Hutchinson, E; Basser, PJ; Magn Reson Med, DOI://10.1002/mrm.26656 (2018)
Circulating cell-free DNA as a biomarker of tissue injury: Assessment in a cardiac xenotransplantation model Agbor-Enoh, S; Chan, JL; Singh, A et al. J. Heart Lung Transplant., DOI://10.1016/j.healun.2018.04.009 (2018)
PR interval genome-wide association meta-analysis identifies 50 loci associated with atrial and atrioventricular electrical activity van Setten, J; Brody, JA; Jamshidi, Y et al. Nat Commun, DOI://10.1038/s41467-018-04766-9 (2018)
Patient iPSC-derived neural stem cells exhibit phenotypes in concordance with the clinical severity of Mucopolysaccharidosis I Swaroop, M; Brooks, MJ; Gieser, L; Swaroop, A; Zheng, W; Hum. Mol. Genet., DOI://10.1093/hmg/ddy259 (2018)
Genetic diversity of noroviruses circulating in a pediatric cohort in Bangladesh Nelson, MI; Mahfuz, M; Chhabra, P et al. J. Infect. Dis., DOI://10.1093/infdis/jiy454 (2018)

Role of gamma-amino-butyric acid in the dorsal anterior cingulate in age-associated changes in cognition Marenco, S; Meyer, C; van der Veen, JW et al. Neuropsychopharmacology, DOI://10.1038/s41386-018-0134-5 (2018)
Reliability of neural activation and connectivity during implicit face emotion processing in youth Haller, SP; Kircanski, K; Stoddard, J et al. Dev Cogn Neurosci, DOI://10.1016/j.dcn.2018.03.010 (2018)
Frequency of Loss of Function Variants in LRRK2 in Parkinson Disease Blauwendraat, C; Reed, X; Kia, DA et al. JAMA Neurol, DOI://10.1001/jamaneurol.2018.1885 (2018)
ADAM17-Deficient Mice Model the Transcriptional Signature of Human Atopic Dermatitis Woodring, T; Kobayashi, T; Kim, D; Nagao, K; J. Invest. Dermatol., DOI://10.1016/j.jid.2018.04.021 (2018)
7 T MRI reveals hippocampal structural abnormalities associated with memory intrusions in childhood-onset schizophrenia Zhou, D; Liu, S; Zhou, X et al. Schizophr. Res., DOI://10.1016/j.schres.2018.07.023 (2018)
BMX-mediated regulation of multiple tyrosine kinases contributes to castration resistance in prostate cancer Chen, S; Cai, C; Sowalsky, AG et al. Cancer Res., DOI://10.1158/0008-5472.CAN-17-3615 (2018)
Bivariate Genome-Wide Association Study of Depressive Symptoms With Type 2 Diabetes and Quantitative Glycemic Traits Haljas, K; Amare, AT; Alizadeh, BZ et al. Psychosom Med, DOI://10.1097/PSY.0000000000000555 (2018)
Hepatitis B virus deregulates cell cycle to promote viral replication and a premalignant phenotype Xia, Y; Cheng, X; Li, Y; Valdez, K; Chen, W; Liang, TJ; J. Virol., DOI://10.1128/JVI.00722-18 (2018)
PfCDPK1 is critical for malaria parasite gametogenesis and mosquito infection Bansal, A; Molina-Cruz, A; Brzostowski, J et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1715443115 (2018)
The major depressive disorder GWAS-supported variant rs10514299 in TMEM161B-MEF2C predicts putamen activation during reward processing in alcohol dependence Muench, C; Schwandt, M; Jung, J; Cortes, CR; Momenan, R; Lohoff, FW; Transl Psychiatry, DOI://10.1038/s41398-018-0184-9 (2018)
Ultra-high resolution blood volume fMRI and BOLD fMRI in humans at 9.4 T: Capabilities and challenges Huber, L; Tse, DHY; Wiggins, CJ et al. Neuroimage, DOI://10.1016/j.neuroimage.2018.06.025 (2018)
Genome-Wide Interactions with Dairy Intake for Body Mass Index in Adults of European Descent Smith, CE; Follis, JL; Dashti, HS et al. Mol Nutr Food Res, DOI://10.1002/mnfr.201700347 (2018)

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas Campbell, JD; Yau, C; Bowlby, R et al. Cell Rep, DOI://10.1016/j.celrep.2018.03.063 (2018)
Structural analysis of influenza vaccine virus-like particles reveals a multicomponent organization McCraw, DM; Gallagher, JR; Torian, U et al. Sci Rep, DOI://10.1038/s41598-018-28700-7 (2018)
Postnatal developmental dynamics of cell type specification genes in Brn3a/Pou4f1 Retinal Ganglion Cells Muzyka, VV; Brooks, M; Badea, TC; Neural Dev, DOI://10.1186/s13064-018-0110-0 (2018)
The Sleep Inbred Panel, a Collection of Inbred Drosophila melanogaster with Extreme Long and Short Sleep Duration Serrano Negron, YL; Hansen, NF; Harbison, ST; G3 (Bethesda), DOI://10.1534/g3.118.200503 (2018)
Investigation of the seasonal microbiome of Anopheles coluzzii mosquitoes in Mali Krajacich, BJ; Huestis, DL; Dao, A et al. PLoS ONE, DOI://10.1371/journal.pone.0194899 (2018)
Non-classical Immunity Controls Microbiota Impact on Skin Immunity and Tissue Repair Linehan, JL; Harrison, OJ; Han, SJ et al. Cell, DOI://10.1016/j.cell.2017.12.033 (2018)

Influence of gut microbiome on mucosal immune activation and SHIV viral transmission in naive macaques Sui, Y; Dzutsev, A; Venzon, D et al. Mucosal Immunol, DOI://10.1038/s41385-018-0029-0 (2018)
Building Blocks of the Outer Membrane: Calculating a general elastic energy model for β-barrel membrane proteins Lessen, HJ; Fleming, PJ; Fleming, KG; Sodt, AJ; J Chem Theory Comput, DOI://10.1021/acs.jctc.8b00377 (2018)
Strand-specific Dual RNA-seq of Bronchial Epithelial cells Infected with Influenza A/H3N2 Viruses Reveals Splicing of Gene Segment 6 and Novel Host-Virus Interactions Fabozzi, G; Oler, AJ; Liu, P et al. J. Virol., DOI://10.1128/JVI.00518-18 (2018)
Visualizing Deep Learning Activations for Improved Malaria Cell Classification Rajaraman S, Antani SK, Jaeger S Proceedings of Machine Learning Research (PMLR), v69, p40-47 (2018)
Comparing deep learning models for population screening using chest radiography Rajaraman S, Antani SK, Candemir S, Xue Z, Abuya J, Kohli M, Alderson P, Thoma GR Proc. SPIE 10575, Medical Imaging 2018: Computer-Aided Diagn (2018)
The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma Ricketts, CJ; De Cubas, AA; Fan, H et al. Cell Rep, DOI://10.1016/j.celrep.2018.06.032 (2018)

NCR+ ILC3 maintain larger STAT4 reservoir via T-BET to regulate type 1 features upon IL-23 stimulation in mice Mikami, Y; Scarno, G; Zitti, B et al. Eur. J. Immunol., DOI://10.1002/eji.201847480 (2018)
Parameterization of the CHARMM All-Atom Force Field for Ether Lipids and Model Linear Ethers Leonard, AN; Pastor, RW; Klauda, JB; J Phys Chem B, DOI://10.1021/acs.jpcb.8b02743 (2018)
MEK inhibition induces MYOG and remodels super-enhancers in RAS-driven rhabdomyosarcoma Yohe, ME; Gryder, BE; Shern, JF et al. Sci Transl Med, DOI://10.1126/scitranslmed.aan4470 (2018)
Integrative Bayesian Analysis Identifies Rhabdomyosarcoma Disease Genes Xu, L; Zheng, Y; Liu, J et al. Cell Rep, DOI://10.1016/j.celrep.2018.06.006 (2018)
Geographic clonal tracking in macaques provides insights into HSPC migration and differentiation Wu, C; Espinoza, DA; Koelle, SJ et al. J. Exp. Med., DOI://10.1084/jem.20171341 (2018)
An epigenetic mechanism for cavefish eye degeneration Gore, AV; Tomins, KA; Iben, J et al. Nat Ecol Evol, DOI://10.1038/s41559-018-0569-4 (2018)

N-Myc Downstream-Regulated Gene 1 Restricts Hepatitis C Virus Propagation by Regulating Lipid Droplet Biogenesis and Viral Assembly Schweitzer, CJ; Zhang, F; Boyer, A; Valdez, K; Cam, M; Liang, TJ; J. Virol., DOI://10.1128/JVI.01166-17 (2018)
Arl2-Mediated Allosteric Release of Farnesylated KRas4B from Shuttling Factor PDEδ Ozdemir, ES; Jang, H; Gursoy, A; Keskin, O; Nussinov, R; J Phys Chem B, DOI://10.1021/acs.jpcb.8b04347 (2018)
Defects in the Alternative Splicing-Dependent Regulation of REST Cause Deafness Nakano, Y; Kelly, MC; Rehman, AU et al. Cell, DOI://10.1016/j.cell.2018.06.004 (2018)
Targeting Notch1 and IKKa enhanced NF-κB activation in CD133+ Skin Cancer Stem Cells Quan, XX; Voong Hawk, N; Chen, W et al. Mol. Cancer Ther., DOI://10.1158/1535-7163.MCT-17-0421 (2018)
Cryo-EM structure of human rhodopsin bound to an inhibitory G protein Kang, Y; Kuybeda, O; de Waal, PW et al. Nature, DOI://10.1038/s41586-018-0215-y (2018)
An Autonomic Network: Synchrony Between Slow Rhythms of Pulse and Brain Resting State Is Associated with Personality and Emotions Shokri-Kojori, E; Tomasi, D; Volkow, ND; Cereb. Cortex, DOI://10.1093/cercor/bhy144 (2018)

Novel genetic associations for blood pressure identified via gene-alcohol interaction in up to 570K individuals across multiple ancestries Feitosa, MF; Kraja, AT; Chasman, DI et al. PLoS ONE, DOI://10.1371/journal.pone.0198166 (2018)
Morphometric analysis and neuroanatomical mapping of the zebrafish brain Gupta, T; Marquart, GD; Horstick, EJ; Tabor, KM; Pajevic, S; Burgess, HA; Methods, DOI://10.1016/j.ymeth.2018.06.008 (2018)
Guide RNA selection for CRISPR-Cas9 transfections in Plasmodium falciparum Ribeiro, JM; Garriga, M; Potchen, N et al. Int. J. Parasitol., DOI://10.1016/j.ijpara.2018.03.009 (2018)
Neoadjuvant-intensive androgen deprivation therapy selects for prostate tumor foci with diverse subclonal oncogenic alterations Sowalsky, AG; Ye, H; Bhasin, M et al. Cancer Res., DOI://10.1158/0008-5472.CAN-18-0610 (2018)
Late manifestation of alloantibody-associated injury and clinical pulmonary antibody-mediated rejection: Evidence from cell-free DNA analysis Agbor-Enoh, S; Jackson, AM; Tunc, I et al. J. Heart Lung Transplant., DOI://10.1016/j.healun.2018.01.1305 (2018)
A subregion-based burden test for simultaneous identification of susceptibility loci and subregions within Zhu, B; Mirabello, L; Chatterjee, N; Genet. Epidemiol., DOI://10.1002/gepi.22134 (2018)

HPV integration hijacks and multimerizes a cellular enhancer to generate a viral-cellular super-enhancer that drives high viral oncogene expression Warburton, A; Redmond, CJ; Dooley, KE et al. PLoS Genet., DOI://10.1371/journal.pgen.1007179 (2018)
Publisher Correction: Cryo-EM structure of human rhodopsin bound to an inhibitory G protein Kang, Y; Kuybeda, O; de Waal, PW et al. Nature, DOI://10.1038/s41586-018-0302-0 (2018)
Genetics and Pathogenesis of Diffuse Large B-Cell Lymphoma Schmitz, R; Wright, GW; Huang, DW et al. N. Engl. J. Med., DOI://10.1056/NEJMoa1801445 (2018)
ADHFE1 is a breast cancer oncogene and induces metabolic reprogramming Mishra, P; Tang, W; Putluri, V et al. J. Clin. Invest., DOI://10.1172/JCI93815 (2018)
Genetic variants in pachyonychia congenita-associated keratins increase susceptibility to tooth decay Duverger, O; Carlson, JC; Karacz, CM et al. PLoS Genet., DOI://10.1371/journal.pgen.1007168 (2018)
Innate and adaptive lymphocytes sequentially shape the gut microbiota and lipid metabolism Mao, K; Baptista, AP; Tamoutounour, S et al. Nature, DOI://10.1038/nature25437 (2018)

Normative brain size variation and brain shape diversity in humans Reardon, PK; Seidlitz, J; Vandekar, S et al. Science, DOI://10.1126/science.aar2578 (2018)
Microbiology catches the cryo-EM bug Earl, LA; Falconieri, V; Subramaniam, S; Curr. Opin. Microbiol., DOI://10.1016/j.mib.2018.02.012 (2018)
RiboSketch: Versatile Visualization of Multi-stranded RNA and DNA Secondary Structure Lu, JS; Bindewald, E; Kasprzak, W; Shapiro, BA; Bioinformatics, DOI://10.1093/bioinformatics/bty468 (2018)
Sialome diversity of ticks revealed by RNAseq of single tick salivary glands Perner, J; Kropáčková, S; Kopáček, P; Ribeiro, JMC; PLoS Negl Trop Dis, DOI://10.1371/journal.pntd.0006410 (2018)
Identification of a novel locus on chromosome 2q13, which predisposes to clinical vertebral fractures independently of bone density Alonso, N; Estrada, K; Albagha, OME et al. Ann. Rheum. Dis., DOI://10.1136/annrheumdis-2017-212469 (2018)
Structure-Guided Modification of Heterocyclic Antagonists of the P2Y14 Receptor Yu, J; Ciancetta, A; Dudas, S; Duca, S; Lottermoser, J; Jacobson, KA; J. Med. Chem., DOI://10.1021/acs.jmedchem.8b00168 (2018)

A coupled-clock system drives the automaticity of human sinoatrial nodal pacemaker cells Tsutsui, K; Monfredi, OJ; Sirenko-Tagirova, SG et al. Sci Signal, DOI://10.1126/scisignal.aap7608 (2018)
The SS18-SSX Fusion Oncoprotein Hijacks BAF Complex Targeting and Function to Drive Synovial Sarcoma McBride, MJ; Pulice, JL; Beird, HC et al. Cancer Cell, DOI://10.1016/j.ccell.2018.05.002 (2018)
AptaSUITE: A Full-Featured Bioinformatics Framework for the Comprehensive Analysis of Aptamers from HT-SELEX Experiments Hoinka, J; Backofen, R; Przytycka, TM; Mol Ther Nucleic Acids, DOI://10.1016/j.omtn.2018.04.006 (2018)
Modifier locus mapping of a transgenic F2 mouse population identifies CCDC115 as a novel aggressive prostate cancer modifier gene in humans Winter, JM; Curry, NL; Gildea, DM et al. BMC Genomics, DOI://10.1186/s12864-018-4827-2 (2018)
Dominant-negative SMARCA4 mutants alter the accessibility landscape of tissue-unrestricted enhancers Hodges, HC; Stanton, BZ; Cermakova, K et al. Nat. Struct. Mol. Biol., DOI://10.1038/s41594-017-0007-3 (2018)
Exploring Substrate Binding in the Extracellular Vestibule of MhsT by Atomistic Simulations and Markov Models Abramyan, AM; Quick, M; Xue, C; Javitch, JA; Shi, L; J Chem Inf Model, DOI://10.1021/acs.jcim.8b00175 (2018)

HiCTMap: Detection and analysis of chromosome territory structure and position by high-throughput imaging Jowhar, Z; Gudla, PR; Shachar, S et al. Methods, DOI://10.1016/j.ymeth.2018.01.013 (2018)
Chromatic: WebAssembly-Based Cancer Genome Viewer Finney, R; Meerzaman, D; Cancer Inform, DOI://10.1177/1176935118771972 (2018)
DNA Methylation and Regulatory Elements during Chicken Germline Stem Cell Differentiation He, Y; Zuo, Q; Edwards, J et al. Stem Cell Reports, DOI://10.1016/j.stemcr.2018.03.018 (2018)
Immune recognition of somatic mutations leading to complete durable regression in metastatic breast cancer Zacharakis, N; Chinnasamy, H; Black, M et al. Nat. Med., DOI://10.1038/s41591-018-0040-8 (2018)
Cracking the DNA Code for V(D)J Recombination Kim, MS; Chuenchor, W; Chen, X et al. Mol. Cell, DOI://10.1016/j.molcel.2018.03.008 (2018)
Evaluation and comparison of predictive individual-level general surrogates Gabriel, EE; Sachs, MC; Halloran, ME; Biostatistics, DOI://10.1093/biostatistics/kxx037 (2018)

DLX3-Dependent STAT3 Signaling in Keratinocytes Regulates Skin Immune Homeostasis Bhattacharya, S; Kim, JC; Ogawa, Y et al. J. Invest. Dermatol., DOI://10.1016/j.jid.2017.11.033 (2018)
Rapid Classification and Identification of Multiple Microorganisms with Accurate Statistical Significance via High-Resolution Tandem Mass Spectrometry Alves, G; Wang, G; Ogurtsov, AY et al. J. Am. Soc. Mass Spectrom., DOI://10.1007/s13361-018-1986-y (2018)
Emergence and Evolution of Novel Reassortant Influenza A Viruses in Canines in Southern China Chen, Y; Trovão, NS; Wang, G et al. MBio, DOI://10.1128/mBio.00909-18 (2018)
In-depth investigations of adolescents and adults with holoprosencephaly identify unique characteristics Weiss, K; Kruszka, P; Guillen Sacoto, MJ et al. Genet. Med., DOI://10.1038/gim.2017.68 (2018)
Correction: Single-trait and multi-trait genome-wide association analyses identify novel loci for blood pressure in African-ancestry populations Liang, J; Le, TH; Velez Edwards, DR et al. PLoS Genet., DOI://10.1371/journal.pgen.1007345 (2018)
Genome-Wide Mapping of DNA Accessibility and Binding Sites for CREB and C/EBPβ in Vasopressin-Sensitive Collecting Duct Cells Jung, HJ; Raghuram, V; Lee, JW; Knepper, MA; J. Am. Soc. Nephrol., DOI://10.1681/ASN.2017050545 (2018)

Discovering a binary CTCF code with a little help from BORIS Lobanenkov, VV; Zentner, GE; Nucleus, DOI://10.1080/19491034.2017.1394536 (2018)
T-cell responses to TP53 "hotspot" mutations and unique neoantigens expressed by human ovarian cancers Deniger, DC; Pasetto, A; Robbins, PF et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-0573 (2018)
Computational Modeling of Mitochondrial Function from a Systems Biology Perspective Cortassa, S; Sollott, SJ; Aon, MA; Methods Mol. Biol., DOI://10.1007/978-1-4939-7831-1_14 (2018)
Trait paranoia shapes inter-subject synchrony in brain activity during an ambiguous social narrative Finn, ES; Corlett, PR; Chen, G; Bandettini, PA; Constable, RT; Nat Commun, DOI://10.1038/s41467-018-04387-2 (2018)
High burden of birthweight-lowering genetic variants in Africans and Asians Tekola-Ayele, F; Workalemahu, T; Amare, AT; BMC Med, DOI://10.1186/s12916-018-1061-3 (2018)
SWI/SNF and RSC cooperate to reposition and evict promoter nucleosomes at highly expressed genes in yeast Rawal, Y; Chereji, RV; Qiu, H et al. Genes Dev., DOI://10.1101/gad.312850.118 (2018)

Comparative Population Genomics Analysis of the Mammalian Fungal Pathogen Pneumocystis Cissé, OH; Ma, L; Wei Huang, D et al. MBio, DOI://10.1128/mBio.00381-18 (2018)
Characterization of Hemagglutinin Antigens on Influenza Virus and within Vaccines Using Electron Microscopy Gallagher, JR; McCraw, DM; Torian, U et al. Vaccines (Basel), DOI://10.3390/vaccines6020031 (2018)
Autophagy promotes the survival of dormant breast cancer cells and metastatic tumour recurrence Vera-Ramirez, L; Vodnala, SK; Nini, R; Hunter, KW; Green, JE; Nat Commun, DOI://10.1038/s41467-018-04070-6 (2018)
Variation in human chromosome 21 ribosomal RNA genes characterized by TAR cloning and long-read sequencing Kim, JH; Dilthey, AT; Nagaraja, R et al. Nucleic Acids Res., DOI://10.1093/nar/gky442 (2018)
Clinically Relevant Cytotoxic Immune Cell Signatures and Clonal Expansion of T-Cell Receptors in High-risk MYCN-not-amplified Human Neuroblastoma Wei, JS; Kuznetsov, IB; Zhang, S et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-18-0599 (2018)
Functional screening of FGFR4-driven tumorigenesis identifies PI3K/mTOR inhibition as a therapeutic strategy in rhabdomyosarcoma McKinnon, T; Venier, R; Yohe, M et al. Oncogene, DOI://10.1038/s41388-017-0122-y (2018)

Graph-Theoretic Analysis of Monomethyl Phosphate Clustering in Ionic Solutions Han, K; Venable, RM; Bryant, AM et al. J Phys Chem B, DOI://10.1021/acs.jpcb.7b10730 (2018)
Atomic Resolution Cryo-EM Structure of β-Galactosidase Bartesaghi, A; Aguerrebere, C; Falconieri, V et al. Structure, DOI://10.1016/j.str.2018.04.004 (2018)
Identification of Novel Targets for Lung Cancer Therapy Using an Induced Pluripotent Stem Cell Model Shukla, V; Rao, M; Zhang, H et al. Ann Am Thorac Soc, DOI://10.1513/AnnalsATS.201707-610MG (2018)
The distinct structural preferences of tau protein repeat domains Li, X; Dong, X; Wei, G; Margittai, M; Nussinov, R; Ma, B; Chem. Commun. (Camb.), DOI://10.1039/c8cc01263f (2018)
Neutrophil subsets and their gene signature associate with vascular inflammation and coronary atherosclerosis in lupus Carlucci, PM; Purmalek, MM; Dey, AK et al. JCI Insight, DOI://10.1172/jci.insight.99276 (2018)
Molecular dynamics simulations of lipid nanodiscs Pourmousa, M; Pastor, RW; Biochim. Biophys. Acta, DOI://10.1016/j.bbamem.2018.04.015 (2018)

Epigenome-Wide Association Study of Soluble Tumor Necrosis Factor Receptor 2 Levels in the Framingham Heart Study Mendelson, MM; Johannes, R; Liu, C et al. Front Pharmacol, DOI://10.3389/fphar.2018.00207 (2018)
Experimental and Computational Protocols for Studies of Cross-Seeding Amyloid Assemblies Ren, B; Hu, R; Zhang, M et al. Methods Mol. Biol., DOI://10.1007/978-1-4939-7811-3_27 (2018)
Replica Exchange Molecular Dynamics: A Practical Application Protocol with Solutions to Common Problems and a Peptide Aggregation and Self-Assembly Example Qi, R; Wei, G; Ma, B; Nussinov, R; Methods Mol. Biol., DOI://10.1007/978-1-4939-7811-3_5 (2018)
Dynamic Behavior of RNA Nanoparticles Analyzed by AFM on a Mica/Air Interface Sajja, S; Chandler, M; Fedorov, D et al. Langmuir, DOI://10.1021/acs.langmuir.8b00105 (2018)
iPSCs from a Hibernator Provide a Platform for Studying Cold Adaptation and Its Potential Medical Applications Ou, J; Ball, JM; Luan, Y et al. Cell, DOI://10.1016/j.cell.2018.03.010 (2018)
Germline gain-of-function myeloid differentiation primary response gene-88 (MYD88) mutation in a child with severe arthritis Sikora, KA; Bennett, JR; Vyncke, L et al. J. Allergy Clin. Immunol., DOI://10.1016/j.jaci.2018.01.027 (2018)

Iron homeostasis regulates facultative heterochromatin assembly in adaptive genome control Gallagher, PS; Larkin, M; Thillainadesan, G et al. Nat. Struct. Mol. Biol., DOI://10.1038/s41594-018-0056-2 (2018)
Whole-Exome Sequencing to Identify Rare Variants and Gene Networks That Increase Susceptibility to Scleroderma in African Americans Gourh, P; Remmers, EF; Boyden, SE et al. , DOI://10.1002/art.40541 (2018)
Irritability Trajectories, Cortical Thickness, and Clinical Outcomes in a Sample Enriched for Preschool Depression Pagliaccio, D; Pine, DS; Barch, DM; Luby, JL; Leibenluft, E; J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2018.02.010 (2018)
Temporal Variability of Oral Microbiota over 10 Months and the Implications for Future Epidemiologic Studies Vogtmann, E; Hua, X; Zhou, L et al. Cancer Epidemiol. Biomarkers Prev., DOI://10.1158/1055-9965.EPI-17-1004 (2018)
Position-specific intron retention is mediated by the histone methyltransferase SDG725 Wei, G; Liu, K; Shen, T et al. BMC Biol., DOI://10.1186/s12915-018-0513-8 (2018)
Day length is associated with physical activity and sedentary behavior among older women Schepps, MA; Shiroma, EJ; Kamada, M; Harris, TB; Lee, IM; Sci Rep, DOI://10.1038/s41598-018-25145-w (2018)

Cortical abnormalities in bipolar disorder: an MRI analysis of 6503 individuals from the ENIGMA Bipolar Disorder Working Group Hibar, DP; Westlye, LT; Doan, NT et al. Mol. Psychiatry, DOI://10.1038/mp.2017.73 (2018)
A draft genome sequence for the Ixodes scapularis cell line, ISE6 Miller, JR; Koren, S; Dilley, KA et al. F1000Res, DOI://10.12688/f1000research.13635.1 (2018)
Insulin promoter in human pancreatic β cells contacts diabetes susceptibility loci and regulates genes affecting insulin metabolism Jian, X; Felsenfeld, G; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1803146115 (2018)
Organization of the core respiratory network: Insights from optogenetic and modeling studies Ausborn, J; Koizumi, H; Barnett, WH et al. PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1006148 (2018)
Dealing with competing risks in clinical trials: How to choose the primary efficacy analysis Troendle, JF; Leifer, ES; Kunz, L; Stat Med, DOI://10.1002/sim.7800 (2018)
A cleavage product of Polycystin-1 is a mitochondrial matrix protein that affects mitochondria morphology and function when heterologously expressed Lin, CC; Kurashige, M; Liu, Y et al. Sci Rep, DOI://10.1038/s41598-018-20856-6 (2018)

SIRT1 is a transcriptional enhancer of the glucocorticoid receptor acting independently to its deacetylase activity Suzuki, S; Iben, JR; Coon, SL; Kino, T; Mol. Cell. Endocrinol., DOI://10.1016/j.mce.2017.09.012 (2018)
Massively Parallel Single Nucleus Transcriptional Profiling Defines Spinal Cord Neurons and Their Activity during Behavior Sathyamurthy, A; Johnson, KR; Matson, KJE et al. Cell Rep, DOI://10.1016/j.celrep.2018.02.003 (2018)
A mutational comparison of adult and adolescent and young adult (AYA) colon cancer Tricoli, JV; Boardman, LA; Patidar, R et al. Cancer, DOI://10.1002/cncr.31136 (2018)
Insufficient evidence for pathogenicity of SNCA His50Gln (H50Q) in Parkinson's disease Blauwendraat, C; Kia, DA; Pihlstrøm, L et al. Neurobiol. Aging, DOI://10.1016/j.neurobiolaging.2017.12.012 (2018)
Comprehensive Synthesis of Amino Acid-Derived Thiazole Peptidomimetic Analogues to Understand the Enigmatic Drug/Substrate-Binding Site of P-Glycoprotein Patel, BA; Abel, B; Barbuti, AM et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.7b01340 (2018)
Homeobox transcription factor DLX4 is not necessary for skin development and homeostasis Bhattacharya, S; Duverger, O; Brooks, SR; Morasso, MI; Exp. Dermatol., DOI://10.1111/exd.13503 (2018)

Outcomes of Children and Adolescents with Advanced Hereditary Medullary Thyroid Carcinoma Treated with Vandetanib Kraft, IL; Akshintala, S; Zhu, Y et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-17-2101 (2018)
Feedforward Inhibition Allows Input Summation to Vary in Recurrent Cortical Networks Histed, MH eNeuro, DOI://10.1523/ENEURO.0356-17.2018 (2018)
Effects on gene expression and behavior of untagged short tandem repeats: the case of arginine vasopressin receptor 1a (AVPR1a) and externalizing behaviors Landefeld, CC; Hodgkinson, CA; Spagnolo, PA et al. Transl Psychiatry, DOI://10.1038/s41398-018-0120-z (2018)
Morphometric Similarity Networks Detect Microscale Cortical Organization and Predict Inter-Individual Cognitive Variation Seidlitz, J; Váša, F; Shinn, M et al. Neuron, DOI://10.1016/j.neuron.2017.11.039 (2018)
A multicohort, longitudinal study of cerebellar development in attention deficit hyperactivity disorder Shaw, P; Ishii-Takahashi, A; Park, MT et al. J Child Psychol Psychiatry, DOI://10.1111/jcpp.12920 (2018)
Single-tubule RNA-Seq uncovers signaling mechanisms that defend against hyponatremia in SIADH Lee, JW; Alsady, M; Chou, CL et al. Kidney Int., DOI://10.1016/j.kint.2017.06.008 (2018)

Interrogating the Functions of PRDM9 Domains in Meiosis Thibault-Sennett, S; Yu, Q; Smagulova, F et al. Genetics, DOI://10.1534/genetics.118.300565 (2018)
Using standard microbiome reference groups to simplify beta-diversity analyses and facilitate independent validation Maziarz, M; Pfeiffer, RM; Wan, Y; Gail, MH; Bioinformatics, DOI://10.1093/bioinformatics/bty297 (2018)
Electrophysiological heterogeneity of pacemaker cells in the rabbit intercaval region, including the SA node: insights from recording multiple ion currents in each cell Monfredi, O; Tsutsui, K; Ziman, B; Stern, MD; Lakatta, EG; Maltsev, VA; Am. J. Physiol. Heart Circ. Physiol., DOI://10.1152/ajpheart.00253.2016 (2018)
Aberrant tRNA processing causes an autoinflammatory syndrome responsive to TNF inhibitors Giannelou, A; Wang, H; Zhou, Q et al. Ann. Rheum. Dis., DOI://10.1136/annrheumdis-2017-212401 (2018)
ICE1 promotes the link between splicing and nonsense-mediated mRNA decay Baird, TD; Cheng, KC; Chen, YC et al. Elife, DOI://10.7554/eLife.33178 (2018)
Somatic activating mutations in MAP2K1 cause melorheostosis Kang, H; Jha, S; Deng, Z et al. Nat Commun, DOI://10.1038/s41467-018-03720-z (2018)

Analysis of the 9p21.3 sequence associated with coronary artery disease reveals a tendency for duplication in a CAD patient Kouprina, N; Liskovykh, M; Lee, NCO et al. Oncotarget, DOI://10.18632/oncotarget.24567 (2018)
Characterization of clinically used oral antiseptics as quadruplex-binding ligands Calabrese, DR; Zlotkowski, K; Alden, S et al. Nucleic Acids Res., DOI://10.1093/nar/gky084 (2018)
A Neutralizing Antibody Recognizing Primarily N-Linked Glycan Targets the Silent Face of the HIV Envelope Zhou, T; Zheng, A; Baxa, U et al. Immunity, DOI://10.1016/j.immuni.2018.02.013 (2018)
Statistical power comparisons at 3T and 7T with a GO / NOGO task Torrisi, S; Chen, G; Glen, D et al. Neuroimage, DOI://10.1016/j.neuroimage.2018.03.071 (2018)
Gcn4 Binding in Coding Regions Can Activate Internal and Canonical 5' Promoters in Yeast Rawal, Y; Chereji, RV; Valabhoju, V et al. Mol. Cell, DOI://10.1016/j.molcel.2018.03.007 (2018)
Deep sequencing of the mitochondrial genome reveals common heteroplasmic sites in NADH dehydrogenase genes Liu, C; Fetterman, JL; Liu, P et al. Hum. Genet., DOI://10.1007/s00439-018-1873-4 (2018)
A Latent Variable Approach to Differentiating Neural Mechanisms of Irritability and Anxiety in Youth Kircanski, K; White, LK; Tseng, WL et al. JAMA Psychiatry, DOI://10.1001/jamapsychiatry.2018.0468 (2018)
The impact of aging on primate hematopoiesis as interrogated by clonal tracking Yu, KR; Espinoza, DA; Wu, C et al. Blood, DOI://10.1182/blood-2017-08-802033 (2018)
Inferring properties of disordered chains from FRET transfer efficiencies Zheng, W; Zerze, GH; Borgia, A; Mittal, J; Schuler, B; Best, RB; J Chem Phys, DOI://10.1063/1.5006954 (2018)
A Novel Method to Extend a Partial-Body CT for the Reconstruction of Dose to Organs beyond the Scan Range Kuzmin, GA; Mille, MM; Jung, JW et al. Radiat. Res., DOI://10.1667/RR14999.1 (2018)
Association of Methylation Signals With Incident Coronary Heart Disease in an Epigenome-Wide Assessment of Circulating Tumor Necrosis Factor α Aslibekyan, S; Agha, G; Colicino, E et al. JAMA Cardiol, DOI://10.1001/jamacardio.2018.0510 (2018)
A method for determining haploid and triploid genotypes and their association with vascular phenotypes in Williams syndrome and 7q11.23 duplication syndrome Gregory, MD; Kolachana, B; Yao, Y et al. BMC Med. Genet., DOI://10.1186/s12881-018-0563-3 (2018)

IL1RN Variation Influences both Disease Susceptibility and Response to Human Recombinant IL-1RA Therapy in Systemic Juvenile Idiopathic Arthritis Arthur, VL; Shuldiner, E; Remmers, EF et al. , DOI://10.1002/art.40498 (2018)
Genome-wide Analyses Identify KIF5A as a Novel ALS Gene Nicolas, A; Kenna, KP; Renton, AE et al. Neuron, DOI://10.1016/j.neuron.2018.02.027 (2018)
Emollient use alters skin barrier and microbes in infants at risk for developing atopic dermatitis Glatz, M; Jo, JH; Kennedy, EA et al. PLoS ONE, DOI://10.1371/journal.pone.0192443 (2018)
Quantification of Human Microbiome Stability Over Six Months: Implications for Epidemiologic Studies Sinha, R; Goedert, JJ; Vogtmann, E et al. Am. J. Epidemiol., DOI://10.1093/aje/kwy064 (2018)
A trapped human PPM1A-phosphopeptide complex reveals structural features critical for regulation of PPM protein phosphatase activity Debnath, S; Kosek, D; Tagad, HD et al. J. Biol. Chem., DOI://10.1074/jbc.RA117.001213 (2018)
Default Mode Connectivity in Major Depressive Disorder Measured Up to 10 Days After Ketamine Administration Evans, JW; Szczepanik, J; Brutsché, N; Park, LT; Nugent, AC; Zarate, CA; Biol. Psychiatry, DOI://10.1016/j.biopsych.2018.01.027 (2018)

An Extended Guinier Analysis for Intrinsically Disordered Proteins Zheng, W; Best, RB; J. Mol. Biol., DOI://10.1016/j.jmb.2018.03.007 (2018)
ZFR coordinates crosstalk between RNA decay and transcription in innate immunity Haque, N; Ouda, R; Chen, C; Ozato, K; Hogg, JR; Nat Commun, DOI://10.1038/s41467-018-03326-5 (2018)
Lifestyle, metabolite, and genetic determinants of formate concentrations in a cross-sectional study in young, healthy adults Brosnan, JT; Mills, JL; Ueland, PM et al. Am. J. Clin. Nutr., DOI://10.1093/ajcn/nqx065 (2018)
Shep regulates Drosophila neuronal remodeling by controlling transcription of its chromatin targets Chen, D; Dale, RK; Lei, EP; Development, DOI://10.1242/dev.154047 (2018)
Balancing Force Field Protein-Lipid Interactions To Capture Transmembrane Helix-Helix Association Domanski, J; Sansom, MSP; Stansfeld, PJ; Best, RB; J Chem Theory Comput, DOI://10.1021/acs.jctc.7b00983 (2018)
Metabolic profiles of triple-negative and luminal A breast cancer subtypes in African-American identify key metabolic differences Tayyari, F; Gowda, GAN; Olopade, OF et al. Oncotarget, DOI://10.18632/oncotarget.24433 (2018)
Targeting loss of the Hippo signaling pathway in NF2-deficient papillary kidney cancers Sourbier, C; Liao, PJ; Ricketts, CJ et al. Oncotarget, DOI://10.18632/oncotarget.24112 (2018)
Gestational cytokine concentrations and neurocognitive development at 7 years Ghassabian, A; Albert, PS; Hornig, M et al. Transl Psychiatry, DOI://10.1038/s41398-018-0112-z (2018)
LMTK3 confers chemo-resistance in breast cancer Stebbing, J; Shah, K; Lit, LC et al. Oncogene, DOI://10.1038/s41388-018-0197-0 (2018)
Argonaute2 and LaminB modulate gene expression by controlling chromatin topology Nazer, E; Dale, RK; Chinen, M; Radmanesh, B; Lei, EP; PLoS Genet., DOI://10.1371/journal.pgen.1007276 (2018)
A deep insight into the male and female sialotranscriptome of adult Culex tarsalis mosquitoes Ribeiro, JMC; Martin-Martin, I; Moreira, FR; Bernard, KA; Calvo, E; Insect Biochem. Mol. Biol., DOI://10.1016/j.ibmb.2018.03.001 (2018)
In Vitro Modeling of Human Germ Cell Development Using Pluripotent Stem Cells Zhao, Y; Ye, S; Liang, D et al. Stem Cell Reports, DOI://10.1016/j.stemcr.2018.01.001 (2018)

Evidence of subgroups in smokers as revealed in clinical measures and evaluated by neuroimaging data: a preliminary study Ding, X; Salmeron, BJ; Wang, J; Yang, Y; Stein, EA; Ross, TJ; Addict Biol, DOI://10.1111/adb.12620 (2018)
Co-evolutionary fitness landscapes for sequence design Tian, P; Louis, JM; Baber, JL; Aniana, A; Best, R; Angew. Chem. Int. Ed. Engl., DOI://10.1002/anie.201713220 (2018)
An Efficient Single-Cell RNA-Seq Approach to Identify Neoantigen-Specific T Cell Receptors Lu, YC; Zheng, Z; Robbins, PF et al. Mol. Ther., DOI://10.1016/j.ymthe.2017.10.018 (2018)
Mechanism of Darunavir (DRV)'s High Genetic Barrier to HIV-1 Resistance: A Key V32I Substitution in Protease Rarely Occurs, but Once It Occurs, It Predisposes HIV-1 To Develop DRV Resistance Aoki, M; Das, D; Hayashi, H et al. MBio, DOI://10.1128/mBio.02425-17 (2018)
Nanopore sequencing and assembly of a human genome with ultra-long reads Jain, M; Koren, S; Miga, KH et al. Nat. Biotechnol., DOI://10.1038/nbt.4060 (2018)
Impact of time-of-day on diffusivity measures of brain tissue derived from diffusion tensor imaging Thomas, C; Sadeghi, N; Nayak, A et al. Neuroimage, DOI://10.1016/j.neuroimage.2018.02.026 (2018)

Verdazyl-ribose: A new radical for solid-state dynamic nuclear polarization at high magnetic field Thurber, KR; Le, TN; Changcoco, V; Brook, DJR; J. Magn. Reson., DOI://10.1016/j.jmr.2018.02.016 (2018)
Minoxidil improves vascular compliance, restores cerebral blood flow and alters extracellular matrix gene expression in a model of chronic vascular stiffness Knutsen, R; Beeman, SC; Broekelmann, TJ et al. Am. J. Physiol. Heart Circ. Physiol., DOI://10.1152/ajpheart.00683.2017 (2018)
An insight into the salivary gland and fat body transcriptome of Panstrongylus lignarius (Hemiptera: Heteroptera), the main vector of Chagas disease in Peru Nevoa, JC; Mendes, MT; da Silva, MV; Soares, SC; Oliveira, CJF; Ribeiro, JMC; PLoS Negl Trop Dis, DOI://10.1371/journal.pntd.0006243 (2018)
Highly Disordered Amyloid-β Monomer Probed by Single-Molecule FRET and MD Simulation Meng, F; Bellaiche, MMJ; Kim, JY; Zerze, GH; Best, RB; Chung, HS; Biophys. J., DOI://10.1016/j.bpj.2017.12.025 (2018)
Identification of Casz1 as a Regulatory Protein Controlling T Helper Cell Differentiation, Inflammation, and Immunity Bhaskaran, N; Liu, Z; Saravanamuthu, SS et al. Front Immunol, DOI://10.3389/fimmu.2018.00184 (2018)
GRL-079, a Novel HIV-1 Protease Inhibitor, Is Extremely Potent against Multidrug-Resistant HIV-1 Variants and Has a High Genetic Barrier against the Emergence of Resistant Variants Delino NS, Aoki M, Hayashi H, Hattori SI, Chang SB, Takamatsu Y, Martyr CD, Das D, Ghosh AK, Mitsuya H Antimicrob Agents Chemother. , doi: 10.1128/AAC.02060-17 (2018)

Design and statistical considerations for studies evaluating the efficacy of a single dose of the human papillomavirus (HPV) vaccine Sampson, JN; Hildesheim, A; Herrero, R; Gonzalez, P; Kreimer, A; Gail, MH; Contemp Clin Trials, DOI://10.1016/j.cct.2018.02.010 (2018)
Transcriptional regulation by NR5A2 links differentiation and inflammation in the pancreas Cobo, I; Martinelli, P; Flández, M et al. Nature, DOI://10.1038/nature25751 (2018)
Estimating recurrence and incidence of preterm birth subject to measurement error in gestational age: A hidden Markov modeling approach Albert, PS Stat Med, DOI://10.1002/sim.7624 (2018)
Extreme disorder in an ultrahigh-affinity protein complex Borgia, A; Borgia, MB; Bugge, K et al. Nature, DOI://10.1038/nature25762 (2018)
Epigenome comparisons reveal linkage between gene expression and postnatal remodeling of chromatin domain topology Howard, BH; Hirai, TH; Russanova, VR; PLoS ONE, DOI://10.1371/journal.pone.0191033 (2018)
Transformation of Accessible Chromatin and 3D Nucleome Underlies Lineage Commitment of Early T Cells Hu, G; Cui, K; Fang, D et al. Immunity, DOI://10.1016/j.immuni.2018.01.013 (2018)

Structural Modulation of Human Amylin Protofilaments by Naturally Occurring Mutations Tofoleanu, F; Yuan, Y; Pickard, FC; Tywoniuk, B; Brooks, BR; Buchete, NV; J Phys Chem B, DOI://10.1021/acs.jpcb.7b12083 (2018)
Assessment of PCXMC for patients with different body size in chest and abdominal x ray examinations: a Monte Carlo simulation study Borrego, D; Lowe, EM; Kitahara, CM; Lee, C; Phys Med Biol, DOI://10.1088/1361-6560/aab13e (2018)
Dose coefficients for children and young adolescents exposed to external neutron fields Griffin, KT; Mille, M; Lee, C; J Radiol Prot, DOI://10.1088/1361-6498/aab126 (2018)
CD63, MHC class 1, and CD47 identify subsets of extracellular vesicles containing distinct populations of noncoding RNAs Kaur, S; Elkahloun, AG; Arakelyan, A et al. Sci Rep, DOI://10.1038/s41598-018-20936-7 (2018)
Transient Receptor Potential Channels TRPM4 and TRPC3 Critically Contribute to Respiratory Motor Pattern Formation but not Rhythmogenesis in Rodent Brainstem Circuits Koizumi, H; John, TT; Chia, JX et al. eNeuro, DOI://10.1523/ENEURO.0332-17.2018 (2018)
Ridding fMRI data of motion-related influences: Removal of signals with distinct spatial and physical bases in multiecho data Power, JD; Plitt, M; Gotts, SJ et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1720985115 (2018)

The Antimicrobial Peptide CRAMP Is Essential for Colon Homeostasis by Maintaining Microbiota Balance Yoshimura, T; McLean, MH; Dzutsev, AK et al. J. Immunol., DOI://10.4049/jimmunol.1602073 (2018)
Genomic Analysis of Hospital Plumbing Reveals Diverse Reservoir of Bacterial Plasmids Conferring Carbapenem Resistance Weingarten, RA; Johnson, RC; Conlan, S et al. MBio, DOI://10.1128/mBio.02011-17 (2018)
5-Azacytidine prevents relapse and produces long-term complete remissions in leukemia xenografts treated with Moxetumomab pasudotox Müller, F; Cunningham, T; Stookey, S et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1714512115 (2018)
Raf-1 Cysteine-Rich Domain Increases the Affinity of K-Ras/Raf at the Membrane, Promoting MAPK Signaling Li, S; Jang, H; Zhang, J; Nussinov, R; Structure, DOI://10.1016/j.str.2018.01.011 (2018)
Global changes of H3K27me3 domains and Polycomb group protein distribution in the absence of recruiters Spps or Pho Brown, JL; Sun, MA; Kassis, JA; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1716299115 (2018)
Precise genome-wide mapping of single nucleosomes and linkers in vivo Chereji, RV; Ramachandran, S; Bryson, TD; Henikoff, S; Genome Biol., DOI://10.1186/s13059-018-1398-0 (2018)

Genome-wide meta-analysis identifies five new susceptibility loci for pancreatic cancer Klein, AP; Wolpin, BM; Risch, HA et al. Nat Commun, DOI://10.1038/s41467-018-02942-5 (2018)
The klotho-related protein KLPH (lctl) has preferred expression in lens and is essential for expression of clic5 and normal lens suture formation Fan, J; Lerner, J; Wyatt, MK et al. Exp. Eye Res., DOI://10.1016/j.exer.2018.02.001 (2018)
Self-reported executive function and hoarding in adults with obsessive-compulsive disorder Samuels, J; Bienvenu, OJ; Krasnow, J et al. Compr Psychiatry, DOI://10.1016/j.comppsych.2017.11.009 (2018)
Sequence determinants of protein phase behavior from a coarse-grained model Dignon, GL; Zheng, W; Kim, YC; Best, RB; Mittal, J; PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1005941 (2018)
Genomic Heterogeneity Within Individual Prostate Cancer Foci Impacts Predictive Biomarkers of Targeted Therapy VanderWeele, DJ; Finney, R; Katayama, K et al. Eur Urol Focus, DOI://10.1016/j.euf.2018.01.006 (2018)
Extended amygdala connectivity changes during sustained shock anticipation Torrisi, S; Gorka, AX; Gonzalez-Castillo, J et al. Transl Psychiatry, DOI://10.1038/s41398-017-0074-6 (2018)

Unraveling the molecular mechanism of interactions of the Rho GTPases Cdc42 and Rac1 with the scaffolding protein IQGAP2 Ozdemir, ES; Jang, H; Gursoy, A et al. J. Biol. Chem., DOI://10.1074/jbc.RA117.001596 (2018)
Binding kinetics of ultrasmall gold nanoparticles with proteins André Lira, Rodrigo Ferreira, Ricardo Torquato, Huaying Zhao, Maria Luiza Oliva, Sergio A. Hassan, Peter Schuck and Alioscka A Sousa Nanoscale, DOI: 10.1039/C7NR06810G (2018)
Cleavage of TL1A Differentially Regulates Its Effects on Innate and Adaptive Immune Cells Ferdinand, JR; Richard, AC; Meylan, F; Al-Shamkhani, A; Siegel, RM; J. Immunol., DOI://10.4049/jimmunol.1700891 (2018)
De novo assembly of the complex genome of Nippostrongylus brasiliensis using MinION long reads Eccles, D; Chandler, J; Camberis, M et al. BMC Biol., DOI://10.1186/s12915-017-0473-4 (2018)
Accelerometer-Measured Physical Activity and Sedentary Behavior in Relation to All-Cause Mortality: The Women's Health Study Lee, IM; Shiroma, EJ; Evenson, KR; Kamada, M; LaCroix, AZ; Buring, JE; Circulation, DOI://10.1161/CIRCULATIONAHA.117.031300 (2018)
Altered avalanche dynamics in a developmental NMDAR hypofunction model of cognitive impairment Seshadri, S; Klaus, A; Winkowski, DE; Kanold, PO; Plenz, D; Transl Psychiatry, DOI://10.1038/s41398-017-0060-z (2018)

Single-cell analysis reveals cancer stem cell heterogeneity in hepatocellular carcinoma Zheng, H; Pomyen, Y; Hernandez, MO et al. Hepatology, DOI://10.1002/hep.29778 (2018)
Effects of HLA-B27 on Gut Microbiota in Experimental Spondyloarthritis Implicate an Ecological Model of Dysbiosis Gill, T; Asquith, M; Brooks, SR; Rosenbaum, JT; Colbert, RA; Arthritis Rheumatol., DOI://10.1002/art.40405 (2018)

2017 (403 papers)

Performing Skin Microbiome Research: A Method to the Madness Kong, HH; Andersson, B; Clavel, T et al. J Invest Dermatol, DOI://10.1016/j.jid.2016.10.033 (2017)
Genome-wide siRNA screen of genes regulating the LPS-induced TNF-α response in human macrophages Sun, J; Katz, S; Dutta, B et al. Sci Data, DOI://10.1038/sdata.2017.7 (2017)
Functionalized non-viral cationic vectors for effective siRNA induced cancer therapy Gupta, K; Puri, A; Shapiro, BA; , DNA RNA Nanotechnol, DOI://10.1515/rnan-2017-0001 (2017)
APOBEC3B cytidine deaminase targets the non-transcribed strand of tRNA genes in yeast Saini, N; Roberts, SA; Sterling, JF et al. DNA Repair (Amst), DOI://10.1016/j.dnarep.2017.03.003 (2017)
Flexible risk prediction models for left or interval-censored data from electronic health records Hyun, N; Cheung, LC; Pan, Q; Schiffman, M; Katki, HA; , Ann Appl Stat, DOI://10.1214/17-AOAS1036 (2017)
Phantoms models to characterize influenza hemagglutinin-based vaccines McCraw, DM; Harris, AK; , Microsc. Microanal., DOI://10.1017/S1431927617007279 (2017)
Inhibitors of the Histone Methyltransferases EZH2/1 Induce a Potent Antiviral State and Suppress Infection by Diverse Viral Pathogens Arbuckle, JH; Gardina, PJ; Gordon, DN et al. mBio, DOI://10.1128/mBio.01141-17 (2017)
Gene Expression in Leishmania Is Regulated Predominantly by Gene Dosage Iantorno, SA; Durrant, C; Khan, A et al. mBio, DOI://10.1128/mBio.01393-17 (2017)
Social influence on 5-year survival in a longitudinal chemotherapy ward co-presence network Lienert, J; Marcum, CS; Finney, J; Reed-Tsochas, F; Koehly, L; , Netw Sci (Camb Univ Press), DOI://10.1017/nws.2017.16 (2017)
SpotLearn: Convolutional Neural Network for Detection of Fluorescence In Situ Hybridization (FISH) Signals in High-Throughput Imaging Approaches Gudla, PR; Nakayama, K; Pegoraro, G; Misteli, T; Cold Spring Harb. Symp. Quant. Biol., DOI://10.1101/sqb.2017.82.033761 (2017)
Systematic Investigation of Multi-TLR Sensing Identifies Regulators of Sustained Gene Activation in Macrophages Lin, B; Dutta, B; Fraser, IDC; , Cell Syst, DOI://10.1016/j.cels.2017.06.014 (2017)
The C-terminal multimerization domain is essential for leukemia development by CBFβ-SMMHC in a mouse knockin model Zhao, L; Alkadi, H; Kwon, EM et al. Leukemia, DOI://10.1038/leu.2017.262 (2017)
Structural variants in genes associated with human Williams-Beuren syndrome underlie stereotypical hypersociability in domestic dogs vonHoldt, BM; Shuldiner, E; Koch, IJ et al. Sci Adv, DOI://10.1126/sciadv.1700398 (2017)
Secretory Expression and Characterization of Chinese Narcissus GNA-Like Lectin in Pichia pastoris Li, X; Zhang, P; Zhang, N et al. Appl Biochem Biotechnol, DOI://10.1007/s12010-017-2408-5 (2017)
Structural deficits in salience network regions are associated with increased impulsivity and compulsivity in alcohol dependence Grodin, EN; Cortes, CR; Spagnolo, PA; Momenan, R; , Drug Alcohol Depend, DOI://10.1016/j.drugalcdep.2017.06.014 (2017)
Regulation of chromatin folding by conformational variations of nucleosome linker DNA Buckwalter, JM; Norouzi, D; Harutyunyan, A; Zhurkin, VB; Grigoryev, SA; , Nucleic Acids Res., DOI://10.1093/nar/gkx562 (2017)
La Deletion from Mouse Brain Alters Pre-tRNA Metabolism and Accumulation of Pre-5.8S rRNA, with Neuron Death and Reactive Astrocytosis Blewett, NH; Iben, JR; Gaidamakov, S; Maraia, RJ; , Mol. Cell. Biol., DOI://10.1128/MCB.00588-16 (2017)
Genome-wide siRNA screen of genes regulating the LPS-induced NF-κB and TNF-α responses in mouse macrophages Li, N; Katz, S; Dutta, B et al. Sci Data, DOI://10.1038/sdata.2017.8 (2017)
The emerging importance and challenges of the human mycobiome Kong, HH; Morris, A; , Virulence, DOI://10.1080/21505594.2017.1279780 (2017)
Effects of spatial fMRI resolution on the classification of naturalistic movies Mandelkow, H; de Zwart, JA; Duyn, JH; Neuroimage, DOI://10.1016/j.neuroimage.2017.08.053 (2017)
Automatic magnetic resonance prostate segmentation by deep learning with holistically nested networks Cheng, R; Roth, HR; Lay, N et al. J Med Imaging (Bellingham), DOI://10.1117/1.JMI.4.4.041302 (2017)
Critical functions for STAT5 tetramers in the maturation and survival of natural killer cells Lin, JX; Du, N; Li, P et al. Nat Commun, DOI://10.1038/s41467-017-01477-5 (2017)

BRD4 facilitates DNA damage response and represses CBX5/Heterochromatin protein 1 (HP1) Pongas, G; Kim, MK; Min, DJ et al. Oncotarget, DOI://10.18632/oncotarget.17572 (2017)
Bitopic fluorescent antagonists of the A2A adenosine receptor based on pyrazolo[4,3-e][1,2,4]triazolo[1,5-c]pyrimidin-5-amine functionalized congeners Duroux, R; Ciancetta, A; Mannes, P et al. Medchemcomm, DOI://10.1039/C7MD00247E (2017)
Haploinsufficiency of ZNF462 is associated with craniofacial anomalies, corpus callosum dysgenesis, ptosis, and developmental delay Weiss, K; Wigby, K; Fannemel, M et al. Eur. J. Hum. Genet., DOI://10.1038/ejhg.2017.86 (2017)
Longitudinal Structural and Functional Differences Between Proportional and Poor Motor Recovery After Stroke Guggisberg, AG; Nicolo, P; Cohen, LG; Schnider, A; Buch, ER; Neurorehabil Neural Repair, DOI://10.1177/1545968317740634 (2017)
The Molecular Revolution in Cutaneous Biology: Investigating the Skin Microbiome Kong, HH; Segre, JA; , J Invest Dermatol, DOI://10.1016/j.jid.2016.07.045 (2017)
STAT5-mediated chromatin interactions in superenhancers activate IL-2 highly inducible genes: Functional dissection of the Il2ra gene locus Li, P; Mitra, S; Spolski, R et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1714019114 (2017)

Genome-wide Trans-ethnic Meta-analysis Identifies Seven Genetic Loci Influencing Erythrocyte Traits and a Role for RBPMS in Erythropoiesis van Rooij, FJA; Qayyum, R; Smith, AV et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2016.11.016 (2017)
Comparative Transcriptome Profiling Reveals Coding and Noncoding RNA Differences in NSCLC from African Americans and European Americans Mitchell, KA; Zingone, A; Toulabi, L; Boeckelman, J; Ryan, BM; , Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-17-0527 (2017)
Testis-specific transcriptional regulators selectively occupy BORIS-bound CTCF target regions in mouse male germ cells Rivero-Hinojosa, S; Kang, S; Lobanenkov, VV; Zentner, GE; Sci Rep, DOI://10.1038/srep41279 (2017)
Preparation of a Conditional RNA Switch Zakrevsky, P; Parlea, L; Viard, M; Bindewald, E; Afonin, KA; Shapiro, BA; , Methods Mol. Biol., DOI://10.1007/978-1-4939-7138-1_20 (2017)
Computational Generation of RNA Nanorings Sharan, R; Bindewald, E; Kasprzak, WK; Shapiro, BA; , Methods Mol. Biol., DOI://10.1007/978-1-4939-7138-1_2 (2017)
Protocols for Molecular Dynamics Simulations of RNA Nanostructures Kim, T; Kasprzak, WK; Shapiro, BA; , Methods Mol. Biol., DOI://10.1007/978-1-4939-7138-1_3 (2017)

Common Molecular Subtypes Among Asian Hepatocellular Carcinoma and Cholangiocarcinoma Chaisaingmongkol, J; Budhu, A; Dang, H et al. Cancer Cell, DOI://10.1016/j.ccell.2017.05.009 (2017)
Visualizing abnormalities in chest radiographs through salient network activations in Deep Learning Rajaraman S, Antani SK, Xue Z, Candemir S, Jaeger S, Thoma GR Proc. IEEE Life Sciences Conference (LSC), Sydney, Australia, 10.1109/LSC.2017.826814 (2017)
PAX3-FOXO1 Establishes Myogenic Super Enhancers and Confers BET Bromodomain Vulnerability Gryder, BE; Yohe, ME; Chou, HC et al. Cancer Discov, DOI://10.1158/2159-8290.CD-16-1297 (2017)
Parental bonding and hoarding in obsessive-compulsive disorder Chen, D; Bienvenu, OJ; Krasnow, J et al. Compr Psychiatry, DOI://10.1016/j.comppsych.2016.11.004 (2017)
Characterization of an Immunogenic Mutation in a Patient with Metastatic Triple-Negative Breast Cancer Assadipour, Y; Zacharakis, N; Crystal, JS et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-16-1423 (2017)
Systems-level identification of PKA-dependent signaling in epithelial cells Isobe, K; Jung, HJ; Yang, CR et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1709123114 (2017)
Association of red cell distribution width with all-cause and cardiovascular-specific mortality in African American and white adults: a prospective cohort study Tajuddin, SM; Nalls, MA; Zonderman, AB; Evans, MK; J Transl Med, DOI://10.1186/s12967-017-1313-6 (2017)
Sieve analysis using the number of infecting pathogens Follmann, D; Huang, CY; Biometrics, DOI://10.1111/biom.12833 (2017)
Meat Consumption During Pregnancy and Substance Misuse Among Adolescent Offspring: Stratification of TCN2 Genetic Variants Hibbeln, JR; SanGiovanni, JP; Golding, J et al. Alcohol. Clin. Exp. Res., DOI://10.1111/acer.13494 (2017)
A Systems Biology Approach to Investigating Sex Differences in Cardiac Hypertrophy Harrington, J; Fillmore, N; Gao, S et al. J Am Heart Assoc, DOI://10.1161/JAHA.117.005838 (2017)
Applying rigor and reproducibility standards to assay donor-derived cell-free DNA as a non-invasive method for detection of acute rejection and graft injury after heart transplantation Agbor-Enoh, S; Tunc, I; De Vlaminck, I et al. J. Heart Lung Transplant., DOI://10.1016/j.healun.2017.05.026 (2017)
Broadly protective murine monoclonal antibodies against influenza B virus target highly conserved neuraminidase epitopes Wohlbold, TJ; Podolsky, KA; Chromikova, V et al. Nat Microbiol, DOI://10.1038/s41564-017-0011-8 (2017)

Genome-wide association meta-analysis of fish and EPA+DHA consumption in 17 US and European cohorts Mozaffarian, D; Dashti, HS; Wojczynski, MK et al. PLoS ONE, DOI://10.1371/journal.pone.0186456 (2017)
Amygdala Contributions to Stimulus-Reward Encoding in the Macaque Medial and Orbital Frontal Cortex during Learning Rudebeck, PH; Ripple, JA; Mitz, AR; Averbeck, BB; Murray, EA; J. Neurosci., DOI://10.1523/JNEUROSCI.0933-16.2017 (2017)
Genome-wide identification of histone H2A and histone variant H2A.Z-interacting proteins by bPPI-seq Zhang, Y; Ku, WL; Liu, S et al. Cell Res., DOI://10.1038/cr.2017.112 (2017)
Deciphering the olfactory repertoire of the tiger mosquito Aedes albopictus Lombardo, F; Salvemini, M; Fiorillo, C et al. BMC Genomics, DOI://10.1186/s12864-017-4144-1 (2017)
Susceptible genes and disease mechanisms identified in frontotemporal dementia and frontotemporal dementia with Amyotrophic Lateral Sclerosis by DNA-methylation and GWAS Taskesen, E; Mishra, A; van der Sluis, S et al. Sci Rep, DOI://10.1038/s41598-017-09320-z (2017)
Shelterin components mediate genome reorganization in response to replication stress Mizuguchi, T; Taneja, N; Matsuda, E et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1705527114 (2017)

The Interplay between Long- and Short-Range Temporal Correlations Shapes Cortex Dynamics across Vigilance States Meisel, C; Klaus, A; Vyazovskiy, VV; Plenz, D; J. Neurosci., DOI://10.1523/JNEUROSCI.0448-17.2017 (2017)
Insights Into Onchocerca volvulus Population Biology Through Multilocus Immunophenotyping Norice-Tra, CT; Ribeiro, J; Bennuru, S et al. J. Infect. Dis., DOI://10.1093/infdis/jix394 (2017)
Dynamic landscape of alternative polyadenylation during retinal development Hu, W; Li, S; Park, JY et al. Cell. Mol. Life Sci., DOI://10.1007/s00018-016-2429-1 (2017)
An Analysis of Two Genome-wide Association Meta-analyses Identifies a New Locus for Broad Depression Phenotype Direk, N; Williams, S; Smith, JA et al. Biol. Psychiatry, DOI://10.1016/j.biopsych.2016.11.013 (2017)
The Elongation Factor Spt6 Maintains ESC Pluripotency by Controlling Super-Enhancers and Counteracting Polycomb Proteins Wang, AH; Juan, AH; Ko, KD et al. Mol. Cell, DOI://10.1016/j.molcel.2017.09.016 (2017)
Untimely expression of gametogenic genes in vegetative cells causes uniparental disomy Folco, HD; Chalamcharla, VR; Sugiyama, T et al. Nature, DOI://10.1038/nature21372 (2017)
Pyrimidine Nucleotides Containing a (S)-Methanocarba Ring as P2Y6 Receptor Agonists Toti, KS; Jain, S; Ciancetta, A et al. Medchemcomm, DOI://10.1039/C7MD00397H (2017)
NFκB Promotes Ovarian Tumorigenesis via Classical Pathways That Support Proliferative Cancer Cells and Alternative Pathways That Support ALDH+ Cancer Stem-like Cells House, CD; Jordan, E; Hernandez, L et al. Cancer Res., DOI://10.1158/0008-5472.CAN-17-0366 (2017)
ASXL3 Is a Novel Pluripotency Factor in Human Respiratory Epithelial Cells and a Potential Therapeutic Target in Small Cell Lung Cancer Shukla, V; Rao, M; Zhang, H et al. Cancer Res., DOI://10.1158/0008-5472.CAN-17-0570 (2017)
SNF2 Family Protein Fft3 Suppresses Nucleosome Turnover to Promote Epigenetic Inheritance and Proper Replication Taneja, N; Zofall, M; Balachandran, V et al. Mol. Cell, DOI://10.1016/j.molcel.2017.02.006 (2017)
High-Resolution CBV-fMRI Allows Mapping of Laminar Activity and Connectivity of Cortical Input and Output in Human M1 Huber, L; Handwerker, DA; Jangraw, DC et al. Neuron, DOI://10.1016/j.neuron.2017.11.005 (2017)
KLF4-dependent perivascular cell plasticity mediates pre-metastatic niche formation and metastasis Murgai, M; Ju, W; Eason, M et al. Nat. Med., DOI://10.1038/nm.4400 (2017)

CTCF-Mediated Enhancer-Promoter Interaction Is a Critical Regulator of Cell-to-Cell Variation of Gene Expression Ren, G; Jin, W; Cui, K et al. Mol. Cell, DOI://10.1016/j.molcel.2017.08.026 (2017)
Bromodomain and Extraterminal Protein Inhibitor JQ1 Suppresses Thyroid Tumor Growth in a Mouse Model Zhu, X; Enomoto, K; Zhao, L et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-16-0914 (2017)
Molecular-based diagnosis of multiple sclerosis and its progressive stage Barbour, C; Kosa, P; Komori, M et al. Ann. Neurol., DOI://10.1002/ana.25083 (2017)
Serum starvation of ARPE-19 changes the cellular distribution of cholesterol and Fibulin3 in patterns reminiscent of age-related macular degeneration Rajapakse, D; Peterson, K; Mishra, S; Wistow, G; Exp. Cell Res., DOI://10.1016/j.yexcr.2017.10.036 (2017)
Crystal Structures of Diaryliodonium Fluorides and Their Implications for Fluorination Mechanisms Lee, YS; Chun, JH; Hodošček, M; Pike, VW; Chemistry, DOI://10.1002/chem.201604803 (2017)
Loci associated with skin pigmentation identified in African populations Crawford, NG; Kelly, DE; Hansen, MEB et al. Science, DOI://10.1126/science.aan8433 (2017)

eIF1A residues implicated in cancer stabilize translation preinitiation complexes and favor suboptimal initiation sites in yeast Martin-Marcos, P; Zhou, F; Karunasiri, C et al. Elife, DOI://10.7554/eLife.31250 (2017)
Polygenic risk score and heritability estimates reveals a genetic relationship between ASD and OCD Guo, W; Samuels, JF; Wang, Y et al. Eur Neuropsychopharmacol, DOI://10.1016/j.euroneuro.2017.03.011 (2017)
Molecular basis of CENP-C association with the CENP-A nucleosome at yeast centromeres Xiao, H; Wang, F; Wisniewski, J et al. Genes Dev., DOI://10.1101/gad.304782.117 (2017)
T-Cell Transfer Therapy Targeting Mutant KRAS Rosenberg, SA; Tran, E; Robbins, PF; N. Engl. J. Med., DOI://10.1056/NEJMc1616637 (2017)
Correction: The complex genetics of gait speed: genome-wide meta-analysis approach Ben-Avraham, D; Karasik, D; Verghese, J et al. Aging (Albany NY), DOI://10.18632/aging.101260 (2017)
Effect of Threat on Right dlPFC Activity during Behavioral Pattern Separation Balderston, NL; Hsiung, A; Ernst, M; Grillon, C; J. Neurosci., DOI://10.1523/JNEUROSCI.0717-17.2017 (2017)

GATE: an efficient procedure in study of pleiotropic genetic associations Zhang, W; Yang, L; Tang, LL et al. BMC Genomics, DOI://10.1186/s12864-017-3928-7 (2017)
Progressive and Multi-path Holistically Nested Neural Networks for Pathological Lung Segmentation from CT Images Harrison A.P., Xu Z., George K., Lu L., Summers R.M., Mollura D.J. In: Descoteaux M., Maier-Hein L., Franz A., Jannin P., Colli, 10.1007/978-3-319-66179-7-71 (2017)
Induced Pluripotent Stem Cell Differentiation Enables Functional Validation of GWAS Variants in Metabolic Disease Warren, CR; O'Sullivan, JF; Friesen, M et al. Cell Stem Cell, DOI://10.1016/j.stem.2017.01.010 (2017)
An Adult Mouse Thyroid Side Population Cell Line that Exhibits Enriched Epithelial-Mesenchymal Transition Murata, T; Iwadate, M; Takizawa, Y et al. Thyroid, DOI://10.1089/thy.2016.0130 (2017)
NRF1 coordinates with DNA methylation to regulate spermatogenesis Wang, J; Tang, C; Wang, Q et al. FASEB J., DOI://10.1096/fj.201700093R (2017)
Two Distinct Actin Networks Mediate Traction Oscillations to Confer Focal Adhesion Mechanosensing Wu, Z; Plotnikov, SV; Moalim, AY; Waterman, CM; Liu, J; Biophys. J., DOI://10.1016/j.bpj.2016.12.035 (2017)
'Final common pathway' of human cancer immunotherapy: targeting random somatic mutations Tran, E; Robbins, PF; Rosenberg, SA; Nat. Immunol., DOI://10.1038/ni.3682 (2017)
Isolation of T-Cell Receptors Specifically Reactive with Mutated Tumor-Associated Antigens from Tumor-Infiltrating Lymphocytes Based on CD137 Expression Parkhurst, M; Gros, A; Pasetto, A et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-16-2680 (2017)
The Distinct Transcriptional Response of the Midgut of Amblyomma sculptum and Amblyomma aureolatum Ticks to Rickettsia rickettsii Correlates to Their Differences in Susceptibility to Infection Martins, LA; Galletti, MFBM; Ribeiro, JM et al. Front Cell Infect Microbiol, DOI://10.3389/fcimb.2017.00129 (2017)
Defining Disease, Diagnosis, and Translational Medicine within a Homeostatic Perturbation Paradigm: The National Institutes of Health Undiagnosed Diseases Program Experience Gall, T; Valkanas, E; Bello, C et al. Front Med (Lausanne), DOI://10.3389/fmed.2017.00062 (2017)
Discovery and fine-mapping of loci associated with MUFAs through trans-ethnic meta-analysis in Chinese and European populations Hu, Y; Tanaka, T; Zhu, J et al. J. Lipid Res., DOI://10.1194/jlr.P071860 (2017)
Binding of protofibrillar Aβ trimers to lipid bilayer surface enhances Aβ structural stability and causes membrane thinning Dong, X; Sun, Y; Wei, G; Nussinov, R; Ma, B; Phys Chem Chem Phys, DOI://10.1039/c7cp05959k (2017)

Temporal similarity perfusion mapping: A standardized and model-free method for detecting perfusion deficits in stroke Song, S; Bokkers, RPH; Luby, M et al. PLoS ONE, DOI://10.1371/journal.pone.0185552 (2017)
Genome Wide Association Study (GWAS) between Attention Deficit Hyperactivity Disorder (ADHD) and Obsessive Compulsive Disorder (OCD) Ritter, ML; Guo, W; Samuels, JF et al. Front Mol Neurosci, DOI://10.3389/fnmol.2017.00083 (2017)
Extending electrostatics of dielectric spheres to arbitrary charge distributions with applications to biosystems T. P. Doerr, O. I. Obolensky, and Yi-Kuo Yu Phys. Rev. E , doi://10.1103/PhysRevE.96.062414 (2017)
The full transcription map of mouse papillomavirus type 1 (MmuPV1) in mouse wart tissues Xue, XY; Majerciak, V; Uberoi, A et al. PLoS Pathog., DOI://10.1371/journal.ppat.1006715 (2017)
Reduced Local and Increased Long-Range Functional Connectivity of the Thalamus in Autism Spectrum Disorder Tomasi, D; Volkow, ND; Cereb. Cortex, DOI://10.1093/cercor/bhx340 (2017)
Highly Efficient Cpf1-Mediated Gene Targeting in Mice Following High Concentration Pronuclear Injection Watkins-Chow, DE; Varshney, GK; Garrett, LJ et al. G3 (Bethesda), DOI://10.1534/g3.116.038091 (2017)

CDC14A Phosphatase is Essential for Hearing and Male Fertility in Mouse and Human Imtiaz, A; Belyantseva, IA; Beirl, AJ et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddx440 (2017)
Identifying subgroups of enhanced predictive accuracy from longitudinal biomarker data using tree-based approaches: applications to fetal growth Foster, JC; Liu, D; Albert, PS; Liu, A; J R Stat Soc Ser A Stat Soc, DOI://10.1111/rssa.12182 (2017)
Generation and characterization of Kctd15 mutations in zebrafish Heffer, A; Marquart, GD; Aquilina-Beck, A; Saleem, N; Burgess, HA; Dawid, IB; PLoS ONE, DOI://10.1371/journal.pone.0189162 (2017)
Prediction of nearest neighbor effects on backbone torsion angles and NMR scalar coupling constants in disordered proteins Shen, Y; Roche, J; Grishaev, A; Bax, A; Protein Sci., DOI://10.1002/pro.3292 (2017)
Selection for long and short sleep duration in Drosophila melanogaster reveals the complex genetic network underlying natural variation in sleep Harbison, ST; Serrano Negron, YL; Hansen, NF; Lobell, AS; PLoS Genet., DOI://10.1371/journal.pgen.1007098 (2017)
Structural mechanisms of centromeric nucleosome recognition by the kinetochore protein CENP-N Chittori, S; Hong, J; Saunders, H et al. Science, DOI://10.1126/science.aar2781 (2017)

Identity-by-Descent Mapping Identifies Major Locus for Serum Triglycerides in Amerindians Largely Explained by an APOC3 Founder Mutation Hsueh, WC; Nair, AK; Kobes, S et al. Circ Cardiovasc Genet, DOI://10.1161/CIRCGENETICS.117.001809 (2017)
Detecting treatment differences in group sequential longitudinal studies with covariate adjustment Jeffries, NO; Troendle, JF; Geller, NL; Biometrics, DOI://10.1111/biom.12837 (2017)
Comparison of Additive and Polarizable Models with Explicit Treatment of Long-Range Lennard-Jones Interactions using Alkane Simulations Leonard, AN; Simmonett, AC; Pickard, FC et al. J Chem Theory Comput, DOI://10.1021/acs.jctc.7b00948 (2017)
Structural basis for nucleotide-modulated p97 association with the ER membrane Tang, WK; Zhang, T; Ye, Y; Xia, D; Cell Discov, DOI://10.1038/celldisc.2017.45 (2017)
Structural host-microbiota interaction networks Guven-Maiorov, E; Tsai, CJ; Nussinov, R; PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1005579 (2017)
Transcriptomes of major renal collecting duct cell types in mouse identified by single-cell RNA-seq Chen, L; Lee, JW; Chou, CL et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1710964114 (2017)

Exploring Effects of Sex and Diet on Drosophila melanogaster Head Gene Expression Jaime, MDLA; Hurtado, J; Loustalot-Laclette, MR; Oliver, B; Markow, T; J Genomics, DOI://10.7150/jgen.22393 (2017)
The emergence and evolution of influenza A (H1α) viruses in swine in Canada and the United States Nelson, MI; Culhane, MR; Trovão, NS et al. J. Gen. Virol., DOI://10.1099/jgv.0.000924 (2017)
New Multiple Sclerosis Disease Severity Scale Predicts Future Accumulation of Disability Weideman, AM; Barbour, C; Tapia-Maltos, MA et al. Front Neurol, DOI://10.3389/fneur.2017.00598 (2017)
CRISPR/Cas9-mediated gene knockout is insensitive to target copy number but is dependent on guide RNA potency and Cas9/sgRNA threshold expression level Yuen, G; Khan, FJ; Gao, S et al. Nucleic Acids Res., DOI://10.1093/nar/gkx843 (2017)
Graph theory reveals amygdala modules consistent with its anatomical subdivisions Caparelli, EC; Ross, TJ; Gu, H; Liang, X; Stein, EA; Yang, Y; Sci Rep, DOI://10.1038/s41598-017-14613-4 (2017)
Molecular Anatomy of the Developing Human Retina Hoshino, A; Ratnapriya, R; Brooks, MJ et al. Dev. Cell, DOI://10.1016/j.devcel.2017.10.029 (2017)

Lasting deficit in inhibitory control with mild traumatic brain injury Xu, B; Sandrini, M; Levy, S et al. Sci Rep, DOI://10.1038/s41598-017-14867-y (2017)
Replication Stress Shapes a Protective Chromatin Environment across Fragile Genomic Regions Kim, J; Sturgill, D; Sebastian, R et al. Mol. Cell, DOI://10.1016/j.molcel.2017.11.021 (2017)
Dosage-Dependent Expression Variation Suppressed on the Drosophila Male X Chromosome Lee, H; Cho, DY; Wojtowicz, D et al. G3 (Bethesda), DOI://10.1534/g3.117.300400 (2017)
Wild Mouse Gut Microbiota Promotes Host Fitness and Improves Disease Resistance Rosshart, SP; Vassallo, BG; Angeletti, D et al. Cell, DOI://10.1016/j.cell.2017.09.016 (2017)
Dynamic regulation of lysine acetylation: the balance between acetyltransferase and deacetylase activities Hyndman, KA; Knepper, MA; Am. J. Physiol. Renal Physiol., DOI://10.1152/ajprenal.00313.2017 (2017)
Integrative Genomic Analysis of Coincident Cancer Foci Implicates CTNNB1 and PTEN Alterations in Ductal Prostate Cancer Gillard, M; Lack, J; Pontier, A et al. Eur Urol Focus, DOI://10.1016/j.euf.2017.12.003 (2017)
Holistic segmentation of the lung in cine MRI Kovacs, W; Hsieh, N; Roth, H et al. J Med Imaging (Bellingham), DOI://10.1117/1.JMI.4.4.041310 (2017)
Identification of essential genes for cancer immunotherapy Patel, SJ; Sanjana, NE; Kishton, RJ et al. Nature, DOI://10.1038/nature23477 (2017)
Transcriptomic profiling of the human brain reveals that altered synaptic gene expression is associated with chronological aging Dillman, AA; Majounie, E; Ding, J et al. Sci Rep, DOI://10.1038/s41598-017-17322-0 (2017)
In vivo tropism of Salmonella Typhi toxin to cells expressing a multiantennal glycan receptor Yang, YA; Lee, S; Zhao, J et al. Nat Microbiol, DOI://10.1038/s41564-017-0076-4 (2017)
Local and global anatomy of antibody-protein antigen recognition Wang, M; Zhu, D; Zhu, J; Nussinov, R; Ma, B; J. Mol. Recognit., DOI://10.1002/jmr.2693 (2017)
A digital 3D atlas of the marmoset brain based on multi-modal MRI Liu, C; Ye, FQ; Chern-Chyi Yen, C et al. Neuroimage, DOI://10.1016/j.neuroimage.2017.12.004 (2017)

Automated quality assessment of structural magnetic resonance images in children: Comparison with visual inspection and surface-based reconstruction White, T; Jansen, PR; Muetzel, RL et al. Hum Brain Mapp, DOI://10.1002/hbm.23911 (2017)
Power Analysis for Genetic Association Test (PAGEANT) provides insights to challenges for rare variant association studies Derkach, A; Zhang, H; Chatterjee, N; Bioinformatics, DOI://10.1093/bioinformatics/btx770 (2017)
OCT4 supports extended LIF-independent self-renewal and maintenance of transcriptional and epigenetic networks in embryonic stem cells He, R; Xhabija, B; Al-Qanber, B; Kidder, BL; Sci Rep, DOI://10.1038/s41598-017-16611-y (2017)
Demystifying P2Y1 Receptor Ligand Recognition through Docking and Molecular Dynamics Analyses Ciancetta, A; O'Connor, RD; Paoletta, S; Jacobson, KA; J Chem Inf Model, DOI://10.1021/acs.jcim.7b00528 (2017)
Landscape of immunogenic tumor antigens in successful immunotherapy of virally induced epithelial cancer Stevanović, S; Pasetto, A; Helman, SR et al. Science, DOI://10.1126/science.aak9510 (2017)
HiHiMap: single-cell quantitation of histones and histone posttranslational modifications across the cell cycle by high-throughput imaging Zane, L; Chapus, F; Pegoraro, G; Misteli, T; Mol. Biol. Cell, DOI://10.1091/mbc.E16-12-0870 (2017)

A STAT3-dependent transcriptional circuitry inhibits cytotoxic gene expression in T cells Ciucci, T; Vacchio, MS; Bosselut, R; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1711160114 (2017)
Natural Language Processing for Large-Scale Medical Image Analysis Using Deep Learning Hoo-Chang Shin, Le Lu, Ronald M. Summers in Deep Learning for Medical Image Analysis, Elsevier , (p405-421) (2017)
Allometric Analysis Detects Brain Size-Independent Effects of Sex and Sex Chromosome Complement on Human Cerebellar Organization Mankiw, C; Park, MTM; Reardon, PK et al. J. Neurosci., DOI://10.1523/JNEUROSCI.2158-16.2017 (2017)
Excessive burden of lysosomal storage disorder gene variants in Parkinson's disease Robak, LA; Jansen, IE; van Rooij, J et al. Brain, DOI://10.1093/brain/awx285 (2017)
Insights into functions of the H channel of cytochrome c oxidase from atomistic molecular dynamics simulations Sharma, V; Jambrina, PG; Kaukonen, M; Rosta, E; Rich, PR; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1708628114 (2017)
Conventional and pioneer modes of glucocorticoid receptor interaction with enhancer chromatin in vivo Johnson, TA; Chereji, RV; Stavreva, DA; Morris, SA; Hager, GL; Clark, DJ; Nucleic Acids Res., DOI://10.1093/nar/gkx1044 (2017)
A joint model for multivariate hierarchical semicontinuous data with replications Kassahun-Yimer, W; Albert, PS; Lipsky, LM; Nansel, TR; Liu, A; Stat Methods Med Res, DOI://10.1177/0962280217738141 (2017)
Phosphorylated Calmodulin Promotes PI3K Activation by Binding to the SH2 Domains Zhang, M; Jang, H; Gaponenko, V; Nussinov, R; Biophys. J., DOI://10.1016/j.bpj.2017.09.008 (2017)
Prediction of Host-Pathogen Interactions for Helicobacter pylori by Interface Mimicry and Implications to Gastric Cancer Guven-Maiorov, E; Tsai, CJ; Ma, B; Nussinov, R; J. Mol. Biol., DOI://10.1016/j.jmb.2017.10.023 (2017)
Independence between pre-mRNA splicing and DNA methylation in an isogenic minigene resource Kyster K. Nanan, Cody Ocheltree, David Sturgill, Mariana D. Mandler, Maria Prigge, Garima Varma, Shalini Oberdoerffer Nucleic Acids Res., doi://10.1093/nar/gkx900 (2017)
Analysis of Gap Times Based on Panel Count Data With Informative Observation Times and Unknown Start Time Ling Ma and Rajeshwari Sundaram J. Am. Stat. Assoc, doi://10.1080/01621459.2016.1246369 (2017)
Multimodal mapping of the brain's functional connectivity and the adult outcome of attention deficit hyperactivity disorder Sudre, G; Szekely, E; Sharp, W; Kasparek, S; Shaw, P; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1705229114 (2017)
The Kölliker-Fuse nucleus orchestrates the timing of expiratory abdominal nerve bursting Barnett, WH; Jenkin, SEM; Milsom, WK et al. J. Neurophysiol., DOI://10.1152/jn.00499.2017 (2017)
PaRSnIP: Sequence-Based Protein Solubility Prediction using Gradient Boosting Machine Rawi, R; Mall, R; Kunji, K; Shen, CH; Kwong, PD; Chuang, GY; Bioinformatics, DOI://10.1093/bioinformatics/btx662 (2017)
Subset- and tissue-defined STAT5 thresholds control homeostasis and function of innate lymphoid cells Villarino, AV; Sciumè, G; Davis, FP et al. J. Exp. Med., DOI://10.1084/jem.20150907 (2017)
Unpicking the determinants of amide NHO[double bond, length as m-dash]C hydrogen bond strength with diphenylacetylene molecular balances Luccarelli, J; Jones, IM; Thompson, S; Hamilton, AD; Org. Biomol. Chem., DOI://10.1039/c7ob02026k (2017)
Peptide dimerization-dissociation rates from replica exchange molecular dynamics Leahy, CT; Kells, A; Hummer, G; Buchete, NV; Rosta, E; J Chem Phys, DOI://10.1063/1.5004774 (2017)
Identification of UT-A1-and AQP2 interacting proteins in rat inner medullary collecting duct Chou, CL; Hwang, G; Hageman, DJ et al. Am. J. Physiol., Cell Physiol., DOI://10.1152/ajpcell.00082.2017 (2017)

Cryo-EM Structures Reveal Mechanism and Inhibition of DNA Targeting by a CRISPR-Cas Surveillance Complex Guo, TW; Bartesaghi, A; Yang, H et al. Cell, DOI://10.1016/j.cell.2017.09.006 (2017)
How Many Protein Sequences Fold to a Given Structure? A Co-evolutionary Analysis Tian, P; Best, RB; Biophys. J., DOI://10.1016/j.bpj.2017.08.039 (2017)
A novel central nervous system-penetrating protease inhibitor overcomes human immunodeficiency virus 1 resistance with unprecedented aM to pM potency Aoki, M; Hayashi, H; Rao, KV et al. Elife, DOI://10.7554/eLife.28020 (2017)
The FUT2 secretor variant p.Trp154Ter influences serum vitamin B12 concentration via holo-haptocorrin, but not holo-transcobalamin, and is associated with haptocorrin glycosylation Velkova, A; Diaz, JEL; Pangilinan, F et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddx369 (2017)
A functional connectivity-based neuromarker of sustained attention generalizes to predict recall in a reading task Jangraw, DC; Gonzalez-Castillo, J; Handwerker, DA et al. Neuroimage, DOI://10.1016/j.neuroimage.2017.10.019 (2017)
MELD: Mixed effects for large datasets Nielson, DM; Sederberg, PB; PLoS ONE, DOI://10.1371/journal.pone.0182797 (2017)

MicroRNA Signature of Cigarette Smoking and Evidence for a Putative Causal Role of MicroRNAs in Smoking-Related Inflammation and Target Organ Damage Willinger, CM; Rong, J; Tanriverdi, K et al. Circ Cardiovasc Genet, DOI://10.1161/CIRCGENETICS.116.001678 (2017)
De novo Assembly of a New Solanum pennellii Accession Using Nanopore Sequencing Schmidt, MH; Vogel, A; Denton, AK et al. Plant Cell, DOI://10.1105/tpc.17.00521 (2017)
Rapid Nanopore Sequencing of Plasmids and Resistance Gene Detection in Clinical Isolates Lemon, JK; Khil, PP; Frank, KM; Dekker, JP; J. Clin. Microbiol., DOI://10.1128/JCM.01069-17 (2017)
TFAP2 paralogs regulate melanocyte differentiation in parallel with MITF Seberg, HE; Van Otterloo, E; Loftus, SK et al. PLoS Genet., DOI://10.1371/journal.pgen.1006636 (2017)
Molecular Dynamics Simulations of Ceramide and Ceramide-Phosphatidylcholine Bilayers Wang, E; Klauda, JB; J Phys Chem B, DOI://10.1021/acs.jpcb.7b08967 (2017)
CHD7 deficiency delays leukemogenesis in mice induced by CBFB-MYH11 Zhen, T; Kwon, E; Zhao, L et al. Blood, DOI://10.1182/blood-2017-04-780106 (2017)

Molecular architecture underlying fluid absorption by the developing inner ear Honda, K; Kim, SH; Kelly, MC et al. Elife, DOI://10.7554/eLife.26851 (2017)
Moderate blast exposure alters gene expression and levels of amyloid precursor protein Gill, J; Cashion, A; Osier, N et al. Neurol Genet, DOI://10.1212/NXG.0000000000000186 (2017)
Preclinical testing of the glycogen synthase kinase-3β inhibitor tideglusib for rhabdomyosarcoma Bharathy, N; Svalina, MN; Settelmeyer, TP et al. Oncotarget, DOI://10.18632/oncotarget.18520 (2017)
Novel near-diploid ovarian cancer cell line derived from a highly aneuploid metastatic ovarian tumor Rozenblum, E; Sotelo-Silveira, JR; Kim, GY et al. PLoS ONE, DOI://10.1371/journal.pone.0182610 (2017)
SMYD5 controls heterochromatin and chromosome integrity during embryonic stem cell differentiation Kidder, BL; He, R; Wangsa, D et al. Cancer Res., DOI://10.1158/0008-5472.CAN-17-0828 (2017)
GRL-09510, a Unique P2-Crown-Tetrahydrofuranylurethane -Containing HIV-1 Protease Inhibitor, Maintains Its Favorable Antiviral Activity against Highly-Drug-Resistant HIV-1 Variants in vitro Amano, M; Miguel Salcedo-Gómez, P; Yedidi, RS et al. Sci Rep, DOI://10.1038/s41598-017-12052-9 (2017)

Structure of FUS Protein Fibrils and Its Relevance to Self-Assembly and Phase Separation of Low-Complexity Domains Murray, DT; Kato, M; Lin, Y et al. Cell, DOI://10.1016/j.cell.2017.08.048 (2017)
Piecewise Polynomial Approximations To The Icrp 116 Effective Dose Coefficients: Photons And Neutrons M. M. Mille N. E. Hertel P. M. Bergstrom C. Lee Radiation Protection Dosimetry, doi://10.1093/rpd/ncx112 (2017)
Estimating onset time from longitudinal and cross-sectional data with an application to estimating gestational age from longitudinal maternal anthropometry during pregnancy and neonatal anthropometry at birth Ana Maria Ortega-Villa, Katherine L. Grantz, Paul S. Albert J. Roy. Stat. Soc., DOI: 10.1111/rssa.12312 (2017)
Decline of long-range temporal correlations in the human brain during sustained wakefulness Meisel, C; Bailey, K; Achermann, P; Plenz, D; Sci Rep, DOI://10.1038/s41598-017-12140-w (2017)
Mechanisms of recognition of amyloid-β (Aβ) monomer, oligomer, and fibril by homologous antibodies Zhao, J; Nussinov, R; Ma, B; J. Biol. Chem., DOI://10.1074/jbc.M117.801514 (2017)
Topological structure determination of RNA using small angle X-ray scattering Bhandari, YR; Fan, L; Fang, X et al. J. Mol. Biol., DOI://10.1016/j.jmb.2017.09.006 (2017)

Nuclease activity gives an edge to host-defense peptide piscidin 3 over piscidin 1, rendering it more effective against persisters and biofilms Libardo, MDJ; Bahar, AA; Ma, B et al. FEBS J., DOI://10.1111/febs.14263 (2017)
Atropos: specific, sensitive, and speedy trimming of sequencing reads Didion, JP; Martin, M; Collins, FS; PeerJ, DOI://10.7717/peerj.3720 (2017)
Direct comparison of performance of single nucleotide variant calling in human genome with alignment-based and assembly-based approaches Wu, L; Yavas, G; Hong, H; Tong, W; Xiao, W; Sci Rep, DOI://10.1038/s41598-017-10826-9 (2017)
Paired Expression Analysis of Tumor Cell Surface Antigens Orentas, RJ; Sindiri, S; Duris, C et al. Front Oncol, DOI://10.3389/fonc.2017.00173 (2017)
Temporal interpolation alters motion in fMRI scans: Magnitudes and consequences for artifact detection Power, JD; Plitt, M; Kundu, P; Bandettini, PA; Martin, A; PLoS ONE, DOI://10.1371/journal.pone.0182939 (2017)
High-precision registration between zebrafish brain atlases using symmetric diffeomorphic normalization Marquart, GD; Tabor, KM; Horstick, EJ et al. Gigascience, DOI://10.1093/gigascience/gix056 (2017)
Global Inhibition with Specific Activation: How p53 and c-MYC Redistribute the Transcriptome in the DNA Double-Strand Break Response Porter, JR; Fisher, BE; Baranello, L et al. Mol. Cell, DOI://10.1016/j.molcel.2017.07.028 (2017)
Regulation of Noncoding Transcriptome in Developing Photoreceptors by Rod Differentiation Factor NRL Zelinger, L; Karakülah, G; Chaitankar, V et al. Invest. Ophthalmol. Vis. Sci., DOI://10.1167/iovs.17-21805 (2017)
Novel signal transducer and activator of transcription 1 mutation disrupts small ubiquitin-related modifier conjugation causing gain of function Sampaio, EP; Ding, L; Rose, SR et al. J. Allergy Clin. Immunol., DOI://10.1016/j.jaci.2017.07.027 (2017)
Higher-than-expected population prevalence of potentially pathogenic germline TP53 variants in individuals unselected for cancer history de Andrade, KC; Mirabello, L; Stewart, DR et al. Hum. Mutat., DOI://10.1002/humu.23320 (2017)
Noninvasive infrared autofluorescence imaging of intrinsic fluorophores in the human retina at cellular-level resolution using adaptive optics Tam J; Droettboom M; et al Bio-Optics: Design and Application, doi:///10.1364/BODA.2017.JTu5A.1 (2017)
Statistical Methods for Standard Membrane-Feeding Assays to Measure Transmission Blocking or Reducing Activity in Malaria Bruce J. Swihart, Michael P. Fay & Kazutoyo Miura Journal of the American Statistical Association, doi://10.1080/01621459.2017.1356313 (2017)

The LDB1 Complex Co-opts CTCF for Erythroid Lineage-Specific Long-Range Enhancer Interactions Lee, J; Krivega, I; Dale, RK; Dean, A; Cell Rep, DOI://10.1016/j.celrep.2017.05.072 (2017)
MLL4 prepares the enhancer landscape for Foxp3 induction via chromatin looping Placek, K; Hu, G; Cui, K et al. Nat. Immunol., DOI://10.1038/ni.3812 (2017)
Therapeutic Antibodies to Ganglioside GD2 Evolved from Highly Selective Germline Antibodies Sterner, E; Peach, ML; Nicklaus, MC; Gildersleeve, JC; Cell Rep, DOI://10.1016/j.celrep.2017.07.050 (2017)
High-SETD8 inactivates p53 in neuroblastoma Veschi, V; Thiele, CJ; Oncoscience, DOI://10.18632/oncoscience.344 (2017)
Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation Kieffer-Kwon, KR; Nimura, K; Rao, SSP et al. Mol. Cell, DOI://10.1016/j.molcel.2017.07.013 (2017)
Anti-Inflammatory Chromatinscape Suggests Alternative Mechanisms of Glucocorticoid Receptor Action Oh, KS; Patel, H; Gottschalk, RA et al. Immunity, DOI://10.1016/j.immuni.2017.07.012 (2017)

Survival in adults and children with systemic lupus erythematosus: a systematic review and Bayesian meta-analysis of studies from 1950 to 2016 Tektonidou, MG; Lewandowski, LB; Hu, J; Dasgupta, A; Ward, MM; Ann. Rheum. Dis., DOI://10.1136/annrheumdis-2017-211663 (2017)
Palmitoylation contributes to membrane curvature in Influenza A virus assembly and hemagglutinin-mediated membrane fusion Chlanda, P; Mekhedov, E; Waters, H et al. J. Virol., DOI://10.1128/JVI.00947-17 (2017)
Hydroxyl-radical footprinting combined with molecular modeling identifies unique features of DNA conformation and nucleosome positioning Alexey K. Shaytan, Hua Xiao, Grigoriy A. Armeev, Carl Wu, David Landsman, Anna R. Panchenko Nucleic Acids Res. , doi://10.1093/nar/gkx616 (2017)
Functional Subpopulations of Neurons in a Macaque Face Patch Revealed by Single-Unit fMRI Mapping Soo Hyun Park, Brian E. Russ, David B.T. McMahon, Kenji W. Koyano, Rebecca A. Berman, David A. Leopold Neuron, doi://10.1016/j.neuron.2017.07.014 (2017)
Stabilization of diastolic calcium signal via calcium pump regulation of complex local calcium releases and transient decay in a computational model of cardiac pacemaker cell with individual release channels Maltsev, AV; Maltsev, VA; Stern, MD; PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1005675 (2017)
Phosphorylation of the FUS low-complexity domain disrupts phase separation, aggregation, and toxicity Monahan, Z; Ryan, VH; Janke, AM et al. EMBO J., DOI://10.15252/embj.201696394 (2017)

A very simple, re-executable neuroimaging publication Ghosh, SS; Poline, JB; Keator, DB et al. F1000Res, DOI://10.12688/f1000research.10783.2 (2017)
Katanin spiral and ring structures shed light on power stroke for microtubule severing Zehr, E; Szyk, A; Piszczek, G; Szczesna, E; Zuo, X; Roll-Mecak, A; Nat. Struct. Mol. Biol., DOI://10.1038/nsmb.3448 (2017)
Does accounting for seizure frequency variability increase clinical trial power Goldenholz, DM; Goldenholz, SR; Moss, R et al. Epilepsy Res., DOI://10.1016/j.eplepsyres.2017.07.013 (2017)
A Novel Method To Estimate Lymphocyte Dose And Application To Pediatric And Young Adult Ct Patients In The United Kingdom Choonsik Lee, Lindsay M. Morton, Amy Berrington de Gonzalez Radiation Dosimetry, doi://10.1093/rpd/ncx084 (2017)
Task-based dynamic functional connectivity: Recent findings and open questions Gonzalez-Castillo, J; Bandettini, PA; Neuroimage, DOI://10.1016/j.neuroimage.2017.08.006 (2017)
A common SLC26A4-linked haplotype underlying non-syndromic hearing loss with enlargement of the vestibular aqueduct Chattaraj, P; Munjal, T; Honda, K et al. J. Med. Genet., DOI://10.1136/jmedgenet-2017-104721 (2017)

Genetic background-dependent role of Egr1 for eyelid development Oh, J; Wang, Y; Chen, S et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1705848114 (2017)
A Two-Step Approach for Analysis of Nonignorable Missing Outcomes in Longitudinal Regression: an Application to Upstate KIDS Study Liu, D; Yeung, EH; McLain, AC; Xie, Y; Buck Louis, GM; Sundaram, R; Paediatr Perinat Epidemiol, DOI://10.1111/ppe.12382 (2017)
The prevalence of DICER1 pathogenic variation in population databases Kim, J; Field, A; Schultz, KAP; Hill, DA; Stewart, DR; Int. J. Cancer, DOI://10.1002/ijc.30907 (2017)
Combining Multiple Resting-State fMRI Features during Classification: Optimized Frameworks and Their Application to Nicotine Addiction Ding, X; Yang, Y; Stein, EA; Ross, TJ; Front Hum Neurosci, DOI://10.3389/fnhum.2017.00362 (2017)
Novel Blood Pressure Locus and Gene Discovery Using Genome-Wide Association Study and Expression Data Sets From Blood and the Kidney Wain, LV; Vaez, A; Jansen, R et al. Hypertension, DOI://10.1161/HYPERTENSIONAHA.117.09438 (2017)
Neanderthal-Derived Genetic Variation Shapes Modern Human Cranium and Brain Gregory, MD; Kippenhan, JS; Eisenberg, DP et al. Sci Rep, DOI://10.1038/s41598-017-06587-0 (2017)

Genomic and metabolic characterization of a chromophobe renal cell carcinoma cell line model (UOK276) Yang, Y; Vocke, CD; Ricketts, CJ et al. Genes Chromosomes Cancer, DOI://10.1002/gcc.22476 (2017)
Genome Organization Drives Chromosome Fragility Canela, A; Maman, Y; Jung, S et al. Cell, DOI://10.1016/j.cell.2017.06.034 (2017)
A population-specific reference panel empowers genetic studies of Anabaptist populations Hou, L; Kember, RL; Roach, JC et al. Sci Rep, DOI://10.1038/s41598-017-05445-3 (2017)
Global alteration of the drug-binding pocket of human P-glycoprotein (ABCB1) by substitution of fifteen conserved residues reveals a negative correlation between substrate size and transport efficiency Vahedi, S; Chufan, EE; Ambudkar, SV; Biochem. Pharmacol., DOI://10.1016/j.bcp.2017.07.014 (2017)
Histone demethylases UTX and JMJD3 are required for NKT cell development in mice Northrup, D; Yagi, R; Cui, K et al. Cell Biosci, DOI://10.1186/s13578-017-0152-8 (2017)
Facultative CTCF sites moderate mammary super-enhancer activity and regulate juxtaposed gene in non-mammary cells Willi, M; Yoo, KH; Reinisch, F et al. Nat Commun, DOI://10.1038/ncomms16069 (2017)

How to control for unmeasured confounding in an observational time-to-event study with exposure incidence information: the treatment choice Cox model Troendle, J; Leifer, E; Zhang, Z; Yong, S; Tewes, H Stat. Med. , DOI: 10.1002/sim.7377 (2017)
Chromosome 3q22-29 amplification is linked to increased expression of multiple genes in key pathways deregulated in head and neck cancer tumors and cell lines Cheng H, Yang X, Si H et al. Cancer Research, DOI: 10.1158/1538-7445.AM2017-4374 (2017)
Deep Learning and Convolutional Neural Networks for Medical Image Computing: Precision Medicine, High Performance and Large-Scale Datasets edited by Le Lu, Yefeng Zheng, Gustavo Carneiro, Lin Yang Advances in Computer Vision and Pattern Recognition (2017)
Scaffolding of long read assemblies using long range contact information Ghurye, J; Pop, M; Koren, S; Bickhart, D; Chin, CS; BMC Genomics, DOI://10.1186/s12864-017-3879-z (2017)
Proper joint analysis of summary association statistics requires the adjustment of heterogeneity in SNP coverage pattern Han Zhang, William Wheeler, Lei Song, Kai Yu Briefings in Bioinformatics, doi://10.1093/bib/bbx072 (2017)
Oncogenic Activation of the RNA Binding Protein NELFE and MYC Signaling in Hepatocellular Carcinoma Dang, H; Takai, A; Forgues, M et al. Cancer Cell, DOI://10.1016/j.ccell.2017.06.002 (2017)

Longitudinal profiling reveals a persistent intestinal dysbiosis triggered by conventional anti-tuberculosis therapy Namasivayam, S; Maiga, M; Yuan, W et al. Microbiome, DOI://10.1186/s40168-017-0286-2 (2017)
Computer algorithms for automated detection and analysis of local Ca2+ releases in spontaneously beating cardiac pacemaker cells Maltsev, AV; Parsons, SP; Kim, MS et al. PLoS ONE, DOI://10.1371/journal.pone.0179419 (2017)
Staphylococcus aureus and Staphylococcus epidermidis strain diversity underlying pediatric atopic dermatitis Byrd, AL; Deming, C; Cassidy, SKB et al. Sci Transl Med, DOI://10.1126/scitranslmed.aal4651 (2017)
Genomic Analyses Reveal the Influence of Geographic Origin, Migration, and Hybridization on Modern Dog Breed Development Parker, HG; Dreger, DL; Rimbault, M et al. Cell Rep, DOI://10.1016/j.celrep.2017.03.079 (2017)
Clusters of calcium release channels harness the Ising phase transition to confine their elementary intracellular signals Maltsev, AV; Maltsev, VA; Stern, MD; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1701409114 (2017)
Pattern-mixture models with incomplete informative cluster size: application to a repeated pregnancy study Ashok Chaurasia, Danping Liu, Paul S. Albert Royal Statistical Society: Applied Statistics, DOI: 10.1111/rssc.12226 (2017)

Biopsy-guided learning with deep convolutional neural networks for Prostate Cancer detection on multiparametric MRI Tsehay Y, Lay N et al Biomedical Imaging, doi://10.1109/ISBI.2017.7950602 (2017)
Epigenome-wide analysis of DNA methylation in lung tissue shows concordance with blood studies and identifies tobacco smoke-inducible enhancers Steve TR, Li W-Q, Shi J, et al. Hum. Mol. Genet. , DOI: https://doi.org/10.1093/hmg/ddx188 (2017)
Type 2 diabetes, glucose, insulin, BMI, and ischemic stroke subtypes: Mendelian randomization study Larsson, SC; Scott, RA; Traylor, M et al. Neurology, DOI://10.1212/WNL.0000000000004173 (2017)
Whole-Genome Sequencing Overrules a Suspected Case of Carbapenem-Resistant Enterobacter cloacae Transmission Chen, M; Conlan, S; Lau, AF et al. J. Clin. Microbiol., DOI://10.1128/JCM.00915-17 (2017)
Defining the Neural Substrate of the Adult Outcome of Childhood ADHD: A Multimodal Neuroimaging Study of Response Inhibition Szekely, E; Sudre, GP; Sharp, W; Leibenluft, E; Shaw, P; Am J Psychiatry, DOI://10.1176/appi.ajp.2017.16111313 (2017)
Growth Inhibition of Colon Cancer and Melanoma Cells by Versiol Derivatives from a Paraconiothyrium Species Cho, N; Ransom, TT; Sigmund, J et al. J. Nat. Prod., DOI://10.1021/acs.jnatprod.7b00170 (2017)

De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean Hernández-Fernández, J; Pinzón, A; Mariño-Ramírez, L; Genom Data, DOI://10.1016/j.gdata.2017.06.005 (2017)
Conserved and species-specific molecular denominators in mammalian skeletal muscle aging Mercken, EM; Capri, M; Carboneau, BA et al. NPJ Aging Mech Dis, DOI://10.1038/s41514-017-0009-8 (2017)
Pandemic (H1N1) 2009 influenza A virus infection associated with respiratory signs in sloth bears (Melursus ursinus) Boedeker, NC; Nelson, MI; Killian, ML; Torchetti, MK; Barthel, T; Murray, S; Zoonoses Public Health, DOI://10.1111/zph.12370 (2017)
Characterizing cis-regulatory variation in the transcriptome of histologically normal and tumor-derived pancreatic tissues Zhang, M; Lykke-Andersen, S; Zhu, B et al. Gut, DOI://10.1136/gutjnl-2016-313146 (2017)
Insights into the binding mode of MEK type-III inhibitors. A step towards discovering and designing allosteric kinase inhibitors across the human kinome Zhao, Z; Xie, L; Bourne, PE; PLoS ONE, DOI://10.1371/journal.pone.0179936 (2017)
Genome-Wide Association Study to Identify Susceptibility Loci That Modify Radiation-Related Risk for Breast Cancer After Childhood Cancer Lindsay M. Morton Joshua N. Sampson Gregory T. Armstrong et al. J. Natl. Cancer. Inst., DOI: https://doi.org/10.1093/jnci/djx058 (2017)

The Transcription Factor T-bet Limits Amplification of Type I IFN Transcriptome and Circuitry in T Helper 1 Cells Iwata, S; Mikami, Y; Sun, HW et al. Immunity, DOI://10.1016/j.immuni.2017.05.005 (2017)
Flexible-Body Motions of Calmodulin and the Farnesylated Hypervariable Region Yield a High-Affinity Interaction Enabling K-Ras4B Membrane Extraction Jang, H; Banerjee, A; Chavan, T; Gaponenko, V; Nussinov, R; J. Biol. Chem., DOI://10.1074/jbc.M117.785063 (2017)
Graphite-Templated Amyloid Nanostructures Formed by A Potential Pentapeptide Inhibitor for Alzheimer's disease: A Combined Study of Real-Time Atomic Force Microscopy and Molecular Dynamics Simulations Li, N; Jang, H; Yuan, M et al. Langmuir, DOI://10.1021/acs.langmuir.7b00414 (2017)
Estimating the causal influence of body mass index on risk of Parkinson disease: A Mendelian randomisation study Noyce, AJ; Kia, DA; Hemani, G et al. PLoS Med., DOI://10.1371/journal.pmed.1002314 (2017)
Socioeconomic disadvantage, gestational immune activity, and neurodevelopment in early childhood Gilman, SE; Hornig, M; Ghassabian, A et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1617698114 (2017)
Workflow and web application for annotating NCBI BioProject transcriptome data Vera Alvarez, R; Medeiros Vidal, N; Garzón-Martínez, GA; Barrero, LS; Landsman, D; Mariño-Ramírez, L; Database (Oxford), DOI://10.1093/database/bax008 (2017)

NeuroChip, an updated version of the NeuroX genotyping platform to rapidly screen for variants associated with neurological diseases Blauwendraat, C; Faghri, F; Pihlstrom, L et al. Neurobiol. Aging, DOI://10.1016/j.neurobiolaging.2017.05.009 (2017)
Overexpression of ATP-Binding Cassette Subfamily G Member 2 Confers Resistance to Phosphatidylinositol 3-Kinase Inhibitor PF-4989216 in Cancer Cells Wu, CP; Murakami, M; Hsiao, SH et al. Mol. Pharm., DOI://10.1021/acs.molpharmaceut.7b00277 (2017)
Intrinsic protein disorder in oncogenic KRAS signaling Nussinov, R; Jang, H; Tsai, CJ et al. Cell. Mol. Life Sci., DOI://10.1007/s00018-017-2564-3 (2017)
Mitochondrial respiration and ROS emission during β-oxidation in the heart: An experimental-computational study Cortassa, S; Sollott, SJ; Aon, MA; PLoS Comput. Biol., DOI://10.1371/journal.pcbi.1005588 (2017)
Heightened amygdala responsiveness in s-carriers of 5-HTTLPR genetic polymorphism reflects enhanced cortical rather than subcortical inputs: An MEG study Luo, Q; Holroyd, T; Mitchell, D et al. Hum Brain Mapp, DOI://10.1002/hbm.23616 (2017)
Monte Carlo simulations of randomized clinical trials in epilepsy DM Goldenholz, J Tharayil, R Moss, E Myers, WH Theodore Annals of Clinical and Translational Neurology, DOI: 10.1002/acn3.426 (2017)

Prostate Cancer: A Correlative Study of Multiparametric MR Imaging and Digital Histopathology Kwak, JT; Sankineni, S; Xu, S et al. Radiology, DOI://10.1148/radiol.2017160906 (2017)
Lecithin:Cholesterol Acyltransferase Activation by Sulfhydryl-Reactive Small Molecules: Role of Cysteine-31 Freeman, LA; Demosky, SJ; Konaklieva, M et al. J. Pharmacol. Exp. Ther., DOI://10.1124/jpet.117.240457 (2017)
Mediator binds to boundaries of chromosomal interaction domains and to proteins involved in DNA looping, RNA metabolism, chromatin remodeling, and actin assembly Chereji, RV; Bharatula, V; Elfving, N et al. Nucleic Acids Res., DOI://10.1093/nar/gkx491 (2017)
Release of Cytochrome C from Bax Pores at the Mitochondrial Membrane Zhang, M; Zheng, J; Nussinov, R; Ma, B; Sci Rep, DOI://10.1038/s41598-017-02825-7 (2017)
Threat of shock increases excitability and connectivity of the intraparietal sulcus Balderston, NL; Hale, E; Hsiung, A et al. Elife, DOI://10.7554/eLife.23608 (2017)
Designer Drugs 2.0 Huestis, MA; Tyndale, RF; , Clin Pharmacol Ther, DOI://10.1002/cpt.575 (2017)
Identification and Analysis of Protein Phosphorylation by Mass Spectrometry DE McNulty, TW Sikorski, RS Annan in 'Analysis of Protein Post-Translational Modifications by , ed John R. Griffiths, Richard D. Unwin. Wiley (2017)
Whole-brain connectivity dynamics reflect both task-specific and individual-specific modulation: A multitask study Xie, H; Calhoun, VD; Gonzalez-Castillo, J et al. Neuroimage, DOI://10.1016/j.neuroimage.2017.05.050 (2017)
Phosphorylated SIRT1 associates with replication origins to prevent excess replication initiation and preserve genomic stability Utani, K; Fu, H; Jang, SM et al. Nucleic Acids Res., DOI://10.1093/nar/gkx468 (2017)
Combined single molecule experimental and computational approaches for understanding the unfolding pathway of a viral translation enhancer that participates in a conformational switch Le, MT; Kasprzak, WK; Shapiro, BA; Simon, AE; RNA Biol, DOI://10.1080/15476286.2017.1325069 (2017)
Tumor-Infiltrating Lymphocyte Therapy and Neoantigens Robbins, PF Cancer J, DOI://10.1097/PPO.0000000000000267 (2017)
Deficiency of Complement 1r Subcomponent in Early-Onset Systemic Lupus Erythematosus: The Role of Disease-Modifying Alleles in a Monogenic Disease Demirkaya, E; Zhou, Q; Smith, CK et al. , DOI://10.1002/art.40158 (2017)

Dynamic enhancer function in the chromatin context Goldstein, I; Hager, GL; Wiley Interdiscip Rev Syst Biol Med, DOI://10.1002/wsbm.1390 (2017)
PDEδ Binding to Ras Isoforms Provides a Route to Proper Membrane Localization Muratcioglu, S; Jang, H; Gursoy, A; Keskin, O; Nussinov, R; J Phys Chem B, DOI://10.1021/acs.jpcb.7b03035 (2017)
Bivariate Genomic Footprinting Detects Changes in Transcription Factor Activity Baek, S; Goldstein, I; Hager, GL; Cell Rep, DOI://10.1016/j.celrep.2017.05.003 (2017)
Mechanics of post-fusion exocytotic vesicle Stephens, T; Wu, Z; Liu, J; Phys Biol, DOI://10.1088/1478-3975/aa6ad6 (2017)
BACH2 immunodeficiency illustrates an association between super-enhancers and haploinsufficiency Afzali, B; Grönholm, J; Vandrovcova, J et al. Nat. Immunol., DOI://10.1038/ni.3753 (2017)
Brownian ratchet mechanisms of ParA-mediated partitioning Hu, L; Vecchiarelli, AG; Mizuuchi, K; Neuman, KC; Liu, J; Plasmid, DOI://10.1016/j.plasmid.2017.05.002 (2017)

Pathology of callosal damage in ALS: An ex-vivo, 7 T diffusion tensor MRI study Agustin M. Cardenas, Joelle E. Sarlls, Justin Y. Kwan, Devin Bageac, Zachary S. Gala, Laura E. Danielian, Abhik Ray-Chaudhury, Hao-Wei Wang, Karla L. Miller, Sean Foxley, Saad Jbabdid, Robert C. Welsh, Mary Kay Floeter NeuroImage: Clinical, doi://10.1016/j.nicl.2017.04.024 (2017)
Unsupervised Joint Mining of Deep Features and Image Labels for Large-Scale Radiology Image Categorization and Scene Recognition Xiaosong Wang, Le Lu, Hoo-chang Shin, Lauren Kim, Mohammadhadi Bagheri, Isabella Nogues, Jianhua Yao, Ronald M. Summers IEEE Winter Conference on Applications of Computer Vision, DOI 10.1109/WACV.2017.116 (2017)
Simulating clinical trials with and without intracranial EEG data Goldenholz D, Tharayil J, Kuzniecky R, et al. Epilepsia Open, DOI: 10.1002/epi4.12038 (2017)
Drosophila melanogaster positive transcriptional elongation factors regulate metabolic and sex-biased expression in adults Yang, H; Basquin, D; Pauli, D; Oliver, B; BMC Genomics, DOI://10.1186/s12864-017-3755-x (2017)
Pias3 is necessary for dorso-ventral patterning and visual response of retinal cones but is not required for rod photoreceptor differentiation Campla, CK; Breit, H; Dong, L; Gumerson, JD; Roger, JE; Swaroop, A; Biol Open, DOI://10.1242/bio.024679 (2017)
Human ancestry correlates with language and reveals that race is not an objective genomic classifier Baker, JL; Rotimi, CN; Shriner, D; Sci Rep, DOI://10.1038/s41598-017-01837-7 (2017)

Conformational Changes in Active and Inactive States of Human PP2Cα Characterized by Hydrogen/Deuterium Exchange-Mass Spectrometry Mazur, SJ; Gallagher, ES; Debnath, S et al. Biochemistry, DOI://10.1021/acs.biochem.6b01220 (2017)
A Genome-Wide Association Study Using a Custom Genotyping Array Identifies Variants in GPR158 Associated with Reduced Energy Expenditure in American Indians Piaggi, P; Masindova, I; Muller, YL et al. Diabetes, DOI://10.2337/db16-1565 (2017)
Molecular codes for cell type specification in Brn3 retinal ganglion cells Sajgo, S; Ghinia, MG; Brooks, M et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1618551114 (2017)
A population MRI brain template and analysis tools for the macaque Seidlitz, J; Sponheim, C; Glen, D et al. Neuroimage, DOI://10.1016/j.neuroimage.2017.04.063 (2017)
Calmodulin and PI3K Signaling in KRAS Cancers Nussinov, R; Wang, G; Tsai, CJ et al. Trends Cancer, DOI://10.1016/j.trecan.2017.01.007 (2017)
fastMitoCalc: an ultra-fast program to estimate mitochondrial DNA copy number from whole-genome sequences Qian, Y; Butler, TJ; Opsahl-Ong, K et al. Bioinformatics, DOI://10.1093/bioinformatics/btw835 (2017)

Median Analysis of Repeated Measures Associated with Recurrent Events in Presence of Terminal Event Sundaram, R; Ma, L; Ghoshal, S; Int J Biostat, DOI://10.1515/ijb-2016-0057 (2017)
The isomeric preference of an atypical dopamine transporter inhibitor contributes to its selection of the transporter conformation Abramyan, AM; Stolzenberg, S; Li, Z; Loland, CJ; Noé, F; Shi, L; ACS Chem Neurosci, DOI://10.1021/acschemneuro.7b00094 (2017)
Behavioral and Neural Sustained Attention Deficits in Disruptive Mood Dysregulation Disorder and Attention-Deficit/Hyperactivity Disorder Pagliaccio, D; Wiggins, JL; Adleman, NE et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2017.02.008 (2017)
Immunocompetent mouse allograft models for development of therapies to target breast cancer metastasis Yang, Y; Yang, HH; Hu, Y et al. Oncotarget, DOI://10.18632/oncotarget.15695 (2017)
Transposable elements in the Anopheles funestus transcriptome Fernández-Medina, RD; Carareto, CMA; Struchiner, CJ; Ribeiro, JMC; Genetica, DOI://10.1007/s10709-017-9964-z (2017)
fMRI clustering and false-positive rates Cox, RW; Chen, G; Glen, DR; Reynolds, RC; Taylor, PA; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1614961114 (2017)

Sequence and Structural Analyses Reveal Distinct and Highly Diverse Human CD8(+) TCR Repertoires to Immunodominant Viral Antigens Chen, G; Yang, X; Ko, A et al. Cell Rep, DOI://10.1016/j.celrep.2017.03.072 (2017)
Power Grid Protection of the Muscle Mitochondrial Reticulum Glancy, B; Hartnell, LM; Combs, CA et al. Cell Rep, DOI://10.1016/j.celrep.2017.03.063 (2017)
Brain-derived neurotrophic factor Val(66)Met genotype and ovarian steroids interactively modulate working memory-related hippocampal function in women: a multimodal neuroimaging study Wei, SM; Baller, EB; Kohn, PD et al. Mol. Psychiatry, DOI://10.1038/mp.2017.72 (2017)
Brownian Ratchet Mechanism for Faithful Segregation of Low-Copy-Number Plasmids Hu, L; Vecchiarelli, AG; Mizuuchi, K; Neuman, KC; Liu, J; Biophys. J., DOI://10.1016/j.bpj.2017.02.039 (2017)
H3K4 demethylase KDM5B regulates global dynamics of transcription elongation and alternative splicing in embryonic stem cells He, R; Kidder, BL; Nucleic Acids Res., DOI://10.1093/nar/gkx251 (2017)
FMRI Clustering in AFNI: False-Positive Rates Redux Cox, RW; Chen, G; Glen, DR; Reynolds, RC; Taylor, PA; Brain Connect, DOI://10.1089/brain.2016.0475 (2017)

A novel perivascular cell population in the zebrafish brain Venero Galanternik, M; Castranova, D; Gore, AV et al. Elife, DOI://10.7554/eLife.24369 (2017)
Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly Schneider, VA; Graves-Lindsay, T; Howe, K et al. Genome Res., DOI://10.1101/gr.213611.116 (2017)
Intrinsic Functional Connectivity of the Central Nucleus of the Amygdala and Bed Nucleus of the Stria Terminalis Gorka, AX; Torrisi, S; Shackman, AJ; Grillon, C; Ernst, M; Neuroimage, DOI://10.1016/j.neuroimage.2017.03.007 (2017)
Hydrophobic-Hydrophilic Forces in Protein Folding Durell, SR; Ben-Naim, A; Biopolymers, DOI://10.1002/bip.23020 (2017)
Molecular convergence in ex vivo models of Diamond-Blackfan anemia O'Brien, KA; Farrar, JE; Vlachos, A et al. Blood, DOI://10.1182/blood-2017-01-760462 (2017)
Detection of genetic loci associated with plasma fetuin-A: A meta-analysis of genome-wide association studies from the CHARGE Consortium Jensen, MK; Jensen, RA; Mukamal, KJ et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddx091 (2017)

A New Natural Product Analog of Blasticidin S Reveals Cellular Uptake Facilitated by the NorA Multidrug Transporter Davison, JR; Lohith, KM; Wang, X et al. Antimicrob. Agents Chemother., DOI://10.1128/AAC.02635-16 (2017)
Retrospective correction of frequency drift in spectral editing: The GABA editing example van der Veen, JW; Marenco, S; Berman, KF; Shen, J; NMR Biomed, DOI://10.1002/nbm.3725 (2017)
A big data approach to the development of mixed-effects models for seizure count data Tharayil, JJ; Chiang, S; Moss, R; Stern, JM; Theodore, WH; Goldenholz, DM; Epilepsia, DOI://10.1111/epi.13727 (2017)
REEP6 mediates trafficking of a subset of Clathrin-coated vesicles and is critical for rod photoreceptor function and survival Veleri, S; Nellissery, J; Mishra, B et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddx111 (2017)
Multi-echo fMRI: A review of applications in fMRI denoising and analysis of BOLD signals Kundu, P; Voon, V; Balchandani, P; Lombardo, MV; Poser, BA; Bandettini, PA; Neuroimage, DOI://10.1016/j.neuroimage.2017.03.033 (2017)
Stable functional networks exhibit consistent timing in the human brain Chapeton, JI; Inati, SK; Zaghloul, KA; Brain, DOI://10.1093/brain/aww337 (2017)

An investigation of doubt in obsessive-compulsive disorder Samuels, J; Bienvenu, OJ; Krasnow, J et al. Compr Psychiatry, DOI://10.1016/j.comppsych.2017.03.004 (2017)
Gramicidin A Channel Formation Induces Local Lipid Redistribution II: A 3D Continuum Elastic Model Sodt, AJ; Beaven, AH; Andersen, OS; Im, W; Pastor, RW; Biophys. J., DOI://10.1016/j.bpj.2017.01.035 (2017)
Automatic MR prostate segmentation by deep learning with holistically-nested networks Ruida Cheng ; Holger R. Roth ; Nathan Lay ; Le Lu ; Baris Turkbey ; William Gandler ; Evan S. McCreedy ; Peter Choyke ; Ronald M. Summers ; Matthew J. McAuliffe Proc. SPIE 10133, Medical Imaging 2017, doi:10.1117/12.2254558 (2017)
Macrophilone A: Structure Elucidation, Total Synthesis, and Functional Evaluation of a Biologically Active Iminoquinone from the Marine Hydroid Macrorhynchia philippina Zlotkowski, K; Hewitt, WM; Yan, P et al. Org. Lett., DOI://10.1021/acs.orglett.7b00496 (2017)
Common and rare exonic MUC5B variants associated with type 2 diabetes in Han Chinese Chen, G; Zhang, Z; Adebamowo, SN et al. PLoS ONE, DOI://10.1371/journal.pone.0173784 (2017)
Korean Pediatric and Adult Head Computational Phantoms and Application to Photon Specific Absorbed Fractions Calculations Villoing, D; McMillan, D; Kim, KP et al. Radiat Prot Dosimetry, DOI://10.1093/rpd/ncx009 (2017)

Expressed Structurally-stable Inverted Duplicates in Mammalian Genomes as Functional Noncoding Elements Chen, ZX; Oliver, B; Zhang, YE; Gao, G; Long, M; Genome Biol Evol, DOI://10.1093/gbe/evx054 (2017)
Flexible CRISPR library construction using parallel oligonucleotide retrieval Read, A; Gao, S; Batchelor, E; Luo, J; Nucleic Acids Res., DOI://10.1093/nar/gkx181 (2017)
Functional assessment of CTCF sites at cytokine-sensing mammary enhancers using CRISPR/Cas9 gene editing in mice Lee, HK; Willi, M; Wang, C et al. Nucleic Acids Res., DOI://10.1093/nar/gkx185 (2017)
DNase-active TREX1 frame-shift mutants induce serologic autoimmunity in mice Sakai, T; Miyazaki, T; Shin, DM et al. J. Autoimmun., DOI://10.1016/j.jaut.2017.03.001 (2017)
Determining Cysteines Available for Covalent Inhibition Across the Human Kinome Zhao, Z; Liu, Q; Bliven, S; Xie, L; Bourne, PE; J. Med. Chem., DOI://10.1021/acs.jmedchem.6b01815 (2017)
Whole-Exome Sequencing for Diagnosis of Turner Syndrome: Toward Next-Generation Sequencing and Newborn Screening Murdock, DR; Donovan, FX; Chandrasekharappa, SC et al. J. Clin. Endocrinol. Metab., DOI://10.1210/jc.2016-3414 (2017)

The Role of TM5 in Na2 Release and the Conformational Transition of Neurotransmitter:Sodium Symporters toward the Inward-Open State Stolzenberg, S; Li, Z; Quick, M et al. J. Biol. Chem., DOI://10.1074/jbc.M116.757153 (2017)
Neuroanatomic, epigenetic and genetic differences in monozygotic twins discordant for attention deficit hyperactivity disorder Chen, YC; Sudre, G; Sharp, W et al. Mol. Psychiatry, DOI://10.1038/mp.2017.45 (2017)
Predicting drug-drug interactions through drug structural similarities and interaction networks incorporating pharmacokinetics and pharmacodynamics knowledge Takeda, T; Hao, M; Cheng, T; Bryant, SH; Wang, Y; J Cheminform, DOI://10.1186/s13321-017-0200-8 (2017)
Modulation of opioid receptor affinity and efficacy via N-substitution of 9β-hydroxy-5-(3-hydroxyphenyl)morphan: Synthesis and computer simulation study Truong, PM; Hassan, SA; Lee, YS et al. Bioorg. Med. Chem., DOI://10.1016/j.bmc.2017.02.064 (2017)
Computational Study of the Forces Driving Aggregation of Ultrasmall Nanoparticles in Biological Fluids Hassan, SA ACS Nano, DOI://10.1021/acsnano.7b00981 (2017)
Identification of β-Catenin-Interacting Proteins in Nuclear Fractions of Native Rat Collecting Duct Cells Hwang, JR; Chou, CL; Medvar, B; Knepper, MA; Jung, HJ; Am. J. Physiol. Renal Physiol., DOI://10.1152/ajprenal.00054.2017 (2017)
Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation Koren, S; Walenz, BP; Berlin, K; Miller, JR; Bergman, NH; Phillippy, AM; Genome Res., DOI://10.1101/gr.215087.116 (2017)
Whole exome sequencing in the Framingham Heart Study identifies rare variation in HYAL2 that influences platelet aggregation Eicher, JD; Chen, MH; Pitsillides, AN et al. Thromb. Haemost., DOI://10.1160/TH16-09-0677 (2017)
BTBD18 Regulates a Subset of piRNA-Generating Loci through Transcription Elongation in Mice Zhou, L; Canagarajah, B; Zhao, Y et al. Dev. Cell, DOI://10.1016/j.devcel.2017.02.007 (2017)
A large outbreak of acute gastroenteritis in Shippensburg, Pennsylvania, 1972 revisited: evidence for common source exposure to a recombinant GII.Pg/GII.3 norovirus Johnson, JA; Parra, GI; Levenson, EA; Green, KY; Epidemiol. Infect., DOI://10.1017/S0950268817000498 (2017)
Dynamic Role of trans Regulation of Gene Expression in Relation to Complex Traits Yao, C; Joehanes, R; Johnson, AD et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2017.02.003 (2017)
Effect of Detergent Micelle Environment on P-glycoprotein (ABCB1)-Ligand Interactions Shukla, S; Abel, B; Chufan, EE; Ambudkar, SV; J. Biol. Chem., DOI://10.1074/jbc.M116.771634 (2017)

Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome Bickhart, DM; Rosen, BD; Koren, S et al. Nat. Genet., DOI://10.1038/ng.3802 (2017)
Analysis of large versus small dogs reveals three genes on the canine X chromosome associated with body weight, muscling and back fat thickness Plassais, J; Rimbault, M; Williams, FJ; Davis, BW; Schoenebeck, JJ; Ostrander, EA; PLoS Genet., DOI://10.1371/journal.pgen.1006661 (2017)
SMYD5 regulates H4K20me3-marked heterochromatin to safeguard ES cell self-renewal and prevent spurious differentiation Kidder, BL; Hu, G; Cui, K; Zhao, K; Epigenetics Chromatin, DOI://10.1186/s13072-017-0115-7 (2017)
Permanganate/S1 Nuclease Footprinting Reveals Non-B DNA Structures with Regulatory Potential across a Mammalian Genome Kouzine, F; Wojtowicz, D; Baranello, L et al. Cell Syst, DOI://10.1016/j.cels.2017.01.013 (2017)
Circulating tumor cells capture disease evolution in advanced prostate cancer Lack, J; Gillard, M; Cam, M; Paner, GP; VanderWeele, DJ; J Transl Med, DOI://10.1186/s12967-017-1138-3 (2017)
Quaternary contact in the initial interaction of CD4 with the HIV-1 envelope trimer Liu, Q; Acharya, P; Dolan, MA et al. Nat. Struct. Mol. Biol., DOI://10.1038/nsmb.3382 (2017)

The effects of shared information on semantic calculations in the gene ontology Bible, PW; Sun, HW; Morasso, MI; Loganantharaj, R; Wei, L; Comput Struct Biotechnol J, DOI://10.1016/j.csbj.2017.01.009 (2017)
Ultra-High-Field fMRI Reveals a Role for the Subiculum in Scene Perceptual Discrimination Hodgetts, CJ; Voets, NL; Thomas, AG; Clare, S; Lawrence, AD; Graham, KS; J. Neurosci., DOI://10.1523/JNEUROSCI.3225-16.2017 (2017)
Epigenetic Patterns in Blood Associated With Lipid Traits Predict Incident Coronary Heart Disease Events and Are Enriched for Results From Genome-Wide Association Studies Hedman, ÅK; Mendelson, MM; Marioni, RE et al. Circ Cardiovasc Genet, DOI://10.1161/CIRCGENETICS.116.001487 (2017)
Circulating miRNA Associated with Posttraumatic Stress Disorder in a Cohort of Military Combat Veterans Christiana G. Martin, Hyungsuk Kim, Sijung Yun, Whitney Livingston, Joseph Fetta, Vincent Mysliwiec, Tristin Baxter, Jessica M. Gill Psychiatry Research, doi://10.1016/j.psychres.2017.01.081 (2017)
The dynamic mechanism of RASSF5 and MST kinase activation by Ras Liao, TJ; Jang, H; Tsai, CJ; Fushman, D; Nussinov, R; Phys Chem Chem Phys, DOI://10.1039/c6cp08596b (2017)
Genome-Wide Identification of Basic Helix-Loop-Helix and NF-1 Motifs Underlying GR Binding Sites in Male Rat Hippocampus Pooley, JR; Flynn, BP; Grøntved, L et al. Endocrinology, DOI://10.1210/en.2016-1929 (2017)

Somatic mutations in murine models of leukemia and lymphoma: Disease specificity and clinical relevance Goldberg, L; Gough, SM; Lee, F et al. Genes Chromosomes Cancer, DOI://10.1002/gcc.22451 (2017)
Multivariate meta-analysis with an increasing number of parameters Boca, SM; Pfeiffer, RM; Sampson, JN; Biom J, DOI://10.1002/bimj.201600013 (2017)
Anopheline salivary protein genes and gene families: an evolutionary overview after the whole genome sequence of sixteen Anopheles species Arcà, B; Lombardo, F; Struchiner, CJ; Ribeiro, JM; BMC Genomics, DOI://10.1186/s12864-017-3579-8 (2017)
Genetic regulatory signatures underlying islet gene expression and type 2 diabetes Varshney, A; Scott, LJ; Welch, RP et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1621192114 (2017)
A novel DLX3-PKC integrated signaling network drives keratinocyte differentiation Palazzo, E; Kellett, MD; Cataisson, C et al. Cell Death Differ., DOI://10.1038/cdd.2017.5 (2017)
Folding behavior of a T-shaped, ribosome-binding translation enhancer implicated in a wide-spread conformational switch Le, MT; Kasprzak, WK; Kim, T et al. Elife, DOI://10.7554/eLife.22883 (2017)

Thiazole-valine peptidomimetic (TTT-28) antagonizes multidrug resistance in vitro and in vivo by selectively inhibiting the efflux activity of ABCB1 Wang, YJ; Patel, BA; Anreddy, N et al. Sci Rep, DOI://10.1038/srep42106 (2017)
Messenger RNA and MicroRNA transcriptomic signatures of cardiometabolic risk factors McManus, DD; Rong, J; Huan, T et al. BMC Genomics, DOI://10.1186/s12864-017-3533-9 (2017)
iPSCs and fibroblast subclones from the same fibroblast population contain comparable levels of sequence variations Kwon, EM; Connelly, JP; Hansen, NF et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1616035114 (2017)
Dense genotyping of immune-related loci implicates host responses to microbial exposure in Behçet's disease susceptibility Takeuchi, M; Mizuki, N; Meguro, A et al. Nat. Genet., DOI://10.1038/ng.3786 (2017)
Insights from NMR Spectroscopy into the Conformational Properties of Man-9 and Its Recognition by Two HIV Binding Proteins Shahzad-Ul-Hussan, S; Sastry, M; Lemmin, T et al. Chembiochem, DOI://10.1002/cbic.201600665 (2017)
MNase-Sensitive Complexes in Yeast: Nucleosomes and Non-histone Barriers Chereji, RV; Ocampo, J; Clark, DJ; Mol. Cell, DOI://10.1016/j.molcel.2016.12.009 (2017)

Amyloid β Ion Channels in a Membrane Comprising Brain Total Lipid Extracts Lee, J; Kim, YH; T Arce, F et al. ACS Chem Neurosci, DOI://10.1021/acschemneuro.7b00006 (2017)
Discovery and functional prioritization of Parkinson's disease candidate genes from large-scale whole exome sequencing Jansen, IE; Ye, H; Heetveld, S et al. Genome Biol., DOI://10.1186/s13059-017-1147-9 (2017)
Hybrid assembly of the large and highly repetitive genome of Aegilops tauschii, a progenitor of bread wheat, with the MaSuRCA mega-reads algorithm Zimin, AV; Puiu, D; Luo, MC et al. Genome Res., DOI://10.1101/gr.213405.116 (2017)
Hedgehog Signaling Inhibitors Fail to Reduce Merkel Cell Carcinoma Viability Carroll, TM; Williams, JS; Daily, K et al. J. Invest. Dermatol., DOI://10.1016/j.jid.2017.01.008 (2017)
Differential methylation of genes in individuals exposed to maternal diabetes in utero Chen, P; Piaggi, P; Traurig, M et al. Diabetologia, DOI://10.1007/s00125-016-4203-1 (2017)
ERBIN deficiency links STAT3 and TGF-β pathway defects with atopy in humans Lyons, JJ; Liu, Y; Ma, CA et al. J. Exp. Med., DOI://10.1084/jem.20161435 (2017)

Frequent inactivating germline mutations in DNA repair genes in patients with Ewing sarcoma Brohl, AS; Patidar, R; Turner, CE et al. Genet. Med., DOI://10.1038/gim.2016.206 (2017)
Integrated genome-wide analysis of expression quantitative trait loci aids interpretation of genomic association studies Joehanes, R; Zhang, X; Huan, T et al. Genome Biol., DOI://10.1186/s13059-016-1142-6 (2017)
Gleason Score 7 Prostate Cancers Emerge through Branched Evolution of Clonal Gleason Pattern 3 and 4 Sowalsky, AG; Kissick, HT; Gerrin, SJ et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-16-2414 (2017)
Dose coefficients for ICRP reference pediatric phantoms exposed to idealised external gamma fields Chang, LA; Simon, SL; Jorgensen, TJ; Schauer, DA; Lee, C; J Radiol Prot, DOI://10.1088/1361-6498/aa559e (2017)
Actin dynamics and competition for myosin monomer govern the sequential amplification of myosin filaments Beach, JR; Bruun, KS; Shao, L et al. Nat. Cell Biol., DOI://10.1038/ncb3463 (2017)
Functionally-interdependent shape-switching nanoparticles with controllable properties Halman, JR; Satterwhite, E; Roark, B et al. Nucleic Acids Res., DOI://10.1093/nar/gkx008 (2017)

SDHD promoter mutations ablate GABP transcription factor binding in melanoma Zhang, T; Xu, M; Makowski, MM et al. Cancer Res., DOI://10.1158/0008-5472.CAN-16-0919 (2017)
Static and Evolving Norovirus Genotypes: Implications for Epidemiology and Immunity Parra, GI; Squires, RB; Karangwa, CK et al. PLoS Pathog., DOI://10.1371/journal.ppat.1006136 (2017)
Novel genetic loci associated with hippocampal volume Hibar, DP; Adams, HH; Jahanshad, N et al. Nat Commun, DOI://10.1038/ncomms13624 (2017)
Association of Body Mass Index with DNA Methylation and Gene Expression in Blood Cells and Relations to Cardiometabolic Disease: A Mendelian Randomization Approach Mendelson, MM; Marioni, RE; Joehanes, R et al. PLoS Med., DOI://10.1371/journal.pmed.1002215 (2017)
Quantitative stability of hematopoietic stem and progenitor cell clonal output in rhesus macaques receiving transplants Koelle, SJ; Espinoza, DA; Wu, C et al. Blood, DOI://10.1182/blood-2016-07-728691 (2017)
Sequence of Reston Virus Isolate AZ-1435, an Ebolavirus Isolate Obtained during the 1989-1990 Reston Virus Epizootic in the United States Cornish, JP; Diaz, L; Ricklefs, SM et al. Genome Announc, DOI://10.1128/genomeA.01448-16 (2017)

An Estimation of Hybrid Quantum Mechanical Molecular Mechanical Polarization Energies for Small Molecules Using Polarizable Force-Field Approaches Huang, J; Mei, Y; König, G et al. J Chem Theory Comput, DOI://10.1021/acs.jctc.6b01125 (2017)
Familial Mutations May Switch Conformational Preferences in α-Synuclein Fibrils Xu, L; Ma, B; Nussinov, R; Thompson, D; ACS Chem Neurosci, DOI://10.1021/acschemneuro.6b00406 (2017)
Identifying Host Genetic Variants Associated with Microbiome Composition by Testing Multiple Beta Diversity Matrices Hua, X; Goedert, JJ; Landi, MT; Shi, J; Hum. Hered., DOI://10.1159/000448733 (2017)
High fat diet-induced changes of mouse hepatic transcription and enhancer activity can be reversed by subsequent weight loss Siersbæk, M; Varticovski, L; Yang, S et al. Sci Rep, DOI://10.1038/srep40220 (2017)
The primacy of NF1 loss as the driver of tumorigenesis in neurofibromatosis type 1-associated plexiform neurofibromas Pemov, A; Li, H; Patidar, R et al. Oncogene, DOI://10.1038/onc.2016.464 (2017)
Characterization of the disassembly and reassembly of the HBV glycoprotein surface antigen, a pliable nanoparticle vaccine platform Gallagher, JR; Torian, U; McCraw, DM; Harris, AK; Virology, DOI://10.1016/j.virol.2016.12.025 (2017)

The Papillomavirus Episteme: a major update to the papillomavirus sequence database Van Doorslaer, K; Li, Z; Xirasagar, S et al. Nucleic Acids Res., DOI://10.1093/nar/gkw879 (2017)
Genetic stability of genome-scale deoptimized RNA virus vaccine candidates under selective pressure Le Nouën, C; McCarty, T; Brown, M et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1619242114 (2017)
Mapping Polyclonal HIV-1 Antibody Responses via Next-Generation Neutralization Fingerprinting Doria-Rose, NA; Altae-Tran, HR; Roark, RS et al. PLoS Pathog., DOI://10.1371/journal.ppat.1006148 (2017)
An insight into the sialome of Hyalomma excavatum Ribeiro, JM; Slovák, M; Francischetti, IM; Ticks Tick Borne Dis, DOI://10.1016/j.ttbdis.2016.08.011 (2017)
Data integration in physiology using Bayes' rule and minimum Bayes' factors: deubiquitylating enzymes in the renal collecting duct Xue, Z; Chen, JX; Zhao, Y; Medvar, B; Knepper, MA; Physiol. Genomics, DOI://10.1152/physiolgenomics.00120.2016 (2017)
Human Neuronal Calcium Sensor-1 Protein Avoids Histidine Residues To Decrease pH Sensitivity Gong, Y; Zhu, Y; Zou, Y; Ma, B; Nussinov, R; Zhang, Q; J Phys Chem B, DOI://10.1021/acs.jpcb.6b11094 (2017)

Computational models of the neural control of breathing Molkov, YI; Rubin, JE; Rybak, IA; Smith, JC; Wiley Interdiscip Rev Syst Biol Med, DOI://10.1002/wsbm.1371 (2017)
Structural studies of influenza virus RNPs by electron microscopy indicate molecular contortions within NP supra-structures Gallagher, JR; Torian, U; McCraw, DM; Harris, AK; J. Struct. Biol., DOI://10.1016/j.jsb.2016.12.007 (2017)
EBI2 overexpression in mice leads to B1 B-cell expansion and chronic lymphocytic leukemia-like B-cell malignancies Niss Arfelt, K; Barington, L; Benned-Jensen, T et al. Blood, DOI://10.1182/blood-2016-02-697185 (2017)
The cell cycle restricts activation-induced cytidine deaminase activity to early G1 Wang, Q; Kieffer-Kwon, KR; Oliveira, TY et al. J. Exp. Med., DOI://10.1084/jem.20161649 (2017)
Neural Markers in Pediatric Bipolar Disorder and Familial Risk for Bipolar Disorder Wiggins, JL; Brotman, MA; Adleman, NE et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2016.10.009 (2017)
The bald and the beautiful: hairlessness in domestic dog breeds Parker, HG; Harris, A; Dreger, DL; Davis, BW; Ostrander, EA; Philos. Trans. R. Soc. Lond., B, Biol. Sci., DOI://10.1098/rstb.2015.0488 (2017)

ADORA1 mutations are not a common cause of Parkinson's disease and dementia with Lewy bodies Blauwendraat, C; Nalls, MA; Federoff, M et al. Mov. Disord., DOI://10.1002/mds.26886 (2017)
Temporal association of ORCA/LRWD1 to late-firing origins during G1 dictates heterochromatin replication and organization Wang, Y; Khan, A; Marks, AB et al. Nucleic Acids Res., DOI://10.1093/nar/gkw1211 (2017)
Acquired somatic mutations in PNH reveal long-term maintenance of adaptive NK cells independent of HSPCs Corat, MA; Schlums, H; Wu, C et al. Blood, DOI://10.1182/blood-2016-08-734285 (2017)
Whole exome sequencing in 75 high-risk families with validation and replication in independent case-control studies identifies TANGO2, OR5H14, and CHAD as new prostate cancer susceptibility genes Karyadi, DM; Geybels, MS; Karlins, E et al. Oncotarget, DOI://10.18632/oncotarget.13646 (2017)
Long-term monitoring of cardiorespiratory patterns in drug-resistant epilepsy Goldenholz, DM; Kuhn, A; Austermuehle, A et al. Epilepsia, DOI://10.1111/epi.13606 (2017)
Assessing variation across 8 established East Asian loci for type 2 diabetes mellitus in American Indians: Suggestive evidence for new sex-specific diabetes signals in GLIS3 and ZFAND3 Muller, YL; Piaggi, P; Chen, P et al. Diabetes Metab. Res. Rev., DOI://10.1002/dmrr.2869 (2017)

Estimating the Heritability of Structural and Functional Brain Connectivity in Families Affected by Attention-Deficit/Hyperactivity Disorder Sudre, G; Choudhuri, S; Szekely, E et al. JAMA Psychiatry, DOI://10.1001/jamapsychiatry.2016.3072 (2017)
Oculocutaneous albinism type 1: link between mutations, tyrosinase conformational stability, and enzymatic activity Dolinska, MB; Kus, NJ; Farney, SK; Wingfield, PT; Brooks, BP; Sergeev, YV; Pigment Cell Melanoma Res, DOI://10.1111/pcmr.12546 (2017)
DLX3-Dependent Regulation of Ion Transporters and Carbonic Anhydrases is Crucial for Enamel Mineralization Duverger, O; Ohara, T; Bible, PW; Zah, A; Morasso, MI; J. Bone Miner. Res., DOI://10.1002/jbmr.3022 (2017)
Untangling the relatedness among correlations, Part II: Inter-subject correlation group analysis through linear mixed-effects modeling Chen, G; Taylor, PA; Shin, YW; Reynolds, RC; Cox, RW; Neuroimage, DOI://10.1016/j.neuroimage.2016.08.029 (2017)
Topographical and physiological differences of the skin mycobiome in health and disease Jo, JH; Kennedy, EA; Kong, HH; Virulence, DOI://10.1080/21505594.2016.1249093 (2017)
Empirically derived patterns of psychiatric symptoms in youth: A latent profile analysis Kircanski, K; Zhang, S; Stringaris, A et al. J Affect Disord, DOI://10.1016/j.jad.2016.09.016 (2017)

Absolute binding free energy calculations of CBClip host-guest systems in the SAMPL5 blind challenge Lee, J; Tofoleanu, F; Pickard, FC et al. J. Comput. Aided Mol. Des., DOI://10.1007/s10822-016-9968-2 (2017)
Perfluoroalkyl Chemicals, Menstrual Cycle Length, and Fecundity: Findings from a Prospective Pregnancy Study Lum, KJ; Sundaram, R; Barr, DB; Louis, TA; Buck Louis, GM; Epidemiology, DOI://10.1097/EDE.0000000000000552 (2017)
Anxiety Patients Show Reduced Working Memory Related dlPFC Activation During Safety and Threat Balderston, NL; Vytal, KE; O'Connell, K et al. Depress Anxiety, DOI://10.1002/da.22518 (2017)

2016 (394 papers)

landsman Duplat-Bermúdez, L; Ruiz-Medrano, R; Landsman, D et al. Data Brief, DOI://10.1016/j.dib.2016.06.002 (2016)
DNA Breaks and End Resection Measured Genome-wide by End Sequencing Canela, A; Sridharan, S; Sciascia, N et al. Mol Cell, DOI://10.1016/j.molcel.2016.06.034 (2016)
Can dielectric spheres accurately model atomic-scale interactions Obolensky, OI; Doerr, TP; Ogurtsov, AY; Yu, YK; Europhys Lett, DOI://10.1209/0295-5075/116/24003 (2016)
Transcriptomic analysis of Arabidopsis overexpressing flowering locus T driven by a meristem-specific promoter that induces early flowering Duplat-Bermúdez, L; Ruiz-Medrano, R; Landsman, D et al. Gene, DOI://10.1016/j.gene.2016.04.060 (2016)
BIG: a large-scale data integration tool for renal physiology Zhao, Y; Yang, CR; Raghuram, V et al. Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00249.2016 (2016)
Direct Regulation of Alternative Splicing by SMAD3 through PCBP1 Is Essential to the Tumor-Promoting Role of TGF-β Tripathi, V; Sixt, KM; Gao, S et al. Mol. Cell, DOI://10.1016/j.molcel.2016.09.013 (2016)
Functional connectivity during masked and unmasked face emotion processing in bipolar disorder Tseng, WL; Thomas, LA; Harkins, E et al. Psychiatry Res Neuroimaging, DOI://10.1016/j.pscychresns.2016.10.006 (2016)
Structural basis for early-onset neurological disorders caused by mutations in human selenocysteine synthase Puppala, AK; French, RL; Matthies, D; Baxa, U; Subramaniam, S; Simonović, M; Sci Rep, DOI://10.1038/srep32563 (2016)
Ionic immune suppression within the tumour microenvironment limits T cell effector function Eil, R; Vodnala, SK; Clever, D et al. Nature, DOI://10.1038/nature19364 (2016)

Oxygen Sensing by T Cells Establishes an Immunologically Tolerant Metastatic Niche Clever, D; Roychoudhuri, R; Constantinides, MG et al. Cell, DOI://10.1016/j.cell.2016.07.032 (2016)
The transcription factor BACH2 promotes tumor immunosuppression Roychoudhuri, R; Eil, RL; Clever, D et al. J. Clin. Invest., DOI://10.1172/JCI82884 (2016)
BACH2 regulates CD8(+) T cell differentiation by controlling access of AP-1 factors to enhancers Roychoudhuri, R; Clever, D; Li, P et al. Nat. Immunol., DOI://10.1038/ni.3441 (2016)
Memory T cell-driven differentiation of naive cells impairs adoptive immunotherapy Klebanoff, CA; Scott, CD; Leonardi, AJ et al. J. Clin. Invest., DOI://10.1172/JCI81217 (2016)
Human-Mouse Chimeras with Normal Expression and Function Reveal That Major Domain Swapping Is Tolerated by P-Glycoprotein (ABCB1) Pluchino, KM; Hall, MD; Moen, JK et al. Biochemistry, DOI://10.1021/acs.biochem.5b01064 (2016)
Drugging Ras GTPase: a comprehensive mechanistic and signaling structural view Lu, S; Jang, H; Gu, S; Zhang, J; Nussinov, R; Chem Soc Rev, DOI://10.1039/c5cs00911a (2016)
Pioneer factors and ATP-dependent chromatin remodeling factors interact dynamically: A new perspective: Multiple transcription factors can effect chromatin pioneer functions through dynamic interactions with ATP-dependent chromatin remodeling factors Swinstead, EE; Paakinaho, V; Presman, DM; Hager, GL; Bioessays, DOI://10.1002/bies.201600137 (2016)
Point Mutations in Exon 1B of APC Reveal Gastric Adenocarcinoma and Proximal Polyposis of the Stomach as a Familial Adenomatous Polyposis Variant Li, J; Woods, SL; Healey, S et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2016.03.001 (2016)
Deep genome sequencing and variation analysis of 13 inbred mouse strains defines candidate phenotypic alleles, private variation and homozygous truncating mutations Doran, AG; Wong, K; Flint, J; Adams, DJ; Hunter, KW; Keane, TM; Genome Biol., DOI://10.1186/s13059-016-1024-y (2016)
A Small Number of Residues Can Determine if Linker Histones Are Bound On or Off Dyad in the Chromatosome Zhou, BR; Feng, H; Ghirlando, R; Li, S; Schwieters, CD; Bai, Y; J. Mol. Biol., DOI://10.1016/j.jmb.2016.08.016 (2016)
Comparing Brain Morphometry Across Multiple Childhood Psychiatric Disorders Gold, AL; Brotman, MA; Adleman, NE et al. J Am Acad Child Adolesc Psychiatry, DOI://10.1016/j.jaac.2016.08.008 (2016)
Toward elucidating the heat activation mechanism of the TRPV1 channel gating by molecular dynamics simulation Wen, H; Qin, F; Zheng, W; Proteins, DOI://10.1002/prot.25177 (2016)
Blind prediction of distribution in the SAMPL5 challenge with QM based protomer and pK a corrections Pickard, FC; König, G; Tofoleanu, F et al. J. Comput. Aided Mol. Des., DOI://10.1007/s10822-016-9955-7 (2016)
Identification of therapeutic targets applicable to clinical strategies in ovarian cancer Kim, MK; Caplen, N; Chakka, S et al. BMC Cancer, DOI://10.1186/s12885-016-2675-5 (2016)
Childhood peer network characteristics: genetic influences and links with early mental health trajectories Szekely, E; Pappa, I; Wilson, JD et al. J Child Psychol Psychiatry, DOI://10.1111/jcpp.12493 (2016)
Outcome of the First wwPDB/CCDC/D3R Ligand Validation Workshop Adams, PD; Aertgeerts, K; Bauer, C et al. Structure, DOI://10.1016/j.str.2016.02.017 (2016)
Partition coefficients for the SAMPL5 challenge using transfer free energies Jones, MR; Brooks, BR; Wilson, AK; J. Comput. Aided Mol. Des., DOI://10.1007/s10822-016-9964-6 (2016)
Hydrogen Bonding to the Substrate Is Not Required for Rieske Iron-Sulfur Protein Docking to the Quinol Oxidation Site of Complex III Esser, L; Zhou, F; Zhou, Y et al. J. Biol. Chem., DOI://10.1074/jbc.M116.744391 (2016)

An Open Pilot Study of Training Hostile Interpretation Bias to Treat Disruptive Mood Dysregulation Disorder Stoddard, J; Sharif-Askary, B; Harkins, EA et al. J Child Adolesc Psychopharmacol, DOI://10.1089/cap.2015.0100 (2016)
Estimation of FST and the Impact of de novo Mutation Shriner, D; Chen, G; Adeyemo, A; Rotimi, CN; Hum. Hered., DOI://10.1159/000477782 (2016)
Neuroendocrine Tumor of the Pancreas as a Manifestation of Cowden Syndrome: A Case Report Neychev, V; Sadowski, SM; Zhu, J et al. J. Clin. Endocrinol. Metab., DOI://10.1210/jc.2015-3684 (2016)
Light induced structural changes of the photoprotein mnemiopsin: Characterization and contribution in photoinactivation Pashandi, Z; Molakarimi, M; Sajedi, RH et al. J Photochem Photobiol B, DOI://10.1016/j.jphotobiol.2016.10.018 (2016)
Robust spike sorting of retinal ganglion cells tuned to spot stimuli Ghahari, A; Badea, TC; Conf Proc IEEE Eng Med Biol Soc, DOI://10.1109/EMBC.2016.7591054 (2016)
Assessing the reproducibility of exome copy number variations predictions Hong, CS; Singh, LN; Mullikin, JC; Biesecker, LG; Genome Med, DOI://10.1186/s13073-016-0336-6 (2016)

Computation of Hydration Free Energies Using the Multiple Environment Single System Quantum Mechanical/Molecular Mechanical Method König, G; Mei, Y; Pickard, FC et al. J Chem Theory Comput, DOI://10.1021/acs.jctc.5b00874 (2016)
Whole Genome Sequencing of Newly Established Pancreatic Cancer Lines Identifies Novel Somatic Mutation (c.2587G>A) in Axon Guidance Receptor Plexin A1 as Enhancer of Proliferation and Invasion Sorber, R; Teper, Y; Abisoye-Ogunniyan, A et al. PLoS ONE, DOI://10.1371/journal.pone.0149833 (2016)
Winner's Curse Correction and Variable Thresholding Improve Performance of Polygenic Risk Modeling Based on Genome-Wide Association Study Summary-Level Data Shi, J; Park, JH; Duan, J et al. PLoS Genet., DOI://10.1371/journal.pgen.1006493 (2016)
Block network mapping approach to quantitative trait locus analysis Shreif, ZZ; Gatti, DM; Periwal, V; BMC Bioinformatics, DOI://10.1186/s12859-016-1351-8 (2016)
Lineage-Specific and Non-specific Cytokine-Sensing Genes Respond Differentially to the Master Regulator STAT5 Zeng, X; Willi, M; Shin, HY; Hennighausen, L; Wang, C; Cell Rep, DOI://10.1016/j.celrep.2016.11.079 (2016)
Meta-analysis of quantitative pleiotropic traits for next-generation sequencing with multivariate functional linear models Chiu, CY; Jung, J; Chen, W et al. Eur. J. Hum. Genet., DOI://10.1038/ejhg.2016.170 (2016)

Towards understanding the structural basis of partial agonism at the dopamine D3 receptor Michino, M; Boateng, CA; Donthamsetti, P et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.6b01148 (2016)
Comparison of parametric and machine methods for variable selection in simulated Genetic Analysis Workshop 19 data Holzinger, ER; Szymczak, S; Malley, J et al. BMC Proc, DOI://10.1186/s12919-016-0021-1 (2016)
From 20th Century Metabolic Wall Charts to 21st Century Systems Biology: Database of Mammalian Metabolic Enzymes Corcoran, CC; Grady, CR; Pisitkun, T; Parulekar, J; Knepper, MA; Am. J. Physiol. Renal Physiol., DOI://10.1152/ajprenal.00601.2016 (2016)
Lipid and Peptide Diffusion in Bilayers: The Saffman-Delbrück Model and Periodic Boundary Conditions Venable, RM; Ingólfsson, HI; Lerner, MG et al. J Phys Chem B, DOI://10.1021/acs.jpcb.6b09111 (2016)
DNA methylation signatures of chronic low-grade inflammation are associated with complex diseases Ligthart, S; Marzi, C; Aslibekyan, S et al. Genome Biol., DOI://10.1186/s13059-016-1119-5 (2016)
Structure-Based Scaffold Repurposing for G Protein-Coupled Receptors: Transformation of Adenosine Derivatives into 5HT2B/5HT2C Serotonin Receptor Antagonists Tosh, DK; Ciancetta, A; Warnick, E; Crane, S; Gao, ZG; Jacobson, KA; J. Med. Chem., DOI://10.1021/acs.jmedchem.6b01183 (2016)

Genetic architecture distinguishes systemic juvenile idiopathic arthritis from other forms of juvenile idiopathic arthritis: clinical and therapeutic implications Ombrello, MJ; Arthur, VL; Remmers, EF et al. Ann. Rheum. Dis., DOI://10.1136/annrheumdis-2016-210324 (2016)
Mechanisms of Evolution in High-Consequence Drug Resistance Plasmids He, S; Chandler, M; Varani, AM; Hickman, AB; Dekker, JP; Dyda, F; MBio, DOI://10.1128/mBio.01987-16 (2016)
Somatic Genomics and Clinical Features of Lung Adenocarcinoma: A Retrospective Study Shi, J; Hua, X; Zhu, B et al. PLoS Med., DOI://10.1371/journal.pmed.1002162 (2016)
Mapping Complex Traits in a Diversity Outbred F1 Mouse Population Identifies Germline Modifiers of Metastasis in Human Prostate Cancer Winter, JM; Gildea, DE; Andreas, JP et al. Cell Syst, DOI://10.1016/j.cels.2016.10.018 (2016)
A comparison study of multivariate fixed models and Gene Association with Multiple Traits (GAMuT) for next-generation sequencing Chiu, CY; Jung, J; Wang, Y et al. Genet. Epidemiol., DOI://10.1002/gepi.22014 (2016)
Sparse multidimensional iterative lineshape-enhanced (SMILE) reconstruction of both non-uniformly sampled and conventional NMR data Ying, J; Delaglio, F; Torchia, DA; Bax, A; J. Biomol. NMR, DOI://10.1007/s10858-016-0072-7 (2016)

Robust skull stripping using multiple MR image contrasts insensitive to pathology Roy, S; Butman, JA; Pham, DL; Neuroimage, DOI://10.1016/j.neuroimage.2016.11.017 (2016)
Association of Irritability and Anxiety With the Neural Mechanisms of Implicit Face Emotion Processing in Youths With Psychopathology Stoddard, J; Tseng, WL; Kim, P et al. JAMA Psychiatry, DOI://10.1001/jamapsychiatry.2016.3282 (2016)
Early generated B1 B cells with restricted BCRs become chronic lymphocytic leukemia with continued c-Myc and low Bmf expression Hayakawa, K; Formica, AM; Brill-Dashoff, J et al. J. Exp. Med., DOI://10.1084/jem.20160712 (2016)
Allosteric control of antibody-prion recognition through oxidation of a disulfide bond between the CH and CL chains Zhao, J; Nussinov, R; Ma, B; Protein Eng. Des. Sel., DOI://10.1093/protein/gzw065 (2016)
Molecular Diagnosis of Inherited Retinal Diseases in Indigenous African Populations by Whole-Exome Sequencing Roberts, L; Ratnapriya, R; du Plessis, M; Chaitankar, V; Ramesar, RS; Swaroop, A; Invest. Ophthalmol. Vis. Sci., DOI://10.1167/iovs.16-19785 (2016)
Stage-Specific Transcriptome and Proteome Analyses of the Filarial Parasite Onchocerca volvulus and Its Wolbachia Endosymbiont Bennuru, S; Cotton, JA; Ribeiro, JM et al. MBio, DOI://10.1128/mBio.02028-16 (2016)

NRL-Regulated Transcriptome Dynamics of Developing Rod Photoreceptors Kim, JW; Yang, HJ; Brooks, MJ et al. Cell Rep, DOI://10.1016/j.celrep.2016.10.074 (2016)
Whole-genome sequence, SNP chips and pedigree structure: building demographic profiles in domestic dog breeds to optimize genetic-trait mapping Dreger, DL; Rimbault, M; Davis, BW; Bhatnagar, A; Parker, HG; Ostrander, EA; Dis Model Mech, DOI://10.1242/dmm.027037 (2016)
Integrative network analysis reveals molecular mechanisms of blood pressure regulation Tianxiao Huan, Qingying Meng et al. Mol Syst Biol., doi: 10.15252/msb.20145399 (2016)
C. elegans DAF-2 as a Model for Human Insulin Receptoropathies David A. Bulger, Tetsunari Fukushige, Sijung Yun, Robert K. Semple, John A. Hanover, and Michael W. Krause Genes|Genomes|Genetics, doi:10.1534/g3.116.03718 (2016)
Generation and differentiation of induced pluripotent stem cells reveal ankylosing spondylitis risk gene expression in bone progenitors Gerlinde Layh-Schmitt, Shajia Lum Fatemehm Navid, Stephen R. Brooks, Emily Lazowick, Kathryn M. Davis, Cristina Montagna, Massimo Gadina, Robert A. Colbert Clinical Rheumatology, doi:10.1007/s10067-016-3469-5 (2016)
The genome of Onchocerca volvulus, agent of river blindness Cotton, JA; Bennuru, S; Grote, A et al. Nat Microbiol, DOI://10.1038/nmicrobiol.2016.216 (2016)

Two Na+ Sites Control Conformational Change in a Neurotransmitter Transporter Homolog Sotiria Tavoulari, Eleonora Margheritis, Anu Nagarajan, David C. DeWitt, Yuan -Wei Zhang, Edwin Rosado, Silvia Ravera, Elizabeth Rhoades, Lucy R. Forrest and Gary Rudnick J Biol Chem. , doi: 10.1074/jbc.M115.692012. (2016)
Techniques for blood volume fMRI with VASO: From low-resolution mapping towards sub-millimeter layer-dependent applications Huber, L; Ivanov, D; Handwerker, DA et al. Neuroimage, DOI://10.1016/j.neuroimage.2016.11.039 (2016)
Structures of the Multidrug Transporter P-glycoprotein Reveal Asymmetric ATP Binding and the Mechanism of Polyspecificity Esser, L; Zhou, F; Pluchino, KM et al. J. Biol. Chem., DOI://10.1074/jbc.M116.755884 (2016)
Physiological basis of vascular autocalibration (VasA): Comparison to hypercapnia calibration methods Kazan, SM; Huber, L; Flandin, G; Ivanov, D; Bandettini, P; Weiskopf, N; Magn Reson Med, DOI://10.1002/mrm.26494 (2016)
Serine/Threonine Phosphatases and Aquaporin-2 Regulation in Renal Collecting Duct Sophia LeMaire, Viswanathan Raghuram, Cameron R. Grady, Christina M. Pickering, Chung-Lin Chou, Ezigbobiara N Umejiego, Mark A. Knepper Am. J. Physiol. - Renal Physiol. , DOI: 10.1152/ajprenal.00455.2016 (2016)
Identification of a novel lipid binding motif in apolipoprotein B by the analysis of hydrophobic cluster domains Scott M. Gordon, Mohsen Pourmousa, Maureen Sampson, Denis Sviridov, Rafique Islam, B. Scott Perrin Jr., Georgina Kemeh, Richard W. Pastor, Alan T. Remaley Biochimica et Biophysica Acta - Membranes, doi://10.1016/j.bbamem.2016.10.019 (2016)

Convergence and Sampling in Determining Free Energy Landscapes for Membrane Protein Association Jan Domanski, George Hedger, Robert B. Best, Phillip James Stansfeld, and Mark S. P. Sansom J. Phys. Chem. B, doi://10.1021/acs.jpcb.6b08445 (2016)
Transcriptome Profiling of NIH3T3 Cell Lines Expressing Opsin and the P23H Opsin Mutant Identifies Candidate Drugs for the Treatment of Retinitis Pigmentosa Yuanyuan Chen, Matthew J. Brooks, Linn Gieser, Anand Swaroop, Krzysztof Palczewski Pharmacological Research, doi://10.1016/j.phrs.2016.10.031 (2016)
RNA-seq analyses of the midgut from blood- and serum-fed Ixodes ricinus ticks Perner, J; Provazník, J; Schrenková, J; Urbanová, V; Ribeiro, JM; Kopáček, P; Sci Rep, DOI://10.1038/srep36695 (2016)
Transgenic mouse model of IgM(+) lymphoproliferative disease mimicking Waldenström macroglobulinemia Tompkins, VS; Sompallae, R; Rosean, TR et al. Blood Cancer J, DOI://10.1038/bcj.2016.95 (2016)
Mechanism of O2 diffusion and reduction in FeFe hydrogenases Adam Kubas, Christophe Orain et al. Nature Chemistry, doi:10.1038/nchem.2592 (2016)
Variance Decomposition for Single-Subject task-based fMRI activity estimates across many sessions Javier Gonzalez-Castillo, Gang Chen, Thomas E. Nichols, Peter A. Bandettini NeuroImage, doi://10.1016/j.neuroimage.2016.10.024 (2016)

Explicit Incorporation of Hard and Soft Protein-Protein Interactions Into Models for Crowding Effects in Binary and Ternary Protein Mixtures I. Comparison of Approximate Analytical Solutions With Numerical Simulation Travis Hoppe, and Allen P. Minton J. Phys. Chem. B, DOI: 10.1021/acs.jpcb.6b07736 (2016)
Resting State Connectivity of the Human Habenula at Ultra-High Field Salvatore Torrisi, Camilla L. Nord, Nicholas L. Balderston, Jonathan P. Roiser, Christian Grillon, Monique Ernst NeuroImage, 10.1016/j.neuroimage.2016.10.034 (2016)
The Impact of Environmental and Endogenous Damage on Somatic Mutation Load in Human Skin Fibroblasts Saini, N; Roberts, SA; Klimczak, LJ et al. PLoS Genet., DOI://10.1371/journal.pgen.1006385 (2016)
Roles of H3K27me2 and H3K27me3 Examined during Fate Specification of Embryonic Stem Cells Juan, AH; Wang, S; Ko, KD et al. Cell Rep, DOI://10.1016/j.celrep.2016.09.087 (2016)
Deriving frequency-dependent spatial patterns in MEG-derived resting state sensorimotor network: A novel multiband ICA technique Nugent, A. C., Luber, B., Carver, F. W., Robinson, S. E., Coppola, R. and Zarate, C. A. Hum. Brain Mapp., doi:10.1002/hbm.23417 (2016)
Additional Rare Variant Analysis in Parkinson's Disease Cases with and Without Known Pathogenic Mutations: Evidence for Oligogenic Inheritance Steven J. Lubbe, Valentina Escott-Price et al. Human Molecular Genetics, doi://10.1093/hmg/ddw348 (2016)

Longitudinal imaging in C9orf72 mutation carriers: Relationship to phenotype Mary Kay Floeter, Devin Bageac, Laura E. Danielian, Laura E. Braun, Bryan J. Traynor, , Justin Kwan NeuroImage: Clinical, doi://10.1016/j.nicl.2016.10.014 (2016)
Racial differences in microRNA and gene expression in hypertensive women Dluzen, DF; Noren Hooten, N; Zhang, Y et al. Sci Rep, DOI://10.1038/srep35815 (2016)
Structural Characterization of Arginine Fingers: Identification of an Arginine Finger for the Pyrophosphatase dUTPases Gergely N Nagy, Reynier Suardiaz, Anna Lopata, Oliver Ozohanics, Karoly Vekey, Bernard R. Brooks, Ibolya Leveles, Judit Toth, Beata G Vertessy, and Edina Rost JACS, doi://10.1021/jacs.6b09012 (2016)
Molecular lock regulates binding of glycine to a primitive NMDA receptor Alvin Yu, Robert Alberstein, Alecia Thomas, Austin Zimmet, Richard Grey, Mark L. Mayer, and Albert Y. Lau PNAS, doi: 10.1073/pnas.1607010113 (2016)
Sources and implications of whole-brain fMRI signals in humans Jonathan D Power, Mark Plitt, Timothy O Laumann, Alex Martin Neuroimage, doi://10.1016/j.neuroimage.2016.09.038 (2016)
Diagnosis of Parkinson's disease on the basis of clinical-genetic classification: a population-based modelling study Mike A. Nalls, Cory Y. McLean et al. Lancet Neurol., doi: 10.1016/S1474-4422(15)00178-7 (2016)

Microenvironmental Gene Expression Plasticity Among Individual Drosophila melanogaster Lin, Y; Chen, ZX; Oliver, B; Harbison, ST; G3 (Bethesda), DOI://10.1534/g3.116.035444 (2016)
A RUNX2-Mediated Epigenetic Regulation of the Survival of p53 Defective Cancer Cells Shin, MH; He, Y; Marrogi, E et al. PLoS Genet., DOI://10.1371/journal.pgen.1005884 (2016)
Sp5 and Sp8 recruit β-catenin and Tcf1-Lef1 to select enhancers to activate Wnt target gene transcription Kennedy, MW; Chalamalasetty, RB; Thomas, S; Garriock, RJ; Jailwala, P; Yamaguchi, TP; Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1519994113 (2016)
Elevated basal serum tryptase identifies a multisystem disorder associated with increased TPSAB1 copy number Lyons, JJ; Yu, X; Hughes, JD et al. Nat. Genet., DOI://10.1038/ng.3696 (2016)
SARAH Domain-Mediated MST2-RASSF Dimeric Interactions Goar Sànchez-Sanz , Bartomiej Tywoniuk , David Matallanas, David Romano, Lan K. Nguyen, Boris N. Kholodenko, Edina Rosta , Walter Kolch , Nicolae-Viorel Buchete PLoS Computational Biology, doi://10.1371/journal.pcbi.1005051 (2016)
Systems-level analysis reveals selective regulation of Aqp2 gene expression by vasopressin Sandoval, PC; Claxton, JS; Lee, JW; Saeed, F; Hoffert, JD; Knepper, MA; Sci Rep, DOI://10.1038/srep34863 (2016)
Evaluation of KIR3DL1/KIR3DS1 polymorphism in Behçet's disease Erer, B; Takeuchi, M; Ustek, D et al. Genes Immun., DOI://10.1038/gene.2016.36 (2016)
Rapid development of a DNA vaccine for Zika virus Dowd, KA; Ko, SY; Morabito, KM et al. Science, DOI://10.1126/science.aai9137 (2016)
A Modified P1 Moiety Enhances in vitro Antiviral Activity against Various Multi-Drug-Resistant HIV-1 Variants and in vitro CNS Penetration Properties of a Novel Nonpeptidic Protease Inhibitor, GRL-10413 Masayuki Amano, Pedro Miguel Salcedo-Gomez, Rui Zhao, Ravikiran S. Yedidi, Debananda Das, Haydar Bulut, Nicole S. Delino, Sheri Venkata Reddy, Arun K. Ghosh and Hiroaki Mitsuya Antimicrobial Agents and Chemotherapy, doi: 10.1128/AAC.01428-16 (2016)
Peripheral Blood Transcriptomic Signatures of Fasting Glucose and Insulin Concentrations BH Chen, M-F Hivert et al. Diabetes, doi://10.2337/db16-0470 (2016)
On the Selective Packaging of Genomic RNA by HIV-1 Mauricio Comas-Garcia, Sean R. Davis and Alan Rein Viruses, doi://10.3390/v8090246 (2016)
Behavioral and Neural Sustained Attention Deficits in Bipolar Disorder and Familial Risk for Bipolar Disorder David Pagliaccio, Jillian Lee Wiggins, et al. Biological Psychiatry, doi://10.1016/j.biopsych.2016.09.006 (2016)

Mutations of SGO2 and CLDN14 collectively cause coincidental Perrault syndrome R Faridi, AR Rehman et al. Clinical Genetics, DOI: 10.1111/cge.12867 (2016)
CYP2A6 genetic variation alters striatal-cingulate circuits, network hubs, and executive processing in smokers Sufang Li, Yihong Yang, Ewa Hoffmann, Rachel F. Tyndale, Elliot A. Stein Biological Psychiatry, doi://10.1016/j.biopsych.2016.09.013 (2016)
Absolute binding free energies for octa-acids and guests in SAMPL5 Florentina Tofoleanu, Juyong Lee, Frank C. Pickard IV, Gerhard Kzönig, Jing Huang, Minkyung Baek, Chaok Seok, Bernard R. Brooks J. Computer-Aided Molecular Design, DOI: 10.1007/s10822-016-9965-5 (2016)
Introduction, evolution, and dissemination of influenza A viruses in exhibition swine, USA, 2009-2013 Martha I. Nelson, Karla M. Stucker, et al. J. Virology, doi: 10.1128/JVI.01457-16 (2016)
Novel genetic loci underlying human intracranial volume identified through genome-wide association Adams, HH; Hibar, DP; Chouraki, V et al. Nat. Neurosci., DOI://10.1038/nn.4398 (2016)
Differential cytokine sensitivities of STAT5-dependent enhancers rely on Stat5 autoregulation Willi, M; Yoo, KH; Wang, C; Trajanoski, Z; Hennighausen, L; Nucleic Acids Res., DOI://10.1093/nar/gkw844 (2016)
DNA methylation-based measures of biological age: meta-analysis predicting time to death Chen, BH; Marioni, RE; Colicino, E et al. Aging (Albany NY), DOI://10.18632/aging.101020 (2016)
Alternative Isoform Analysis of Ttc8 Expression in the Rat Pineal Gland Using a Multi-Platform Sequencing Approach Reveals Neural Regulation Hartley, SW; Mullikin, JC; Klein, DC; Park, M; , ; Coon, SL; PLoS ONE, DOI://10.1371/journal.pone.0163590 (2016)
The genetics of blood pressure regulation and its target organs from association studies in 342,415 individuals Ehret, GB; Ferreira, T; Chasman, DI et al. Nat. Genet., DOI://10.1038/ng.3667 (2016)
Integrative Transcriptome Analyses of Metabolic Responses in Mice Define Pivotal LncRNA Metabolic Regulators Yang, L; Li, P; Yang, W et al. Cell Metab., DOI://10.1016/j.cmet.2016.08.019 (2016)
REVEL: An Ensemble Method for Predicting the Pathogenicity of Rare Missense Variants Ioannidis, NM; Rothstein, JH; Pejaver, V et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2016.08.016 (2016)
Oncogenic Mutations Differentially Affect Bax Monomer, Dimer, and Oligomeric Pore Formation in the Membrane Mingzhen Zhang, Jie Zheng, Ruth Nussinov, Buyong Ma Scientific Reports, 10.1038/srep33340 (2016)

Association of Superoxide Dismutase 2 (SOD2) Genotype with Gray Matter Volume Shrinkage in Chronic Alcohol Users: Replication and Further Evaluation of an Addiction Gene Panel Gitik M, Srivastava V, Hodgkinson CA, Shen PH, Goldman D, Meyerhoff DJ Int. J. Neuropsychopharmacol., DOI://10.1093/ijnp/pyw033 (2016)
Daily physical activity patterns from hip- and wrist-worn accelerometers Shiroma, EJ; Schepps, MA; Harezlak, J et al. Physiol Meas, DOI://10.1088/0967-3334/37/10/1852 (2016)
DNA Transposition at Work Hickman, AB; Dyda, F; Chem. Rev., DOI://10.1021/acs.chemrev.6b00003 (2016)
The African diaspora: history, adaptation and health Rotimi CN, Tekola-Ayele F, Baker JL, Shriner D Curr. Opin. Genet. Dev., DOI://10.1016/j.gde.2016.08.005 (2016)
3D-printed head models for navigated non-invasive brain stimulation Dayan, E; Thompson, RM; Buch, ER; Cohen, LG; Clin Neurophysiol, DOI://10.1016/j.clinph.2016.08.011 (2016)
Distinct fMRI Responses to Self-Induced versus Stimulus Motion during Free Viewing in the Macaque Russ, BE; Kaneko, T; Saleem, KS; Berman, RA; Leopold, DA; J. Neurosci., DOI://10.1523/JNEUROSCI.1152-16.2016 (2016)
Genome-wide association study of 40,000 individuals identifies two novel loci associated with bipolar disorder Hou, L; Bergen, SE; Akula, N et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddw181 (2016)
A genome-wide association study in multiple system atrophy Sailer, A; Scholz, SW; Nalls, MA et al. Neurology, DOI://10.1212/WNL.0000000000003221 (2016)
Diverse Human Skin Fungal Communities in Children Converge in Adulthood Jo, JH; Deming, C; Kennedy, EA et al. J. Invest. Dermatol., DOI://10.1016/j.jid.2016.05.130 (2016)
An efficient protocol for obtaining accurate hydration free energies using quantum chemistry and reweighting from molecular dynamics simulations Frank C. Pickard, Gerhard Koenig, Andrew C. Simmonett, Yihan Shao, Bernard R. Brooks Bioorganic & Medicinal Chemistry, doi://10.1016/j.bmc.2016.08.031 (2016)
Skin microbiome before development of atopic dermatitis: Early colonization with commensal staphylococci at 2 months is associated with a lower risk of atopic dermatitis at 1 year s: Kennedy EA, Connolly J, O'B Hourihane J, Fallon PG, McLean WI, Murray D, Jo J-H, Segre JA, Kong HH, Irvine AD J. Allergy and Clinical Immunology , doi: 10.1016/j.jaci.2016.07.029 (2016)
Effects of Gene Dose, Chromatin, and Network Topology on Expression in Drosophila melanogaster Hangnoh Lee, Dong-Yeon Cho, Cale Whitworth, Robert Eisman, Melissa Phelps, John Roote, Thomas Kaufman, Kevin Cook, Steven Russell, Teresa Przytycka, Brian Oliver PLoS Genetics, doi://10.1371/journal.pgen.1006295 (2016)
A Model for Transposition of the Colistin Resistance Gene mcr-1 by ISApl1 Snesrud, E; He, S; Chandler, M et al. Antimicrob. Agents Chemother., DOI://10.1128/AAC.01457-16 (2016)
Transferability of genome-wide associated loci for asthma in African Americans Faruque, MU; Chen, G; Doumatey, AP et al. J Asthma, DOI://10.1080/02770903.2016.1188941 (2016)
Biallelic hypomorphic mutations in a linear deubiquitinase define otulipenia, an early-onset autoinflammatory disease Zhou, Q; Yu, X; Demirkaya, E et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1612594113 (2016)
GWAS analysis of handgrip and lower body strength in older adults in the CHARGE consortium Matteini, AM; Tanaka, T; Karasik, D et al. Aging Cell, DOI://10.1111/acel.12468 (2016)
Quantifying antiepileptic drug effects using intrinsic excitability measures Christian Meisel, Dietmar Plenz, Andreas Schulze-Bonhage, Heinz Reichmann Epilepsia, DOI: 10.1111/epi.13517 (2016)
Genetic causes of moderate to severe hearing loss point to modifiers S. Naz, A. Imtiaz et al. Clinical Genetics, DOI: 10.1111/cge.12856 (2016)

Bi-allelic Truncating Mutations in CEP78, Encoding Centrosomal Protein 78, Cause Cone-Rod Degeneration with Sensorineural Hearing Loss Prasanthi Namburi, Rinki Ratnapriya et al. Am. J. Hum. Genet., doi://10.1016/j.ajhg.2016.07.010 (2016)
Structural basis of kainate subtype glutamate receptor desensitization Joel R. Meyerson, Sagar Chittori, Alan Merk, Prashant Rao, Tae Hee Han, Mihaela Serpe, Mark L. Mayer & Sriram Subramaniam Nature, doi:10.1038/nature19352 (2016)
Probing the Action of Chemical Denaturant on an Intrinsically Disordered Protein by Simulation and Experiment Wenwei Zheng, Alessandro Borgia, Karin Buholzer, Alexander Grishaev, Benjamin Schuler, and Robert B. Best JACS, DOI: 10.1021/jacs.6b05443 (2016)
Consistent View of Polypeptide Chain Expansion in Chemical Denaturants from Multiple Experimental Methods A Borgia, W Zheng, et al. JACS, DOI: 10.1021/jacs.6b05917 (2016)
HMGN proteins modulate chromatin regulatory sites and gene expression during activation of naïve B cells Zhang, S; Zhu, I; Deng, T et al. Nucleic Acids Res., DOI://10.1093/nar/gkw323 (2016)
Analysis of Ly49 gene transcripts in mature NK cells supports a role for the Pro1 element in gene activation, not gene expression McCullen MV, Li H, Cam M, Sen SK, McVicar DW, Anderson SK Genes Immun., DOI://10.1038/gene.2016.31 (2016)

Calculating distribution coefficients based on multi-scale free energy simulations: an evaluation of MM and QM/MM explicit solvent simulations of water-cyclohexane transfer in the SAMPL5 challenge König, G; Pickard, FC; Huang, J et al. J. Comput. Aided Mol. Des., DOI://10.1007/s10822-016-9936-x (2016)
Fine-mapping, novel loci identification, and SNP association transferability in a genome-wide association study of QRS duration in African Americans Evans, DS; Avery, CL; Nalls, MA et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddw284 (2016)
Altered Human Memory Modification in the Presence of Normal Consolidation Censor N, Buch ER, Nader K, Cohen LG Cereb. Cortex, DOI://10.1093/cercor/bhv180 (2016)
Three-Dimensional Digital Template Atlas of the Macaque Brain Reveley, C; Gruslys, A; Ye, FQ et al. Cereb. Cortex, DOI://10.1093/cercor/bhw248 (2016)
Pleiotropic Analysis of Lung Cancer and Blood Triglycerides Zuber, V; Marconett, CN; Shi, J et al. J. Natl. Cancer Inst., DOI://10.1093/jnci/djw167 (2016)
Early-Childhood Social Reticence Predicts Brain Function in Preadolescent Youths During Distinct Forms of Peer Evaluation Jarcho JM, Davis MM, Shechner T, Degnan KA, Henderson HA, Stoddard J, Fox NA, Leibenluft E, Pine DS, Nelson EE Psychol Sci., doi: 10.1177/0956797616638319 (2016)

Global diversity in the TAS2R38 bitter taste receptor: revisiting a classic evolutionary PROPosal Risso DS, Mezzavilla M et al. Sci Rep., doi: 10.1038/srep25506 (2016)
A Deep Insight into the Sialome of Male and Female Aedes aegypti Mosquitoes Ribeiro JM, Martin-Martin I, Arcà B, Calvo E PLoS One., doi: 10.1371/journal.pone.0151400 (2016)
Noise Estimation and Reduction in Multispectral Magnetic Resonance Images Bouhrara M, Bonny JM, Ashinsky B, Maring M, Spencer R IEEE Trans Med Imaging, DOI://10.1109/TMI.2016.2601243 (2016)
Amygdala response to explicit sad face stimuli at baseline predicts antidepressant treatment response to scopolamine in major depressive disorder Szczepanik, J; Nugent, AC; Drevets, WC; Khanna, A; Zarate, CA; Furey, ML; Psychiatry Res, DOI://10.1016/j.pscychresns.2016.06.005 (2016)
Structure-Based Screening of Uncharted Chemical Space for Atypical Adenosine Receptor Agonists Rodríguez, D; Chakraborty, S; Warnick, E et al. ACS Chem. Biol., DOI://10.1021/acschembio.6b00357 (2016)
Internal Proteins of the Procapsid and Mature Capsids of Herpes Simplex Virus 1 Mapped by Bubblegram Imaging Wu W, Newcomb WW, Cheng N, Aksyuk A, Winkler DC, Steven AC J Virol. , doi: 10.1128/JVI.03224-15 (2016)

A Deep Insight into the Sialome of Rhodnius neglectus, a Vector of Chagas Disease Santiago PB, Assumpcao TC et al. PLoS Negl Trop Dis., doi: 10.1371/journal.pntd.0004581 (2016)
A Class of Diacylglycerol Acyltransferase 1 Inhibitors Identified by a Combination of Phenotypic High-throughput Screening, Genomics, and Genetics Tschapalda K, Zhang YQ et al. EBioMedicine., doi: 10.1016/j.ebiom.2016.04.014 (2016)
Age-related differences in the neural correlates of trial-to-trial variations of reaction time Adleman NE, Chen G, Reynolds RC, Frackman A, Razdan V, Weissman DH, Pine DS, Leibenluft E Dev Cogn Neurosci., doi: 10.1016/j.dcn.2016.05.001. (2016)
Copy Number Variation in TAS2R Bitter Taste Receptor Genes: Structure, Origin, and Population Genetics Roudnitzky N, Risso D, Drayna D, Behrens M, Meyerhof W, Wooding SP Chem Senses., DOI: 10.1093/chemse/bjw067 (2016)
Linking Genes and Brain Development of Honeybee Workers: A Whole-Transcriptome Approach Vleurinck C, Raub S, Sturgill D, Oliver B, Beye M PLoS One, doi: 10.1371/journal.pone.0157980 (2016)
Preliminary differences in resting state MEG functional connectivity pre- and post-ketamine in major depressive disorder Nugent AC, Robinson SE, Coppola R, Zarate CA Psychiatry Res, DOI://10.1016/j.pscychresns.2016.06.006 (2016)

Global intron retention mediated gene regulation during CD4+ T cell activation Ni, T; Yang, W; Han, M et al. Nucleic Acids Res., DOI://10.1093/nar/gkw591 (2016)
Estimating relative risk of a log-transformed exposure measured in pools Mitchell EM, Plowden TC, Schisterman EF Stat Med, DOI://10.1002/sim.7075 (2016)
An interactive web-based application for Comprehensive Analysis of RNAi-screen Data Dutta B, Azhir A et al. Nature Communications, doi: 10.1038/ncomms10578. (2016)
Neural Correlates of Irritability in Disruptive Mood Dysregulation and Bipolar Disorders Wiggins JL, Brotman MA, Adleman NE, Kim P, Oakes AH, Reynolds RC, Chen G, Pine DS, Leibenluft E Am J Psychiatry., doi: 10.1176/appi.ajp.2015.15060833 (2016)
Genomic insights into the Ixodes scapularis tick vector of Lyme disease Gulia-Nuss M, Nuss AB et al. Nat Commun. , doi: 10.1038/ncomms10507 (2016)
Prefrontal GABA Levels Measured With Magnetic Resonance Spectroscopy in Patients With Psychosis and Unaffected Siblings Marenco S, Meyer C, Kuo S, van der Veen JW, Shen J, DeJong K, Barnett AS, Apud JA, Dickinson D, Weinberger DR, Berman KF Am J Psychiatry, doi: 10.1176/appi.ajp.2015 (2016)

Rare copy number variants implicated in posterior urethral valves Boghossian NS, Sicko RJ et al Am J Med Genet A., doi: 10.1002/ajmg.a.37493 (2016)
Computational evaluation of exome sequence data using human and model organism phenotypes improves diagnostic efficiency Bone WP, Washington NL et al. Genet Med, doi: 10.1038/gim.2015.137 (2016)
TCRβ repertoire of CD4+ and CD8+ T cells is distinct in richness, distribution, and CDR3 amino acid composition Li HM, Hiroi T, Zhang Y, Shi A, Chen G, De S, Metter EJ, Wood WH rd, Sharov A, Milner JD, Becker KG, Zhan M, Weng NP J Leukoc Biol., doi: 10.1189/jlb.6A0215-071RR (2016)
Neural correlates of masked and unmasked face emotion processing in youth with severe mood dysregulation Tseng WL, Thomas LA, Harkins E, Pine DS, Leibenluft E, Brotman MA Soc Cogn Affect Neurosci, doi: 10.1093/scan/nsv087 (2016)
Evolving specificity of tRNA 3-methyl-cytidine-32 (m3C32) modification: a subset of tRNAsSer requires N6-isopentenylation of A37 Arimbasseri, AG; Iben, J; Wei, FY et al. RNA, DOI://10.1261/rna.056259.116 (2016)
Synergistically acting agonists and antagonists of G protein-coupled receptors prevent photoreceptor cell degeneration Yu Chen, Grazyna Palczewska, et al. Sci Signal. , doi: 10.1126/scisignal.aag0245 (2016)

A simple but useful way to assess fMRI scan qualities Jonathan D. Power NeuroImage, doi:10.1016/j.neuroimage.2016.08.009 (2016)
Conformational dynamics of cancer-associated MyD88-TIR domain mutant L252P (L265P) allosterically tilts the landscape toward homo-dimerization Chendi Zhan, Ruxi Qi, Guanghong Wei, Emine Guven-Maiorov, Ruth Nussinov and Buyong Ma Protein Engineering, Design and Selection, doi: 10.1093/protein/gzw033 (2016)
Altered striatal intrinsic functional connectivity in pediatric anxiety Dorfman J, Benson B, Farber M, Pine D, Ernst M Neuropsychologia, doi: 10.1016/j.neuropsychologia.2016.03.019 (2016)
Next-generation sequencing reveals substantial genetic contribution to dementia with Lewy bodies Geiger, JT; Ding, J; Crain, B et al. Neurobiol. Dis., DOI://10.1016/j.nbd.2016.06.004 (2016)
Commonalities in Development of Pure Breeds and Population Isolates Revealed in the Genome of the Sardinian Fonni's Dog Dreger, DL; Davis, BW; Cocco, R et al. Genetics, DOI://10.1534/genetics.116.192427 (2016)
An Enantiomer of an Oral Small-Molecule TSH Receptor Agonist Exhibits Improved Pharmacologic Properties Neumann, S; Padia, U; Cullen, MJ et al. Front Endocrinol (Lausanne), DOI://10.3389/fendo.2016.00105 (2016)
PreSMA stimulation changes task-free functional connectivity in the fronto-basal-ganglia that correlates with response inhibition efficiency Xu, B; Sandrini, M; Wang, WT et al. Hum Brain Mapp, DOI://10.1002/hbm.23236 (2016)
Coffee Drinking Is Widespread in the United States but Usual Intake Varies by Key Demographic and Lifestyle Factors Erikka Loftfield, Neal D Freedman, Kevin W Dodd, Emily Vogtmann, Qian Xiao, Rashmi Sinha, and Barry I Graubard J. Nutrition, doi: 10.3945/jn.116.233940 (2016)
Platelet-Related Variants Identified by Exomechip Meta-analysis in 157,293 Individuals John D. Eicher, Nathalie Chami, et al. Am. J. Hum. Genet. , doi://10.1016/j.ajhg.2016.05.005 . (2016)
AptaTRACE Elucidates RNA Sequence-Structure Motifs from Selection Trends in HT-SELEX Experiments Phuong Dao, Jan Hoinka, Mayumi Takahashi, Jiehua Zhou, Michelle Ho, Yijie Wang, Fabrizio Costa, John J. Rossi, Rolf Backofen, John Burnett, Teresa M. Przytycka Cell Systems, doi:10.1016/j.cels.2016.07.003 (2016)
C-5-Modified Tetrahydropyrano-Tetrahydofuran-Derived Protease Inhibitors (PIs) Exert Potent Inhibition of the Replication of HIV-1 Variants Highly Resistant to Various PIs, including Darunavir Manabu Aoki, Hironori Hayashi, Ravikiran S. Yedidi, Cuthbert D. Martyr, Yuki Takamatsu, Hiromi Aoki-Ogat, Teruya Nakamura, Hirotomo Nakata, Debananda Das, Yuriko Yamagata, Arun K. Ghosh and Hiroaki Mitsuya J. Virology, doi: 10.1128/JVI.01829-15 (2016)
SMAC mimetic birinapant plus radiation eradicates human head and neck cancers with genomic amplifications of cell death genes FADD and BIRC2 Danielle F Eytan, Grace E Snow, Sophie Carlson, Adeeb Derakhshan, Anthony Saleh, Stephen Schiltz, Hui Cheng, Suresh Mohan, Shaleeka Cornelius, Jamie F Coupar, Anastasia L. Sowers, Lidia Hernandez, James B. Mitchell, Christina M. Annunziata, Zhong Chen, Carter Van Waes Cancer Research, DOI: 10.1158/0008-5472.CAN-15-3317 (2016)

Somatic, positive and negative domains of the Center for Epidemiological Studies Depression (CES-D) scale: a meta-analysis of genome-wide association studies. Demirkan A, Lahti J et al Psychol Med, doi: 10.1017/S0033291715002081 (2016)
Modeling RNA topological structures using small angle X-ray scattering Yuba R. Bhandari, Wei Jiang, Eric A. Stahlberg, Jason R. Stagno, Yun-Xing Wang Methods, doi:10.1016/j.ymeth.2016.04.015 (2016)
Comparing biomarkers as trial level general surrogates Erin E Gabriel, Michael J. Daniels, M. Elizabeth Halloran Biometrics, DOI: 10.1111/biom.12513 (2016)
Diffusive Dynamics of Contact Formation in Disordered Polypeptides Gül H. Zerze, Jeetain Mittal, and Robert B. Best Phys. Rev. Lett., doi://10.1103/PhysRevLett.116.068102 (2016)
Genome-wide cooperation by HAT Gcn5, remodeler SWI/SNF, and chaperone Ydj1 in promoter nucleosome eviction and transcriptional activation Hongfang Qiu, Razvan V. Chereji, Cuihua Hu, Hope A. Cole, Yashpal Rawal, David J. Clark, and Alan G. Hinnebusch Genome Research, doi: 10.1101/gr.196337.115 (2016)
The evolutionary turnover of recombination hot spots contributes to speciation in mice Fatima Smagulova, Kevin Brick, Yongmei Pu, R. Daniel Camerini-Otero, and Galina V. Petukhova Genes. Dev. , doi: 10.1101/gad.270009.115 (2016)

Origins of the 2009 H1N1 influenza pandemic in swine in Mexico Ignacio Mena, Martha I Nelson, et al. eLife, doi://10.7554/eLife.16777 (2016)
A Powerful Procedure for Pathway-Based Meta-analysis Using Summary Statistics Identifies 43 Pathways Associated with Type II Diabetes in European Populations Han Zhang, William Wheeler, Paula L. Hyland, Yifan Yang, Jianxin Shi, Nilanjan Chatterjee, and Kai Yu PLoS Genetics, doi: 10.1371/journal.pgen.1006122 (2016)
Evaluation of multi-echo ICA denoising for task based fMRI studies: Block designs, rapid event-related designs, and cardiac-gated fMRI Javier Gonzalez-Castillo, Puja Panwar, Laura C. Buchanan, Cesar Caballero-Gaudes, Daniel A. Handwerker, David C. Jangraw, Valentinos Zachariou, Souheil Inati, Vinai Roopchansingh, John A. Derbyshire, Peter A. Bandettini NeuroImage, doi:10.1016/j.neuroimage.2016.07.049 (2016)
Rare Variants Analysis of Cutaneous Malignant Melanoma Genes in Parkinson's Disease S.J. Lubbe, V. Escott-Price et al, the Melanoma Meta-Analysis Consortium, the International Parkinson's Disease Genomics Consortium Neurobiology of Aging, doi:10.1016/j.neurobiolaging.2016.07.013 (2016)
Crystal structure of the antigen-binding fragment of a monoclonal antibody specific for the multidrug-resistance-linked ABC transporter human P-glycoprotein Lothar Esser, Suneet Shukla, Fei Zhou, Suresh V. Ambudkar and Di Xia Acta Cryst. F, doi:10.1107/S2053230X16009778 (2016)
Certified DNA Reference Materials to Compare HER2 Gene Amplification Measurements Using Next-Generation Sequencing Methods Chih-Jian Lih, Han Si et al. J. Mol. Diag. , doi:10.1016/j.jmoldx.2016.05.008 (2016)

Vaccine-Induced Antibodies that Neutralize Group 1 and Group 2 Influenza A Viruses Joyce, MG; Wheatley, AK; Thomas, PV et al. Cell, DOI://10.1016/j.cell.2016.06.043 (2016)
Characterizing human lung tissue microbiota and its relationship to epidemiological and clinical features Yu, G; Gail, MH; Consonni, D et al. Genome Biol., DOI://10.1186/s13059-016-1021-1 (2016)
Four Susceptibility Loci for Gallstone Disease Identified in a Meta-analysis of Genome-Wide Association Studies Joshi, AD; Andersson, C; Buch, S et al. Gastroenterology, DOI://10.1053/j.gastro.2016.04.007 (2016)
Polybrominated Diphenyl Ethers: Structure Determination and Trends in Antibacterial Activity Liu, H; Lohith, K; Rosario, M et al. J. Nat. Prod., DOI://10.1021/acs.jnatprod.6b00229 (2016)
Association of Maternal Prepregnancy Dyslipidemia With Adult Offspring Dyslipidemia in Excess of Anthropometric, Lifestyle, and Genetic Factors in the Framingham Heart Study Mendelson MM, Lyass A, O'Donnell CJ, D'Agostino RB, Levy D JAMA Cardiol, DOI://10.1001/jamacardio.2015.0304 (2016)
Comparison of Sedentary Estimates between activPAL and Hip- and Wrist-Worn ActiGraph Koster, A; Shiroma, EJ; Caserotti, P et al. Med Sci Sports Exerc, DOI://10.1249/MSS.0000000000000924 (2016)

South (S)- and North (N)-Methanocarba-7-Deazaadenosine Analogues as Inhibitors of Human Adenosine Kinase Kiran S. Toti, Danielle Osborne, Antonella Ciancetta, Detlev Boison, and Kenneth A. Jacobson J. Med. Chem. , DOI: 10.1021/acs.jmedchem.6b00689 (2016)
Change in Epigenome-Wide DNA Methylation Over 9 Years and Subsequent Mortality: Results From the InCHIANTI Study Moore, AZ; Hernandez, DG; Tanaka, T et al. J. Gerontol. A Biol. Sci. Med. Sci., DOI://10.1093/gerona/glv118 (2016)
A Cascade of Wnt, Eda, and Shh Signaling Is Essential for Touch Dome Merkel Cell Development Xiao, Y; Thoresen, DT; Miao, L et al. PLoS Genet., DOI://10.1371/journal.pgen.1006150 (2016)
Complete Genome Sequence of a Klebsiella pneumoniae Strain Carrying blaNDM-1 on a Multidrug Resistance Plasmid Conlan S, Lau AF, , Palmore TN, Frank KM, Segre JA Genome Announc, DOI://10.1128/genomeA.00664-16 (2016)
Computational study of the inhibitory mechanism of the kinase CDK5 hyperactivity by peptide p5 and derivation of a pharmacophore A. Cardone, M. Brady, R. Sriram, H. C. Pant, S. A. Hassan J. Computer-Aided Molecular Design, DOI: 10.1007/s10822-016-9922-3 (2016)
A Comparison Study of Fixed and Mixed Effect Models for Gene Level Association Studies of Complex Traits Ruzong Fan, Chi-yang Chiu, Jeesun Jung, Daniel E. Weeks, Alexander F. Wilson, Joan E. Bailey-Wilson, Christopher I. Amos, Zhen Chen, James L. Mills and Momiao Xiong Genetic Epidemiology, DOI: 10.1002/gepi.21984 (2016)

Mutational Spectrum of MYO15A and the Molecular Mechanisms of DFNB3 Human Deafness Atteeq U. Rehman, Jonathan E. Bird, Rabia Faridi, Mohsin Shahzad, Sujay Shah, Kwanghyuk Lee, Shaheen N. Khan, Ayesha Imtiaz, Zubair M. Ahmed, Saima Riazuddin, Regie Lyn P. Santos- Cortez, Wasim Ahmad, Suzanne M. Leal, Sheikh Riazuddin, Thomas B. Friedman Human Mutation, DOI: 10.1002/humu.23042 (2016)
Transmission-blocking activity is determined by transmission-reducing activity and number of control oocysts in Plasmodium falciparum standard membrane-feeding assay Kazutoyo Miura, Bruce J. Swihart, Bingbing Deng, Luwen Zhou, Thao P. Pham, Ababacar Diouf, Timothy Burton, Michael P. Fay, Carole A. Long Vaccine, doi:10.1016/j.vaccine.2016.06.066 (2016)
Tyrosine-sulfated V2 peptides inhibit HIV-1 infection via coreceptor mimicry Raffaello Cimbro, Francis C. Peterson, Qingbo Liu, Christina Guzzo, Peng Zhang, Huiyi Miao, Donald Van Ryk, Xavier Ambroggio, Darrell E. Hurt, Luca De Gioia, Brian F. Volkman, Michael A. Dolan, Paolo Lusso EBioMedicine, doi:10.1016/j.ebiom.2016.06.037 (2016)
Defining the neuroanatomic basis of motor coordination in children and its relationship with symptoms of attention-deficit/hyperactivity disorder Shaw, P; Weingart, D; Bonner, T et al. Psychol Med, DOI://10.1017/S0033291716000660 (2016)
Common Variation in the DOPA Decarboxylase (DDC) Gene and Human Striatal DDC Activity In Vivo Eisenberg, DP; Kohn, PD; Hegarty, CE et al. Neuropsychopharmacology, DOI://10.1038/npp.2016.31 (2016)
Improving Motor Corticothalamic Communication After Stroke Using Real-Time fMRI Connectivity-Based Neurofeedback Liew, SL; Rana, M; Cornelsen, S et al. Neurorehabil Neural Repair, DOI://10.1177/1545968315619699 (2016)
Exome Genotyping Identifies Pleiotropic Variants Associated with Red Blood Cell Traits Chami, N; Chen, MH; Slater, AJ et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2016.05.007 (2016)
Pathogenic role of B-cell receptor signaling and canonical NF-κB activation in mantle cell lymphoma Saba, NS; Liu, D; Herman, SE et al. Blood, DOI://10.1182/blood-2015-11-681460 (2016)
Chromatin Landscape of the IRF Genes and Role of the Epigenetic Reader BRD4 Bachu, M; Dey, A; Ozato, K; J. Interferon Cytokine Res., DOI://10.1089/jir.2015.0179 (2016)
Fine-tuning of CD8(+) T-cell effector functions by targeting the 2B4-CD48 interaction Lissina, A; Ambrozak, DR; Boswell, KL et al. Immunol. Cell Biol., DOI://10.1038/icb.2016.17 (2016)
The genetic regulatory signature of type 2 diabetes in human skeletal muscle Scott, LJ; Erdos, MR; Huyghe, JR et al. Nat Commun, DOI://10.1038/ncomms11764 (2016)
Plasmid Dynamics in KPC-Positive Klebsiella pneumoniae during Long-Term Patient Colonization Conlan, S; Park, M; Deming, C et al. MBio, DOI://10.1128/mBio.00742-16 (2016)

Structure-Based Design of 3-(4-Aryl-1H-1,2,3-triazol-1-yl)-Biphenyl Derivatives as P2Y14 Receptor Antagonists Anna Junker, Ramachandran Balasubramanian, Antonella Ciancetta, Elisa Uliassi, Evgeny Kiselev, Chiara Martiriggiano, Kevin Trujillo, Giorgi Mtchedlidze, Leah Birdwell, Kyle A. Brown, T. Kendall Harden, and Kenneth A. Jacobson J. Med. Chem. , DOI: 10.1021/acs.jmedchem.6b00044 (2016)
Large-Scale Exome-wide Association Analysis Identifies Loci for White Blood Cell Traits and Pleiotropy with Immune-Mediated Diseases Salman M. Tajuddin, Ursula M. Schick et al. Am. J. Hum. Genet., doi:10.1016/j.ajhg.2016.05.003 (2016)
Coarse Master Equations for Binding Kinetics of Amyloid Peptide Dimers Cathal T. Leahy, Ronan D. Murphy, Gerhard Hummer, Edina Rosta, and Nicolae-Viorel Buchete J. Phys. Chem. Lett., DOI: 10.1021/acs.jpclett.6b00518 (2016)
Recruitment of Rod Photoreceptors from Short-Wavelength-Sensitive Cones during the Evolution of Nocturnal Vision in Mammals Jung-Woong Kim, Hyun-Jin Yang, Adam Phillip Oel, Matthew John Brooks, Li Jia, David Charles Plachetzki, Wei Li, William Ted Allison, Anand Swaroop Developmental Cell, doi:10.1016/j.devcel.2016.05.023 (2016)
Ring Catalog: A resource for designing self-assembling RNA nanostructures Parlea, L; Bindewald, E; Sharan, R et al. Methods, DOI://10.1016/j.ymeth.2016.04.016 (2016)
Decreased subcortical volumes in alcohol dependent individuals: effect of polysubstance use disorder Grodin EN, Momenan R Addict Biol, DOI://10.1111/adb.12421 (2016)

Compressed Sensing Electron Tomography for Determining Biological Structure Matthew D. Guay, Wojciech Czaja, Maria A. Aronova & Richard D. Leapman Nature, doi:10.1038/srep27614 (2016)
Next generation sequencing technology and genomewide data analysis: Perspectives for retinal research Vijender Chaitankar, Gokhan Karakulah, Rinki Ratnapriya, Felipe O. Giuste, Matthew J. Brooks, Anand Swaroop Progress in Retinal and Eye Research, doi:10.1016/j.preteyeres.2016.06.001 (2016)
Taz1-Shelterin Promotes Facultative Heterochromatin Assembly at Chromosome-Internal Sites Containing Late Replication Origins Zofall M, Smith DR, Mizuguchi T, Dhakshnamoorthy J, Grewal SI Mol. Cell, DOI://10.1016/j.molcel.2016.04.034 (2016)
The homeoprotein DLX3 and tumor suppressor p53 co-regulate cell cycle progression and squamous tumor growth Palazzo, E; Kellett, M; Cataisson, C et al. Oncogene, DOI://10.1038/onc.2015.380 (2016)
Impact of Type 2 Diabetes on Impaired Kidney Function in Sub-Saharan African Populations Adebamowo, SN; Adeyemo, AA; Tekola-Ayele, F et al. Front Endocrinol (Lausanne), DOI://10.3389/fendo.2016.00050 (2016)
Developmental Pathway of the MPER-Directed HIV-1-Neutralizing Antibody 10E8 Soto, C; Ofek, G; Joyce, MG et al. PLoS ONE, DOI://10.1371/journal.pone.0157409 (2016)

Mapping of Ebolavirus Neutralization by Monoclonal Antibodies in the ZMapp Cocktail Using Cryo-Electron Tomography and Studies of Cellular Entry Erin E. H. Tran, Elizabeth A. Nelson, Pranay Bonagiri, James A. Simmons, Charles J. Shoemaker, Connie S . Schmaljohn, Gary P. Kobinger, Larry Zeitlin, Sriram Subramaniam, and Judith M. White J. Virol., doi:10.1128/JVI.00406-16 (2016)
Molecular analysis of urothelial cancer cell lines for modeling tumor biology and drug response M L Nickerson, N Witte, K M Im, S Turan, C Owens, K Misner, S X Tsang, Z Cai, S Wu, M Dean, J C Costello and D Theodorescu Oncogene, doi: 10.1038/onc.2016.172 (2016)
Regulation of normal B-cell differentiation and malignant B-cell survival by OCT2 Hodson, DJ; Shaffer, AL; Xiao, W et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1600557113 (2016)
A replicator-specific binding protein essential for site-specific initiation of DNA replication in mammalian cells Zhang, Y; Huang, L; Fu, H et al. Nat Commun, DOI://10.1038/ncomms11748 (2016)
Decreased Expression of Retinoid X Receptors During Human and Azoxymethane-induced Colorectal Carcinogenesis in the Rat Hao, X; Xiao, H; Ju, J; Hewitt, SM; Morse, HC; Anticancer Res., 1791-7530 (2016)
H19ICR mediated transcriptional silencing does not require target promoter methylation Gebert C, Rong Q, Jeong S, Iben J, Pfeifer K Biochem. Biophys. Res. Commun., DOI://10.1016/j.bbrc.2016.05.042 (2016)

Chemoreception and neuroplasticity in respiratory circuits William H. Barnett, Ana P. Abdala, Julian F.R. Paton, Ilya A. Rybak, Daniel B. Zoccal, Yaroslav I. Molkov Experimental Neurology, doi:10.1016/j.expneurol.2016.05.036 (2016)
A novel complete-case analysis to determine statistical significance between treatments in an intention-to-treat population of randomized clinical trials involving missing data Wei Liu, Jinhui Ding Stat. Methods in Med. Res. , doi: 10.1177/0962280216651307 (2016)
Urinary Metabolite Risk Biomarkers of Lung Cancer: A Prospective Cohort Study Haznadar, M; Cai, Q; Krausz, KW et al. Cancer Epidemiol. Biomarkers Prev., DOI://10.1158/1055-9965.EPI-15-1191 (2016)
Prenatal immune programming of the sex-dependent risk for major depression Gilman, SE; Cherkerzian, S; Buka, SL; Hahn, J; Hornig, M; Goldstein, JM; Transl Psychiatry, DOI://10.1038/tp.2016.91 (2016)
Polycomb Ezh2 controls the fate of GABAergic neurons in the embryonic cerebellum Feng, X; Juan, AH; Wang, HA; Ko, KD; Zare, H; Sartorelli, V; Development, DOI://10.1242/dev.132902 (2016)
Breaking Cryo-EM Resolution Barriers to Facilitate Drug Discovery Alan Merk , Alberto Bartesaghi , Soojay Banerjee , Veronica Falconieri , Prashant Rao , Mindy I. Davis , Rajan Pragani , Matthew B. Boxer , Lesley A. Earl , Jacqueline L.S. Milne , Sriram Subramaniam Cell, doi://10.1016/j.cell.2016.05.040 show (2016)

Robertsonian translocations modify genomic distribution of γH2AFX and H3.3 in mouse germ cells Fayer S, Yu Q, Kim J, Moussette S, Camerini-Otero RD, Naumova AK Mamm. Genome, DOI://10.1007/s00335-016-9630-2 (2016)
Structural Basis for the Failure of the C1 Domain of Ras Guanine Nucleotide Releasing Protein 2 (RasGRP2) to Bind Phorbol Ester with High Affinity Czikora, A; Lundberg, DJ; Abramovitz, A et al. J. Biol. Chem., DOI://10.1074/jbc.M116.725333 (2016)
Genome-wide association study identifies 74 loci associated with educational attainment Okbay, A; Beauchamp, JP; Fontana, MA et al. Nature, DOI://10.1038/nature17671 (2016)
Proinflammatory and lipid biomarkers mediate metabolically healthy obesity: A proteomics study Doumatey AP, Zhou J, Zhou M, Prieto D, Rotimi CN, Adeyemo A Obesity (Silver Spring), DOI://10.1002/oby.21482 (2016)
Encoding of Touch Intensity But Not Pleasantness in Human Primary Somatosensory Cortex Case, LK; Laubacher, CM; Olausson, H; Wang, B; Spagnolo, PA; Bushnell, MC; J. Neurosci., DOI://10.1523/JNEUROSCI.1130-15.2016 (2016)
Trajectories of microsecond molecular dynamics simulations of nucleosomes and nucleosome core particles Alexey K. Shaytan, Grigoriy A. Armeev, Alexander Goncearenco, Victor B. Zhurkin, David Landsman, Anna R. Panchenko Data in Brief, doi:10.1016/j.dib.2016.04.073 (2016)

A Transcriptionally Inactive ATF2 Variant Drives Melanomagenesis Giuseppina Claps, Yann Cheli, Tongwu Zhang, Marzia Scortegagna, Eric Lau, Hyungsoo Kim, Jianfei Qi, Jian-Liang Li, Brian James, Andreas Dzung, Mitchell P. Levesque, Reinhard Dummer, Nicholas K. Hayward, Marcus Bosenberg, Kevin M. Brown, Ze'ev A. Ronai Cell Reports, doi:10.1016/j.celrep.2016.04.072 (2016)
Untangling the relatedness among correlations, part I: Nonparametric approaches to inter-subject correlation analysis at the group level Gang Chen, Yong-Wook Shin, Paul A. Taylor, Daniel Glen, Richard C. Reynolds, Robert B. Israel, Robert W. Cox NeuroImage, doi:10.1016/j.neuroimage.2016.05.023 (2016)
Confidence assignment for mass spectrometry based peptide identifications via the extreme value distribution Gelio Alves and Yi-Kuo Yu Bioinformatics, doi: 10.1093/bioinformatics/btw22 (2016)
A single endoplasmic reticulum aminopeptidase-1 protein allotype is a strong risk factor for Behçet's disease in HLA-B*51 carriers. Takeuchi, M; Ombrello, MJ; Kirino, Y et al. Ann. Rheum. Dis., DOI://10.1136/annrheumdis-2015-209059 (2016)
Ancient Human Migration after Out-of-Africa Shriner D, Tekola-Ayele F, Adeyemo A, Rotimi CN Sci Rep, DOI://10.1038/srep26565 (2016)
Prolyl hydroxylation regulates protein degradation, synthesis, and splicing in human induced pluripotent stem cell-derived cardiomyocytes Stoehr, A; Yang, Y; Patel, S et al. Cardiovasc. Res., DOI://10.1093/cvr/cvw081 (2016)

Comprehensive Database of Human E3 Ubiquitin Ligases: Application to Aquaporin-2 Regulation Barbara Medvar, Viswanathan Raghuram, Trairak Pisitkun, Abhijit Sarkar, Mark A. Knepper Physiological Genomics, DOI: 10.1152/physiolgenomics.00031.2016 (2016)
Identification of modes of interactions between 9-aminoacridine hydrochloride hydrate and serum proteins by low and high resolution spectroscopy and molecular modeling Piyali Mitra, Uttam Pal, Nakul Chandra Maiti, Anirban Ghosh, Anirban Bhunia and Samita Basu Roy. Soc. Chem. , DOI: 10.1039/C6RA04140J (2016)
Predicting motor improvement after stroke with clinical assessment and diffusion tensor imaging Buch, ER; Rizk, S; Nicolo, P; Cohen, LG; Schnider, A; Guggisberg, AG; Neurology, DOI://10.1212/WNL.0000000000002675 (2016)
Signal transducer and activator of transcription 5 (STAT5) paralog dose governs T cell effector and regulatory functions Villarino A, Laurence A, Robinson GW, Bonelli M, Dema B, Afzali B, Shih HY, Sun HW, Brooks SR, Hennighausen L, Kanno Y, O'Shea JJ Elife, doi: 10.7554/eLife.08384 (2016)
Developmental Acquisition of Regulomes Underlies Innate Lymphoid Cell Functionality Han-Yu Shih, Giuseppe Sciumè, Yohei Mikami, Liying Guo, Hong-Wei Sun, Stephen R. Brooks, Joseph F. Urban Jr., Fred P. Davis, Yuka Kanno, John J. O'Shea Cell, doi:10.1016/j.cell.2016.04.029 (2016)
BRD4 is a histone acetyltransferase that evicts nucleosomes from chromatin Ballachanda N Devaiah, Chanelle Case-Borden, Anne Gegonne, Chih Hao Hsu, Qingrong Chen, Daoud Meerzaman, Anup Dey, Keiko Ozato & Dinah S Singer Nature Structural & Molecular Biology, doi:10.1038/nsmb.3228 (2016)

Temporal Stability of the Human Skin Microbiome Julia Oh, Allyson L. Byrd , Morgan Park , NISC Comparative Sequencing Program, Heidi H. Kong, Julia A. Segre Cell, doi://10.1016/j.cell.2016.04.008 (2016)
Colorectal Cancer and the Human Gut Microbiome: Reproducibility with Whole-Genome Shotgun Sequencing Emily Vogtmann, Xing Hua, Georg Zeller, Shinichi Sunagawa, Anita Y. Voigt, Rajna Hercog, James J. Goedert, Jianxin Shi, Peer Bork, Rashmi Sinha PLoS One, doi://10.1371/journal.pone.0155362 (2016)
Cryo-EM analysis of the conformational landscape of human P-glycoprotein (ABCB1) during its catalytic cycle Gabriel Frank, Suneet Shukla, Prashant Rao, Mario J Borgnia, Alberto Bartesaghi, Alan Merk, Aerfa Mobin, Lothar Esser, Lesley A. Earl, Michael M Gottesman, Di Xia, Suresh V. Ambudkar, and Sriram Subramaniam Molecular Pharmacology, doi: 10.1124/mol.116.104190 (2016)
Fusion peptide of HIV-1 as a site of vulnerability to neutralizing antibody Kong, R; Xu, K; Zhou, T et al. Science, DOI://10.1126/science.aae0474 (2016)
Analysis of mcDESPOT- and CPMG-derived parameter estimates for two-component nonexchanging systems Bouhrara M, Reiter DA, Celik H, Fishbein KW, Kijowski R, Spencer RG Magn Reson Med, DOI://10.1002/mrm.25801 (2016)
Interferon Regulator Factor 8 (IRF8) Limits Ocular Pathology during HSV-1 Infection by Restraining the Activation and Expansion of CD8+ T Cells Sun, L; St Leger, AJ; Yu, CR et al. PLoS ONE, DOI://10.1371/journal.pone.0155420 (2016)

Delineation of Polypharmacology across the Human Structural Kinome Using a Functional Site Interaction Fingerprint Approach Zhao Z, Xie L, Xie L, Bourne PE J. Med. Chem., DOI://10.1021/acs.jmedchem.5b02041 (2016)
Distinct epigenetic features of differentiation-regulated replication origins Smith, OK; Kim, R; Fu, H et al. Epigenetics Chromatin, DOI://10.1186/s13072-016-0067-3 (2016)
Structural Determinants of Misfolding in Multidomain Proteins Pengfei Tian and Robert B. Best PLoS Computational Biology, 10.1371/journal.pcbi.1004933 (2016)
Learned Value Shapes Responses to Objects in Frontal and Ventral Stream Networks in Macaque Monkeys Kaskan, PM; Costa, VD; Eaton, HP et al. Cereb. Cortex, DOI://10.1093/cercor/bhw113 (2016)
CLIP-seq to Identify KSHV ORF57-Binding RNA in Host B Cells Ma Y, Liu P, Majerciak V, Zhu J, Zheng ZM Curr Protoc Microbiol, DOI://10.1002/cpmc.3 (2016)
Trimeric HIV-1-Env Structures Define Glycan Shields from Clades A, B, and G Stewart-Jones, GB; Soto, C; Lemmin, T et al. Cell, DOI://10.1016/j.cell.2016.04.010 (2016)

PA-seq for Global Identification of RNA Polyadenylation Sites of Kaposi's Sarcoma-Associated Herpesvirus Transcripts Ni T, Majerciak V, Zheng ZM, Zhu J Curr Protoc Microbiol, DOI://10.1002/cpmc.1 (2016)
Genome Sequence of the Banana Plant Growth-Promoting Rhizobacterium Pseudomonas fluorescens PS006 Gamez, RM; Rodríguez, F; Ramírez, S et al. Genome Announc, DOI://10.1128/genomeA.00329-16 (2016)
Sparse signal representation in digital and biological system Matthew Guay PhD Thesis, University of Maryland (2016)
Single-cell profiling of human megakaryocyte-erythroid progenitors identifies distinct megakaryocyte and erythroid differentiation pathways Psaila, B; Barkas, N; Iskander, D et al. Genome Biol., DOI://10.1186/s13059-016-0939-7 (2016)
Identification of an Immunogenic Subset of Metastatic Uveal Melanoma Rothermel, LD; Sabesan, AC; Stephens, DJ et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-15-2294 (2016)
Regional Variations in Brain Gyrification Are Associated with General Cognitive Ability in Humans Michael D. Gregory, J. Shane Kippenhan, Dwight Dickinson, Jessica Carrasco, Venkata S. Mattay, Daniel R. Weinberger, Karen F. Berman Current Biology, doi:10.1016/j.cub.2016.03.021 (2016)

A Common Polymorphism in HIBCH Influences Methylmalonic Acid Concentrations in Blood Independently of Cobalamin Anne M. Molloy, Faith Pangilinan , et al. Am. J. Hum. Genet., DOI:10.1016/j.ajhg.2016.03.005 show (2016)
TNF-α modulates genome-wide redistribution of ΔNp63α/TAp73 and NF-κB cREL interactive binding on TP53 and AP-1 motifs to promote an oncogenic gene program in squamous cancer Si, H; Lu, H; Yang, X et al. Oncogene, DOI://10.1038/onc.2016.112 (2016)
DR-TAMAS: Diffeomorphic Registration for Tensor Accurate Alignment of Anatomical Structures Irfanoglu, MO; Nayak, A; Jenkins, J et al. Neuroimage, DOI://10.1016/j.neuroimage.2016.02.066 (2016)
Challenges in studying the structures of metal- amyloid oligomers related to type 2 diabetes, parkinson's disease, and alzheimer's disease Vered Wineman-Fisher, Daniel Nir Bloch, Yifat Miller Coordination Chemistry Reviews, doi:10.1016/j.ccr.2016.04.010 (2016)
Using cryo-EM to map small ligands on dynamic metabolic enzymes: Studies with glutamate dehydrogenase Mario J. Borgnia, Soojay Banerjee, Alan Merk, Doreen Matthies, Alberto Bartesaghi, Prashant Rao, Jason Pierson, Lesley A. Earl, Veronica Falconieri, Sriram Subramaniam, and Jacqueline L. S. Milne Molecular Pharmacology, doi: 10.1124/mol.116.103382 (2016)
Membrane-associated Ras dimers are isoform-specific: K-Ras dimers differ from H-Ras dimers Hyunbum Jang, Serena Muratcioglu, Attila Gursoy, Ozlem Keskin, Ruth Nussinov Biochemical J., DOI: 10.1042/BCJ20160031 (2016)

Plasmid-Based Materials as Multiplex Quality Controls and Calibrators for Clinical Next-Generation Sequencing Assays David J. Sims, Robin D. Harrington, Eric C. Polley, Thomas D. Forbes, Michele G. Mehaffey, Paul M. McGregor III, Corinne E. Camalier, Kneshay N. Harper, Courtney H. Bouk, Biswajit Das, Barbara A. Conley, James H. Doroshow, P. Mickey Williams, Chih-Jian Lih J. Molecular Diagnostics, doi:10.1016/j.jmoldx.2015.11.008 (2016)
Laminopathies disrupt epigenomic developmental programs and cell fate Perovanovic, J; Dell'Orso, S; Gnochi, VF et al. Sci Transl Med, DOI://10.1126/scitranslmed.aad4991 (2016)
Tracking brain arousal fluctuations with fMRI Chang, C; Leopold, DA; Schölvinck, ML et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1520613113 (2016)
The Ancient Evolutionary History of Polyomaviruses Buck, CB; Van Doorslaer, K; Peretti, A et al. PLoS Pathog., DOI://10.1371/journal.ppat.1005574 (2016)
An Integrated Genome-Wide Systems Genetics Screen for Breast Cancer Metastasis Susceptibility Genes Ling Bai, Howard H. Yang, Ying Hu, Anjali Shukla, Ngoc-Han Ha, Anthony Doran, Farhoud Faraji, Natalie Goldberger, Maxwell P. Lee, Thomas Keane, Kent W. Hunter PLoS Genetics, doi://10.1371/journal.pgen.1005989 (2016)
Biallelic BRCA2 Mutations Shape the Somatic Mutational Landscape of Aggressive Prostate Tumors Brennan Decker, Danielle M. Karyadi, Brian W. Davis, Eric Karlins, Lori S. Tillmans, Janet L. Stanford, Stephen N. Thibodeau, Elaine A. Ostrander Am. J. Hum. Genet. , doi:10.1016/j.ajhg.2016.03.003 (2016)

Characterization of influenza vaccine hemagglutinin complexes by cryo-electron microscopy and image analyses reveals structural polymorphisms Dustin M. McCraw, John R. Gallagher and Audray K. Harris Clin. Vaccine Immunol. , doi:10.1128/CVI.00085-16 (2016)
Adaptation of pancreatic islet cyto-architecture during development Deborah A Striegel, Manami Hara and Vipul Periwal Physical Biology, doi://10.1088/1478-3975/13/2/025004 (2016)
Low-frequency and common genetic variation in ischemic stroke R Malik, M Traylor et al. Neurology, doi://10.1212/WNL.0000000000002528 (2016)
Purine (N)-Methanocarba Nucleoside Derivatives Lacking an Exocyclic Amine as Selective A3 Adenosine Receptor Agonists Tosh, DK; Ciancetta, A; Warnick, E et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.5b01998 (2016)
Comparison of normalization and differential expression analyses using RNA-Seq data from 726 individual Drosophila melanogaster Lin Y, Golovnina K, Chen ZX, Lee HN, Negron YL, Sultana H, Oliver B, Harbison ST BMC Genomics, doi: 10.1186/s12864-015-2353-z (2016)
Novel Analogues of (R)-5-(Methylamino)-5,6-dihydro-4H-imidazo[4,5,1-ij]quinolin-2(1H)-one (Sumanirole) Provide Clues to Dopamine D2/D3 Receptor Agonist Selectivity Zou, MF; Keck, TM; Kumar, V et al. J. Med. Chem., DOI://10.1021/acs.jmedchem.5b01612 (2016)

Fatty Acid Oxidation is Impaired in An Orthologous Mouse Model of Autosomal Dominant Polycystic Kidney Disease Menezes LF, Lin CC, Zhou F, Germino GG EBioMedicine, 2352-3964 (2016)
Temperature-Dependent Conformational Properties of Human Neuronal Calcium Sensor-1 Protein Revealed by All-Atom Simulations Zhu Y, Ma B, Qi R, Nussinov R, Zhang Q J Phys Chem B, DOI://10.1021/acs.jpcb.5b12299 (2016)
Linear Discriminant Analysis Achieves High Classification Accuracy for the BOLD fMRI Response to Naturalistic Movie Stimuli Mandelkow, H; de Zwart, JA; Duyn, JH; Front Hum Neurosci, DOI://10.3389/fnhum.2016.00128 (2016)
Axial superresolution via multiangle TIRF microscopy with sequential imaging and photobleaching Yan Fu, Peter W. Winter, Raul Rojas, Victor Wang, Matthew McAuliffe, and George H. Patterson PNAS, doi: 10.1073/pnas.1516715113 (2016)
Repertoires of Spike Avalanches Are Modulated by Behavior and Novelty Tiago L. Ribeiro, Sidarta Ribeiro and Mauro Copelli Frontiers in Neural Circuits, doi:///10.3389/fncir.2016.00016 (2016)
Characterization of the platelet transcriptome by RNA sequencing in patients with acute myocardial infarction Eicher, JD; Wakabayashi, Y; Vitseva, O et al. Platelets, DOI://10.3109/09537104.2015.1083543 (2016)

Distinguishing highly similar gene isoforms with a clustering-based bioinformatics analysis of PacBio single-molecule long reads Liang, M; Raley, C; Zheng, X et al. BioData Min, DOI://10.1186/s13040-016-0090-8 (2016)
Structure and function of the AAA+ ATPase p97/Cdc48p Xia D, Tang WK, Ye Y Gene, DOI://10.1016/j.gene.2016.02.042 (2016)
Colitis susceptibility in p47(phox-/-) mice is mediated by the microbiome Falcone, EL; Abusleme, L; Swamydas, M et al. Microbiome, DOI://10.1186/s40168-016-0159-0 (2016)
MultiDimensional ClinOmics for Precision Therapy of Children and Adolescent Young Adults with Relapsed and Refractory Cancer: A Report from the Center for Cancer Research Wendy Chang, Andrew Brohl, Rajesh Patidar, Sivasish Sindiri, Jack F. Shern, Jun S. Wei, Young K. Song, Marielle E Yohe, Berkley E. Gryder, Shile Zhang, Kathleen A Calzone, Nityashree Shivaprasad, Xinyu Wen, Thomas Badgett, Markku Miettinen, Kip R Hartman, James C League-Pascual, Toby Trahair, Brigitte C. Widemann, Melinda S. Merchant, Rosandra N Kaplan, Jimmy C Lin, and Javed Khan Clinical Cancer Research, doi: 10.1158/1078-0432.CCR-15-2717 (2016)
Aberrant intrinsic functional connectivity within and between corticostriatal and temporal-parietal networks in adults and youth with bipolar disorder Stoddard, J; Gotts, SJ; Brotman, MA et al. Psychol Med, DOI://10.1017/S0033291716000143 (2016)
Cajal bodies are linked to genome conformation Qiuyan Wang, Iain A. Sawyer, Myong-Hee Sung, David Sturgill, Sergey P. Shevtsov, Gianluca Pegoraro, Ofir Hakim, Songjoon Baek, Gordon L. Hager & Miroslav Dundr Nature Communications, doi:10.1038/ncomms10966 (2016)

Cryo-electron Microscopy Structures of Chimeric Hemagglutinin Displayed on a Universal Influenza Vaccine Candidate Erin E. H. Tran, Kira A. Podolsky, Alberto Bartesaghi, Oleg Kuybeda, Giovanna Grandinetti, Teddy John Wohlbold, Gene S. Tan, Raffael Nachbagauer, Peter Palese, Florian Krammer, Sriram Subramaniam mBio, doi: 10.1128/mBio.00257-16 (2016)
Subtle in-scanner motion biases automated measurement of brain anatomy from in vivo MRI Aaron Alexander-Bloch, Liv Clasen, Michael Stockman, Lisa Ronan, Francois Lalonde, Jay Giedd and Armin Raznahan Human Brain Mapping, DOI: 10.1002/hbm.23180 (2016)
Detection of benign prostatic hyperplasia nodules in T2W MR images using fuzzy decision forest Nathan Lay ; Sabrina Freeman ; Baris Turkbey ; Ronald Summers SPIE Proceedings, doi:10.1117/12.2217906 (2016)
2.3 Å resolution cryo-EM structure of human p97 and mechanism of allosteric inhibition Soojay Banerjee, Alberto Bartesaghi, Alan Merk, Prashant Rao, Stacie L. Bulfer, Yongzhao Yan, Neal Green, Barbara Mroczkowski, R. Jeffrey Neitz, Peter Wipf, Veronica Falconieri, Raymond J. Deshaies, Jacqueline L. S. Milne, Donna Huryn, Michelle Arkin, Sriram Subramaniam Science, DOI: 10.1126/science.aad7974 (2016)
Design and synthesis of small molecule-sulfotyrosine mimetics that inhibit HIV-1 entry Dogo-Isonagie, C; Lee, SL; Lohith, K et al. Bioorg. Med. Chem., DOI://10.1016/j.bmc.2016.02.044 (2016)
Detection and Whole-Genome Sequencing of Carbapenemase-Producing Aeromonas hydrophila Isolates from Routine Perirectal Surveillance Culture Hughes, HY; Conlan, SP; Lau, AF et al. J. Clin. Microbiol., DOI://10.1128/JCM.03229-15 (2016)

Whole-Exome Sequencing Analyses of Inflammatory Bowel Disease-Associated Colorectal Cancers Robles, AI; Traverso, G; Zhang, M et al. Gastroenterology, DOI://10.1053/j.gastro.2015.12.036 (2016)
Emerging Functions of Natural IgM and Its Fc Receptor FCMR in Immune Homeostasis Wang, H; Coligan, JE; Morse, HC; Front Immunol, DOI://10.3389/fimmu.2016.00099 (2016)
A molecular threshold for effector CD8(+) T cell differentiation controlled by transcription factors Blimp-1 and T-bet Xin, A; Masson, F; Liao, Y et al. Nat. Immunol., DOI://10.1038/ni.3410 (2016)
caOmicsV: an R package for visualizing multidimensional cancer genomic data Zhang H, Meltzer PS, Davis SR BMC Bioinformatics, DOI://10.1186/s12859-016-0989-6 (2016)
Brain-Derived Neurotrophic Factor Val66Met Polymorphism Affects the Relationship Between an Anxiety-Related Personality Trait and Resting Regional Cerebral Blood Flow Wei, SM; Eisenberg, DP; Nabel, KG et al. Cereb. Cortex, DOI://10.1093/cercor/bhw072 (2016)
Redox-induced activation of the proton pump in the respiratory complex I Vivek Sharma, Galina Belevich, Ana P. Gamiz-Hernandez, Tomasz Ròg, Ilpo Vattulainen, Marina L. Verkhovskaya Mårten Wikström, Gerhard Hummer, and Ville R. I. Kaila PNAS, doi://10.1073/pnas.1503761112 (2016)

NMDA Receptors Multiplicatively Scale Visual Signals and Enhance Directional Motion Discrimination in Retinal Ganglion Cells Poleg-Polsky A, Diamond JS Neuron, DOI://10.1016/j.neuron.2016.02.013 (2016)
MEGSA: A Powerful and Flexible Framework for Analyzing Mutual Exclusivity of Tumor Mutations Xing Hua, Paula L. Hyland, Jing Huang, Lei Song, Bin Zhu, Neil E. Caporaso, Maria Teresa Landi, Nilanjan Chatterjee, and Jianxin Shi Am J. Hum. Genet. , doi://10.1016/j.ajhg.2015.12.021 (2016)
Characterizing the Covalent Targets of a Small Molecule Inhibitor of the Lysine Acetyltransferase P300 Shrimp JH, Sorum AW, Garlick JM, Guasch L, Nicklaus MC, Meier JL ACS Med Chem Lett, DOI://10.1021/acsmedchemlett.5b00385 (2016)
Plasticity of Sensorimotor Networks: Multiple Overlapping Mechanisms Buch, ER; Liew, SL; Cohen, LG; Neuroscientist, DOI://10.1177/1073858416638641 (2016)
Critical Nucleus Structure and Aggregation Mechanism of the C-terminal Fragment of Copper-Zinc Superoxide Dismutase Protein Zou Y, Sun Y, Zhu Y, Ma B, Nussinov R, Zhang Q ACS Chem Neurosci, DOI://10.1021/acschemneuro.5b00242 (2016)
Seeking Optimal Region-Of-Interest (ROI) Single-Value Summary Measures for fMRI Studies in Imaging Genetics Tong, Y; Chen, Q; Nichols, TE et al. PLoS ONE, DOI://10.1371/journal.pone.0151391 (2016)

Microscopic interpretation of folding φ-values using the transition path ensemble Robert B. Best and Gerhard Hummer PNAS, doi: 10.1073/pnas.1520864113 (2016)
Structural insights of a PI3K/mTOR dual inhibitor with the morpholino-triazine scaffold Takako Takeda, Yanli Wang , Stephen H. Bryant J. Computer-Aided Molecular Design, doi://10.1007/s10822-016-9905-4 (2016)
Modulation of Folding Internal Friction by Local and Global Barrier Heights Wenwei Zheng, David de Sancho, and Robert B. Best J. Phys. Chem. Letters, DOI: 10.1021/acs.jpclett.6b00329 (2016)
The ISW1 and CHD1 ATP-dependent chromatin remodelers compete to set nucleosome spacing in vivo Josefina Ocampo, Razvan V. Chereji, Peter R. Eriksson and David J. Clark Nucleic Acids Research, doi://10.1093/nar/gkw068 (2016)
Biointeractions of ultrasmall glutathione-coated gold nanoparticles: effect of small size variations Alioscka A. Sousa, Sergio A. Hassan, Luiza L. Knittel, Andrea Balbo, Maria A. Aronova, Patrick H. Brown, Peter Schuck and Richard D. Leapman Nanoscale, DOI: 10.1039/C5NR07642K (2016)
The ubiquitin ligase Ubr4 controls stability of podocin/MEC-2 supercomplexes Rinschen, MM; Bharill, P; Wu, X et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddw016 (2016)

Mucolipidosis types II and III and non-syndromic stuttering are associated with different variants in the same genes Raza, MH; Domingues, CE; Webster, R et al. Eur. J. Hum. Genet., DOI://10.1038/ejhg.2015.154 (2016)
The Use of Minimal RNA Toeholds to Trigger the Activation of Multiple Functionalities Afonin, KA; Viard, M; Tedbury, P et al. Nano Lett., DOI://10.1021/acs.nanolett.5b04676 (2016)
Deep Convolutional Neural Networks for Computer-Aided Detection: CNN Architectures, Dataset Characteristics and Transfer Learning Hoo-Chang Shin Holger R. Roth ; Mingchen Gao ; Le Lu ; Ziyue Xu ; Isabella Nogues ; Jianhua Yao ; Daniel Mollura ; Ronald M. Summers IEEE Transactions on Medical Imaging, DOI://10.1109/TMI.2016.2528162 (2016)
Preterm birth and air pollution: Critical windows of exposure for women with asthma Pauline Mendola, Maeve Wallace, Beom Seuk Hwang, Danping Liu, Candace Robledo, Tuija Mӓnnistö, Rajeshwari Sundaram, Seth Sherman, Qi Ying, Katherine L. Grantz J. Allergy Clin. Immunology, doi:10.1016/j.jaci.2015.12.1309 (2016)
Necdin is a breast cancer metastasis suppressor that regulates the transcription of c-Myc Minnkyong Lee, Sarah M. Beggs, Derek Gildea, Sujata Bupp, Jens Lichtenberg, Niraj S. Trivedi, NISC Comparative Sequencing Program, Ying Hu, David M. Bodine, and Nigel P.S. Crawford1 Oncotarget, doi: 10.18632/oncotarget.5230 (2016)
Genome-wide footprinting: ready for prime time? Myong-Hee Sung, Songjoon Baek & Gordon L Hager Nature Methods, doi:10.1038/nmeth.3766 (2016)

A Comparison of Methods to Reweight from Classical Molecular Simulations to QM/MM Potentials Eric Christopher Dybeck, Gerhard König, Bernard R. Brooks, and Michael R. Shirts J. Chem. Theory. Comput, DOI: 10.1021/acs.jctc.5b01188 (2016)
Multistrand Structure Prediction of Nucleic Acid Assemblies and Design of RNA Switches Eckart Bindewald, Kirill A. Afonin, Mathias Viard, Paul Zakrevsky, Taejin Kim, and Bruce A. Shapiro Nano Letters, DOI: 10.1021/acs.nanolett.5b04651 (2016)
Understanding the Mechanism of the Hydrogen Abstraction from Arachidonic Acid Catalyzed by the Human Enzyme 15-Lipoxygenase-2. A Quantum Mechanics/Molecular Mechanics Free Energy Simulation Reynier Suardiaz, Pablo Garcia Jambrina, Laura Masgrau, Ángels Gonzàlez-Lafont, Edina Rosta, and Josè M. Lluch J. Chem. Theory. Comput, DOI: 10.1021/acs.jctc.5b01236 (2016)
Impact of time-of-day on brain morphometric measures derived from T₁-weighted magnetic resonance imaging Aaron Trefler, Neda Sadeghi, Adam G. Thomas, Carlo Pierpaoli, Chris I. Baker, Cibu Thomas Neuroimage, doi:10.1016/j.neuroimage.2016.02.034 (2016)
Enhancer of Rudimentary Cooperates with Conserved RNA-Processing Factors to Promote Meiotic mRNA Decay and Facultative Heterochromatin Assembly Sugiyama, T; Thillainadesan, G; Chalamcharla, VR et al. Mol. Cell, DOI://10.1016/j.molcel.2016.01.029 (2016)
Deubiquitylation of protein cargo is not an essential step in exosome formation Alyssa R. Huebner, Lei Cheng, Poorichaya Somparn, Mark A. Knepper, Robert A. Fenton and Trairak Pisitkun Molecular and Cellular Proteomics, doi: 10.1074/mcp.M115.054965 (2016)

A Helitron transposon reconstructed from bats reveals a novel mechanism of genome shuffling in eukaryotes Grabundzija, I; Messing, SA; Thomas, J et al. Nat Commun, DOI://10.1038/ncomms10716 (2016)
A genome landscape of SRSF3-regulated splicing events and gene expression in human osteosarcoma U2OS cells Ajiro M, Jia R, Yang Y, Zhu J, Zheng ZM Nucleic Acids Res., DOI://10.1093/nar/gkv1500 (2016)
Prospective identification of neoantigen-specific lymphocytes in the peripheral blood of melanoma patients Alena Gros, Maria R Parkhurst, Eric Tran, Anna Pasetto, Paul F Robbins, Sadia Ilyas, Todd D Prickett, Jared J Gartner, Jessica S Crystal, Ilana M Roberts, Kasia Trebska-McGowan, John R Wunderlich, James C Yang & Steven A Rosenberg Nature Medicine, doi:10.1038/nm.4051 (2016)
Genome analysis of three Pneumocystis species reveals adaptation mechanisms to life exclusively in mammalian hosts Liang Ma, Zehua Chen, Da Wei Huang et. al. Nature Communications, doi:10.1038/ncomms10740 (2016)
Gene-Based Association Analysis for Censored Traits Via Fixed Effect Functional Regressions. Fan R, Wang Y, Yan Q, Ding Y, Weeks DE, Lu Z, Ren H, Cook RJ, Xiong M, Swaroop A, Chew EY, Chen W Genet Epidemiol. , doi: 10.1002/gepi.21947 (2016)
Finite sample pointwise confidence intervals for a survival distribution with right-censored data Michael P. Fay and Erica H. Brittain Statistics in Medicine, DOI: 10.1002/sim.6905 (2016)

Genetic influences on schizophrenia and subcortical brain volumes: large-scale proof of concept Franke, B; Stein, JL; Ripke, S et al. Nat. Neurosci., DOI://10.1038/nn.4228 (2016)
High-throughput single-molecule screen for small-molecule perturbation of splicing and transcription kinetics Day CR, Chen H, Coulon A, Meier JL, Larson DR, Methods, DOI://10.1016/j.ymeth.2015.11.025 (2016)
Resolving the Complexity of Human Skin Metagenomes Using Single-Molecule Sequencing Yu-Chih Tsai, Sean Conlan, Clayton Deming, NISC Comparative Sequencing Program, Julia A. Segre, Heidi H. Kong Jonas Korlach, and Julia Oh mBio, doi: 10.1128/mBio.01948-15 (2016)
Recessive mutations of TMC1 associated with moderate to severe hearing loss Ayesha Imtiaz , Azra Maqsood , Atteeq U. Rehman, Robert J. Morell, Jeffrey R. Holt, Thomas B. Friedman, Sadaf Naz Neurogenetics, DOI 10.1007/s10048-016-0477-1 (2016)
Light-regulated Molecular Trafficking in a Synthetic Water-soluble Host Jesús del Barrio, Sean T. J. Ryan, Pablo G. Jambrina, Edina Rosta, and Oren A Scherman JACS, DOI: 10.1021/jacs.5b11642 (2016)
Cryo-EM Structures of the Magnesium Channel CorA Reveal Symmetry Break upon Gating Doreen Matthies, Olivier Dalmas, Mario J. Borgnia, Pawel K. Dominik, Alan Merk, Prashant Rao, Bharat G. Reddy, Shahidul Islam, Alberto Bartesaghi, Eduardo Perozo, Sriram Subramaniam Cell, doi:10.1016/j.cell.2015.12.055 (2016)

Structural insights into the mechanism of activation of the TRPV1 channel by a membrane-bound tarantula toxin Chanhyung Bae, Claudio Anselmi, Jeet Kalia, Andres Jara-Oseguera, Charles D Schwieters, Dmitriy Krepkiy ,Chul Won Lee, Eun-Hee Kim, Jae Il Kim, Josè D Faraldo-Gòmez and Kenton J Swartz eLife, DOI: http://dx.doi.org/10.7554/eLife.11273 (2016)
Self-aggregation and coaggregation of the p53 core fragment with its aggregation gatekeeper variant Jiangtao Lei , Ruxi Qi , Guanghong Wei , Ruth Nussinov and Buyong Ma Phys. Chem. Chem. Phys., DOI: 10.1039/C5CP06538K (2016)
Cutting Edge: Expression of IRF8 in Gastric Epithelial Cells Confers Protective Innate Immunity against Helicobacter pylori Infection Yan, M; Wang, H; Sun, J et al. J. Immunol., DOI://10.4049/jimmunol.1500766 (2016)
Genome-Wide Chromatin Landscape Transitions Identify Novel Pathways in Early Commitment to Osteoblast Differentiation Thompson B, Varticovski L, Baek S, Hager GL PLoS ONE, DOI://10.1371/journal.pone.0148619 (2016)
Drug repurposing to target Ebola virus replication and virulence using structural systems pharmacology Zhao Z, Martin C, Fan R, Bourne PE, Xie L BMC Bioinformatics, DOI://10.1186/s12859-016-0941-9 (2016)
Vibratory Urticaria Associated with a Missense Variant in ADGRE2 Boyden, SE; Desai, A; Cruse, G et al. N. Engl. J. Med., DOI://10.1056/NEJMoa1500611 (2016)

Identifying subgroups of enhanced predictive accuracy from longitudinal biomarker data by using tree-based approaches: applications to fetal growth Jared C. Foster, Danping Liu, Paul S. Albert and Aiyi Liu Journal of the Royal Statistical Society: Series A (Statisti, 10.1111/rssa.12182 (2016)
How Does Hyperphopsphorylation Promote Tau Aggregation and Modulate Filament Structure and Stability? Liang Xu, Jie Zheng, Martin Margittai, Ruth Nussinov, and Buyong Ma ACS Chemical Neuroscience, 10.1021/acschemneuro.5b00294 (2016)
In vivo tissue has non-linear rheological behavior distinct from 3D biomimetic hydrogels, as determined by AMOTIV microscopy Blehm BH, Devine A, Staunton JR, Tanner K Biomaterials, DOI://10.1016/j.biomaterials.2015.12.019 (2016)
Meta-analysis of Genome-Wide Association Studies for Extraversion: Findings from the Genetics of Personality Consortium van den Berg, SM; de Moor, MH; Verweij, KJ et al. Behav. Genet., DOI://10.1007/s10519-015-9735-5 (2016)
Draft Genome Sequence of a Klebsiella pneumoniae Carbapenemase-Positive Sequence Type 111 Pseudomonas aeruginosa Strain Dotson GA, , Dekker JP, Palmore TN, Segre JA, Conlan S Genome Announc, DOI://10.1128/genomeA.01663-15 (2016)
The Histone Variant MacroH2A1.2 Is Necessary for the Activation of Muscle Enhancers and Recruitment of the Transcription Factor Pbx1 Dell'Orso, S; Wang, AH; Shih, HY et al. Cell Rep, 2211-1247 (2016)

Re-engineering the zinc fingers of PRDM9 reverses hybrid sterility in mice Davies, B; Hatton, E; Altemose, N et al. Nature, DOI://10.1038/nature16931 (2016)
r2VIM: A new variable selection method for random forests in genome-wide association studies Silke Szymczak, Emily Holzinger, Abhijit Dasgupta, James D. Malley, Anne M. Molloy, James L. Mills, Lawrence C. Brody, Dwight Stambolian and Joan E. Bailey-Wilson BioData Mining, 10.1186/s13040-016-0087-3 (2016)
Identification of Microorganisms by High Resolution Tandem Mass Spectrometry with Accurate Statistical Significance Gelio Alves, Guanghui Wang, Aleksey Y. Ogurtsov, Steven K. Drake, Marjan Gucek, Anthony F. Suffredini, David B. Sacks, Yi-Kuo Yu J Am Soc Mass Spectrom 27:194-210, 10.1007/s13361-015-1271-2 (2016)
CircInteractome: A web tool for exploring circular RNAs and their interacting proteins and microRNAs Dudekula, DB; Panda, AC; Grammatikakis, I; De, S; Abdelmohsen, K; Gorospe, M; RNA Biol, DOI://10.1080/15476286.2015.1128065 (2016)
Somatic mutational landscape of AML with inv(16) or t(8;21) identifies patterns of clonal evolution in relapse leukemia Sood, R; Hansen, NF; Donovan, FX et al. Leukemia, DOI://10.1038/leu.2015.141 (2016)
Genetic associations at 53 loci highlight cell types and biological pathways relevant for kidney function Pattaro, C; Teumer, A; Gorski, M et al. Nat Commun, DOI://10.1038/ncomms10023 (2016)

Interaction of methylation-related genetic variants with circulating fatty acids on plasma lipids: a meta-analysis of 7 studies and methylation analysis of 3 studies in the Cohorts for Heart and Aging Research in Genomic Epidemiology consortium Ma, Y; Follis, JL; Smith, CE et al. Am. J. Clin. Nutr., DOI://10.3945/ajcn.115.112987 (2016)
New loci for body fat percentage reveal link between adiposity and cardiometabolic disease risk Lu, Y; Day, FR; Gustafsson, S et al. Nat Commun, DOI://10.1038/ncomms10495 (2016)
Is the MC1R variant p. R160W associated with Parkinson's? Lubbe, SJ; Escott-Price, V; Brice, A et al. Ann. Neurol., DOI://10.1002/ana.24527 (2016)
Genome-wide meta-analysis uncovers novel loci influencing circulating leptin levels Kilpeläinen, TO; Carli, JF; Skowronski, AA et al. Nat Commun, DOI://10.1038/ncomms10494 (2016)
Comparison of the Conformations of KRAS Isoforms, K-Ras4A and K-Ras4B, Points to Similarities and Significant Differences Mayukh Chakrabarti, Hyunbum Jang, and Ruth Nussinov J. Phys. Chem. B, DOI: 10.1021/acs.jpcb.5b11110 (2016)
Risk of End-stage Renal Disease in Patients with Lupus Nephritis, 1970 to 2015 A systematic review and Bayesian meta-analysis Maria G. Tektonidou, Abhijit Dasgupta and Michael M. Ward Arthritis and Rheumatology, DOI: 10.1002/art.39594 (2016)

Coupling of the Non-Amyloid-Component (NAC) Domain and the KTK(E/Q)GV Repeats Stabilize the α-Synuclein Fibrils Liang Xu, Ruth Nussinov, Buyong Ma Eur. J. Med. Chem. , doi:10.1016/j.ejmech.2016.01.044 (2016)
Novel nucleosomal particles containing core histones and linker DNA but no histone H1 Cole, HA; Cui, F; Ocampo, J et al. Nucleic Acids Res., DOI://10.1093/nar/gkv943 (2016)
Role of the D1-D2 Linker of Human VCP/p97 in the Asymmetry and ATPase Activity of the D1-domain Tang WK, Xia D Sci Rep, DOI://10.1038/srep20037 (2016)
Epigenetic regulation of hematopoiesis by DNA methylation Gore, AV; Athans, B; Iben, JR et al. Elife, DOI://10.7554/eLife.11813 (2016)
The TRAIL receptor agonist drozitumab targets basal B triple-negative breast cancer cells that express vimentin and Axl Dine, JL; O'Sullivan, CC; Voeller, D et al. Breast Cancer Res. Treat., DOI://10.1007/s10549-015-3673-z (2016)
Post-transcriptional Control of Tumor Cell Autonomous Metastatic Potential by CCR4-NOT Deadenylase CNOT7 Faraji, F; Hu, Y; Yang, HH et al. PLoS Genet., DOI://10.1371/journal.pgen.1005820 (2016)

Genetic variants associated with response to lithium treatment in bipolar disorder: a genome-wide association study Liping Hou, Urs Heilbronner et al. Lancet, doi:10.1016/S0140-6736(16)00143-4 (2016)
Autosomal-Recessive Hearing Impairment due to Rare Missense Variants within S1PR2 Regie Lyn P. Santos-Cortez, Rabia Faridi, Atteeq U. Rehman et al. American Journal of Human Genetics, doi://10.1016/j.ajhg.2015.12.004 (2016)
Nanopore Sequencing as a Rapidly Deployable Ebola Outbreak Tool Thomas Hoenen, Allison Groseth, Kyle Rosenke et al. Emerging Infectious Diseases, doi: 10.3201/eid2202.151796. (2016)
Group 3 innate lymphoid cells continuously require the transcription factor GATA-3 after commitment Zhong, C; Cui, K; Wilhelm, C et al. Nat. Immunol., DOI://10.1038/ni.3318 (2016)
Mitochondrial Membrane Potential Identifies Cells with Enhanced Stemness for Cellular Therapy Sukumar, M; Liu, J; Mehta, GU et al. Cell Metab., DOI://10.1016/j.cmet.2015.11.002 (2016)
Reliability of 7T (1) H-MRS measured human prefrontal cortex glutamate, glutamine, and glutathione signals using an adapted echo time optimized PRESS sequence: A between- and within-sessions investigation Lally, N; An, L; Banerjee, D et al. J Magn Reson Imaging, DOI://10.1002/jmri.24970 (2016)

A meta-analysis of 120 246 individuals identifies 18 new loci for fibrinogen concentration de Vries, PS; Chasman, DI; Sabater-Lleal, M et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddv454 (2016)
PubChem Substance and Compound databases Kim, S; Thiessen, PA; Bolton, EE et al. Nucleic Acids Res., DOI://10.1093/nar/gkv951 (2016)
Local admixture of amplified and diversified secreted pathogenesis determinants shapes mosaic Toxoplasma gondii genomes Lorenzi, H; Khan, A; Behnke, MS et al. Nat Commun, DOI://10.1038/ncomms10147 (2016)
SBR-Blood: systems biology repository for hematopoietic cells Lichtenberg, J; Heuston, EF; Mishra, T; Keller, CA; Hardison, RC; Bodine, DM; Nucleic Acids Res., DOI://10.1093/nar/gkv1263 (2016)
GABBR1 and SLC6A1, Two Genes Involved in Modulation of GABA Synaptic Transmission, Influence Risk for Alcoholism: Results from Three Ethnically Diverse Populations Enoch, MA; Hodgkinson, CA; Shen, PH et al. Alcohol. Clin. Exp. Res., DOI://10.1111/acer.12929 (2016)
SDHB-Deficient Cancers: The Role of Mutations That Impair Iron Sulfur Cluster Delivery Saxena, N; Maio, N; Crooks, DR et al. J. Natl. Cancer Inst., DOI://10.1093/jnci/djv287 (2016)

Evolutionary Dynamics of Influenza A Viruses in US Exhibition Swine Nelson, MI; Wentworth, DE; Das, SR et al. J. Infect. Dis., DOI://10.1093/infdis/jiv399 (2016)

2015 (317 papers)

Virology. Mutation rate and genotype variation of Ebola virus from Mali case sequences Hoenen, T; Safronetz, D; Groseth, A et al. Science, DOI://10.1126/science.aaa5646 (2015)
RNA sequencing of the nephron transcriptome: a technical note Lee, JW Kidney Res Clin Pract, DOI://10.1016/j.krcp.2015.08.008 (2015)
miR-501-3p mediates the activity-dependent regulation of the expression of AMPA receptor subunit GluA1 Hu, Z; Zhao, J; Hu, T; Luo, Y; Zhu, J; Li, Z; J. Cell Biol., DOI://10.1083/jcb.201404092 (2015)
Bayesian dose-response analysis for epidemiological studies with complex uncertainty in dose estimation Deukwoo Kwon, F. Owen Hoffman, Brian E. Moroz, Steven L. Simon Statistics in Medicine, DOI: 10.1002/sim.6635 (2015)
Augmented trial designs for evaluation of principal surrogates Erin E. Gabriel and Dean Follmann Biostatistics, 10.1093/biostatistics/kxv055 (2015)

Dimerization of the SP1 Region of HIV-1 Gag Induces a Helical Conformation and Association into Helical Bundles: Implications for Particle Assembly Datta, SA; Clark, PK; Fan, L et al. J. Virol., DOI://10.1128/JVI.02061-15 (2015)
Multivariate classification of smokers and nonsmokers using SVM-RFE on structural MRI images Ding X, Yang Y, Stein EA, Ross TJ Hum Brain Mapp, DOI://10.1002/hbm.22956 (2015)
The higher level of complexity of K-Ras4B activation at the membrane Hyunbum Jang, Avik Banerjee, Tanmay S. Chavan, Shaoyong Lu, Jian Zhang, Vadim Gaponenko and Ruth Nussinov FASEB J. , doi: 10.1096/fj.15-279091 (2015)
Mixed group of Rhizobiales microbes in lung and blood of a patient with fatal pulmonary illness Shyh-Ching Lo, Guo-Chiuan Hung, Bing jie Li, Haiyan Lei, Tianwei Li, Kenjiro Nagamine, Shien Tsai, Mark J Zucker, Ludmilla Olesnicky Int J Clin Exp Patho, 8(11), 13834-13852. (2015)
Meta-analysis of Complex Diseases at Gene Level by Generalized Functional Linear Models Ruzong Fan, Yifan Wang, Chi-yang Chiu, Wei Chen, Haobo Ren, Yun Li, Michael Boehnke, Christopher I. Amos, Jason H. Moore, Momiao Xiong Genetics, DOI: 10.1534/genetics.115.180869 (2015)
TET-catalyzed oxidation of intragenic 5-methylcytosine regulates CTCF-dependent alternative splicing Ryan J Marina, David Sturgill, Marc A Bailly, Morgan Thenoz, Garima Varma, Maria F Prigge, Kyster K Nanan, Sanjeev Shukla, Nazmul Haque, Shalini Oberdoerffer EMBO J., DOI 10.15252/embj.201593235 (2015)

RNA Polymerase III Output Is Functionally Linked to tRNA Dimethyl-G26 Modification Arimbasseri, AG; Blewett, NH; Iben, JR et al. PLoS Genet., DOI://10.1371/journal.pgen.1005671 (2015)
Structures of HIV-1 Env V1V2 with broadly neutralizing antibodies reveal commonalities that enable vaccine design Jason Gorman, Cinque Soto, Max M Yang, et al. Nature Structural and Molecular Biology, doi:10.1038/nsmb.3144 (2015)
ADAR2 affects mRNA coding sequence edits with only modest effects on gene expression or splicing in vivo Allissa A. Dillman, Mark R. Cookson & Dagmar Galter RNA Biology, DOI://10.1080/15476286.2015.1110675 (2015)
Controlled DNA double-strand break induction in mice reveals post-damage transcriptome stability Jeongkyu Kim, David Sturgill, Andy D. Tran, David A. Sinclair and Philipp Oberdoerffer Nucleic Acids Research, doi: 10.1093/nar/gkv1482 (2015)
Distributed acoustic cues for caller identity in macaque vocalization Makoto Fukushima, Alex M. Doyle, Matthew P. Mullarkey, Mortimer Mishkin, Bruno B. Averbeck Royal Society Open Science, DOI: 10.1098/rsos.150432 (2015)
Socioeconomic disadvantage and neural development from infancy through early childhood Chin-Lun Hung, G; Hahn, J; Alamiri, B et al. Int J Epidemiol, DOI://10.1093/ije/dyv303 (2015)

Directed and persistent movement arises from mechanochemistry of the ParA/ParB system Hu L, Vecchiarelli AG, Mizuuchi K, Neuman KC, Liu J Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1505147112 (2015)
Assessment of established HDL-C loci for association with HDL-C levels and type 2 diabetes in Pima Indians Anup K. Nair, Paolo Piaggi, Nellie A. McLean, Manmeet Kaur, Sayuko Kobes, William C. Knowler, Clifton Bogardus, Robert L. Hanson, Leslie J. Baier Diabetologia, doi://10.1007/s00125-015-3835-x (2015)
Genome-wide association study identifies African-ancestry specific variants for metabolic syndrome Tekola-Ayele, F; Doumatey, AP; Shriner, D et al. Mol. Genet. Metab., DOI://10.1016/j.ymgme.2015.10.008 (2015)
Evolutionary context for the association of γ-globin, serum uric acid, and hypertension in African Americans Shriner, D; Kumkhaek, C; Doumatey, AP et al. BMC Med. Genet., DOI://10.1186/s12881-015-0249-z (2015)
High-Affinity Interaction of the K-Ras4B Hypervariable Region with the Ras Active Site Tanmay S. Chavan, Hyunbum Jang, Lyuba Khavrutskii, Sherwin J. Abraham, Avik Banerjee, Benjamin C. Freed, Liv Johannessen, Sergey G. Tarasov, Vadim Gaponenko, Ruth Nussinov4, Nadya I. Tarasova Biophys. J. , doi:10.1016/j.bpj.2015.09.034 (2015)
Coupling between histone conformations and DNA geometry in nucleosomes on a microsecond timescale: atomistic insights into nucleosome functions Alexey K. Shaytan, Grigoriy A. Armeev, Alexander Goncearenco, Victor B. Zhurkin, David Landsman, Anna R. Panchenko J. Mol. Biol., doi:10.1016/j.jmb.2015.12.004 (2015)

Drug-Protein Hydrogen Bonds Govern the Inhibition of the ATP Hydrolysis of the Multidrug Transporter P-glycoprotein Eduardo E. Chufan, Khyati Kapoor, Suresh V. Ambudkar Biochemical Pharmacology, doi:10.1016/j.bcp.2015.12.007 (2015)
MYCN controls an alternative RNA splicing program in high-risk metastatic neuroblastoma Shile Zhang, Jun S. Wei1 , Samuel Q. Li , Tom C. Badgett , Young K. Song , Saurabh Agarwal , Cristian Coarfa , Catherine Tolman , Laura Hurd , Hongling Liao , Jianbin He , Xinyu Wen , Zhihui Liu , Carol J. Thiele , Frank Westermann , Shahab Asgharzadeh , Robert C. Seeger , John M. Maris , Jamie M. Guidry Auvil , Malcolm A. Smith , Eric D. Kolaczyk , Jason Shohet , Javed Khan Cancer Letters, doi://10.1016/j.canlet.2015.11.045 (2015)
Multi-modal characterization of rapid anterior hippocampal volume increase associated with aerobic exercise Adam G. Thomas, Andrea Dennis, Nancy B. Rawlings, Charlotte J. Stagg, Lucy Matthews, Martyn Morris, Shannon H. Kolind, Sean Foxley, Mark Jenkinson, Thomas E. Nichols, Helen Dawes, Peter A. Bandettini, Heidi Johansen-Berg NeuroImage, doi:10.1016/j.neuroimage.2015.10.090 (2015)
Allosteric stabilization of the amyloid-β peptide hairpin by the fluctuating N-terminal Liang Xu , Ruth Nussinov and Buyong Ma Chem. Commun., DOI: 10.1039/C5CC08107F (2015)
Intrinsic excitability measures track antiepileptic drug action and uncover increasing/decreasing excitability over the wake/sleep cycle Christian Meisel, Andreas Schulze-Bonhage, Dean Freestone, Mark James Cook, Peter Achermann, Dietmar Plenz PNAS, doi: 10.1073/pnas.1513716112 (2015)
Transcriptional and Chromatin Regulation during Fasting - The Genomic Era Goldstein I, Hager GL Trends Endocrinol. Metab., DOI://10.1016/j.tem.2015.09.005 (2015)

Evaluation of Genome Wide Association Study Associated Type 2 Diabetes Susceptibility Loci in Sub Saharan Africans Adeyemo, AA; Tekola-Ayele, F; Doumatey, AP et al. Front Genet, DOI://10.3389/fgene.2015.00335 (2015)
Genome Sequence of the Banana Plant Growth-Promoting Rhizobacterium Bacillus amyloliquefaciens BS006 Rocío M. Gamez, Fernando Rodríguez, Johan F. Bernal, Richa Agarwala, David Landsman, Leonardo Mariño-Ramírez Genome Announc., doi: 10.1128/genomeA.01391-15 (2015)
HIV Therapeutics and Methods of Making and Using Same Paolo Lusso and Raffaelo Cimbro Patent, United States Patent Application 20150313990 (2015)
NCICT: a computational solution to estimate organ doses for pediatric and adult patients undergoing CT scans Choonsik Lee, Kwang Pyo Kim, Wesley E Bolch, Brian E Moroz and Les Folio J. Radiological Protection, doi:10.1088/0952-4746/35/4/891 (2015)
Reduction of All-Atom Protein Folding Dynamics to One-Dimensional Diffusion Wenwei Zheng and Robert B. Best J. Phys. Chem. , DOI: 10.1021/acs.jpcb.5b09741 (2015)
Transient misfolding dominates multidomain protein folding Alessandro Borgia, Katherine R. Kemplen, Madeleine B. Borgia, Andrea Soranno, Sarah Shammas, Bengt Wunderlich, Daniel Nettels, Robert B. Best, Jane Clarke & Benjamin Schuler Nature Communications, doi:10.1038/ncomms9861 (2015)

Replicate exome-sequencing in a multiple-generation family: improved interpretation of next-generation sequencing data Praveen F. Cherukuri, Valerie Maduro, Karin V. Fuentes-Fajardo, Kevin Lam, David R. Adams, Cynthia J. Tifft, James C. Mullikin, William A. Gahl, Cornelius F. Boerkoel and NISC Comparative Sequencing Program BMC Genomics, doi:10.1186/s12864-015-2107-y (2015)
HLA-DRB1*11 and variants of the MHC class II locus are strong risk factors for systemic juvenile idiopathic arthritis Michael J. Ombrello, Elaine F. Remmers, Ioanna Tachmazidou et al and the International Childhood Arthritis Genetics (INCHARGE) Consortium PNAS, doi: 10.1073/pnas.1520779112 (2015)
Estimation of interaction effects using pooled biospecimens in a case-control study Michelle R. Danaher, Paul S. Albert, Aninyda Roy and Enrique F. Schisterman Statistics in Medicine, DOI: 10.1002/sim.6798 (2015)
Epstein-Barr virus from Burkitt Lymphoma biopsies from Africa and South America share novel LMP-1 promoter and gene variations Lei H, Li T, Li B, Tsai S, Biggar RJ, Nkrumah F, Neequaye J, Gutierrez M, Epelman S, Mbulaiteye SM, Bhatia K, Lo SC Sci Rep., doi: 10.1038/srep16706 (2015)
A 3D Searchable Database of Transgenic Zebrafish Gal4 and Cre Lines for Functional Neuroanatomy Studies Gregory D. Marquart, Kathryn M. Tabor, Mary Brown, Jennifer L. Strykowski, Gaurav K. Varshney, Matthew C. LaFave, Thomas Mueller, Shawn M. Burgess, Shin-ichi Higashijima and Harold A. Burgess Frontiers in Neural Circuits, doi://10.3389/fncir.2015.00078 (2015)
GTP Binding and Oncogenic Mutations May Attenuate Hypervariable Region (HVR)-Catalytic Domain Interactions in Small GTPase K-Ras4B, Exposing the Effector Binding Site Lu S, Banerjee A, Jang H, Zhang J, Gaponenko V, Nussinov R J. Biol. Chem., DOI://10.1074/jbc.M115.664755 (2015)

A Novel MHC-I Surface Targeted for Binding by the MCMV m06 Immunoevasin Revealed by Solution NMR Sgourakis NG, May NA, Boyd LF, Ying J, Bax A, Margulies DH J. Biol. Chem., DOI://10.1074/jbc.M115.689661 (2015)
Epidermal devices for noninvasive, precise, and continuous mapping of macrovascular and microvascular blood flow Webb, RC; Ma, Y; Krishnan, S et al. Sci Adv, DOI://10.1126/sciadv.1500701 (2015)
Clinical feasibility of using mean apparent propagator (MAP) MRI to characterize brain tissue microstructure Alexandru V. Avram, Joelle E. Sarlls, Alan S. Barnett, Evren Özarslan, Cibu Thomas, M. Okan Irfanoglu, Elizabeth Hutchinson, Carlo Pierpaoli, Peter J. Basser NeuroImage, doi:10.1016/j.neuroimage.2015.11.027 (2015)
Aurora B kinase is a potent and selective target in MYCN-driven neuroblastoma Bogen, D; Wei, JS; Azorsa, DO et al. Oncotarget, DOI://10.18632/oncotarget.6208 (2015)
Phenotypic variance explained by local ancestry in admixed African Americans Shriner, D; Bentley, AR; Doumatey, AP et al. Front Genet, DOI://10.3389/fgene.2015.00324 (2015)
Selectivity in the Use of Gi/o Proteins Is Determined by the DRF Motif in CXCR6 and Is Cell-Type Specific Satya P. Singh, John F. Foley, Hongwei H. Zhang, Darrell E. Hurt, Jennifer L. Richards, Craig S. Smith, Fang Liao, and Joshua M. Farber Molecular Pharmacology, doi: 10.1124/mol.115.099960 (2015)

The Structural Basis of Actin Organization by Vinculin and Metavinculin Laura Y. Kim, Peter M. Thompson, Hyunna T. Lee, Mihir Pershad, Sharon L. Campbell, Gregory M. Alushin J. Mol. Biol. , doi:10.1016/j.jmb.2015.09.031 (2015)
Analysis of SLC16A11 variants in 12,811 American Indians: genotype-obesity interaction for type 2 diabetes and an association with RNASEK expression Michael Traurig, Robert L. Hanson, Alejandra Marinelarena, Sayuko Kobes, Paolo Piaggi, Shelley Cole, Joanne E. Curran, John Blangero, Harald Göring, Satish Kumar, Robert G. Nelson, Barbara V. Howard, William C. Knowler, Leslie J. Baier and Clifton Bogardus Diabetes, doi: 10.2337/db15-0571 (2015)
In Search of a Cure for Proteostasis-Addicted Cancer: A AAA Target Revealed Xia D, Ye Y Cancer Cell, DOI://10.1016/j.ccell.2015.10.006 (2015)
Genome-wide estimate of the heritability of Multiple System Atrophy M. Federoff, T.R. Price, A. Sailer, S. Scholz, D. Hernandez, A. Nicolas, A.B. Singleton, M. Nalls, H. Houlden Parkinsonism and Related Disorders, doi:10.1016/j.parkreldis.2015.11.005 (2015)
Reprogramming of Polycomb-Mediated Gene Silencing in Embryonic Stem Cells by the miR-290 Family and the Methyltransferase Ash1l Chryssa Kanellopoulou, Timothy Gilpatrick, Gokhul Kilaru, Patrick Burr, Cuong K. Nguyen, Aaron Morawski, Michael J. Lenardo, Stefan A. Muljo Stem Cell Reports, doi:10.1016/j.stemcr.2015.10.001 (2015)
Resting-state functional connectivity and presynaptic monoamine signaling in Alcohol Dependence Zhu X, Dutta N, Helton SG, Schwandt M, Yan J, Hodgkinson CA, Cortes CR, Kerich M, Hall S, Sun H, Phillips M, Momenan R, Lohoff FW Hum Brain Mapp., doi: 10.1002/hbm.22951 (2015)

Effects of the C-Terminal Tail on the Conformational Dynamics of Human Neuronal Calcium Sensor-1 Protein Zhu, Y; Yang, S; Qi, R et al. J Phys Chem B, DOI://10.1021/acs.jpcb.5b07962 (2015)
ColoWeb: a resource for analysis of colocalization of genomic features Kim R, Smith OK, Wong WC, Ryan AM, Ryan MC, Aladjem MI BMC genomics, doi: 10.1186/s12864-015-1345-3. (2015)
Methylated cytosines mutate to transcription factor binding sites that drive tetrapod evolution Ximiao He, Desiree Tillo, Jeff Vierstra, Khund-Sayeed Syed, Callie Deng, Jordan G. Ray, John Stamatoyannopoulos, Peter C. Fitzgerald and Charles Vinson Genome Biol. and Evol. , doi: 10.1093/gbe/evv205 (2015)
Sequence-and Temperature-Dependent Properties of Unfolded and Disordered Proteins from Atomistic Simulations Gül H. Zerze, Robert B Best, and Jeetain Mittal J. Phys. Chem. B, DOI: 10.1021/acs.jpcb.5b08619 (2015)
Proteomic Profiling of Nuclear Fractions from Native Renal Inner Medullary Collecting Duct Cells Christina M. Pickering, Cameron R. Grady, Barbara Medvar, Milad Emamian, Pablo Concha Sandoval, Yue Zhao, Chin-Rang Yang, Hyun Jun Jung, Chung-Lin Chou, Mark A. Knepper Physiol Genomics., DOI: 10.1152/physiolgenomics.00090.2015 (2015)
Structure dependent hydrophobic and hydrophilic interactions between nickel(II) Schiff base complexes and serum albumins: Spectroscopic and docking studies Banabithi Koley Seth, Aurkie Ray, Mousumi Banerjee, Teerna Bhattacharyya, Dhananjay Bhattacharyya, Samita Basu J. Luminescence, doi:10.1016/j.jlumin.2015.11.009 (2015)
Integrated genome-wide analysis of genomic changes and gene regulation in human adrenocortical tissue samples Gara, SK; Wang, Y; Patel, D et al. Nucleic Acids Res., DOI://10.1093/nar/gkv908 (2015)
An insight into the sialome of the horse fly, Tabanus bromius Ribeiro JM, Kazimirova M, Takac P, Andersen JF, Francischetti IM Insect Biochem. Mol. Biol., DOI://10.1016/j.ibmb.2015.09.002 (2015)
TCF21 hypermethylation in genetically quiescent clear cell sarcoma of the kidney Saskia L. Gooskens, Samantha Gadd, Jaime M. Guidry Auvil, Daniela S. Gerhard, Javed Khan, Rajesh Patidar, Daoud Meerzaman, Qing-Rong Chen, Chih Hao Hsu, Chunhua Yan, Cu Nguyen, Ying Hu, Charles G. Mullighan, Jing Ma, Lawrence J. Jennings, Ronald R. de Krijger, Marry M. van den Heuvel-Eibrink, Malcolm A. Smith, Nicole Ross, Julie M. Gastier-Foster, Elizabeth J. Perlman Oncotarget 6(18):15828-15841 (2015)
Molecular mechanisms in genetically defined autoinflammatory diseases: disorders of amplified danger signaling de Jesus AA, Canna SW, Liu Y, Goldbach-Mansky R. Annu Rev Immunol., doi: 10.1146/annurev-immunol-032414-112227 (2015)
Functional connectivity classification of autism identifies highly predictive brain features but falls short of biomarker standards Plitt M, Barnes KA, Martin A Neuroimage Clin., doi: 10.1016/j.nicl.2014.12.013. (2015)
Effects of the Mu opioid receptor polymorphism (OPRM1 A118G) on pain regulation, placebo effects and associated personality trait measures Peciña M, Love T, Stohler CS, Goldman D, Zubieta JK Neuropsychopharmacology, doi: 10.1038/npp.2014.272 (2015)

Calculation of Organ Doses for a Large Number of Patients Undergoing CT Examinations Amir Bahadori, Diana Miglioretti, Randell Kruger, Michael Flynn, Sheila Weinmann, Rebecca Smith-Bindman and Choonsik Lee Medical Physics and Informatics, DOI:10.2214/AJR.14.14135 (2015)
Survival of human lymphoma cells requires B-cell receptor engagement by self-antigens Ryan M. Young, Tianyi Wu, Roland Schmitz, Moez Dawood, Wenming Xiao, James D. Phelan, Weihong Xu, Laurence Menard, Eric Meffre, Wing-Chung C. Chan, Elaine S. Jaffe, Randy D. Gascoyne, Elìas Campo, Andreas Rosenwald, German Ott, Jan Delabie, Lisa M. Rimsza, and Louis M. Staudt PNAS, doi: 10.1073/pnas.1514944112 (2015)
Shifts in connectivity during procedural learning after motor cortex stimulation; a combined transcranial magnetic stimulation /functional magnetic resonance imaging study Adam Steel, Sunbin Song, Devin Bageac, Kristine M. Knutson, Ziad S. Saad, Stephen J. Gotts, Eric M. Wassermann, Leonora Wilkinson Cortex, doi:10.1016/j.cortex.2015.10.004 (2015)
Genome Sequences of Multidrug-Resistant Salmonella enterica Serovar Paratyphi B (dT+) and Heidelberg Strains from the Colombian Poultry Chain Pilar Donado-Godoy, Johan F. Bernal, Fernando Rodrìguez, Yolanda Gomez, Richa Agarwala, David Landsman, Leonardo Mariño-Ramìrez Genome Announc., doi: 10.1128/genomeA.01265-15 (2015)
The transcriptional landscape of age in human peripheral blood Peters, MJ; Joehanes, R; Pilling, LC et al. Nat Commun, DOI://10.1038/ncomms9570 (2015)
Empirical Optimization of Interactions between Proteins and Chemical Denaturants in Molecular Simulations Wenwei Zheng, Alessandro Borgia, Madeleine B. Borgia, Benjamin Schuler, and Robert B. Best J. Chem. Theory and Computation, DOI: 10.1021/acs.jctc.5b00778 (2015)

Characterization of the metastatic phenotype of a panel of established osteosarcoma cells Ren, L; Mendoza, A; Zhu, J et al. Oncotarget, DOI://10.18632/oncotarget.5177 (2015)
Computational Methods for Structural and Functional Studies of Alzheimer's Amyloid Ion Channels Hyunbum Jang, Fernando Teran Arce, Joon Lee, Alan L. Gillman, Srinivasan Ramachandran, Bruce L. Kagan, Ratnesh Lal, Ruth Nussinov Protein Amyloid Aggregation, doi://10.1007/978-1-4939-2978-8-16 (2015)
Single-cell RNA-Seq resolves cellular complexity in sensory organs from the neonatal inner ear Burns JC, Kelly MC, Hoa M, Morell RJ, Kelley MW Nature Communications, doi: 10.1038/ncomms9557. (2015)
Interleaved Text/Image Deep Mining on a Large-Scale Radiology Database for Automated Image Interpretation Hoo-Chang Shin, Le Lu, Lauren Kim, Ari Seff, Jianhua Yao, Ronald M. Summers IEEE CVPR , p. 1090-1099 (2015)
Longitudinal clinical trials with adaptive choice of follow-up time Jeffries N, Geller NL Biometrics, doi: 10.1111/biom.12287. E (2015)
Effects of Neural Morphology and Input Distribution on Synaptic Processing by Global and Focal NMDA-Spikes Poleg-Polsky, A PLoS ONE, DOI://10.1371/journal.pone.0140254 (2015)

Uncovering effects of antibiotics on the host and microbiota using transkingdom gene networks Morgun, A; Dzutsev, A; Dong, X et al. Gut, DOI://10.1136/gutjnl-2014-308820 (2015)
MST2-RASSF protein-protein interactions through SARAH domains Goar Sànchez-Sanz, David Matallanas, Lan K. Nguyen, Boris N. Kholodenko, Edina Rosta, Walter Kolch and Nicolae-Viorel Buchete Briefings in Bioinformatics, doi://10.1093/bib/bbv070 (2015)
Subassemblies and asymmetry in assembly of herpes simplex virus procapsid Aksyuk, AA; Newcomb, WW; Cheng, N et al. MBio, DOI://10.1128/mBio.01525-15 (2015)
GNL3 and SKA3 are novel prostate cancer metastasis susceptibility genes Minnkyong Lee, Kendra A. Williams, Ying Hu, Jonathan Andreas, Shashank J. Patel, Suiyuan Zhang, Nigel P. S. Crawford Clin Exp Metastasis, DOI 10.1007/s10585-015-9745-y (2015)
Putative Prostate Cancer Risk SNP in an Androgen Receptor-Binding Site of the Melanophilin Gene Illustrates Enrichment of Risk SNPs in Androgen Receptor Target Sites Huajie Bu, Narisu Narisu, Bettina Schlick, Johannes Rainer, Thomas Manke, Georg Schäfer, Lorenza Pasqualini, Peter Chines, Michal R. Schweiger, Christian Fuchsberger and Helmut Klocker Human Mutation, DOI: 10.1002/humu.22909 (2015)
Asymmetric Action of STAT Transcription Factors Drives Transcriptional Outputs and Cytokine Specificity Hirahara K, Onodera A, Villarino AV, Bonelli M, Sciumè G, Laurence A3 Sun HW, Brooks SR, Vahedi, Shih HY, Gutierrez-Cruz, Iwata S, Suzuki, Mikami Y, Okamoto Y, Nakayama T, Holland SM, Hunter CA, Kanno Y, O'Shea JJ Immunity, doi: 10.1016/j.immuni.2015.04.014. (2015)

Efficient test for nonlinear dependence of two continuous variables Wang Y, Li Y, Cao H, Xiong M, Shugart YY, Jin L BMC Bioinformatics, doi: 10.1186/s12859-015-0697-7 (2015)
Whole-genome association analysis of treatment response in obsessive-compulsive disorder Qin H, Samuels JF, Wang Y et al. Mol. Psychiatr., doi: 10.1038/mp.2015.32 (2015)
The CENP-A N-tail confers epigenetic stability to centromeres via the CENP-T branch of the CCAN in fission yeast Folco HD, Campbell CS, May KM, Espinoza C, Oegema K, Hardwick KG, Grewal SI, Desai A Curr. Biology, doi: 10.1016/j.cub.2014.11.060 (2015)
Targeted Proteomics-Driven Computational Modeling of Macrophage S1P Chemosensing Manes, NP; Angermann, BR; Koppenol-Raab, M et al. Mol. Cell Proteomics, DOI://10.1074/mcp.M115.048918 (2015)
Genome-wide profiling of nucleosome sensitivity and chromatin accessibility in Drosophila melanogaster Razvan V. Chereji, Tsung-Wai Kan, Magda K. Grudniewska, Alexander V. Romashchenko, Eugene Berezikov, Igor F. Zhimulev, Victor Guryev, Alexandre V. Morozov and Yuri M. Moshkin Nucleic Acids Research, doi: 10.1093/nar/gkv978 (2015)
Deep Proteomic Profiling of Vasopressin-Sensitive Collecting Duct Cells. II. Bioinformatic Analysis of Vasopressin Signaling Chin-Rang Yang, Viswanathan Raghuram, Milad Emamian, Pablo Concha Sandoval, Mark A. Knepper Am. J. Physiol. - Cell Physiol. , DOI: 10.1152/ajpcell.00214.2015 (2015)

Exposure of chick embryos to cadmium changes the extra-embryonic vascular branching pattern and alters expression of VEGF-A and VEGF-R2 Anna Kaskova Gheorghescu, Bartlomiej Tywoniuk, Johannes Duess, Nicolae-Viorel Buchete, Jennifer Thompson Toxicology & Applied Pharmacology, doi://10.1016/j.taap.2015.09.004 (2015)
Quantitative evaluation of positive φ angle propensity in flexible regions of proteins from three-bond J couplings Jung Ho Lee, Jinfa Ying and Ad Bax Phys. Chem. Chem. Phys., DOI: 10.1039/C5CP04542H (2015)
Turning Cucurbit[8]uril into a Supramolecular Nanoreactor for Asymmetric Catalysis Lifei Zheng, Silvia Sonzini, Masyitha Ambarwati, Edina Rosta, Oren A. Scherman and Andreas Herrmann Angewandte Chemie , DOI: 10.1002/anie.201505628 (2015)
Comparison against 186 canid whole-genome sequences reveals survival strategies of an ancient clonally transmissible canine tumor Brennan Decker, Brian W Davis, Maud Rimbault, Adrienne H Long, Eric Karlins, Heidi G Parker, Vidhya Jagannathan, Rebecca Reiman, Cord Drögemüller, Jason J Corneveaux, Erica S Chapman, Jeffery M Trent, Tosso Leeb, Matthew J Huentelman, Robert K Wayne, Danielle M Karyadi and Elaine A Ostrander Genome Research, doi: 10.1101/gr.190314.115 (2015)
Distinct profiles for mitochondrial t-RNAs and small nucleolar RNAs in locally invasive and metastatic colorectal cancer Lai Xu, Joseph Ziegelbauer, Rong Wang, Wells W Wu, Rong-Fong Shen, Hartmut H Juhl, Yaqin Zhang, and Amy S Rosenberg Clinical Cancer Research, doi: 10.1158/1078-0432.CCR-15-0737 (2015)
Plasma Levels of Soluble IL-2 Receptor α Associations With Clinical Cardiovascular Events and Genome-Wide Association Scan Peter Durda, Jeremy Sabourin, Ethan M. Lange, Mike A. Nalls, Josyf C. Mychaleckyj, Nancy Swords Jenny, Jin Li, Jeremy Walston, Tamara B. Harris, Bruce M. Psaty, William Valdar, Yongmei Liu, Mary Cushman, Alex P. Reiner, Russell P. Tracy, Leslie A. Lange Arteriosclerosis, Thrombosis and Vascular Biology, doi: 10.1161/ATVBAHA.115.305289 (2015)

Single Nucleotide Specific Targeting of the Tf1 Retrotransposon Promoted by the DNA-Binding Protein Sap1 of Schizosaccharomyces pombe Anthony Hickey, Caroline Esnault, Anasuya Majumdar, Atreyi Ghatak Chatterjee, James R. Iben, Philip G. McQueen, Andrew X. Yang, Takeshi Mizuguchi, Shiv I. S. Grewal and Henry L. Levin Genetics, doi: 10.1534/genetics.115.181602 (2015)
Pressure-induced structural transition of mature HIV-1 Protease from a combined NMR/MD simulation approach Julien Roche, John M. Louis, Ad Bax and Robert B. Best Proteins, DOI: 10.1002/prot.24931 (2015)
Histone H3 Lysine 27 demethylases Jmjd3 and Utx are required for T-cell differentiation Sugata Manna, Jong Kyong Kim, Catherine Baugé, Margaret Cam, Yongmei Zhao, Jyoti Shetty, Melanie S. Vacchio, Ehydel Castro, Bao Tran, Lino Tessarollo & Rémy Bosselut Nature Communications, doi:10.1038/ncomms9152 (2015)
Tautomerism of Warfarin: Combined Chemoinformatics, Quantum Chemical, and NMR Investigation Laura Guasch, Megan L. Peach, and Marc C Nicklaus J. Org. Chem. , DOI: 10.1021/acs.joc.5b01370 (2015)
Comparative analyses of CTCF and BORIS occupancies uncover two distinct classes of CTCF binding genomic regions Elena M. Pugacheva, Samuel Rivero-Hinojosa, Celso A. Espinoza, et al. Genome Biol. , doi: 10.1186/s13059-015-0736-8 (2015)
Triangulating the sexually dimorphic brain through high-resolution neuroimaging of murine sex chromosome aneuploidies Raznahan, A; Lue, Y; Probst, F et al. Brain Struct Funct, DOI://10.1007/s00429-014-0875-9 (2015)

TCF-1 upregulation identifies early innate lymphoid progenitors in the bone marrow Yang, Q; Li, F; Harly, C et al. Nat. Immunol., DOI://10.1038/ni.3248 (2015)
Assessing FOXO1A as a potential susceptibility locus for type 2 diabetes and obesity in American Indians Yunhua L. Muller, Robert L. Hanson, Gregory Wiessner, Lori Nieboer, Sayuko Kobes, Paolo Piaggi, Mahdi Abdussamad, Chidinma Okani, William C. Knowler, Clifton Bogardus andLeslie J. Baier Obesity, DOI: 10.1002/oby.21236 (2015)
Correlation of magnetic resonance imaging with digital histopathology in prostate Jin Tae Kwak, Sandeep Sankineni, Sheng Xu, Baris Turkbey, Peter L. Choyke, Peter A. Pinto, Maria Merino, Bradford J. Wood Int. J. CARS, DOI 10.1007/s11548-015-1287-x (2015)
Novel Human-like Influenza A Viruses Circulate in Swine in Mexico and Chile Martha Nelson, Marie R. Culhane, Albert Rovira, Montserrat Torremorell, Pedro Guerrero, and Julio Norambuena PLoS Currents, doi: 10.1371/currents.outbreaks.c8b3207c9bad98474eca3013fa933ca6 (2015)
Defining the Domain Arrangement of the Mammalian Target of Rapamycin Complex Component Rictor Protein Zhou P, Zhang N, Nussinov R, Ma B J. Comput. Biol., DOI://10.1089/cmb.2015.0103 (2015)
Three dysconnectivity patterns in treatment-resistant schizophrenia patients and their unaffected siblings Wang J, Cao H, Liao Y et al. Neuroimage Clin. , doi: 10.1016/j.nicl.2015.03.017 (2015)

The jigsaw puzzle of sequence phenotype inference: Piecing together Shannon entropy, importance sampling, and Empirical Bayes Shreif Z, Striegel DA, Periwal V J. Theoretical Biology, doi: 10.1016/j.jtbi.2015.06.010. (2015)
A Deep Insight Into the Sialotranscriptome of the Chagas Disease Vector, Panstrongylus megistus (Hemiptera: Heteroptera) Ribeiro JM, Schwarz A, Francischetti IM J. Med. Entomol., DOI://10.1093/jme/tjv023 (2015)
Deep Proteomic Profiling of Vasopressin-Sensitive Collecting Duct Cells. I. Virtual Western Blots and Molecular Weight Distributions Chin-Rang Yang, Pumipat Tongyoo, Milad Emamian, Pablo Concha Sandoval, Viswanathan Raghuram, Mark A. Knepper Am. J. Physiol. - Cell Physiol. , DOI: 10.1152/ajpcell.00213.2015 (2015)
Impact of conscious intent on chunking during motor learning Sunbin Song and Leonardo Cohen Learning & Memory, doi: 10.1101/lm.035824.114 (2015)
Small Retinoprotective Peptides Reveal a Receptor-binding Region on Pigment Epithelium-derived Factor Jason Kenealey, Preeti Subramanian, Antonella Comitato, Jeanee Bullock, Laura Keehan, Federica Polato, David Hoover, Valeria Marigo and S. Patricia Becerra J. Biol. Chem. , doi: 10.1074/jbc.M115.645846 (2015)
Amylin-Aβ oligomers at atomic resolution using molecular dynamics simulations: a link between Type 2 diabetes and Alzheimer's disease Michal Baram , Yoav Atsmon-Raz , Buyong Ma , Ruth Nussinov and Yifat Miller Phys. Chem. Chem. Phys., DOI: 10.1039/C5CP03338A (2015)

A Bayesian joint model of menstrual cycle length and fecundity Kirsten J. Lum, Rajeshwari Sundaram, Germaine M. Buck Louis andThomas A. Louis Biometrics, DOI: 10.1111/biom.12379 (2015)
Revealing the fate of cell surface human P-glycoprotein (ABCB1): The lysosomal degradation pathway Katayama, K; Kapoor, K; Ohnuma, S et al. Biochim. Biophys. Acta, DOI://10.1016/j.bbamcr.2015.06.001 (2015)
An Improved F(st) Estimator Chen, G; Yuan, A; Shriner, D et al. PLoS ONE, DOI://10.1371/journal.pone.0135368 (2015)
High-level expression and characterization of a thermophilic β-mannanase from Aspergillus niger in Pichia pastoris Yu, S; Li, Z; Wang, Y et al. Biotechnol Lett, DOI://10.1007/s10529-015-1848-7 (2015)
Genome-wide association study of neocortical Lewy-related pathology Terhi Peuralinna, Liisa Myllykangas, Minna Oinas,, Mike A. Nalls, Hannah A. D. Keage, Veli-Matti Isoviita, Miko Valori, Tuomo Polvikoski, Anders Paetau, Raimo Sulkava, Paul G. Ince, Julia Zaccai, Carol Brayne, Bryan J. Traynor, John Hardy, Andrew B. Singleton and Pentti J. Tienari Annalls of Clinical and Translational Neurology, DOI: 10.1002/acn3.231 (2015)
Confusing placebo effect with natural history in epilepsy: A big data approach Goldenholz DM, Moss R, Scott J, Auh S, Theodore WH Ann. Neurol., DOI://10.1002/ana.24470 (2015)

Possible Human Papillomavirus 38 Contamination of Endometrial Cancer RNA Sequencing Samples in The Cancer Genome Atlas Database Majid Kazemian, Min Ren, Jian-Xin Lin, Wei Liao, Rosanne Spolski and Warren J. Leonard J. Virology, doi: 10.1128/JVI.00822-15 (2015)
The Beta Cell in Its Cluster: Stochastic Graphs of Beta Cell Connectivity in the Islets of Langerhans Deborah A. Striegel, Manami Hara, Vipul Periwal PLoS Computational Biology, DOI: 10.1371/journal.pcbi.1004423 (2015)
Baseline genetic associations in the Parkinson's Progression Markers Initiative (PPMI) Mike A. Nalls, Margaux F. Keller, Dena G. Hernandez, Lan Chen, David J. Stone , Andrew B. Singleton, andon behalf of the Parkinson's Progression Marker Initiative (PPMI) investigators Movement Disorders, DOI: 10.1002/mds.26374 (2015)
Modeling ligand recognition at the P2Y12 receptor in light of X-ray structural information Paoletta, S; Sabbadin, D; von Kügelgen, I et al. J. Comput. Aided Mol. Des., DOI://10.1007/s10822-015-9858-z (2015)
Molecular structure of monomorphic peptide fibrils within a kinetically trapped hydrogel network Katelyn Nagy-Smith, Eric Moore, Joel Schneider, and Robert Tycko PNAS, doi: 10.1073/pnas.1509313112 (2015)
Divergence from the classical hydroboration reactivity; boron containing materials through a hydroboration cascade of small cyclic dienes Anna Andreou, Michal Leskes, Pablo G. Jambrina, Gary J. Tustin, Clare P. Grey, Edina Rosta, and Oren A. Scherman Chemical Science, DOI: 10.1039/b000000x (2015)

ABCC8 R1420H loss-of-function variant in a Southwest American Indian community: association with increased birth weight and doubled risk of type 2 diabetes Leslie J. Baier, Yunhua Li Muller, Maria Sara Remedi, Michael Traurig, Paolo Piaggi, Gregory Wiessner, Ke Huang, Alyssa Stacy, Sayuko Kobes, Jonathan Krakoff, Peter H. Bennett, Robert G. Nelson, William C. Knowler, Robert L. Hanson, Colin G. Nichols and Clifton Bogardus Diabetes, doi: 10.2337/db15-0459 (2015)
Comprehensive assembly of novel transcripts from unmapped human RNA-Seq data and their association with cancer Majid Kazemian, Min Ren, Jian‐Xin Lin, Wei Liao, Rosanne Spolski, Warren J Leonard Molecular Systems Biology, DOI 10.15252/msb.156172 (2015)
A β Stretching-and-Packing Cross-Seeding Mechanism Can Trigger Tau Protein Aggregation Ruxi Qi, Yin Luo, Guanghong Wei, Ruth Nussinov, and Buyong Ma J. Phys. Chem Letters, DOI: 10.1021/acs.jpclett.5b01447 (2015)
Membrane Protein Structure, Function, and Dynamics: a Perspective from Experiments and Theory Zoe Cournia, Toby W. Allen et al. J. Membrane Biology, DOI: 10.1007/s00232-015-9802-0 (2015)
Mechanical properties of lipid bilayers from molecular dynamics simulation Richard M. Venable, Frank L.H. Brown, Richard W. Pastor Chemistry and Physics of Lipids, doi:10.1016/j.chemphyslip.2015.07.014 (2015)
Runx1 is required for hematopoietic defects and leukemogenesis in Cbfb-MYH11 knock-in mice Hyde RK, Zhao L, Alemu L, Liu PP Leukemia, DOI://10.1038/leu.2015.58 (2015)

PTH and Vitamin D Repress DMP1 in Cementoblasts Wang L, Tran AB, Nociti FH Jr, Thumbigere-Math V, Foster BL, Krieger CC, Kantovitz KR, Novince CM, Koh AJ, McCauley LK, Somerman MJ J Dent Res. , doi: 10.1177/0022034515599726 (2015)
4'-modified nucleoside analogs: Potent inhibitors active against entecavir-resistant hepatitis B virus Takamatsu Y, Tanaka Y, Kohgo S,, Murakami S, Singh K, Das D, Venzon DJ, Amano M, Higashi-Kuwata N, Aoki M, Delino NS, Hayashi S, Takahashi S, Sukenaga Y, Haraguchi K, Sarafianos SG, Maeda K, Mitsuya H Hepatology, doi: 10.1002/hep.27962 (2015)
Super-enhancers: Asset management in immune cell genomes Steven Witte, John J. O'Shea, Golnaz Vahedi Trends in Immunology, doi: 10.1016/j.it.2015.07.005. (2015)
Hemagglutinin-stem nanoparticles generate heterosubtypic influenza protection Hadi M Yassine, Jeffrey C Boyington, Patrick M McTamney, Chih-Jen Wei, Masaru Kanekiyo, Wing-Pui Kong, John R Gallagher, Lingshu Wang, Yi Zhang, M Gordon Joyce, Daniel Lingwood, Syed M Moin, Hanne Andersen, Yoshinobu Okuno, Srinivas S Rao, Audray K Harris, Peter D Kwong, John R Mascola, Gary J Nabel & Barney S Graham Nature Medicine, doi:10.1038/nm.3927 (2015)
Mapsnp: an R package to plot a genomic map for single nucleotide polymorphisms Zhang F, Xu Y, Cao H, Jin C, Cheng Z, Wang G, Shugart YY PLoS One, doi: 10.1371/journal.pone.0123609 (2015)
Distinct transcriptome profiles differentiate nonsteroidal anti-inflammatory drug-dependent from nonsteroidal anti-inflammatory drug-independent food-induced anaphylaxis Muñoz-Cano R, Pascal M, Bartra J, Picado C, Valero A, Kim DK, Brooks S, Ombrello M, Metcalfe DD, Rivera J, Olivera A J Allergy Clin Immunol. , doi: 10.1016/j.jaci.2015.05.042. (2015)

Resting state connectivity of the bed nucleus of the stria terminalis at ultra-high field Salvatore Torrisi, Katherine O'Connell, Andrew Davis, Richard Reynolds, Nicholas Balderston, Julie Fudge, Christian Grillon and Monique Ernst Human Brain Mapping, DOI: 10.1002/hbm.22899 (2015)
Metabolic mapping of A3 adenosine receptor agonist MRS5980 Fang ZZ, Tosh DK, Tanaka N, Wang H, Krausz KW, O'Connor R, Jacobson KA, Gonzalez FJ Biochem Pharmacol., doi: 10.1016/j.bcp.2015.07.007. (2015)
RAG Represents a Widespread Threat to the Lymphocyte Genome Grace Teng, Yaakov Maman, Wolfgang Resch, Min Kim, Arito Yamane, Jason Qian, Kyong-Rim Kieffer-Kwon, Malay Mandal, Yanhong Ji, Eric Meffre, Marcus R. Clark, Lindsay G. Cowell, Rafael Casellas, David G. Schatz Cell, doi:10.1016/j.cell.2015.07.009 (2015)
Variation in the Williams syndrome GTF2I gene and anxiety proneness interactively affect prefrontal cortical response to aversive stimuli Jabbi M, Chen Q, Turner N, Kohn P, White M, Kippenhan JS, Dickinson D, Kolachana B, Mattay V, Weinberger DR, Berman KF Transl Psychiatry., doi: 10.1038/tp.2015.98. (2015)
Areas of Brain Damage Underlying Increased Reports of Behavioral Disinhibition Knutson, KM; Dal Monte, O; Schintu, S et al. J Neuropsychiatry Clin Neurosci, DOI://10.1176/appi.neuropsych.14060126 (2015)
Opposing roles of STAT1 and STAT3 in IL-21 function in CD4+ T cells Wan, CK; Andraski, AB; Spolski, R et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1511711112 (2015)

Gene-Gene Interaction Among WNT Genes for Oral Cleft in Trios Li Q, Kim Y, Suktitipat B, Hetmanski JB, Marazita ML, Duggal P, Beaty TH, Bailey-Wilson JE Genet Epidemiol., doi: 10.1002/gepi.21888. (2015)
Convergent BOLD and Beta-Band Activity in Superior Temporal Sulcus and Frontolimbic Circuitry Underpins Human Emotion Cognition Jabbi M, Kohn PD, Nash T, Ianni A, Coutlee C, Holroyd T, Carver FW, Chen Q, Cropp B, Kippenhan JS, Robinson SE, Coppola R, Berman KF Cerebral Cortex, doi: 10.1093/cercor/bht427. (2015)
An Integrative Genomic Study Implicates the Post-Synaptic Density in the Pathogenesis of Bipolar Disorder Akula N, Wendland JR, Choi KH, McMahon FJ Neuropsychopharmacology, doi: 10.1038/npp.2015.218 (2015)
A mutation of MET, encoding hepatocyte growth factor receptor, is associated with human DFNB97 hearing loss Mujtaba G, Schultz JM, Imtiaz A, Morell RJ, Friedman TB, Naz S J. Med. Genet., DOI://10.1136/jmedgenet-2015-103023 (2015)
Directional dominance on stature and cognition in diverse human populations Joshi, PK; Esko, T; Mattsson, H et al. Nature, DOI://10.1038/nature14618 (2015)
A two-state mixed hidden Markov model for risky teenage driving behavior John C. Jackson, Paul S. Albert, and Zhiwei Zhang Ann. Appl. Stat., doi:10.1214/14-AOAS765 (2015)

Women Workers and Women at Home Are Equally Inactive: NHANES 2003-2006 Steeves JA, Murphy RA, Zipunnikov V, Strath SJ, Harris TB Med Sci Sports Exerc, DOI://10.1249/MSS.0000000000000582 (2015)
Novel genomic signals of recent selection in an Ethiopian population Tekola-Ayele, F; Adeyemo, A; Chen, G et al. Eur. J. Hum. Genet., DOI://10.1038/ejhg.2014.233 (2015)
Genome Analysis of Latin American Cervical Cancer: Frequent Activation of the PIK3CA Pathway Hong Lou, Guillermo Villagran, Joseph F. Boland, Kate M Im, Sarita Polo, Weiyin Zhou, Ushie Odey, Eligia Juàrez-Torres, Ingrid Medina-Martìnez, Edgar Roman-Basaure, Jason Mitchell, David Roberson, Julie Sawitzke, Lisa Garland, Maria Rodrìguez-Herrera, David Wells, Jennifer Troyer, Francisco Castillo, Sara Bass, Xijun Zhang, Miriam Castillo, Bert Gold, Hesler Morales, Meredith Yeager, Jaime Berumen, Enrique Alvirez, Eduardo Gharzouzi, and Michael Dean Clinical Cancer Research, doi:10.1158/1078-0432.CCR-14-1837 (2015)
Classification of occupational activity categories using accelerometry: NHANES 2003-2004 Steeves JA, Tudor-Locke C, Murphy RA, King GA, Fitzhugh EC, Harris TB Int J Behav Nutr Phys Act, DOI://10.1186/s12966-015-0235-z (2015)
Bolaamphiphiles as Carriers for siRNA Delivery: From Chemical Syntheses to Practical Applications Kshitij Gupta, Kirill A. Afonin, Mathias Viarda, Virginia Herrero, Wojciech Kasprzak, Ioannis Kagiampakis, Taejin Kim, Alexey Y. Koyfman, Anu Puri, Marissa Stepler, Alison Sappe, Vineet N. KewalRamani, Sarina Grinberg, Charles Linder, Eliahu Heldman, Robert Blumenthal, Bruce A. Shapiro J. Controlled Release, doi:10.1016/j.jconrel.2015.06.041 (2015)
MitoRCA-seq reveals unbalanced cytocine to thymine transition in Polg mutant mice Ni T, Wei G, Shen T, Han M, Lian Y, Fu H, Luo Y, Yang Y, Liu J, Wakabayashi Y, Li Z, Finkel T, Xu H, Zhu J Scientific Reports, doi: 10.1038/srep12049. (2015)

Epigenome-wide association study (EWAS) of BMI, BMI change and waist circumference in African American adults identifies multiple replicated loci Demerath, EW; Guan, W; Grove, ML et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddv161 (2015)
A Systems Level Analysis of Vasopressin-mediated Signaling Networks in Kidney Distal Convoluted Tubule Cells Lei Cheng, Qi Wu, Marleen L. A. Kortenoeven, Trairak Pisitkun, Robert A. Fenton Sci. Rep. , doi: 10.1038/srep12829 (2015)
Improving Phenotypic Prediction by Combining Genetic and Epigenetic Associations Sonia Shah, Marc J. Bonder, Riccardo E. Marioni et al. Am. J. Hum. Genet. , doi:/10.1016/j.ajhg.2015.05.014 (2015)
2.2 Å resolution cryo-EM structure of β-galactosidase in complex with a cell-permeant inhibitor Alberto Bartesaghi, Alan Merk, Soojay Banerjee, Doreen Matthies, Xiongwu Wu, Jacqueline L. S. Milne, Sriram Subramaniam Science, DOI: 10.1126/science.aab1576 (2015)
miR-23a impairs bone differentiation in osteosarcoma via down-regulation of GJA1 Gindin Y, Jiang Y, Francis P, Walker RL, Abaan OD, Zhu YJ, Meltzer PS Front Genet. , doi: 10.3389/fgene.2015.00233 (2015)
Motif signatures in stretch enhancers are enriched for disease-associated genetic variants Daniel X Quang, Michael R Erdos, Stephen C J Parker,and Francis S Collins Epigenetics Chromatin, doi: 10.1186/s13072-015-0015-7. (2015)

Assessing Mitochondrial DNA Variation and Copy Number in Lymphocytes of ~2,000 Sardinians Using Tailored Sequencing Analysis Tools Ding J, Sidore C, Butler TJ, Wing MK, Qian Y, Meirelles O, Busonero F, Tsoi LC, Maschio A, Angius A, Kang HM, Nagaraja R, Cucca F, Abecasis GR, Schlessinger D PLoS Genetics, doi: 10.1371/journal.pgen.1005306 (2015)
EZH2 is crucial for both differentiation of regulatory T cells and T effector cell expansion Yang XP, Jiang K, Hirahara K, Vahedi G, Afzali B, Sciume G, Bonelli M, Sun HW, Jankovic D, Kanno Y, Sartorelli V, O'Shea JJ, Laurence A Scientific Reports, doi: 10.1038/srep10643 (2015)
Recurrent Mutations in the Basic Domain of TWIST2 Cause Ablepharon Macrostomia and Barber-Say Syndromes Marchegiani, S; Davis, T; Tessadori, F et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2015.05.017 (2015)
An Insight into the Sialome of the Lone Star Tick, Amblyomma americanum, with a Glimpse on Its Time Dependent Gene Expression Karim S, Ribeiro JM PLoS ONE, DOI://10.1371/journal.pone.0131292 (2015)
Positing, fitting, and selecting regression models for pooled biomarker data Mitchell EM, Lyles RH, Schisterman EF Stat Med, DOI://10.1002/sim.6496 (2015)
Metabolic Regulation of Histone Acetyltransferases by Endogenous Acyl-CoA Cofactors Montgomery DC, Sorum AW, Guasch L, Nicklaus MC, Meier JL Chem Biol., doi: 10.1016/j.chembiol.2015.06.015. (2015)

Meta-analysis of Genome-wide Association Studies for Neuroticism, and the Polygenic Association With Major Depressive Disorder , ; de Moor, MH; van den Berg, SM et al. JAMA Psychiatry, DOI://10.1001/jamapsychiatry.2015.0554 (2015)
RNA-Seq analysis of high NaCl-induced gene expression Izumi Y, Yang W, Zhu J, Burg MB, Ferraris JD Physiol Genomics., doi: 10.1152/physiolgenomics.00057.2015 (2015)
Transcriptome dynamics of developing photoreceptors in three-dimensional retina cultures recapitulates temporal sequence of human cone and rod differentiation revealing cell surface markers and gene networks Kaewkhaw R, Kaya KD, Brooks M, Homma K, Zou J, Chaitankar V, Rao M, Swaroop A Stem Cells, doi: 10.1002/stem.2122. (2015)
Dietary fatty acids modulate associations between genetic variants and circulating fatty acids in plasma and erythrocyte membranes: Meta-analysis of nine studies in the CHARGE consortium Smith, CE; Follis, JL; Nettleton, JA et al. Mol Nutr Food Res, DOI://10.1002/mnfr.201400734 (2015)
GTP-Dependent K-Ras Dimerization Muratcioglu S, Chavan TS, Freed BC, Jang H, Khavrutskii L, Freed RN, Dyba MA, Stefanisko K, Tarasov SG, Gursoy A, Keskin O, Tarasova NI, Gaponenko V, Nussinov R Structure, doi: 10.1016/j.str.2015.04.019 (2015)
New monogenic autoinflammatory diseases--a clinical overview Canna SW, Goldbach-Mansky R Semin Immunopathol. , doi: 10.1007/s00281-015-0493-5 (2015)

Tracking ongoing cognition in individuals using brief, whole-brain functional connectivity patterns Javier Gonzalez-Castillo, Colin W. Hoy, Daniel A. Handwerker, Meghan E. Robinson, Laura C. Buchanan, Ziad S. Saad, and Peter A. Bandettini PNAS, doi: 10.1073/pnas.1501242112 (2015)
Forgetting the best when predicting the worst: Preliminary observations on neural circuit function in adolescent social anxiety Jarcho JM, Romer AL, Shechner T, Galvan A, Guyer AE, Leibenluft E, Pine DS, Nelson EE Dev Cogn Neurosci. , doi: 10.1016/j.dcn.2015.03.002 (2015)
Influenza A Viruses of Human Origin in Swine, Brazil Martha I. Nelson , Rejane Schaefer, Danielle Gava, Maurìcio Egĩdio Cantão, and Janice Reis Ciacci-Zanella Emerg Infect Dis. , doi://10.3201/eid2108.141891 (2015)
Acute and recent air pollution exposure and cardiovascular events at labour and delivery Tuija Männistö, Pauline Mendola, Katherine Laughon Grantz, Kira Leishear, Rajeshwari Sundaram, Seth Sherman, Qi Ying, Danping Liu Heart, doi:10.1136/heartjnl-2014-307366 (2015)
Proteomic analysis of the kidney filtration barrier�Problems and perspectives Markus M. Rinschen Thomas Benzing, Kavee Limbutara and Trairak Pisitkun Proteomics Clinical Applications, DOI: 10.1002/prca.201400201 (2015)
Homologous Mutation to Human BRAF V600E Is Common in Naturally Occurring Canine Bladder Cancer--Evidence for a Relevant Model System and Urine-Based Diagnostic Test Decker B, Parker HG, Dhawan D, Kwon EM, Karlins E, Davis BW, Ramos-Vara JA, Bonney PL, McNiel EA, Knapp DW, Ostrander EA Mol Cancer Res, doi: 10.1158/1541-7786.MCR-14-0689 (2015)

Nucleosome adaptability conferred by sequence and structural variations in histone H2A-H2B dimers Shaytan AK, Landsman D, Panchenko AR Curr Opin Struct Biol., doi: 10.1016/j.sbi.2015.02.004 (2015)
Possible HPV38 contamination of endometrial cancer RNA-Seq samples in The Cancer Genome Atlas database Majid Kazemian, Min Ren, Jian-Xin Lin, Wei Liao, Rosanne Spolski and Warren J. Leonard J. Virology, doi: 10.1128/JVI.00822-15 (2015)
Coupling of Zinc-Binding and Secondary Structure in Nonfibrillar Aβ40 Peptide Oligomerization Xu L, Shan S, Chen Y, Wang X, Nussinov R, Ma B J Chem Inf Model, DOI://10.1021/acs.jcim.5b00063 (2015)
Assessment of Cancer Cell Line Representativeness Using Microarrays for Merkel Cell Carcinoma Kenneth Daily, Amy Coxon, Jonathan S Williams, Chyi-Chia R Lee, Daniel G Coit, Klaus J Busam and Isaac Brownell J. Investigative Dermatology, doi:10.1038/jid.2014.518 (2015)
Shared genetic basis for migraine and ischemic stroke: A genome-wide analysis of common variants Rainer Malik, Tobias Freilinger et al. Neurology, doi: 10.1212/WNL.0000000000001606 (2015)
Quantitative Interpretation of FRET Experiments via Molecular Simulation: Force Field and Validation Robert B. Best, Hagen Hofmann, Daniel Nettell, Benjamin Schuler Biochemistry, doi:10.1016/j.bpj.2015.04.038 (2015)

DNA methylome and transcriptome sequencing in human ovarian granulosa cells links age-related changes in gene expression to gene body methylation and 3'-end GC density Yu B, Russanova VR, Gravina S, Hartley S, Mullikin JC, Ignezweski A6 Graham J, Segars JH, DeCherney AH, Howard BH Oncotarget, 6(6): 3627-3643. (2015)
Gene Level Meta-Analysis of Quantitative Traits by Functional Linear Models Ruzong Fan, Yifan Wang, Michael Boehnke, Wei Chen, Yun Li, Haobo Ren, Iryna Lobach and Momiao Xiong Genetics, doi: 10.1534/genetics.115.178343 (2015)
Homology modeling of larger proteins guided by chemical shifts Yang Shen & Ad Bax Nature Methods, doi:10.1038/nmeth.3437 (2015)
Conformational processing of oncogenic v-Src kinase by the molecular chaperone Hsp90 Edgar E. Boczek , Lasse G. Reefschläger, Marco Dehling, Tobias J. Struller , Elisabeth Häusler , Andreas Seidl , Ville R. I. Kaila , and Johannes Buchner PNAS, doi: 10.1073/pnas.1424342112 (2015)
Insertion Sequence IS26 Reorganizes Plasmids in Clinically Isolated Multidrug-Resistant Bacteria by Replicative Transposition He, S; Hickman, AB; Varani, AM et al. MBio, DOI://10.1128/mBio.00762-15 (2015)
Etiologic Ischemic Stroke Phenotypes in the NINDS Stroke Genetics Network Hakan Ay, Ethem Murat Arsava, Gunnar Andsberg et al. Stroke, doi: 10.1161/STROKEAHA.114.007362 (2015)

Identification of microRNAs specific for epithelial cell adhesion molecule�positive tumor cells in hepatocellular carcinoma Junfang Ji, Xin Zheng, Marshonna Forgues, Taro Yamashita, Eliane L. Wauthier, Lola M. Reid, Xinyu Wen, Young Song, Jun S. Wei, Javed Khan, Snorri S. Thorgeirsson andXin Wei Wang Hepatology, doi: 10.1002/hep.27886. (2015)
Model-free functional connectivity and impulsivity correlates of alcohol dependence: a resting-state study Zhu X, Cortes CR, Mathur K, Tomasi D, Momenan R Addict Biol. , doi: 10.1111/adb.12272 (2015)
Pretreatment Differences in BOLD Response to Emotional Faces Correlate with Antidepressant Response to Scopolamine Furey ML, Drevets WC, Szczepanik J, Khanna A, Nugent A, Zarate CA Int. J. Neuropsychopharmacol., DOI://10.1093/ijnp/pyv028 (2015)
Sliding Motility, Biofilm Formation, and Glycopeptidolipid Production in Mycobacterium colombiense Strains Maya-Hoyos M, Leguizam�n J, Mari�o-Ram�rez L, Soto CY Biomed Res Int. , doi: 10.1155/2015/419549 (2015)
Gene expression markers of age-related inflammation in two human cohorts Pilling LC, Joehanes R, Melzer D, Harries LW, Henley W, Dupuis J, Lin H, Mitchell M, Hernandez D, Ying SX, Lunetta KL, Benjamin EJ, Singleton A, Levy D, Munson P, Murabito JM, Ferrucci L Exp Gerontol. , doi: 10.1016/j.exger.2015.05.012 (2015)
The glucagon-like peptide-1 receptor as a potential treatment target in alcohol use disorder: evidence from human genetic association studies and a mouse model of alcohol dependence P Suchankova, J Yan, M L Schwandt, B L Stangl, E C Caparelli, R Momenan, E Jerlhag, J A Engel, C A Hodgkinson, M Egli, M F Lopez, H C Becker, D Goldman, M Heilig, V A Ramchandani, and L Leggio Transl Psychiatry. , doi: 10.1038/tp.2015.68 (2015)

Topological polymorphism of the two-start chromatin fiber Norouzi D, Zhurkin VB Biophys. J., doi: 10.1016/j.bpj.2015.04.015 (2015)
A genome-wide association study of suicidal behavior Galfalvy H, Haghighi F, Hodgkinson C, Goldman D, Oquendo MA, Burke A, Huang YY, Giegling I, Rujescu D, Bureau A, Turecki G, Mann JJ Am J Med Genet B Neuropsychiatr Genet. , doi: 10.1002/ajmg.b.32330 (2015)
Structural Repertoire of HIV-1-Neutralizing Antibodies Targeting the CD4 Supersite in 14 Donors Zhou T, Lynch RM, Chen L et al. Cell, doi: 10.1016/j.cell.2015.05.007 (2015)
Group Differences in MEG-ICA Derived Resting State Networks: Application to Major Depressive Disorder Allison C. Nugent, Stephen E. Robinson, Richard Coppola, Maura L. Furey, Carlos A. Zarate Jr NeuroImage, doi:10.1016/j.neuroimage.2015.05.051 (2015)
APOL1 G1 genotype modifies the association between HDLC and kidney function in African Americans Bentley, AR; Divers, J; Shriner, D et al. BMC Genomics, DOI://10.1186/s12864-015-1645-7 (2015)
A liver-enriched long non-coding RNA, lncLSTR, regulates systemic lipid metabolism in mice Li P, Ruan X, Yang L, Kiesewetter K, Zhao Y, Luo H, Chen Y, Gucek M, Zhu J, Cao H Cell Metabolism, doi: 10.1016/j.cmet.2015.02.004 (2015)

24, 25-Dihydroxyvitamin D 3 and Vitamin D Status of Community-Dwelling Black and White Americans Anders H. Berg, Camille E. Powe, Michele K. Evans, Julia Wenger, Guillermo Ortiz, Alan B. Zonderman, Pirianthini Suntharalingam, Kathryn Lucchesi, Neil R. Powe, S. Ananth Karumanchi, and Ravi I. Thadhani Clinical Chemistry, doi:10.1373/clinchem.2015.240051 (2015)
A cis-eQTL in PFKFB2 is associated with diabetic nephropathy, adiposity and insulin secretion in American Indians Muller YL, Piaggi P, Hanson RL, Kobes S, Bhutta S, Abdussamad M, Leak-Johnson T, Kretzler M, Huang , Weil EJ, Nelson RG, Knowler WC, Bogardus C, Baier LJ Hum Mol Genet. , doi: 10.1093/hmg/ddv040 (2015)
Endoplasmic reticulum-associated amino-peptidase 1 and rheumatic disease: genetics Ombrello MJ, Kastner DL, Remmers EF Curr Opin Rheumatol, DOI://10.1097/BOR.0000000000000189 (2015)
Converging evidence implicates the abnormal microRNA system in schizophrenia. Zhang F, Xu Y, Shugart YY, Yue W, Qi G, Yuan G, Cheng Z, Yao J, Wang J, Wang G, Cao H, Guo W, Zhou Z, Wang Z, Tian L, Jin C, Yuan J, Liu C, Zhang D Schizophrenia Bulletin, doi: 10.1093/schbul/sbu (2015)
Confirmation of genetic variants associated with lethal prostate cancer in a cohort of men from hereditary prostate cancer families Karyadi DM, Zhao S, He Q, McIntosh L, Wright JL, Ostrander EA, Feng Z, Stanford JL. Int. J. Cancer, doi: 10.1002/ijc.29241 (2015)
Baseline working memory activation deficits in dimensional anxious depression as detected by magnetoencephalography Ionescu, DF; Nugent, AC; Luckenbaugh, DA et al. Acta Neuropsychiatr, DOI://10.1017/neu.2014.46 (2015)
Mutation-targeted therapy with sunitinib or everolimus in patients with advanced low-grade or intermediate-grade neuroendocrine tumours of the gastrointestinal tract and pancreas with or without cytoreductive surgery: protocol for a phase II clinical trial Neychev, V; Steinberg, SM; Cottle-Delisle, C et al. BMJ Open, DOI://10.1136/bmjopen-2015-008248 (2015)
Rare and Coding Region Genetic Variants Associated With Risk of Ischemic Stroke: The NHLBI Exome Sequence Project Paul L. Auer, Mike Nalls, James F. Meschia, et al. JAMA Neurology, doi:10.1001/jamaneurol.2015.0582 (2015)
Aβ(1-42) fibril structure illuminates self-recognition and replication of amyloid in Alzheimer's disease Yiling Xiao, Buyong Ma, Dan McElheny, Sudhakar Parthasarathy, Fei Long, Minako Hoshi, Ruth Nussinov & Yoshitaka Ishii Nat Struct Mol Biol, doi:10.1038/nsmb.2991 (2015)
Infrared, Raman, and Ultraviolet Absorption Spectra and Theoretical Calculations and Structure of 2,3,5,6-Tetrafluoropyridine in its Ground and Excited Electronic States Hong-Li Sheu, Praveenkumar Boopalachandran, Sunghwan Kim, Jaan Laane Chemical Physics, doi:10.1016/j.chemphys.2015.04.011 (2015)
PAPST, a User Friendly and Powerful Java Platform for ChIP-Seq Peak Co-Localization Analysis and Beyond Paul W. Bible , Yuka Kanno, Lai Wei, Stephen R. Brooks, John J. O'Shea, Maria I. Morasso, Rasiah Loganantharaj, Hong-Wei Sun PLoS One, DOI: 10.1371/journal.pone.0127285 (2015)
Deep Sequencing Analysis of the Ixodes ricinus Haemocytome Kotsyfakis M, Kopáček P, Franta Z, Pedra JH, Ribeiro JM PLoS Negl Trop Dis, DOI://10.1371/journal.pntd.0003754 (2015)

Griffithsin tandemers: flexible and potent lectin inhibitors of the human immunodeficiency virus Tinoush Moulaei, Kabamba B Alexandre, Shilpa R Shenoy, Joel R Meyerson, Lauren RH Krumpe, Brian Constantine, Jennifer Wilson, Robert W Buckheit, Jr., James B McMahon, Sriram Subramaniam, Alexander Wlodawer, Barry R O'Keefe Retrovirology, doi: 10.1186/s12977-014-0127-3 (2015)
New findings support the association of DISC1 genetic variants with susceptibility to schizophrenia in the Han Chinese population Luo X, Jin C, Zhou Z, Shugart YY, Liu X, Zhang F, Zhang F, Zhu J, Wang Y, Cheng Z Psychiatry Res., doi: 10.1016/j.psychres.2015.05.115 (2015)
Combined influence of linker DNA and histone tails on nucleosome dynamics as revealed by microsecond molecular dynamics simulations Alexey K. Shaytana, Grigoriy A. Armeev, Alexander Goncearenco, Victor B. Zhurkin, David Landsman & Anna R. Panchenkoa J Biomol Struct Dyn., doi: 10.1080/07391102.2015.1032630. (2015)
Transcriptional activation by the thyroid hormone receptor through ligand-dependent receptor recruitment and chromatin remodelling Lars Grøntved, Joshua J. Waterfall, Dong Wook Kim, Songjoon Baek, Myong-Hee Sung, Li Zhao, Jeong Won Park, Ronni Nielsen, Robert L. Walker, Yuelin J. Zhu, Paul S. Meltzer, Gordon L. Hager & Sheue-yann Cheng Nature Communications, doi:10.1038/ncomms8048 (2015)
Elucidation of RNA binding regions of gonadotropin-regulated testicular RNA helicase (GRTH/DDX25) to transcripts of a chromatin remodeling protein essential for spermatogenesis Ruifeng Yang, Chon-Hwa Tsai-Morris, Jung Hoon Kang, Maria L. Dufau Hormone Molecular Biology and Clinical Investigation, DOI: 10.1515/hmbci-2015-0004 (2015)
A combined coarse-grained and all-atom simulation of TRPV1 channel gating and heat activation Wenjun Zheng and Feng Qin J. Gen. Physiol. , doi: 10.1085/jgp.201411335 (2015)
Mixed model and estimating equation approaches for zero inflation in clustered binary response data with application to a dating violence study Kara A. Fulton, Danping Liu, Denise L. Haynie, and Paul S. Albert The Annals of Applied Statistics, doi:10.1214/14-AOAS791 (2015)
Cortisol Stress Response in Men and Women Modulated Differentially by the Mu-Opioid Receptor Gene Polymorphism OPRM1 A118G Lovallo WR, Enoch MA, Acheson A, Cohoon AJ, Sorocco KH, Hodgkinson CA, Vincent AS, Glahn DC, Goldman D Neuropsychopharmacology., doi: 10.1038/npp.2015.101 (2015)
The DNA repair endonuclease Mus81 facilitates fast DNA replication in the absence of exogenous damage Fu H, Martin MM, Regairaz M, Huang L, You Y, Lin CM, Ryan M, Kim R, Shimura T, Pommier Y, Aladjem M Nature Communications, doi: 10.1038/ncomms7746. (2015)
miR-26a and miR-384-5p are required for LTP maintenance and spine enlargement Gu QH, Yu D, Hu Z, Liu X, Yang Y, Luo Y, Zhu J, Li Z Nature Communications, doi: 10.1038/ncomms7789 (2015)
High incidence of unrecognized visceral/neurological late-onset Niemann-Pick disease, type C1, predicted by analysis of massively parallel sequencing data sets Wassif CA, Cross JL, Iben J, Sanchez-Pulido L, Cougnoux A, Platt FM, Ory DS, Ponting CP, Bailey-Wilson JE, Biesecker LG, Porter FD Genet Med. , doi: 10.1038/gim.2015.25. (2015)
Molecular profiling and targeted therapy for advanced thoracic malignancies: a biomarker-derived, multiarm, multihistology phase II basket trial Lopez-Chavez A, Thomas A, Rajan A, Raffeld M, Morrow B, Kelly R, Carter CA, Guha U, Killian K, Lau CC, Abdullaev Z, Xi L, Pack S, Meltzer PS, Corless CL, Sandler A, Beadling C, Warrick A, Liewehr DJ, Steinberg SM, Berman A, Doyle A, Szabo E, Wang Y, Giaccone G J Clin Oncol. , doi: 10.1200/JCO.2014.58.2007 (2015)

p53 loss increases the osteogenic differentiation of bone marrow stromal cells He Y, de Castro LF, Shin MH, Dubois W, Yang HH, Jiang S, Mishra PJ, Ren L, Gou H, Lal A, Khanna C, Merlino G, Lee M, Robey PG, Huang J. Stem Cells, doi: 10.1002/stem.1925. (2015)
Commensal-dendritic-cell interaction specifies a unique protective skin immune signature Naik S, Bouladoux N, Linehan JL, Han SJ, Harrison OJ, Wilhelm C, Conlan S, Himmelfarb S, Byrd AL, Deming C, Quinones M, Brenchley JM, Kong HH, Tussiwand R, Murphy KM, Merad M, Segre JA, Belkaid Y Nature, doi: 10.1038/nature14052 (2015)
Automated prostate cancer detection using T2-weighted and high-b-value diffusion-weighted magnetic resonance imaging Jin Tae Kwak, Sheng Xu, Bradford J. Wood, Baris Turkbey, Peter L. Choyke, Peter A. Pinto, Shijun Wang and Ronald M. Summers Medical Physics, doi://10.1118/1.4918318 (2015)
SNPfisher: tools for probing genetic variation in laboratory-reared zebrafish Matthew G. Butler, James R. Iben, Kurt C. Marsden, Jonathan A. Epstein, Michael Granato and Brant M. Weinstein Development, doi: 10.1242/dev.118786 (2015)
X Chromosome and Autosome Dosage Responses in Drosophila melanogaster Heads Zhen-Xia Chen and Brian Oliver Genes | Genomes | Genetics, doi://10.1534/g3.115.017632 (2015)
Dissecting the Roles of MicroRNAs in Coronary Heart Disease via Integrative Genomic Analyses Tianxiao Huan, Jian Rong, Kahraman Tanriverdi, Qingying Meng, Anindya Bhattacharya, David D. McManus, Roby Joehanes, Themistocles L. Assimes, Ruth McPherson, Nilesh J. Samani, Jeanette Erdmann, Heribert Schunkert, Coronary ARteryDIsease Genome wide Replication and Meta-analysis (CARDIoGRAM) Consortium, Paul Courchesne, Peter J. Munson, Andrew D. Johnson, Christopher J. O'Donnell, Bin Zhang, Martin G. Larson, Jane E. Freedman, Daniel Levy, Xia Yang Arteriosclerosis, Thrombosis, and Vascular Biology, doi: 10.1161/ATVBAHA.114.305176 (2015)

Mutations decouple proton transfer from phosphate cleavage in the dUTPase catalytic reaction Anna Lopata, Pablo G. Jambrina, Pankaz K. Sharma, Bernard R. Brooks, Judit Toth, Beata G. Vertessy, and Edina Rosta ACS Catalysis, DOI: 10.1021/cs502087f (2015)
Pleiotropy Analysis of Quantitative Traits at Gene Level by Multivariate Functional Linear Models Wang Y, Liu A, Mills JL, Boehnke M, Wilson AF, Bailey-Wilson JE, Xiong M, Wu CO, Fan R Genet Epidemiol., doi: 10.1002/gepi.21895 (2015)
Modeling the effect of codon translation rates on co-translational protein folding mechanisms of arbitrary complexity Luca Caniparoli and Edward P. O'Brien J. Chem. Phys., doi://10.1063/1.4916914 (2015)
A Functional Data Analysis Approach for Circadian Patterns of Activity of Teenage Girls Ruzong Fan, Victoria Chen, Yunlong Xie, Lanlan Yin, Sungduk Kim, Paul S Albert, Bruce Simons-Morton J. Circadian Rhythms, DOI: 10.5334/jcr.ac (2015)
Continual Reintroduction of Human Pandemic H1N1 Influenza A Viruses into Swine in the United States, 2009 to 2014 Martha I. Nelson, Jered Stratton, Mary Lea Killian, Alicia Janas-Martindale and Amy L. Vincent J. Virology, doi: 10.1128/JVI.00459-15 (2015)
Global migration of influenza A viruses in swine Martha I. Nelson, Cècile Viboud, Amy L. Vincent, Marie R. Culhane, Susan E. Detmer, David E. Wentworth, Andrew Rambaut, Marc A. Suchard, Edward C. Holmes & Philippe Lemey Nature Communications, doi:10.1038/ncomms7696 (2015)

Towards predicting metastatic progression of melanoma based on gene expression data Yuanyuan Li, Juno M. Krahn, Gordon P. Flake, David M. Umbach andLeping Li Pigment Cell and Melanoma Research, DOI: 10.1111/pcmr.12374 (2015)
An Integrated Bayesian Nonparametric Approach for Stochastic and Variability Orders in ROC Curve Estimation: An Application to Endometriosis Diagnosis Beom Seuk Hwang & Zhen Chena* J. Am. Stat. Assoc., DOI:10.1080/01621459.2015.1023806 (2015)
Identification of Mutational Hot Spots for Substrate Diffusion: Application to Myoglobin David De Sancho, Adam Kubas, Po-Hung Wang, Jochen Blumberger, and Robert B. Best J. Chem. Theory Comput. , DOI: 10.1021/ct5011455 (2015)
Genome-wide identification of microRNA expression quantitative trait loci Tianxiao Huan, Jian Rong, Chunyu Liu, Xiaoling Zhang, Kahraman Tanriverdi, Roby Joehanes, Brian H. Chen, Joanne M. Murabito, Chen Yao, Paul Courchesne, Peter J. Munson, Christopher J. O'Donnell, Nancy Cox, Andrew D. Johnson, Martin G. Larson, Daniel Levy & Jane E. Freedman Nature Communications, doi:10.1038/ncomms7601 (2015)
Molecular modeling of the human P2Y14 receptor: A template for structure-based design of selective agonist ligands Kevin Trujillo, Silvia Paoletta, Evgeny Kiselev, Kenneth A. Jacobson Bioorganic & Medicinal Chemistry, doi:10.1016/j.bmc.2015.03.042 (2015)
Detection and characterization of nonspecific, sparsely populated binding modes in the early stages of complexation Antonio Cardone, Aaron Bornstein, Harish C. Pant, Mary Brady, Ram Sriram and Sergio A. Hassan J. Computational Chemistry, DOI: 10.1002/jcc.23883 (2015)

Single-unit activity during natural vision: diversity, consistency, and spatial sensitivity among AF face patch neurons McMahon DB, Russ BE, Elnaiem HD, Kurnikova AI, Leopold DA J. Neurosci., DOI://10.1523/JNEUROSCI.3825-14.2015 (2015)
An Apela RNA-Containing Negative Feedback Loop Regulates p53-Mediated Apoptosis in Embryonic Stem Cells Li M, Gou H, Tripathi BK, Huang J, Jiang S, Dubois W, Waybright T, Lei M, Shi J, Zhou M, Huang J Cell Stem Cell , doi: 10.1016/j.stem.2015.04.002 (2015)
Mutation rate and genotype variation of Ebola virus from Mali case sequences T. Hoenen, D. Safronetz, A. Groseth, K. R. Wollenberg, O. A. Koita, B. Diarra, I. S. Fall, F. C. Haidara, F. Diallo, M. Sanogo, Y. S. Sarro, A. Kone, A. C. G. Togo, A. Traore, M. Kodio, A. Dosseh, K. Rosenke, E. de Wit, F. Feldmann, H. Ebihara, V. J. Munster, K. C. Zoon, H. Feldmann, S. Sow Science, DOI: 10.1126/science.aaa5646 (2015)
Deep Sequencing in Microdissected Renal Tubules Identifies Nephron Segment-Specific Transcriptomes Jae Wook Lee, Chung-Lin Chou and Mark A. Knepper J. Am. Soc. Nephrology, doi: 10.1681/ASN.2014111067 (2015)
S Values for 131I based on the ICRP Adult Voxel Phantoms Stephanie Lamart, Steven L. Simon, Andre Bouville, Brian E. Moroz and Choonsik Lee Radiation Protection Dosimetry, doi: 10.1093/rpd/ncv016 (2015)
Vasopressin-regulated miRNAs and AQP2-targeting miRNAs in kidney collecting duct cells Kim, JE; Jung, HJ; Lee, YJ; Kwon, TH; , Am J Physiol Renal Physiol, DOI://10.1152/ajprenal.00334.2014 (2015)

The relationship between glucose metabolism, resting-state fMRI BOLD signal, and GABAA-binding potential: a preliminary study in healthy subjects and those with temporal lobe epilepsy Nugent AC, Martinez A, D'Alfonso A, Zarate CA, Theodore WH J. Cereb. Blood Flow Metab., DOI://10.1038/jcbfm.2014.228 (2015)
Is visual registration equivalent to semiautomated registration in prostate biopsy Kwak, JT; Hong, CW; Pinto, PA et al. Biomed Res Int, DOI://10.1155/2015/394742 (2015)
Rare variants in neuronal excitability genes influence risk for bipolar disorder Ament SA, Szelinger S, Glusman G, Ashworth J, Hou L, Akula N, Shekhtman T, Badner JA, Brunkow ME, Mauldin DE, Stittrich AB, Rouleau K, Detera-Wadleigh SD, Nurnberger JI Jr, Edenberg HJ, Gershon ES, Schork N; Bipolar Genome Study, Price ND, Gelinas R, Hood L, Craig D, McMahon FJ, Kelsoe JR, Roach JC PNAS, doi: 10.1073/pnas.1424958112 (2015)
Computational and experimental studies of reassociating RNA/DNA hybrids containing split functionalities Afonin KA, Bindewald E, Kireeva M, Shapiro BA Methods Enzymol. , doi: 10.1016/bs.mie.2014.10.058 (2015)
Common genetic variants influence human subcortical brain structures Hibar DP, Stein JL, Renteria ME et al. Nature, doi: 10.1038/nature14101 (2015)
Genome-wide association study for refractive astigmatism reveals genetic co-determination with spherical equivalent refractive error: the CREAM consortium Li Q, Wojciechowski R, Simpson CL et al. Human Genetics, doi: 10.1007/s00439-014-1500-y. (2015)
The bigger they are, the harder they fall: A topical review on sedimented solutes for solid-state NMR Enrico Ravera Concepts in Magnetic Resonance, DOI: 10.1002/cmr.a.21318 (2015)
A Meta-analysis of Gene Expression Signatures of Blood Pressure and Hypertension Tianxiao Huan , Tõnu Esko , Marjolein J. Peters et al. PLoS Genetics, DOI: 10.1371/journal.pgen.1005035 (2015)
Nucleus detection using gradient orientation information and linear least squares regression Jin Tae Kwak ; Stephen M. Hewitt ; Sheng Xu ; Peter A. Pinto ; Bradford J. Wood Proc. SPIE Medical Imaging 2015, doi:10.1117/12.2081413 (2015)
Characterization of the p300 Taz2-p53 TAD2 complex and comparison with the p300 Taz2-p53 TAD1 complex Miller Jenkins, LM; Feng, H; Durell, SR et al. Biochemistry, DOI://10.1021/acs.biochem.5b00044 (2015)
Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility Jennifer Wessel, Audrey Y Chu, Sara M Willems et al. Nature Communications, doi: 10.1038/ncomms6897 (2015)
A Rapid and Simple Screening Method to Identify Conditions for Enhanced Stability of Modular Vaccine Candidates Alemu Tekewe, Natalie K. Connorsa , Frank Sainsbury, Nani Wibowo, Linda H.L. Lua, Anton P.J. Middelberg Biochemical Engg. Journal, doi:10.1016/j.bej.2015.04.004 (2015)
Computational Structural Analysis of C-Terminal Residues of Proteins Containing Transmembrane Regions M.C. Rishyakulya, K.M. Saravanan Int. J. Comp. Biol. 4(1):44-54 (2015)
Clonality and Evolutionary History of Rhabdomyosarcoma Li Chen , Jack F. Shern , Jun S. Wei, Marielle E. Yohe, Young K. Song, Laura Hurd, Hongling Liao, Daniel Catchpoole, Stephen X. Skapek, Frederic G. Barr, Douglas S. Hawkins, Javed Khan PLos Genetics, DOI: 10.1371/journal.pgen.1005075 (2015)
Practice Structure Improves Unconscious Transitional Memories by Increasing Synchrony in a Premotor Network. Song S, Gotts SJ, Dayan E, Cohen LG. J. Cognitive Neuroscience, doi:10.1162/jocna00796 (2015)
Tissue- and time-dependent transcription in Ixodes ricinus salivary glands and midguts when blood feeding on the vertebrate host Kotsyfakis M, Schwarz A, Erhart J, Ribeiro JM Sci Rep, DOI://10.1038/srep09103 (2015)
Permutation Testing for Treatment-Covariate Interactions and Subgroup Identification Jared C. Foster, Bin Nan, Lei Shen, Niko Kaciroti, Jeremy M. G. Taylor Statistics in Bioscience, DOI 10.1007/s12561-015-9125-9 (2015)
Burden of Serious Infections in Adults With Systemic Lupus Erythematosus: A National Population-Based Study, 1996-2011 Maria G. Tektonidou, Zhong Wang, Abhijit Dasgupta and Michael M. Ward Arthritis Care and Research, DOI: 10.1002/acr.22575 (2015)

Synthesis and cell-selective antitumor properties of amino acid conjugated tumor-associated carbohydrate antigen-coated gold nanoparticles Biswas S, Medina SH, Barchi JJ Carbohydr. Res., DOI://10.1016/j.carres.2014.11.002 (2015)
Chromatin Architecture Reorganization during Stem Cell Differentiation Dixon JR, Jung I, Selvaraj S, Shen Y, Antosiewicz-Bourget JE, Lee AY, Ye Z, Kim A, Rajagopal N, Xie W, Diao Y, Liang J, Zhao H, Lobanenkov VV, Ecker JR, Thomson JA, Ren B Nature, doi: 10.1038/nature14222 (2015)
Dependence of Internal Friction on Folding Mechanism Wenwei Zheng, David De Sancho, Travis Hoppe, and Robert B. Best JACS, DOI: 10.1021/ja511609u (2015)
Mechanisms of Membrane Binding of Small GTPase K-Ras4B Farnesylated Hypervariable Region Hyunbum Jang, Sherwin J. Abraham, Tanmay S. Chavan, Ben Hitchinson, Lyuba Khavrutskii, Nadya I. Tarasova, Ruth Nussinov and Vadim Gaponenko J. Biol. Chem. , doi: 10.1074/jbc.M114.620724 (2015)
Predicting the Impact of Missense Mutations on Protein-Protein Binding Affinity Minghui Li, Marharyta Petukh, Emil Alexov, and Anna R. Panchenko J Chem Theory Comput., doi: 10.1021/ct401022c (2015)
Quantitative residue-specific protein backbone torsion angle dynamics from concerted measurement of 3J couplings Lee JH, Li F, Grishaev A, Bax A. J Am Chem Soc. , doi: 10.1021/ja512593s (2015)

Genome accessibility is widely preserved and locally modulated during mitosis Hsiung CC, Morrissey CS, Udugama M, Frank CL, Keller CA, Baek S, Giardine B, Crawford GE, Sung MH, Hardison RC, Blobel GA Genome Res. , doi: 10.1101/gr.180646 (2015)
Structure and dynamics of the fibronectin-III domains of Aplysia californica cell adhesion molecules Catherine M. Kelly , Julien Muzard , Bernard R. Brooks , Gil Lee and Nicolae-Viorel Buchete Phys. Chem. Chem. Phys., DOI: 10.1039/C4CP05307A (2015)
A Novel Tricyclic Ligand-Containing Nonpeptidic HIV-1 Protease Inhibitor, GRL-0739, Effectively Inhibits the Replication of Multidrug-Resistant HIV-1 Variants and Has a Desirable Central Nervous System Penetration Property In Vitro Masayuki Amano, Yasushi Tojo, Pedro Miguel Salcedo-Gòmez, Garth L. Parham, Prasanth R. Nyalapatla, Debananda Das, Arun K. Ghosh and Hiroaki Mitsuya Antimicrob Agents Chemother., doi: 10.1128/AAC.04757-14 (2015)
Identification of common genetic variants controlling transcript isoform variation in human whole blood Xiaoling Zhang, Roby Joehanes, Brian H Chen, Tianxiao Huan, Saixia Ying, Peter J Munson, Andrew D Johnson, Daniel Levy & Christopher J O'Donnell Nature Genetics, doi:10.1038/ng.3220 (2015)
Whole-genome sequencing to understand the genetic architecture of common gene expression and biomarker phenotypes Andrew R. Wood, Marcus A. Tuke, Mike Nalls et al. Hum Mol Genet., doi: 10.1093/hmg/ddu560 (2015)
Visualizing transient dark states by NMR spectroscopy Anthis NJ, Clore GM Q. Rev. Biophys., DOI://10.1017/S0033583514000122 (2015)

Analysis of the contribution of experimental bias, experimental noise, and inter-subject biological variability on the assessment of developmental trajectories in diffusion MRI studies of the brain Sadeghi, N; Nayak, A; Walker, L et al. Neuroimage, DOI://10.1016/j.neuroimage.2014.12.084 (2015)
Functional MRI mapping of dynamic visual features during natural viewing in the macaque Russ BE, Leopold DA Neuroimage, DOI://10.1016/j.neuroimage.2015.01.012 (2015)
Systems biology of polycystic kidney disease: a critical review Menezes LF, Germino GG Wiley Interdiscip Rev Syst Biol Med, DOI://10.1002/wsbm.1289 (2015)
A Genome-wide Association Study of Myasthenia Gravis Alan E. Renton, Hannah A. Pliner, Carlo Provenzano et al. JAMA Neurology, doi:10.1001/jamaneurol.2014.4103 (2015)
An Equilibrium Model for the Combined Effect of Macromolecular Crowding and Surface Adsorption on the Formation of Linear Protein Fibrils Travis Hoppe1, Allen P. Minton Biophys. J. , doi:10.1016/j.bpj.2014.12.033 (2015)
DNA methylation age of blood predicts all-cause mortality in later life Marioni, RE, Shah, S, McRae, AF, Chen, BH, Colicino, E, Harris, SE, Gibson, J, Henders, AK, Redmond, P, Cox, SR, Pattie, A, Corley, J, Murphy, L, Martin, NG, Montgomery, GW, Feinberg, AP, Fallin, M, Multhaup, ML, Jaffe, AE, Joehanes, R, Schwartz, J, Just, AC, Lunetta, KL, Murabito, JM, Starr, JM, Horvath, S, Baccarelli, AA, Levy, D, Visscher, PM, Wray, NR & Deary, IJ Genome Biology, doi://10.1186/s13059-015-0584-6 (2015)

Addressing population-specific multiple testing burdens in genetic association studies Sobota, RS; Shriner, D; Kodaman, N et al. Ann. Hum. Genet., DOI://10.1111/ahg.12095 (2015)
Stretch-Enhancers Delineate Disease-Associated Regulatory Nodes in T Cells Golnaz Vahedi, Yuka Kanno, Yasuko Furumoto, Kan Jiang, Stephen C. J. Parker, Michael R. Erdos, Sean R. Davis, Rahul Roychoudhuri, Nicholas P. Restifo, Massimo Gadina, Zhonghui Tang, Yijun Ruan, Francis S. Collins, Vittorio Sartorelli & John J. O'Shea Nature, doi:10.1038/nature14154 (2015)
Allosteric Effects of the Oncogenic RasQ61L Mutant on Raf-RBD. Fetics SK, Guterres H, Kearney BM, Buhrman G, Ma B, Nussinov R, Mattos C Structure, doi: 10.1016/j.str.2014.12.017 (2015)
Dynamics of chromatin accessibility and long-range interactions in response to glucocorticoid pulsing Stavreva DA, Coulon A, Baek S, Sung MH, John S, Stixova L, Tesikova M, Hakim O, Miranda T, Hawkins M, Stamatoyannopoulos JA, Chow CC, Hager GL Genome Res. , doi: 10.1101/gr.184168.114 (2015)
Role of contingency in striatal response to incentive in adolescents with anxiety Benson BE, Guyer AE, Nelson EE, Pine DS, Ernst M Cogn Affect Behav Neurosci, DOI://10.3758/s13415-014-0307-6 (2015)
The NAD(+)-dependent SIRT1 deacetylase translates a metabolic switch into regulatory epigenetics in skeletal muscle stem cells Ryall, JG; Dell'Orso, S; Derfoul, A et al. Cell Stem Cell, DOI://10.1016/j.stem.2014.12.004 (2015)

Efficient Data Mining for Local Binary Pattern in Texture Image Analysis Jin Tae Kwak, , Sheng Xu , Bradford J. Wood Expert Systems with Applications, doi:10.1016/j.eswa.2015.01.055 (2015)
What's Next for Next-Gen Sequencing? MaryAnn Labant Genetic Engineering and Biotechnology News, doi:10.1089/gen.35.03.02. (2015)
Transcriptional profiles reveal a stepwise developmental program of memory CD8(+) T cell differentiation Roychoudhuri, R; Lefebvre, F; Honda, M et al. Vaccine, DOI://10.1016/j.vaccine.2014.10.007 (2015)
Myosin II controls cellular branching morphogenesis and migration in three dimensions by minimizing cell-surface curvature Elliott, H; Fischer, RS; Myers, KA et al. Nat. Cell Biol., DOI://10.1038/ncb3092 (2015)
Optimizing the order of hypotheses in serial testing of multiple endpoints in clinical trials. Zhang Z, Wang C, Troendle JF. Stat. Med., doi: 10.1002/sim.6425. (2015)
CENP-A nucleosomes localize to transcription factor hotspots and subtelomeric sites in human cancer cells Rajbir K Athwal, Marcin P Walkiewicz, Songjoon Baek, Song Fu, Minh Bui, Jordi Camps, Thomas Ried, Myong-Hee Sung and Yamini Dalal Epigenetics and Chromatin, doi:10.1186/1756-8935-8-2 (2015)

Coupled-Cluster Studies of Extensive Green Fluorescent Protein Models Using the Reduced Virtual Space Approach Robert Send , Carl-Mikael Suomivuori , Ville R. I. Kaila , and Dage Sundholm J. Phys. Chem. B, DOI: 10.1021/jp5120898 (2015)
Antagonistic cross-regulation between Sox9 and Sox10 controls an anti-tumorigenic program in melanoma Shakhova, O; Cheng, P; Mishra, PJ et al. PLoS Genet., DOI://10.1371/journal.pgen.1004877 (2015)
Withdrawal from long-term methamphetamine self-administration 'normalizes' neurometabolites in rhesus monkeys: a (1) H MR spectroscopy study Yang S, Belcher AM, Chefer S, Vaupel DB, Schindler CW, Stein EA, Yang Y. Addict Biol., doi: 10.1111/adb.12078. (2015)
Molecular basis of the polyspecificity of P-glycoprotein (ABCB1): recent biochemical and structural studies Chufan EE, Sim HM, Ambudkar SV Adv Cancer Res, doi: 10.1016/bs.acr.2014.10.003 (2015)
fMRI functional connectivity applied to adolescent neurodevelopment Ernst M, Torrisi S, Balderston N, Grillon C, Hale EA. Annu Rev Clin Psychol., doi: 10.1146/annurev-clinpsy-032814-112753 (2015)
A systematic heritability analysis of the human whole blood transcriptome. Huan T, Liu C, Joehanes R, Zhang X, Chen BH, Johnson AD, Yao C, Courchesne P, O'Donnell CJ, Munson PJ, Levy D. Human Genetics (2015)
Detecting Functional Connectivity during Audiovisual Integration with MEG: a Comparison of Connectivity Metrics. Ard TD, Carver F, Holroyd T, Horwitz B, Coppola R. Brain Connect. (2015)
Cerebro-cerebellar connectivity is increased in primary lateral sclerosis Meoded A, Morrissette AE, Katipally R, Schanz O, Gotts SJ, Floeter MK Neuroimage Clin, DOI://10.1016/j.nicl.2014.12.009 (2015)
Functional mapping of face-selective regions in the extrastriate visual cortex of the marmoset Hung, CC; Yen, CC; Ciuchta, JL et al. J. Neurosci., DOI://10.1523/JNEUROSCI.2659-14.2015 (2015)
Modulation of Alzheimer's Aβ protofilament-membrane interactions by lipid headgroups. Tofoleanu F, Brooks BR, Buchete NV. ACS Chem Neurosci., doi://abs/10.1021/cn500277f (2015)
Insights into the Mechanism of Inhibition of CXCR4: Identification of Piperidinylethanamine Analogs as Anti-HIV-1 Inhibitors Das D, Maeda K, Hayashi Y, Gavande N, Desai DV, Chang SB, Ghosh AK, Mitsuya H Antimicrob Agents Chemother., pii: AAC.04654-14. (2015)
Variable selection method for the identification of epistatic models Holzinger ER, Szymczak S, Dasgupta A, Malley J, Li Q, Bailey-Wilson JE Pac Symp Biocomput, 2335-6936 (2015)

CDD: NCBI's conserved domain database Marchler-Bauer, A; Derbyshire, MK; Gonzales, NR et al. Nucleic Acids Res., DOI://10.1093/nar/gku1221 (2015)
NRG1, ERBB4 and AKT1 Epistasis Increases Schizophrenia Risk and is Biologically Validated via Functional Neuroimaging in Healthy Controls Nicodemus KK, Law AJ, Radulescu E, Luna A, Kolachana B, Vakkalanka R, Rujescu D, Giegling I, Straub RE, McGee K, Gold B, Dean M, Muglia P, Callicott JH, Tan HY, Weinberger DR. Arch Gen Psychiatry, doi: 10.1001/archgenpsychiatry.2010.117 (2015)
Maturation of the HIV-1 core by a non-diffusional phase transition Frank GA, Narayan K, Bess JW Jr, Del Prete GQ, Wu X, Moran A, Hartnell LM, Earl LA, Lifson JD, Subramaniam S Nature Communications, doi: 10.1038/ncomms6854 (2015)
Meta-analysis of Correlated Traits via Summary Statistics from GWASs with an Application in Hypertension Xiaofeng Zhu, Tao Feng, Bamidele O. Tayo et al. Am J Hum Genet., doi: 10.1016/j.ajhg.2014.11.011. (2015)
Protein structural information derived from NMR chemical shift with the neural network program TALOS-N Shen Y, Bax A Methods Mol. Biol., DOI://10.1007/978-1-4939-2239-0_2 (2015)
BRD4 assists elongation of both coding and enhancer RNAs by interacting with acetylated histones Kanno T, Kanno Y, LeRoy G, Campos E, Sun HW, Brooks SR, Vahedi G, Heightman TD, Garcia BA, Reinberg D, Siebenlist U, O'Shea JJ, Ozato K Nat Struct Mol Biol., doi: 10.1038/nsmb.2912 (2015)

2014 (267 papers)

Teneurin-4 promotes cellular protrusion formation and neurite outgrowth through focal adhesion kinase signaling Suzuki, N; Numakawa, T; Chou, J et al. FASEB J., DOI://10.1096/fj.13-241034 (2014)
Targeted H3R26 deimination specifically facilitates estrogen receptor binding by modifying nucleosome structure Guertin, MJ; Zhang, X; Anguish, L et al. PLoS Genet., DOI://10.1371/journal.pgen.1004613 (2014)
Loss of signalling via Gα13 in germinal centre B-cell-derived lymphoma Muppidi, JR; Schmitz, R; Green, JA et al. Nature, DOI://10.1038/nature13765 (2014)
NEP: web server for epitope prediction based on antibody neutralization of viral strains with diverse sequences Chuang, GY; Liou, D; Kwong, PD; Georgiev, IS; Nucleic Acids Res., DOI://10.1093/nar/gku318 (2014)
Structural basis of resistance to anti-cytochrome bc₁ complex inhibitors: implication for drug improvement Esser, L; Yu, CA; Xia, D; Curr. Pharm. Des., DOI://10.2174/138161282005140214163327 (2014)
Concurrent alterations in TERT, KDM6A, and the BRCA pathway in bladder cancer Nickerson, ML; Dancik, GM; Im, KM et al. Clin. Cancer Res., DOI://10.1158/1078-0432.CCR-14-0330 (2014)
Ciliopathy-associated gene Cc2d2a promotes assembly of subdistal appendages on the mother centriole during cilia biogenesis Veleri, S; Manjunath, SH; Fariss, RN et al. Nat Commun, DOI://10.1038/ncomms5207 (2014)
A new approach to radial basis function approximation and its application to QSAR Zakharov, AV; Peach, ML; Sitzmann, M; Nicklaus, MC; J Chem Inf Model, DOI://10.1021/ci400704f (2014)
Applications of multivariate modeling to neuroimaging group analysis: a comprehensive alternative to univariate general linear model Chen, G; Adleman, NE; Saad, ZS; Leibenluft, E; Cox, RW; Neuroimage, DOI://10.1016/j.neuroimage.2014.06.027 (2014)
An electrocorticographic electrode array for simultaneous recording from medial, lateral, and intrasulcal surface of the cortex in macaque monkeys Fukushima, M; Saunders, RC; Mullarkey, M; Doyle, AM; Mishkin, M; Fujii, N; J. Neurosci. Methods, DOI://10.1016/j.jneumeth.2014.06.022 (2014)
Towards a mechanistic understanding of pathological anxiety: the dorsal medial prefrontal-amygdala 'aversive amplification' circuit in unmedicated generalized and social anxiety disorders Robinson, OJ; Krimsky, M; Lieberman, L; Allen, P; Vytal, K; Grillon, C; Lancet Psychiatry, DOI://10.1016/S2215-0366(14)70305-0 (2014)
Genome Sequences of Vibrio navarrensis, a Potential Human Pathogen Gladney, LM; Katz, LS; Knipe, KM et al. Genome Announc, DOI://10.1128/genomeA.01188-14 (2014)
Perlecan is required for FGF-2 signaling in the neural stem cell niche Kerever, A; Mercier, F; Nonaka, R et al. Stem Cell Res, DOI://10.1016/j.scr.2013.12.009 (2014)
Molecular architecture of transcription factor hotspots in early adipogenesis Siersbæk, R; Baek, S; Rabiee, A et al. Cell Rep, DOI://10.1016/j.celrep.2014.04.043 (2014)
A specific missense mutation in GTF2I occurs at high frequency in thymic epithelial tumors Petrini, I; Meltzer, PS; Kim, IK et al. Nat. Genet., DOI://10.1038/ng.3016 (2014)
Clonal tracking of rhesus macaque hematopoiesis highlights a distinct lineage origin for natural killer cells Wu, C; Li, B; Lu, R et al. Cell Stem Cell, DOI://10.1016/j.stem.2014.01.020 (2014)
Overlapping chromatin-remodeling systems collaborate genome wide at dynamic chromatin transitions Morris, SA; Baek, S; Sung, MH et al. Nat. Struct. Mol. Biol., DOI://10.1038/nsmb.2718 (2014)
Single-molecule sequencing to track plasmid diversity of hospital-associated carbapenemase-producing Enterobacteriaceae Conlan, S; Thomas, PJ; Deming, C et al. Sci Transl Med, DOI://10.1126/scitranslmed.3009845 (2014)
Large-scale genome-wide association studies and meta-analyses of longitudinal change in adult lung function Tang, W; Kowgier, M; Loth, DW et al. PLoS ONE, DOI://10.1371/journal.pone.0100776 (2014)
Role of myelin plasticity in oscillations and synchrony of neuronal activity Pajevic, S; Basser, PJ; Fields, RD; Neuroscience, DOI://10.1016/j.neuroscience.2013.11.007 (2014)
High-resolution traction force microscopy Plotnikov, SV; Sabass, B; Schwarz, US; Waterman, CM; Methods Cell Biol., DOI://10.1016/B978-0-12-420138-5.00020-3 (2014)
Elucidation of the structural basis of interaction of the BCR-ABL kinase inhibitor, nilotinib (Tasigna) with the human ABC drug transporter P-glycoprotein Shukla, S; Chufan, EE; Singh, S et al. Leukemia, DOI://10.1038/leu.2014.21 (2014)
miR-155 activates cytokine gene expression in Th17 cells by regulating the DNA-binding protein Jarid2 to relieve polycomb-mediated repression Escobar, TM; Kanellopoulou, C; Kugler, DG et al. Immunity, DOI://10.1016/j.immuni.2014.03.014 (2014)
Transcriptional and epigenetic networks of helper T and innate lymphoid cells Shih, HY; Sciumè, G; Poholek, AC et al. Immunol. Rev., DOI://10.1111/imr.12208 (2014)
High rate of disease-related copy number variations in childhood onset schizophrenia Ahn, K; Gotay, N; Andersen, TM et al. Mol. Psychiatry, DOI://10.1038/mp.2013.59 (2014)
Genome-wide meta-analysis of myopia and hyperopia provides evidence for replication of 11 loci Simpson, CL; Wojciechowski, R; Oexle, K et al. PLoS ONE, DOI://10.1371/journal.pone.0107110 (2014)
A C-terminal fragment of fibulin-7 interacts with endothelial cells and inhibits their tube formation in culture de Vega, S; Suzuki, N; Nonaka, R et al. Arch. Biochem. Biophys., DOI://10.1016/j.abb.2014.01.013 (2014)
High prevalence of MAP2K1 mutations in variant and IGHV4-34-expressing hairy-cell leukemias Waterfall, JJ; Arons, E; Walker, RL et al. Nat. Genet., DOI://10.1038/ng.2828 (2014)
Structure and immune recognition of trimeric pre-fusion HIV-1 Env Pancera, M; Zhou, T; Druz, A et al. Nature, DOI://10.1038/nature13808 (2014)
Synthesis, biological, and biophysical studies of DAG-indololactones designed as selective activators of RasGRP Garcia, LC; Donadío, LG; Mann, E et al. Bioorg. Med. Chem., DOI://10.1016/j.bmc.2014.04.024 (2014)
Neonatal health of infants born to mothers with asthma Mendola, P; Männistö, TI; Leishear, K; Reddy, UM; Chen, Z; Laughon, SK; J. Allergy Clin. Immunol., DOI://10.1016/j.jaci.2013.06.012 (2014)
Conformational distribution and α-helix to β-sheet transition of human amylin fragment dimer Qi, R; Luo, Y; Ma, B; Nussinov, R; Wei, G; Biomacromolecules, DOI://10.1021/bm401406e (2014)
Dipeptide analysis of p53 mutations and evolution of p53 family proteins Huang, Q; Yu, L; Levine, AJ; Nussinov, R; Ma, B; Biochim. Biophys. Acta, DOI://10.1016/j.bbapap.2013.04.002 (2014)
Genome-wide analysis of multi-ancestry cohorts identifies new loci influencing intraocular pressure and susceptibility to glaucoma Hysi, PG; Cheng, CY; Springelkamp, H et al. Nat. Genet., DOI://10.1038/ng.3087 (2014)
Prediction of nucleosome rotational positioning in yeast and human genomes based on sequence-dependent DNA anisotropy Cui, F; Chen, L; LoVerso, PR; Zhurkin, VB; BMC Bioinformatics, DOI://10.1186/1471-2105-15-313 (2014)
Design and synthesis of human ABCB1 (P-glycoprotein) inhibitors by peptide coupling of diverse chemical scaffolds on carboxyl and amino termini of (S)-valine-derived thiazole amino acid Singh, S; Prasad, NR; Chufan, EE et al. J. Med. Chem., DOI://10.1021/jm401966m (2014)
Building through breaking: the development of cancer neochromosomes Waterfall, JJ; Meltzer, PS; Cancer Cell, DOI://10.1016/j.ccell.2014.10.013 (2014)
Mutant ADA2 in vasculopathies Kastner, DL; Zhou, Q; Aksentijevich, I; N. Engl. J. Med., DOI://10.1056/NEJMc1405506 (2014)
Transient estrogen receptor binding and p300 redistribution support a squelching mechanism for estradiol-repressed genes Guertin, MJ; Zhang, X; Coonrod, SA; Hager, GL; Mol. Endocrinol., DOI://10.1210/me.2014-1130 (2014)
RSC-dependent constructive and destructive interference between opposing arrays of phased nucleosomes in yeast Ganguli, D; Chereji, RV; Iben, JR; Cole, HA; Clark, DJ; Genome Res., DOI://10.1101/gr.177014.114 (2014)
Tyrosine sulfation in the second variable loop (V2) of HIV-1 gp120 stabilizes V2-V3 interaction and modulates neutralization sensitivity Cimbro, R; Gallant, TR; Dolan, MA et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1314718111 (2014)
Rotational positioning of nucleosomes facilitates selective binding of p53 to response elements associated with cell cycle arrest Cui, F; Zhurkin, VB; Nucleic Acids Res., DOI://10.1093/nar/gkt943 (2014)
Mutations of epigenetic regulatory genes are common in thymic carcinomas Wang, Y; Thomas, A; Lau, C et al. Sci Rep, DOI://10.1038/srep07336 (2014)
A closed-loop model of the respiratory system: focus on hypercapnia and active expiration Molkov, YI; Shevtsova, NA; Park, C et al. PLoS ONE, DOI://10.1371/journal.pone.0109894 (2014)
Laminin α1 regulates age-related mesangial cell proliferation and mesangial matrix accumulation through the TGF-β pathway Ning, L; Kurihara, H; de Vega, S et al. Am. J. Pathol., DOI://10.1016/j.ajpath.2014.02.006 (2014)
Family-based tests applied to extended pedigrees identify rare variants related to hypertension Xu, M; Wang, HZ; Guo, W; Qin, H; Shugart, YY; BMC Proc, DOI://10.1186/1753-6561-8-S1-S31 (2014)
Genome sequencing highlights the dynamic early history of dogs Freedman, AH; Gronau, I; Schweizer, RM et al. PLoS Genet., DOI://10.1371/journal.pgen.1004016 (2014)
Independence of familial transmission of mania and depression: results of the NIMH family study of affective spectrum disorders Merikangas, KR; Cui, L; Heaton, L et al. Mol. Psychiatry, DOI://10.1038/mp.2013.116 (2014)

pY RNA1-s2: a highly retina-enriched small RNA that selectively binds to Matrin 3 (Matr3) Yamazaki, F; Kim, HH; Lau, P et al. PLoS ONE, DOI://10.1371/journal.pone.0088217 (2014)
Sex- and age-interacting eQTLs in human complex diseases Yao, C; Joehanes, R; Johnson, AD et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddt582 (2014)
Experimental basis for a new allosteric model for multisubunit proteins Viappiani, C; Abbruzzetti, S; Ronda, L et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1413566111 (2014)
Comparison of gene expression microarray data with count-based RNA measurements informs microarray interpretation Richard, AC; Lyons, PA; Peters, JE et al. BMC Genomics, DOI://10.1186/1471-2164-15-649 (2014)
KDM5B focuses H3K4 methylation near promoters and enhancers during embryonic stem cell self-renewal and differentiation Kidder, BL; Hu, G; Zhao, K; Genome Biol., DOI://10.1186/gb-2014-15-2-r32 (2014)
Genomics of CpG methylation in developing and developed zebrafish McGaughey, DM; Abaan, HO; Miller, RM; Kropp, PA; Brody, LC; G3 (Bethesda), DOI://10.1534/g3.113.009514 (2014)
Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes Dowen, JM; Fan, ZP; Hnisz, D et al. Cell, DOI://10.1016/j.cell.2014.09.030 (2014)
The power comparison of the haplotype-based collapsing tests and the variant-based collapsing tests for detecting rare variants in pedigrees Guo, W; Shugart, YY; BMC Genomics, DOI://10.1186/1471-2164-15-632 (2014)
Gain-of-function CCR4 mutations in adult T cell leukemia/lymphoma Nakagawa, M; Schmitz, R; Xiao, W et al. J. Exp. Med., DOI://10.1084/jem.20140987 (2014)
A mouse model of HIES reveals pro- and anti-inflammatory functions of STAT3 Steward-Tharp, SM; Laurence, A; Kanno, Y et al. Blood, DOI://10.1182/blood-2013-09-523167 (2014)
Genetic associations with expression for genes implicated in GWAS studies for atherosclerotic cardiovascular disease and blood phenotypes Zhang, X; Johnson, AD; Hendricks, AE et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddt461 (2014)
Sparse representation based biomarker selection for schizophrenia with integrated analysis of fMRI and SNPs Cao, H; Duan, J; Lin, D; Shugart, YY; Calhoun, V; Wang, YP; Neuroimage, DOI://10.1016/j.neuroimage.2014.01.021 (2014)

Transcriptional profiling of Wnt3a mutants identifies Sp transcription factors as essential effectors of the Wnt/β-catenin pathway in neuromesodermal stem cells Dunty, WC; Kennedy, MW; Chalamalasetty, RB; Campbell, K; Yamaguchi, TP; PLoS ONE, DOI://10.1371/journal.pone.0087018 (2014)
Interleukin-1 and interferon-γ orchestrate β-glucan-activated human dendritic cell programming via IκB-ζ modulation Cardone, M; Dzutsev, AK; Li, H et al. PLoS ONE, DOI://10.1371/journal.pone.0114516 (2014)
Dimerization of HIV-1 protease occurs through two steps relating to the mechanism of protease dimerization inhibition by darunavir Hayashi, H; Takamune, N; Nirasawa, T et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1400027111 (2014)
Whole blood gene expression and interleukin-6 levels Lin, H; Joehanes, R; Pilling, LC et al. Genomics, DOI://10.1016/j.ygeno.2014.10.003 (2014)
Single mutations in tau modulate the populations of fibril conformers through seed selection Meyer, V; Dinkel, PD; Luo, Y et al. Angew. Chem. Int. Ed. Engl., DOI://10.1002/anie.201308473 (2014)
Complete Genome Sequence of a Klebsiella pneumoniae Isolate with Chromosomally Encoded Carbapenem Resistance and Colibactin Synthesis Loci Conlan, S; Deming, C; Tsai, YC et al. Genome Announc, DOI://10.1128/genomeA.01332-14 (2014)
Mutations in TBC1D24, a gene associated with epilepsy, also cause nonsyndromic deafness DFNB86 Rehman, AU; Santos-Cortez, RL; Morell, RJ et al. Am. J. Hum. Genet., DOI://10.1016/j.ajhg.2013.12.004 (2014)
Synthesis of a des-B-ring bryostatin analogue leads to an unexpected ring expansion of the bryolactone core Kraft, MB; Poudel, YB; Kedei, N et al. J. Am. Chem. Soc., DOI://10.1021/ja5078188 (2014)
QSAR modeling of imbalanced high-throughput screening data in PubChem Zakharov, AV; Peach, ML; Sitzmann, M; Nicklaus, MC; J Chem Inf Model, DOI://10.1021/ci400737s (2014)
Modulation of miR-29 expression by α-fetoprotein is linked to the hepatocellular carcinoma epigenome Parpart, S; Roessler, S; Dong, F et al. Hepatology, DOI://10.1002/hep.27200 (2014)
Diacylglycerol lactones targeting the structural features that distinguish the atypical C1 domains of protein kinase C ζ and ι from typical C1 domains Pu, Y; Kang, JH; Sigano, DM et al. J. Med. Chem., DOI://10.1021/jm500165n (2014)
Pharmacophore modeling of nilotinib as an inhibitor of ATP-binding cassette drug transporters and BCR-ABL kinase using a three-dimensional quantitative structure-activity relationship approach Shukla, S; Kouanda, A; Silverton, L; Talele, TT; Ambudkar, SV; Mol. Pharm., DOI://10.1021/mp400762h (2014)

Synthesis of seco-B-ring bryostatin analogue WN-1 via C-C bond-forming hydrogenation: critical contribution of the B-ring in determining bryostatin-like and phorbol 12-myristate 13-acetate-like properties Andrews, IP; Ketcham, JM; Blumberg, PM et al. J. Am. Chem. Soc., DOI://10.1021/ja507825s (2014)
Enumeration of ring-chain tautomers based on SMIRKS rules Guasch, L; Sitzmann, M; Nicklaus, MC; J Chem Inf Model, DOI://10.1021/ci500363p (2014)
Type I IFN induces binding of STAT1 to Bcl6: divergent roles of STAT family transcription factors in the T follicular helper cell genetic program Nakayamada, S; Poholek, AC; Lu, KT et al. J. Immunol., DOI://10.4049/jimmunol.1300675 (2014)
Promoter-bound p300 complexes facilitate post-mitotic transmission of transcriptional memory Wong, MM; Byun, JS; Sacta, M; Jin, Q; Baek, S; Gardner, K; PLoS ONE, DOI://10.1371/journal.pone.0099989 (2014)
Telomere attrition and candidate gene mutations preceding monosomy 7 in aplastic anemia. Dumitriu B, Feng X, Townsley DM, Ueda Y, Yoshizato T, Calado RT, Yang Y, Wakabayashi Y, Kajigaya S, Ogawa S, Zhu J, Young NS Blood, doi://10.1182/blood-2014-10-607572 (2014)
Polymorphism in Self-Assembly of Peptide-Based β-Hairpin Contributes to Network Morphology and Hydrogel Mechanical Rigidity Yifat Miller, Buyong Ma, and Ruth Nussinov J. Phys. Chem. B, DOI: 10.1021/jp511485n (2014)

Prospective Associations of Coronary Heart Disease Loci in African Americans Using the MetaboChip: The PAGE Study Nora Franceschini, Yijuan Hu, Alex P. Reiner, et al. PLoS One, DOI: 10.1371/journal.pone.0113203 (2014)
Behçet disease-associated MHC class I residues implicate antigen binding and regulation of cell-mediated cytotoxicity. Ombrello MJ, Kirino Y, de Bakker PI, Gül A, Kastner DL, Remmers EF PNAS, doi: 10.1073/pnas.1406575111 (2014)
Integrated transcriptome analysis of mouse spermatogenesis Margolin G, Khil PP, Kim J, Bellani MA, Camerini-Otero RD BMC Genomics, doi: 10.1186/1471-2164-15-39 (2014)
Integromic Analysis of Genetic Variation and Gene Expression Identifies Networks for Cardiovascular Disease Phenotypes Chen Yao, Brian H. Chen, Roby Joehanes, et al. Circulation, doi: 10.1161/CIRCULATIONAHA.114.010696 (2014)
Sex- and Tissue-Specific Functions of Drosophila Doublesex Transcription Factor Target Genes Clough E, Jimenez E, Kim YA, Whitworth C, Neville MC, Hempel LU, Pavlou HJ, Chen ZX, Sturgill D, Dale RK, Smith HE, Przytycka TM, Goodwin SF, Van Doren M, Oliver B Dev. Cell, doi: 10.1016/j.devcel.2014.11.021 (2014)
Leveraging Local identity-by-descent increases the power of Case/Control GWAS with Related Individuals Joshua N Sampson, Bill Wheeler, Peng Li, Jianxin Shi Ann Appl Stat. 8(2):974-998. (2014)

Genome sequencing accuracy by RCA-seq versus long PCR template cloning and sequencing in identification of human papillomavirus type 58 Wang X, Li Y, Ni T, Xie X, Zhu J, Zheng ZM Cell Biosci. , doi: 10.1186/2045-3701-4-5 (2014)
Complex interactions of transcription factors in mediating cytokine biology in T cells Li P, Spolski R, Liao W, Leonard WJ. Immunol Rev, doi: 10.1111/imr.12199. (2014)
Opposing actions of IL-2 and IL-21 on Th9 differentiation correlate with their differential regulation of BCL6 expression Liao W, Spolski R, Li P, Du N, West EE, Ren M, Mitra S, Leonard WJ. PNAS, doi: 10.1073/pnas.1301138111 (2014)
Enhanced potency of a broadly neutralizing HIV-1 antibody in vitro improves protection against lentiviral infection in vivo. Rudicell RS1, Kwon YD, Ko SY et al. Journal of Virology, doi: 10.1128/JVI.02213-14 (2014)
High Accuracy of Karplus Equations for Relating Three-Bond J Couplings to Protein Backbone Torsion Angles Fang Li, Jung Ho Lee, Alexander Grishaev, Jinfa Ying and Ad Bax Eur. J. Chem. Phys. Chem. , DOI: 10.1002/cphc.201402704 (2014)
Challenges and solutions for gene identification in the presence of familial locus heterogeneity Atteeq U Rehman, Regie Lyn P Santos-Cortez et al. Eur. J. Human Genetics, doi: 10.1038/ejhg.2014.266 (2014)

Linear Energy Relationships in Ground State Proton Transfer and Excited State Proton-Coupled Electron Transfer Ana-Patricia Gàmiz-Hernàndez , Artiom Magomedov , Gerhard Hummer , and Ville R. I. Kaila J. Phys. Chem. B, DOI: 10.1021/jp508790n (2014)
B Cell Super-Enhancers and Regulatory Clusters Recruit AID Tumorigenic Activity Jason Qian, Qiao Wang, Marei Dose et al. Cell, doi:10.1016/j.cell.2014.11.013 (2014)
Free energies from dynamic weighted histogram analysis using unbiased Markov state model Edina Rosta and Gerhard Hummer J. Chem. Theory Comput., DOI: 10.1021/ct500719p (2014)
High-resolution genome-wide DNA methylation maps of mouse primary female dermal fibroblasts and keratinocytes Raghunath Chatterjee, Ximiao He, Di Huang, Peter Fitzgerald, Andrew Smith and Charles Vinson Epigenetics and Chromatin, doi:10.1186/1756-8935-7-35 (2014)
Nucleosomes are enriched at the boundaries of hypomethylated regions (HMRs) in mouse dermal fibroblasts and keratinocytes Ximiao He, Raghunath Chatterjee, Desiree Tillo, Andrew Smith, Peter FitzGerald and Charles Vinson Epigenetics and Chromatin, doi:10.1186/1756-8935-7-34 (2014)
Genetic diversity is a predictor of mortality in humans Bihlmeyer NA, Brody JA, et al. BMC Genetics, doi:10.1186/s12863-014-0159-7 (2014)

TCF-1 and LEF-1 act upstream of Th-POK to promote the CD4(+) T cell fate and interact with Runx3 to silence Cd4 in CD8(+) T cells Steinke FC, Yu S, Zhou X, He B, Yang W, Zhou B, Kawamoto H, Zhu J, Tan K8, Xue HH Naturesteinc Immunol. , doi: 10.1038/ni.2897. (2014)
Brain Structural Substrates of Reward Dependence during Behavioral Performance Dayan E, Hamann JM, Averbeck BB, Cohen LG J. Neurosci. , doi: 10.1523/JNEUROSCI.3141-14.2014 (2014)
Early-Onset Stroke and Vasculopathy Associated with Mutations in ADA2 Zhou Q, Yang D, Ombrello AK, et al. N. Engl. J. Med. , doi: 10.1056/NEJMoa1307361 (2014)
Modern perspectives on numerical modeling of cardiac pacemaker cell Maltsev VA, Yaniv Y, Maltsev AV, Stern MD, Lakatta EG J. Pharmacological Sci. , doi://10.1254/jphs.13R04CR (2014)
Risk estimation using probability machines. Dasgupta A1, Szymczak S, Moore JH, Bailey-Wilson JE, Malley JD BioData Min. , doi: 10.1186/1756-0381-7-2. (2014)
Rbfox3 controls the biogenesis of a subset of microRNAs Kim KK, Yang Y, Zhu J, Adelstein RS, Kawamoto S. Nat Struct Mol Biol., doi: 10.1038/nsmb.2892 (2014)

Bayesian analysis of individual electron microscopy images: Towards structures of dynamic and heterogeneous biomolecular assemblies Pilar Cossio and Gerhard Hummer J Struct Biol. , doi: 10.1016/j.jsb.2013.10.006 (2014)
Valence-specific effects of BDNF Val66Met polymorphism on dopaminergic stress and reward processing in humans Peciña M, Martìnez-Jauand M, Love T, Heffernan J, Montoya P, Hodgkinson C, Stohler CS, Goldman D, Zubieta JK. J. Neurosci., doi: 10.1523/JNEUROSCI.2152-13 (2014)
Comparative phosphoproteomic analysis of mammalian glomeruli reveals conserved podocin C-terminal phosphorylation as a determinant of slit diaphragm complex architecture Markus M. Rinschen, Caroline Pahmeyer, Trairak Pisitkun, Nicole Schnell, Xiongwu Wu, Martina Maa, Malte P. Bartram, Tobias Lamkemeyer, Bernhard Schermer, Thomas Benzing andPaul T. Brinkkoetter Proteomics, DOI: 10.1002/pmic.201400235 (2014)
A Systems Genetics Approach Identifies CXCL14, ITGAX, and LPCAT2 as Novel Aggressive Prostate Cancer Susceptibility Genes Kendra A. Williams, Minnkyong Lee, Ying Hu et al. PLoS Genetics, doi: 10.1371/journal.pgen.1004809 (2014)
Charge Neutralization of the Central Lysine Cluster in Prion Protein (PrP) Promotes PrPSc-Like Folding of Recombinant PrP Amyloids Bradley R. Groveman, Allison Kraus, Lynne D. Raymond, Michael A. Dolan, Kelsie J. Anson, David W. Dorward and Byron Caughey J. Biol. Chem. , doi: 10.1074/jbc.M114.619627 (2014)
Pathogenic Ischemic Stroke Phenotypes in the NINDS-Stroke Genetics Network Hakan Ay, Ethem Murat Arsava et al. Stroke, doi: 10.1161/STROKEAHA.114.007362 (2014)
Variant GADL1 and response to lithium in bipolar I disorder Consortium on Lithium Genetics, Hou L, Heilbronner U, Rietschel M, Kato T, Kuo PH, McMahon FJ, Schulze TG. N. Engl. J. Med. , doi: 10.1056/NEJMc1401817#SA4 (2014)
Investigation of the interactions between the EphB2 receptor and SNEW peptide variants Buyong Ma, Stephanie Kolb, Michael Diprima, Molleshree Karna, Giovanna Tosato, Qiqi Yang, Qiang Huang, and Ruth Nussinov Growth Factors, DOI: 10.3109/08977194.2014.985786 (2014)
Self-assembled monolayers improve protein distribution on holey carbon cryo-EM supports Joel R. Meyerson, Prashant Rao, Janesh Kumar, Sagar Chittori, Soojay Banerjee, Jason Pierson, Mark L. Mayer & Sriram Subramaniam Nature, doi:10.1038/srep07084 (2014)
Diversity and dynamics of the Drosophila transcriptome. Brown JB, Boley N, Eisman R, May GE et al Nature, doi:10.1038/nature12962 (2014)
Database of osmoregulated proteins in mammalian cells Cameron R. Grady , Mark A. Knepper , Maurice B. Burg , Joan D. Ferraris Physiological Reports, DOI: 10.14814/phy2.12180 (2014)
Simple subgroup approximations to optimal treatment regimes from randomized clinical trial data Jared C. Foster, Jeremy M.G. Taylor, Niko Kaciroti and Bin Nan Biostatistics, doi: 10.1093/biostatistics/kxu049 (2014)

Mitochondrial DNA Sequence Variation Associated With Peripheral Nerve Function in the Elderly Shana M. Katzman, Elsa S. Strotmeyer, Michael A. Nalls et al. J. Gerontology A, doi: 10.1093/gerona/glu175 (2014)
Role of solvation in pressure-induced helix stabilization Robert B. Best, Cayla Miller and Jeetain Mittal J. Chem. Physics, doi:///10.1063/1.4901112 (2014)
Mass spectrometry based protein identification with accurate statistical significance assignment Gelio Alves and Yi-Kuo Yu Bioinformatics, doi: 10.1093/bioinformatics/btu717 (2014)
Modeling vocalization with ECoG cortical activity recorded during vocal production in the macaque monkey Makoto Fukushima, Richard C Saunders, Naotaka Fujii, Bruno B Averbeck, Mortimer Mishkin Engineering in Medicine and Biology, DOI://10.1109/EMBC.2014.6945188 (2014)
DNA recombination. Recombination initiation maps of individual human genomes Pratto, F; Brick, K; Khil, P; Smagulova, F; Petukhova, GV; Camerini-Otero, RD; Science, DOI://10.1126/science.1256442 (2014)
Development and Implementation of (Q)SAR Modeling Within the CHARMMing Web-User Interface Iwona E. Weidlich, Yuri Pevzner, Benjamin T. Miller, Igor V. Filippov, H. Lee Woodcock, and Bernard R. Brooks J. Comp. Chem., DOI: 10.1002/jcc.23765 (2014)

Master Regulators, Regulatory Networks, and Pathways of Glioblastoma Subtypes Serdar Bozdag, Aiguo Li, Mehmet Baysan, and Howard A Fine Cancer Informatics, doi: 10.4137/CIN.S14027 (2014)
Variants associated with type 2 diabetes identified by the transethnic meta-analysis study: assessment in American Indians and evidence for a new signal in LPP Nair AK, Muller YL, McLean NA, Abdussamad M, Piaggi P, Kobes S, Weil EJ, Curtis JM, Nelson RG, Knowler WC, Hanson RL, Baier LJ Diabetologia, doi: 10.1007/s00125-014-3351-4 (2014)
DLX3 regulates bone mass by targeting genes supporting osteoblast differentiation and mineral homeostasis in vivo Isaac J, Erthal J, Gordon J, Duverger O, Sun HW, Lichtler AC, Stein GS, Lian JB, Morasso MI Cell Death Differ. , doi: 10.1038/cdd.2014.82 (2014)
Human syndromes of immunodeficiency and dysregulation are characterized by distinct defects in T-cell receptor repertoire development. Yu X, Almeida JR2, Darko S et al. J Allergy Clin Immunol., doi: 10.1016/j.jaci.2013.11.018. (2014)
Autosomal recessive phosphoglucomutase 3 (PGM3) mutations link glycosylation defects to atopy, immune deficiency, autoimmunity, and neurocognitive impairment. Zhang Y, Yu X, Ichikawa M et al. J Allergy Clin Immunol. , doi: 10.1016/j.jaci.2014.02.013 (2014)
FAAH selectively influences placebo effects Peciña M, Martìnez-Jauand M, Hodgkinson C, Stohler CS, Goldman D, Zubieta JK Molecular Psychiatry, doi: 10.1038/mp.2013.124 (2014)
Essential dynamics analysis captures the concerted motion of the integrin-binding site in jerdostatin, an RTS disintegrin Luisa Calvanese, Lucia Falcigno andGabriella D'Auria Biopolymers, DOI: 10.1002/bip.22578 (2014)
Role of the Fast Kinetics of Pyroglutamate-Modified Amyloid-β Oligomers in Membrane Binding and Membrane Permeability Joon Lee, Alan L. Gillman, Hyunbum Jang, Srinivasan Ramachandran, Bruce L. Kagan, Ruth Nussinov, Fernando Teran Arce Biochemistry, doi: 10.1021/bi500587p (2014)
Pathogenic Properties of Alzheimer's β-Amyloid Identified from Structure-Property Patient-Phenotype Correlations Manish K. Tiwari and Kasper P. Kepp Dalt. Transac. , DOI: 10.1039/C4DT03122A (2014)
Using fMRI to decode true thoughts independent of intention to conceal Yang Z, Huang Z, Gonzalez-Castillo J, Dai R, Northoff G, Bandettini P NeuroImage, doi: 10.1016/j.neuroimage.2014.05.034 (2014)
Probing the Flexibility of Tropomyosin and Its Binding to Filamentous Actin Using Molecular Dynamics Simulations Wenjun Zheng, Bipasha Barua, and Sarah E. Hitchcock-DeGregori Biophysical J. , doi: 10.1016/j.bpj.2013.09.003 (2014)
Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe Takeshi Mizuguchi, Geoffrey Fudenberg, Sameet Mehta, Jon-Matthew Belton, Nitika Taneja, Hernan Diego Folco, Peter FitzGerald, Job Dekker, Leonid Mirny, Jemima Barrowman & Shiv I. S. Grewal Nature, doi:10.1038/nature13833 (2014)

Direct Evidence for a Peroxide Intermediate and a Reactive Enzyme-Substrate-Dioxygen Configuration in a Cofactor-free Oxidase Soi Bui, David von Stetten, Pablo G. Jambrina, Thierry Prangé, Nathalie Colloc'h, Daniele de Sanctis, Antoine Royant, Edina Rosta and Roberto A. Steiner Angewandte Chemie, DOI: 10.1002/anie.201405485 (2014)
Sequential monte carlo tracking of the marginal artery by multiple cue fusion and random forest regression Kevin M. Cherry, Brandon Peplinski, Lauren Kim, Shijun Wang, Le Lu, Weidong Zhang, Jianfei Liu, Zhuoshi Wei, Ronald M. Summers Medical Image Analysis, DOI: 10.1016/j.media.2014.09.006 (2014)
Balanced Protein-Water Interactions Improve Properties of Disordered Proteins and Non-Specific Protein Association Robert B. Best, Wenwei Zheng, and Jeetain Mittal J. Chem. Theory and Computation, DOI: 10.1021/ct500569b (2014)
Phactr3/Scapinin, a Member of Protein Phosphatase 1 and Actin Regulator (Phactr) Family, Interacts with the Plasma Membrane via Basic and Hydrophobic Residues in the N-Terminus Akihiro Itoh, Atsushi Uchiyama, Shunichiro Taniguchi, and Junji Sagara PLoS One, doi: 10.1371/journal.pone.0113289 (2014)
Crystal structure of a c-di-AMP riboswitch reveals an internally pseudo-dimeric RNA Christopher P Jones andAdrian R Ferr�-D'Amarè EMBO J., DOI: 10.15252/embj.201489209 (2014)
A system for multilocus chromosomal integration and transformation-free selection marker rescue Michael S. Siddiqui, Atri Choksi andChristina D. Smolke Yeast Research, DOI: 10.1111/1567-1364.12210 (2014)

Biogeography and individuality shape function in the human skin metagenome Julia Oh, Allyson L. Byrd, Clay Deming, Sean Conlan, NISC Comparative Sequencing Program, Heidi H. Kong & Julia A. Segre Nature, doi:10.1038/nature13786 (2014)
Combining one-sample confidence procedures for inference in the two-sample case Michael P. Fay, Michael A. Proschan andErica Brittain Biometrics, DOI: 10.1111/biom.12231 (2014)
Certain adenylated non-coding RNAs, including 5' leader sequences of primary microRNA transcripts, accumulate in mouse cells following depletion of the RNA helicase MTR4 Dorweiler JE, Ni T, Zhu J, Munroe SH, Anderson JT PLoS One, doi: 10.1371/journal.pone.0099430. (2014)
miR-191 and miR-135 are required for long-lasting spine remodelling associated with synaptic long-term depression Hu Z, Yu D, Gu QH, Yang Y, Tu K, Zhu J, Li Z Nature Communications, doi: 10.1038/ncomms4263 (2014)
Determination of the allelic frequency in Smith-Lemli-Opitz syndrome by analysis of massively parallel sequencing data sets Cross JL, Iben J, Simpson CL, Thurm A, Swedo S, Tierney E, Bailey-Wilson JE, Biesecker LG, Porter FD, Wassif CA Clin. Genet. , doi: 10.1111/cge.12425. (2014)
Activated STING in a Vascular and Pulmonary Syndrome Liu Y, Jesus AA, Marrero B et al. New England J. Medicine, doi: 10.1056/NEJMoa1312625. (2014)

An activating NLRC4 inflammasome mutation causes autoinflammation with recurrent macrophage activation syndrome Scott W Canna, Adriana A de Jesus, Sushanth Gouni, Stephen R Brooks, Bernadette Marrero, Yin Liu, Michael A DiMattia, Kristien J M Zaal, Gina A Montealegre Sanchez, Hanna Kim, Dawn Chapelle, Nicole Plass, Yan Huang, Alejandro V Villarino, Angelique Biancotto, Thomas A Fleisher, Joseph A Duncan, John J O'Shea, Susanne Benseler, Alexei Grom, Zuoming Deng, Ronald M Laxer & Raphaela Goldbach-Mansky Nature Genetics, doi:10.1038/ng.3089 (2014)
DNA copy number evolution in Drosophila cell lines Hangnoh Lee, C Joel McManus et al. Genome Biology, doi:10.1186/gb-2014-15-8-r70 (2014)
Joint analysis of longitudinal and survival data measured on nested timescales by using shared parameter models: an application to fecundity data Alexander C. McLain, Rajeshwari Sundaram and Germaine M. Buck Louis Applied Statistics, DOI: 10.1111/rssc.12075 (2014)
DNase Footprint Signatures Are Dictated by Factor Dynamics and DNA Sequence Myong-Hee Sung, Michael J. Guertin, Songjoon Baek, Gordon L. Hager Molecular Cell, DOI: 10.1016/j.molcel.2014.08.016 (2014)
Correcting for the free energy costs of bond or angle constraints in molecular dynamics simulations Gerhard König, , Bernard R. Brooks Biochim. et Biophys. Acta, DOI: 10.1016/j.bbagen.2014.09.001 (2014)
Genetic polymorphisms in the 9p21 region associated with risk of multiple cancers Wen-Qing Li, Ruth M. Pfeiffer, Paula L. Hyland, Jianxin Shi, Fangyi Gu, Zhaoming Wang, Samsiddhi Bhattacharjee, Jun Luo, Xiaoqin Xiong, Meredith Yeager, Xiang Deng, Nan Hu, Philip R. Taylor, Demetrius Albanes, Neil E. Caporaso, Susan M. Gapstur, Laufey Amundadottir, Stephen J. Chanock, Nilanjan Chatterjee, Maria Teresa Landi, Margaret A. Tucker, Alisa M. Goldstein and Xiaohong R. Yang Carcinogenesis, doi: 10.1093/carcin/bgu203 (2014)
Enhanced expression of the codon-optimized exo-inulinase gene from the yeast Meyerozyma guilliermondii in Saccharomyces sp. W0 and bioethanol production from inulin Guang-Lei Liu, Ge-Yi Fu, Zhe Chi and Zhen-Ming Chi Bioenergy and Biofuels, doi://10.1007/s00253-014-6079-7 (2014)
Efficiently computing pathway free energies: New approaches based on chain-of-replica and Non-Boltzmann Bennett reweighting schemes Phillip S. Hudson, Justin K. White, Fiona L. Kearns, Milan Hodoscek, Stefan Boresch, H. Lee Woodcock Biochim. et Biophys. Acta, DOI: 10.1016/j.bbagen.2014.09.016 (2014)
Common genetic variation in and near the melanocortin 4 receptor gene (MC4R) is associated with body mass index in American Indian adults and children. Muller YL, Thearle MS, Piaggi P, Hanson RL, Hoffman D, Gene B, Mahkee D, Huang K, Kobes S, Votruba S, Knowler WC, Bogardus C, Baier LJ. Human Genetics, doi://10.1007/s00439-014-1477-6 (2014)
Neuronal or hemodynamic? Grappling with the functional MRI signal Bandettini PA Brain Connect, doi: 10.1089/brain.2014.0288. (2014)
A knowledge base of vasopressin actions in the kidney Akshay Sanghi, Matthew Zaringhalam, Callan C Corcoran, Fahad Saeed, Jason D. Hoffert, Pablo C Sandoval, Trairak Pisitkun, Mark A. Knepper Am. J. Physiol. - Renal Physiol., DOI: 10.1152/ajprenal.00012.2014 (2014)
Generalized Functional Linear Models for Gene-Based Case-Control Association Studies Ruzong Fan, Yifan Wang, James L. Mills, Tonia C. Carter, Iryna Lobach, Alexander F. Wilson, Joan E. Bailey-Wilson, Daniel E. Weeks and Momiao Xiong Genetic Epidemiology, DOI: 10.1002/gepi.21840 (2014)

Conformational dynamics and aggregation behavior of piezoelectric diphenylalanine peptides in an external electric field Catherine M. Kelly, Thomas Northey, Kate Ryan, Bernard R. Brooks, Andrei Kholkin, Brian J. Rodriguez, Nicolae-Viorel Buchete Biophysical Chemistry, DOI: 10.1016/j.bpc.2014.08.009 (2014)
Free-Propagator Reweighting Integrator for Single-Particle Dynamics in Reaction-Diffusion Models of Heterogeneous Protein-Protein Interaction Systems Margaret Johnson and Gerhard Hummer Physical Review X, DOI: 10.1103/PhysRevX.4.031037 (2014)
metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA Dale RK, Matzat LH, Lei EP Nucleic Acids Research, doi: 10.1093/nar/gku644 (2014)
Deletion of aryl hydrocarbon receptor AHR in mice leads to subretinal accumulation of microglia and RPE atrophy Soo-Young Kim, Hyun-Jin Yang, Yi-Sheng Chang, Jung-woong Kim, Matthew Brooks, Emily Y. Chew, Wai T. Wong, Robert Fariss, Rivka Rachel, Tiziana Cogliati, Haohua Qian and Anand Swaroop Investigative Opthalmology and Visual Science, doi: 10.1167/iovs.14-15091 (2014)
Modeling longitudinal data with a random change point and no time-zero: Applications to inference and prediction of the labor curve Alexander C. McLain and Paul S. Albert Biometrics, DOI: 10.1111/biom.12218 (2014)
Molecular origins of internal friction effects on protein-folding rates de Sancho D, Sirur A, Best RB Nature Communications, doi: 10.1038/ncomms5307 (2014)

Design and rationale for a genome-wide association study of ischemic stroke subtypes James F. Meschia, Donna K. Arnett, Hakan Ay et al. Stroke, doi: 10.1161/STROKEAHA.113.001857 (2014)
Joint analysis of three genome-wide association studies of esophageal squamous cell carcinoma in Chinese populations Chen Wu, Zhaoming Wang, Xin Song et al. Nature Genetics, doi:10.1038/ng.3064 (2014)
Systematic Genetic Analysis Identifies Cis-eQTL Target Genes Associated with Glioblastoma Patient Survival Qing-Rong Chen, Ying Hu, Chunhua Yan, Kenneth Buetow, Daoud Meerzaman PLoS One, DOI: 10.1371/journal.pone.0105393 (2014)
Structural Insight into Tau Protein's Paradox of Intrinsically Disordered Behavior, Self-Acetylation Activity, and Aggregation Yin Luo, Buyong Ma, Ruth Nussinov, and Guanghong Wei J. Phys. Chem. Lett, DOI: 10.1021/jz501457f (2014)
Impaired corticopontocerebellar tracts underlie pseudobulbar affect in motor neuron disorders Mary Kay Floeter, Rohan Katipally, Meredith P. Kim, Olivia Schanz, Matthew Stephen, Laura Danielian, Tianxia Wu, Edward D. Huey, and Avner Meoded Neurology, doi: 10.1212/WNL.0000000000000693 (2014)
Programmable Nanoscaffolds that Control Ligand Display to a G Protein Coupled-Receptor in Membranes allow Dissection of Multivalent Effects Andrew V. Dix, Steven M Moss, Khai Phan, Travis Hoppe, Silvia Paoletta, Eszter Kozma, Zhan-Guo Gao, Stewart R. Durell, Kenneth A. Jacobson, and Daniel H. Appella J. Am. Chem. Soc. , DOI: 10.1021/ja504288s (2014)
Identification of Three Noncontiguous Regions on Bacillus anthracis Plasmid pXO1 That Are Important for Its Maintenance Andrei P. Pomerantsev, Zanetta Chang, Catherine Rappole and Stephen H. Leppla J. Bacteriology, doi: 10.1128/JB.01747-14 (2014)
Random Single Amino Acid Deletion Sampling Unveils Structural Tolerance and the Benefits of Helical Registry Shift on GFP Folding and Structure James A.J. Arpino, Samuel C. Reddington, Lisa M. Halliwell, Pierre J. Rizkallah, D. Dafydd Jones Structure, DOI: 10.1016/j.str.2014.03.014 (2014)
Optimizing area under the ROC curve using semi-supervised learning Shijun Wang, Diana Li, Nicholas Petrick, Berkman Sahiner, Marius George Linguraru, Ronald M. Summers Pattern Recognition, DOI: 10.1016/j.patcog.2014.07.025 (2014)
Trans-ethnic Meta-analysis of White Blood Cell Phenotypes MF Keller, AP Reiner et al. Human Molecular Genetics, doi://10.1093/hmg/ddu401 (2014)
NeuroX, a Fast and Efficient Genotyping Platform for Investigation of Neurodegenerative Diseases Mike A. Nalls, Jose Bras, Dena G. Hernandez, et al. Neurobiology of Aging, DOI: 10.1016/j.neurobiolaging.2014.07.028 (2014)
A Novel MMP12 Locus Is Associated with Large Artery Atherosclerotic Stroke Using a Genome-Wide Age-at-Onset Informed Approach Traylor M et al. PLoS Genetics, DOI: 10.1371/journal.pgen.1004469 (2014)

Structural mechanism of glutamate receptor activation and desensitization Joel R. Meyerson, Janesh Kumar, Sagar Chittori, Prashant Rao, Jason Pierson, Alberto Bartesaghi, Mark L. Mayer & Sriram Subramaniam Nature, doi:10.1038/nature13603 (2014)
Structure of β-galactosidase at 3.2-Å resolution obtained by cryo-electron microscopy Alberto Bartesaghi, Doreen Matthies, Soojay Banerjee, Alan Merk, and Sriram Subramaniam PNAS, doi://10.1073/pnas.1402809111 (2014)
Dynamics differentiate between active and inactive inteins Melissa Cronin, Michael J. Coolbaug, David Nellis, Jianwei Zhu, David W. Wood, Ruth Nussinov, Buyong Ma Eur. J. Med. Chem., DOI: 10.1016/j.ejmech.2014.07.094 (2014)
Large-scale meta-analysis of genome-wide association data identifies six new risk loci for Parkinson's disease MA Nalls, N Pankratz, CM Lill et al. Nature Genetics, doi:10.1038/ng.3043 (2014)
Differentiating BOLD and non-BOLD signals in fMRI time series from anesthetized rats using multi-echo EPI at 11.7T Prantik Kundu, Mathieu D. Santin, Peter A. Bandettini, Edward T. Bullmore, Alexandra Petiet NeuroImage, DOI: 10.1016/j.neuroimage.2014.07.025 (2014)
A robust association test for detecting genetic variants with heterogeneous effects Kai Yu and Han Zhang Biostatistics, doi: 10.1093/biostatistics/kxu036 (2014)

Image-Guided Synthesis Reveals Potent Blood-Brain Barrier Permeable Histone Deacetylase Inhibitors Young Jun Seo, Yeona Kang, Lisa Muench, Alicia Reid, Shannon Caesar, Logan Jean, Florence Wagner, Edward Holson, Stephen J. Haggarty, Philipp Weiss, Payton King, Pauline Carter, Nora D. Volkow, Joanna S. Fowler, Jacob M. Hooker, and Sung Won Kim ACS Chemical Neurosciene, DOI: 10.1021/cn500021p (2014)
Structural Basis of hAT Transposon End Recognition by Hermes, an Octameric DNA Transposase from Musca domestica Alison B. Hickman, Hosam E. Ewis, Xianghong Li, Joshua A. Knapp, Thomas Laver, Anna-Louise Doss, Gökhan Tolun, Alasdair C. Steven, Alexander Grishaev, Ad Bax, Peter W. Atkinson, Nancy L. Craig, Fred Dyda Cell, DOI: 10.1016/j.cell.2014.05.037 (2014)
Parallel in-register intermolecular β-sheet architectures for prion seeded PrP amyloids Bradley R. Groveman, Michael A. Dolan, Lara M. Taubner, Allison Kraus, Reed B. Wickner and Byron Caughey J. Biol. Chem. , doi: 10.1074/jbc.M114.578344 (2014)
The Three Mycobacterium Tuberculosis Antigen 85 Isoforms have Unique Substrates and Activities Determined by Non-active Site Regions Keriann M. Backus, Michael A. Dolan, Conor S. Barry, Maju Joe, Peter McPhie, Helena I.M. Boshoff, Todd L. Lowary, Benjamin G. Davis and Clifton E. Barry III J. Biol. Chem. , doi: 10.1074/jbc.M114.581579 (2014)
Accounting for length-bias and selection effects in estimating the distribution of menstrual cycle length Kirsten J. Lum, Rajeshwari Sundaram, Thomas A. Louis Biostatistics, doi: 10.1093/biostatistics/kxu035 (2014)
Genome-Wide Analysis of the Heritability of Amyotrophic Lateral Sclerosis MF Keller, L Ferrucci, AB Singleton et al. JAMA Neurology, doi:10.1001/jamaneurol.2014.1184 (2014)

The Genomic Landscape of the Ewing Sarcoma Family of Tumors Reveals Recurrent STAG2 Mutation Andrew S. Brohl, David A. Solomon, Wendy Chang et al. PLoS Genetics, DOI: 10.1371/journal.pgen.1004475 (2014)
Spatial Localization of the Ebola Virus Glycoprotein Mucin-Like Domain Determined by Cryo-Electron Tomography Erin E. H. Tran, James A. Simmons, Alberto Bartesaghi, Charles J. Shoemaker, Elizabeth Nelson, Judith M. White and Sriram Subramaniam J. Virology, doi: 10.1128/JVI.00870-14 (2014)
Integrated Design of Antibodies for Systems Biology Using AbDesigner Trairak Pisitkun, Patrick Dummer, Poorichaya Somparn, Nattiya Hirankarn, Jeffrey B Kopp and Mark A Knepper Proteomics and Bioinformatics, doi://10.4172/jpb.1000307 (2014)
Parkinson's disease in GTP cyclohydrolase 1 mutation carriers Niccoló E. Mencacci, Ioannis U. Isaias, Martin M. Reich et al. Brain, doi: 10.1093/brain/awu179 (2014)
Brain Network Informed Subject Community Detection In Early-Onset Schizophrenia Zhi Yang, Yong Xu, Ting Xu, Colin W. Hoy, Daniel A. Handwerker, Gang Chen, Georg Northoff, Xi-Nian Zuo & Peter A. Bandettini Scientific Reports, doi:10.1038/srep05549 (2014)
Role of Albumin in the Formation and Stabilization of Nanoparticle Aggregates in Serum Studied by Continuous Photon Correlation Spectroscopy and Multiscale Computer Simulations Ashwinkumar A. Bhirde , Sergio A Hassan , Erick Harr , and Xiaoyuan Chen J. Phys. Chem. C, DOI: 10.1021/jp5034068 (2014)

Comparative validation of the D. melanogaster modENCODE transcriptome annotation ZX Chen, D Sturgill, J Qu, H Jiang et al. Genome Research, doi://10.1101/gr.159384.113 (2014)
Phosphoproteomic Analysis Reveals Regulatory Mechanisms at the Kidney Filtration Barrier Markus M. Rinschen, Xiongwu Wu, Tim K�nig, Trairak Pisitkun, Henning Hagmann, Caroline Pahmeyer, Tobias Lamkemeyer, Priyanka Kohli, Nicole Schnell, Bernhard Schermer, Stuart Dryer, Bernard R. Brooks, Pedro Beltrao, Marcus Krueger, Paul T. Brinkkoetter, Thomas Benzing J Am Soc Nephrol., doi: 10.1681/ASN.2013070760 (2014)
Common genetic variation in the glucokinase gene (GCK) is associated with type 2 diabetes and rates of carbohydrate oxidation and energy expenditure Muller YL, Piaggi P, Hoffman D, Huang K, Gene B, Kobes S, Thearle MS, Knowler WC, Hanson RL, Baier LJ, Bogardus C Diabetologia, doi: 10.1007/s00125-014-3234-8 (2014)
Task Dependence, Tissue Specificity, and Spatial Distribution of Widespread Activations in Large Single-Subject Functional MRI Datasets at 7T Javier Gonzalez-Castillo, Colin W. Hoy, Daniel A. Handwerker, Vinai Roopchansingh, Souheil J. Inati, Ziad S. Saad, Robert W. Cox and Peter A. Bandettini Cerebral Cortex, doi://10.1093/cercor/bhu148 (2014)
Corpus Callosum Size Is Highly Heritable in Humans, and May Reflect Distinct Genetic Influences on Ventral and Rostral Regions Girma Woldehawariat, Pedro E. Martinez, Peter Hauser, David M. Hoover, Wayne W. C. Drevets, Francis J. McMahon PLoS One, DOI: 10.1371/journal.pone.0099980 (2014)
Thermodynamic, Dynamic and Solvational Properties of PDEδ Binding to Farnesylated Cystein: A Model Study for Uncovering the Molecular Mechanism of PDEδ Interaction with Prenylated Proteins S. Suladze, S. Ismail, and R. Winter J. Phys. Chem. B, DOI: 10.1021/jp411466r (2014)
Inhibition of Paracoccidioides lutzii Pb01 Isocitrate Lyase by the Natural Compound Argentilactone and Its Semi-Synthetic Derivatives Renata Silva do Prado, Ricardo Justino Alves et al PLoS One, DOI: 10.1371/journal.pone.0094832 (2014)
Genome-wide association analysis identifies six new loci associated with forced vital capacity Loth DW, Artigas MS, Gharib SA et al. Nat Genet., doi: 10.1038/ng.3011. (2014)
Introductions and evolution of human-origin seasonal influenza A viruses in multinational swine populations Martha I. Nelson, David E. Wentworth, Marie R. Culhane, Amy L. Vincent, Cecile Viboud, Matthew P. LaPointe, Xudong Lin, Edward C. Holmes and Susan E. Detmer J. Virology, doi: 10.1128/JVI.01080-14 (2014)
The evolutionary dynamics of influenza A and B viruses in the tropical city of Managua, Nicaragua Martha I. Nelson, Angel Balmaseda, Guillermina Kuan, Saira Saborio, Xudong Lin, Rebecca A. Halpin, Timothy B. Stockwell, David E. Wentworth, Eva Harris, Aubree Gordon Virology, DOI: 10.1016/j.virol.2014.05.025 (2014)
Highly efficient production of peptides: N-glycosidase F for N-glycomics analysis Ling Hua, b, Xin Gao, Xiaopan Yang, Deyou Wan, Chunpeng He, Jiyue Cao, Haifeng Song Protein Expression and Purification, DOI: 10.1016/j.pep.2014.02.004 (2014)
Approaches to retrospective sampling for longitudinal transition regression models Sally Hunsberger, Paul S. Albert, and Marie Thoma Statistics and Its Interface 7:75-85, doi://10.4310/SII.2014.v7.n1.a9 (2014)

Identification and Characterization of Seminal Fluid Proteins in the Asian Tiger Mosquito, Aedes albopictus Kathryn E. Boes, José M. C. Ribeiro, Alex Wong, Laura C. Harrington, Mariana F. Wolfner, and Laura K. Sirot PLoS Neglected Tropical Diseases, doi: 10.1371/journal.pntd.0002946 (2014)
Marginal analysis of measurement agreement among multiple raters with non-ignorable missing ratings Zhen Chen and Yunlong Xie Statistics and Its Interface 7:113-120, doiL//10.4310/SII.2014.v7.n1.a12 (2014)
Linear mixed models for multiple outcomes using extended multivariate skew-t distributions Binbing Yu, A. James O'Malley, and Pulak Ghosh Statistics and Its Interface 7:101-111, doi://10.4310/SII.2014.v7.n1.a11 (2014)
Matched longitudinal analysis of biomarkers associated with survival Lori E. Dodd, Reed F. Johnson, Joseph E. Blaney and Dean Follmann Clinical & Vaccine Immunology, doi: 10.1128/CVI.00252-14 (2014)
Frontotemporal dementia and its subtypes: a genome-wide association study Ferrari R, Hernandez D, Nalls M et al. The Lancet Neurology, DOI: 10.1016/S1474-4422(14)70065-1 (2014)
Activity and Architecture of Pyroglutamate Modified Amyloid-β (AβpE3-42) Pores Alan L Gillman , Hyunbum Jang , Joon Lee , Srinivasan Ramachandran , Bruce L. Kagan , Ruth Nussinov , and Fernando Teran Arce J. Phys. Chem. B, DOI: 10.1021/jp5040954 (2014)
Computational Tools and Algorithms for Designing Customized Synthetic Genes Nathan Gould, Oliver Hendy, and Dimitris Papamichail Front Bioeng Biotechnol, doi: 10.3389/fbioe.2014.00041 (2014)
Role of LDB1 in the transition from chromatin looping to transcription activation. Krivega I, Dale RK, Dean A. Genes Dev., doi: 10.1101/gad.239749.114 (2014)
Implicit treatment of solvent dispersion forces in protein simulations Sergio A Hassan Journal of Computational Chemistry, DOI: 10.1002/jcc.23655 (2014)
Conscious recall of different aspects of skill memory Sunbin Song & Leonardo G Cohen Frontiers in Behavioural Neuroscience, doi:10.3389/fnbeh.2014.00233 (2014)
A novel role of CDX1 in embryonic epicardial development Chu M, Wang L, Wang H, Shen T, Yang Y, Sun Y, Tang N, Ni T, Zhu J, Mailman RB, Wang Y PLoS One, doi: 10.1371/journal.pone.0103271 (2014)
Pre-fusion structure of trimeric HIV-1 envelope glycoprotein determined by cryo-electron microscopy Alberto Bartesaghi, Alan Merk, Mario J. Borgnia, Jacqueline L. S. Milne, and Sriram Subramaniam Nat Struct Mol Biol., doi: 10.1038/nsmb.2711 (2014)
Clinical correlates and genetic linkage of social and communication difficulties in families with obsessive-compulsive disorder: Results from the OCD Collaborative Genetics Study Samuels, J; Shugart, YY; Wang, Y et al. Am. J. Med. Genet. B Neuropsychiatr. Genet., DOI://10.1002/ajmg.b.32235 (2014)
The spatial structure of resting state connectivity stability on the scale of minutes Javier Gonzalez-Castillo, Daniel A Handwerker, Meghan E. Robinson, Colin Wier Hoy, Laura Cathleen Buchanan, Ziad S Saad and Peter A Bandettini Frontiers in Neuroscience, DOI://10.3389/fnins.2014.00138 (2014)
The RNA-binding protein Rumpelstiltskin antagonizes gypsy chromatin insulator function in a tissue-specific manner. King MR, Matzat LH, Dale RK, Lim SJ, Lei EP J. Cell. Sci., doi: 10.1242/jcs.151126 (2014)
Use of LC-MS/MS and Bayes' Theorem to Identify Protein Kinases That Phosphorylate Aquaporin-2 at Ser256 Davis Bradford, Viswanathan Raghuram, Justin L.L. Wilson, Chung-Lin Chou, Jason D. Hoffert, Mark A. Knepper, Trairak Pisitkun Am. J. Physiol. - Cell Physiol. , DOI: 10.1152/ajpcell.00377.2012 (2014)
Nill-Schiff base complex as an enzyme inhibitor of hen egg white lysozyme: a crystallographic and spectroscopic study Banabithi Koley Seth, Aurkie Ray, Sampa Biswas and Samita Basu Metallomics, DOI: 10.1039/C4MT00098F (2014)
Identification of the Genomic Insertion Site of Pmel-1 TCR α and β Transgenes by Next-Generation Sequencing Yun Ji, Natalie Abrams, Wei Zhu, Eddie Salinas, Zhiya Yu, Douglas C. Palmer, Parthav Jailwala, Zulmarie Franco, Rahul Roychoudhuri, Eric Stahlberg, Luca Gattinoni, Nicholas P. Restifo PLoS One, DOI: 10.1371/journal.pone.0096650 (2014)

Combination of longitudinal biomarkers in predicting binary events Danping Liu and Paul S Albert Biostatistics, doi: 10.1093/biostatistics/kxu020 (2014)
Rare missense variants in POT1 predispose to familial cutaneous malignant melanoma Shi J, Yang XR, Ballew B Nature Genetics, doi: 10.1038/ng.2941 (2014)
Pleiotropic genes for metabolic syndrome and inflammation Kraja AT, Chasman DI, North KE et al. Molecular Genetics & Metabolism, doi://10.1016/j.ymgme.2014.04.007 (2014)
Perturbation of nuclear spin polarizations in solid state NMR of nitroxide-doped samples by magic-angle spinning without microwaves Kent R. Thurber and Robert Tycko J. Chem. Phys. , DOI: 10.1063/1.4874341 (2014)
Chromosome fragility and the abnormal replication of the FMR1 locus in fragile X syndrome Yudkin, D; Hayward, BE; Aladjem, MI; Kumari, D; Usdin, K; Hum. Mol. Genet., DOI://10.1093/hmg/ddu006 (2014)
Rhythmic Bursting in the Pre-Bötzinger Complex: Mechanisms and Models Ilya A. Rybak, Yaroslav I. Molkov, Patrick E. Jasinski, Natalia A. Shevtsova, Jeffrey C. Smith Progress in Brain Research, doi://10.1016/B978-0-444-63274-6.00001-1 (2014)

Early targets of lithium in rat kidney inner medullary collecting duct include p38 and ERK1/2 Francesco Trepiccione, Trairak Pisitkun, Jason D Hoffert, Søren B Poulsen, Giovambattista Capasso, Søren Nielsen, Mark A Knepper, Robert A Fenton and Birgitte M Christensen Kidney International, doi: 10.1038/ki.2014.107 (2014)
Electrostatics, hydration, and proton transfer dynamics in the membrane domain of respiratory complex I Ville R. I. Kaila, Mârten Wikström and Gerhard Hummer PNAS, doi: 10.1073/pnas.1319156111 (2014)
Hierarchical clustering of ryanodine receptors enables emergence of a calcium clock in sinoatrial node cells Michael D. Stern, Larissa A. Maltseva, Magdalena Juhaszova, Steven J. Sollott, Edward G. Lakatta, and Victor A. Maltsev J. Gen. Physiol. , doi: 10.1085/jgp.201311123 (2014)
Conserved hydrogen-bonding network of P2 bis-tetrahydrofuran containing HIV-1 protease inhibitors (PI) with protease active site amino acid-backbone aid in their activity against PI-resistant HIV Ravikiran S. Yedidi, Harisha Garimella, Manabu Aoki, Hiromi Aoki, Darshan V. Desai, Simon B. Chang, David A. Davis, W. Sean Fyvie, Joshua D. Kaufman, David W. Smith, Debananda Das, Paul T. Wingfield, Kenji Maeda, Arun K. Ghosh and Hiroaki Mitsuya Antimicrob Agents Chemother., doi://10.1128/AAC.00107-14 (2014)
Non-invasive urinary metabolomic profiling identifies diagnostic and prognostic markers in lung cancer Ewy A Mathe, Andrew D Patterson, Majda Haznadar, Soumen K Manna, Kristopher W. Krausz, Elise D Bowman, Peter G. Shields, Jeffrey R. Idle, Philip B Smith, Katsuhiro Anami, Dickran Kazandjian, Emmanuel Hatzakis, Frank J Gonzalez, and Curtis C. Harris Cancer Res., doi:10.1158/0008-5472.CAN-14-0109 (2014)
Impact of subdomain D1 of the short form S1b of the human prolactin receptor on its inhibitory action on the function of the long form of the receptor induced by prolactin J.-H. Kang, S.A. Hassan, 1, P. Zhao, C.H. Tsai-Morris, M.L. Dufau Biochim. et Biophys. Acta, doi://10.1016/j.bbagen.2014.04.006 (2014)

A Fast and Powerful Tree-Based Association Test for Detecting Complex Joint Effects in Case-Control Studies Han Zhang, William Wheeler, Zhaoming Wang, Philip R. Taylor and Kai Yu Bioinformatics, doi://10.1093/bioinformatics/btu186 (2014)
Post-Translational Decrease in Respiratory Chain Proteins in the Polg Mutator Mouse Brain David N. Hauser, Allissa A. Dillman, Jinhui Ding, Yan Li, Mark R. Cookson PLoS One, DOI: 10.1371/journal.pone.0094646 (2014)
Studies on Inhibition of Respiratory Cytochrome bc1 Complex by the Fungicide Pyrimorph Suggest a Novel Inhibitory Mechanism Yu-Mei Xiao, Lothar Esser, Fei Zhou, Chang Li, Yi-Hui Zhou, Chang-An Yu, Zhao-Hai Qin, Di Xia PLoS One, DOI: 10.1371/journal.pone.0093765 (2014)
Regulation of a novel isoform of Receptor Expression Enhancing Protein REEP6 in rod photoreceptors by bZIP transcription factor NRL Hong Hao, Shobi Veleri, Bo Sun, Douglas S. Kim, Patrick W. Keeley, Jung-Woong Kim, Hyun-Jin Yang, Sharda P. Yadav, Souparnika H. Manjunath, Raman Sood, Paul Liu, Benjamin E. Reese and Anand Swaroop Human Molecular Genetics, doi: 10.1093/hmg/ddu143 (2014)
Distributed MRI reconstruction using gadgetron-based cloud computing Hui Xue, Souheil Inati, Thomas Sangild Sørensen, Peter Kellman and Michael S. Hansen Magnetic Resonance in Medicine, DOI: 10.1002/mrm.25213 (2014)
Hemoglobinopathic erythrocytes affect the intraerythrocytic multiplication of Plasmodium falciparum in vitro Svetlana Glushakova, Amanda Balaban, Philip G. McQueen, Rosane Coutinho, Jeffery L. Miller, Ralph Nossal, Rick M. Fairhurst, Joshua Zimmerberg J. Infectious Diseases, doi:10.1093/infdis/jiu203 (2014)
A potent anti-dengue human antibody preferentially recognizes the conformation of E protein monomers assembled on the virus surface Guntur Fibriansah, Joanne L Tan,Scott A Smith, Adamberage R Alwis, Thiam-Seng Ng, Victor A Kostyuchenko, Kristie D Ibarra, Jiaqi Wang, Eva Harris, Aravinda Silva, James E Crowe, and Shee-Mei Lok EMBO Molecular Medicine, doi: 10.1002/emmm.201303404 (2014)
A mixture of transition models for heterogeneous longitudinal ordinal data: with applications to longitudinal bacterial vaginosis data Kyeongmi Cheon, Marie E. Thoma, Xiangrong Kong and Paul S. Albert Statistics in Medicine, DOI: 10.1002/sim.6151 (2014)
Abdominal lymphadenopathy detection using random forest Kevin M. Cherry, Shijun Wang, Evrim B. Turkbey, Ronald M. Summers SPIE Proceedings, Volume 9035, Lung, Chest, and Abdomen II, doi:10.1117/12.2043837 (2014)
VTET: a variable threshold exact test for identifying disease-associated copy number variations enriched in short genomic regions Jianxin Shi, Xiaohong R. Yang, Neil E. Caporaso, Maria T. Landi, and Peng Li Frontiers in Genetics, doi://10.3389/fgene.2014.00053 (2014)
Accuracy Evaluation of the Unified P-Value from Combining Correlated P-Values Gelio Alves and Yi-Kuo Yu PLoS One, doi: 10.1371/journal.pone.0091225 (2014)
Differential Coding of Conspecific Vocalizations in the Ventral Auditory Cortical Stream Makoto Fukushima, Richard C. Saunders, David A. Leopold, Mortimer Mishkin, and Bruno B. Averbeck J. Neuroscience, doi: 10.1523/JNEUROSCI.3969-13.2014 (2014)

Contradictions in X-ray structures of intermediates in the photocycle of photoactive yellow protein Ville R. I. Kaila, Friedrich Schotte, Hyun Sun Cho, Gerhard Hummer & Philip A. Anfinrud Nature Chemistry, doi:10.1038/nchem.1898 (2014)
Practice and sleep form different aspects of skill Sunbin Song & Leonardo G. Cohen Nature Communications, doi:10.1038/ncomms4407 (2014)
Temperature-dependent solvation modulates the dimensions of disordered proteins René Wuttke, Hagen Hofmann, Daniel Nettels, Madeleine B. Borgia, Jeetain Mittal, Robert B. Best, and Benjamin Schuler PNAS, doi: 10.1073/pnas.1313006111 (2014)
Hypoosmotic Expression of Dunaliella bardawil ζ-Carotene Desaturase Is Attributed to a Hypoosmolarity-Responsive Element Different from Other Key Carotenogenic Genes Yong-Min Lao, Lan Xiao, Li-Xin Luo and Jian-Guo Jiang Plant Physiology, doi://10.1104/pp.114.235390 (2014)
Characterizing the genetic basis of methylome diversity in histologically normal human lung tissue Jianxin Shi, Crystal N. Marconett, Jubao Duan et al. Nature Communications, doi:10.1038/ncomms4365 (2014)
Disordered amyloidogenic peptides may insert into the membrane and assemble into common cyclic structural motifs Hyunbum Jang, Fernando Teran Arce, Srinivasan Ramachandran, Bruce L. Kagan, Ratnesh Lal and Ruth Nussinov Chem. Soc. Rev., doi://10.1039/C3CS60459D (2014)

Abnormal cortical growth in schizophrenia targets normative modules of synchronized development Aaron F. Alexander-Bloch, Philip T. Reiss, Judith Rapoport, Harry McAdams, Jay N. Giedd, Ed T. Bullmore, Nitin Gogtay Biological Psychiatry, doi://10.1016/j.biopsych.2014.02.010 (2014)
Calcium Inhibition of Ribonuclease H1 Two-Metal Ion Catalysis Edina Rosta, Wei Yang, and Gerhard Hummer JACS, DOI: 10.1021/ja411408x (2014)
Multiscale free energy simulations: An efficient method for connecting classical MD simulations to QM or QM/MM free energies using Non-Boltzmann Bennett reweighting schemes Gerhard König, Phillip Stephen Hudson, Stefan Boresch, and H. Lee Woodcock J. Chem. Theory & Computation, DOI: 10.1021/ct401118k (2014)
A Network Characteristic That Correlates Environmental and Genetic Robustness Zeina Shreif, Vipul Periwal PLoS Computational Biology, DOI: 10.1371/journal.pcbi.1003474 (2014)
A GCH1 haplotype confers sex-specific susceptibility to pain crises and altered endothelial function in adults with sickle cell anemia Inna Belfer, Victoria Youngblood et al. Am. J. Hematology, DOI: 10.1002/ajh.23613 (2014)
Meta-analysis of Loci Associated with Age at Natural Menopause in African-American Women CTL Chen, C-T Liu, GK Chen, et al Human Molecular Genetics, doi: 10.1093/hmg/ddu041 (2014)

Predicting hydration free energies with a hybrid QM/MM approach: an evaluation of implicit and explicit solvation models in SAMPL4 Gerhard König, Frank C. Pickard IV, Ye Mei, Bernard R. Brooks J. Computer-Aided Molecular Design, doi://10.1007/s10822-014-9708-4 (2014)
Predicting Stroke Through Genetic Risk Functions CA Ibrahim-Verbaas,M Fornage, JC Bis, et al Stroke, doi: 10.1161/STROKEAHA.113.003044 (2014)
Multilocus Genetic Risk Score Associates With Ischemic Stroke in Case-Control and Prospective Cohort Studies R Malik, S Bevan, M Nalls et al Stroke, doi: 10.1161/STROKEAHA.113.002938 (2014)
Reverse regression: A method for joint analysis of multiple endpoints in randomized clinical trials Zhiwei Zhang Statistica Sinica, doi://10.5705/ss.2010.111 (2014)
Using single cell sequencing data to model the evolutionary history of a tumor Kyung In Kim and Richard Simon BMC Bioinformatics :27, doi: 10.1186/1471-2105-15-27 (2014)
Comprehensive Genomic Analysis of Rhabdomyosarcoma Reveals a Landscape of Alterations Affecting a Common Genetic Axis in Fusion-Positive and Fusion-Negative Tumors Jack F. Shern, Li Chen, Juliann Chmielecki, et al. Cancer Discovery, doi:10.1158/2159-8290.CD-13-0639 (2014)

Fluorescence excitation and ultraviolet absorption spectra and theoretical calculations for benzocyclobutane: Vibrations and structure of its excited S1(π,π*) electronic state Hee Won Shin, Esther J. Ocola, Sunghwan Kim and Jaan Laane J. Chem. Phys., doi://10.1063/1.4858412 (2014)
Spectral Tuning of Rhodopsin and Visual Cone Pigments Xiuwen Zhou , Dage Sundholm , Tomasz Adam Wesolowski , and Ville R. I. Kaila J.Am.Chem.Soc., DOI: 10.1021/ja411864m (2014)
RNA-sequencing of the brain transcriptome implicates dysregulation of neuroplasticity, circadian rhythms and GTPase binding in bipolar disorder N Akula, J Barb, X Jiang, J R Wendland, K H Choi, S K Sen, L Hou, D T W Chen, G Laje, K Johnson, B K Lipska, J E Kleinman, H Corrada-Bravo, S Detera-Wadleigh, P J Munson and F J McMahon Molecular Psychiatry, doi: 10.1038/mp.2013.170 (2014)

2013 (180 papers)

Residue-level prediction of HIV-1 antibody epitopes based on neutralization of diverse viral strains Chuang, GY; Acharya, P; Schmidt, SD et al. J. Virol., DOI://10.1128/JVI.00984-13 (2013)
Integrated strategy for improving functional connectivity mapping using multiecho fMRI Kundu, P; Brenowitz, ND; Voon, V et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1301725110 (2013)
Histone H2B ubiquitin ligase RNF20 is required for MLL-rearranged leukemia Wang, E; Kawaoka, S; Yu, M et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1301045110 (2013)
Correlated biomarker measurement error: an important threat to inference in environmental epidemiology Pollack, AZ; Perkins, NJ; Mumford, SL; Ye, A; Schisterman, EF; Am. J. Epidemiol., DOI://10.1093/aje/kws209 (2013)
Multidonor analysis reveals structural elements, genetic determinants, and maturation pathway for HIV-1 neutralization by VRC01-class antibodies Zhou, T; Zhu, J; Wu, X et al. Immunity, DOI://10.1016/j.immuni.2013.04.012 (2013)
Effective Preprocessing Procedures Virtually Eliminate Distance-Dependent Motion Artifacts in Resting State FMRI Jo, HJ; Gotts, SJ; Reynolds, RC et al. J Appl Math, DOI://10.1155/2013/935154 (2013)
A structural and molecular dynamics approach to understanding the peptide-receptive transition state of MHC-I molecules Mage, MG; Dolan, MA; Wang, R et al. Mol. Immunol., DOI://10.1016/j.molimm.2012.10.021 (2013)
PfSETvs methylation of histone H3K36 represses virulence genes in Plasmodium falciparum Jiang, L; Mu, J; Zhang, Q et al. Nature, DOI://10.1038/nature12361 (2013)
Subconjunctival Palomid 529 in the treatment of neovascular age-related macular degeneration Dalal, M; Jacobs-El, N; Nicholson, B et al. Graefes Arch. Clin. Exp. Ophthalmol., DOI://10.1007/s00417-013-2375-7 (2013)
GWAS of 126,559 individuals identifies genetic variants associated with educational attainment Rietveld, CA; Medland, SE; Derringer, J et al. Science, DOI://10.1126/science.1235488 (2013)
Multivariate normally distributed biomarkers subject to limits of detection and receiver operating characteristic curve inference Perkins, NJ; Schisterman, EF; Vexler, A; Acad Radiol, DOI://10.1016/j.acra.2013.04.001 (2013)
Genome-wide association study of retinopathy in individuals without diabetes Jensen, RA; Sim, X; Li, X et al. PLoS ONE, DOI://10.1371/journal.pone.0054232 (2013)
Topographic diversity of fungal and bacterial communities in human skin Findley, K; Oh, J; Yang, J et al. Nature, DOI://10.1038/nature12171 (2013)
Accuracy loss due to selection bias in cohort studies with left truncation Schisterman, EF; Cole, SR; Ye, A; Platt, RW; Paediatr Perinat Epidemiol, DOI://10.1111/ppe.12073 (2013)
Age-dependent regulation of synaptic connections by dopamine D2 receptors Jia, JM; Zhao, J; Hu, Z; Lindberg, D; Li, Z; Nat. Neurosci., DOI://10.1038/nn.3542 (2013)

Instant super-resolution imaging in live cells and embryos via analog image processing York, AG; Chandris, P; Nogare, DD et al. Nat. Methods, DOI://10.1038/nmeth.2687 (2013)
Obstetric complications among US women with asthma Mendola, P; Laughon, SK; Männistö, TI et al. Am. J. Obstet. Gynecol., DOI://10.1016/j.ajog.2012.11.007 (2013)
Meta-analysis of genome-wide association studies in five cohorts reveals common variants in RBFOX1, a regulator of tissue-specific splicing, associated with refractive error Stambolian, D; Wojciechowski, R; Oexle, K et al. Hum. Mol. Genet., DOI://10.1093/hmg/ddt116 (2013)
A systems biology framework identifies molecular underpinnings of coronary heart disease Huan, T; Zhang, B; Wang, Z et al. Arterioscler. Thromb. Vasc. Biol., DOI://10.1161/ATVBAHA.112.300112 (2013)
Genome-wide meta-analyses of multiancestry cohorts identify multiple new susceptibility loci for refractive error and myopia Verhoeven, VJ; Hysi, PG; Wojciechowski, R et al. Nat. Genet., DOI://10.1038/ng.2554 (2013)
The altered landscape of the human skin microbiome in patients with primary immunodeficiencies Oh, J; Freeman, AF; , et al. Genome Res., DOI://10.1101/gr.159467.113 (2013)

Identification of an ABCB1 (P-glycoprotein)-positive carfilzomib-resistant myeloma subpopulation by the pluripotent stem cell fluorescent dye CDy1 Hawley, TS; Riz, I; Yang, W et al. Am. J. Hematol., DOI://10.1002/ajh.23387 (2013)
Mutations in DNA-binding loop of NFAT5 transcription factor produce unique outcomes on protein-DNA binding and dynamics Li, M; Shoemaker, BA; Thangudu, RR; Ferraris, JD; Burg, MB; Panchenko, AR; J Phys Chem B, DOI://10.1021/jp403310a (2013)
Severe painful vaso-occlusive crises and mortality in a contemporary adult sickle cell anemia cohort study Darbari, DS; Wang, Z; Kwak, M et al. PLoS ONE, DOI://10.1371/journal.pone.0079923 (2013)
Association of adiposity genetic variants with menarche timing in 92,105 women of European descent Fernández-Rhodes, L; Demerath, EW; Cousminer, DL et al. Am. J. Epidemiol., DOI://10.1093/aje/kws473 (2013)
TGF-ß regulates enamel mineralization and maturation through KLK4 expression Cho, A; Haruyama, N; Hall, B et al. PLoS ONE, DOI://10.1371/journal.pone.0082267 (2013)
Race, genetic ancestry and response to antidepressant treatment for major depression Murphy, E; Hou, L; Maher, BS et al. Neuropsychopharmacology, DOI://10.1038/npp.2013.166 (2013)
Genomic insights into the fate of colistin resistance and Acinetobacter baumannii during patient treatment Snitkin, ES; Zelazny, AM; Gupta, J et al. Genome Res., DOI://10.1101/gr.154328.112 (2013)
53BP1 alters the landscape of DNA rearrangements and suppresses AID-induced B cell lymphoma Jankovic, M; Feldhahn, N; Oliveira, TY et al. Mol. Cell, DOI://10.1016/j.molcel.2012.11.029 (2013)
Building a fission machine--structural insights into dynamin assembly and activation Chappie, JS; Dyda, F; J. Cell. Sci., DOI://10.1242/jcs.108845 (2013)
Global 'bootprinting' reveals the elastic architecture of the yeast TFIIIB-TFIIIC transcription complex in vivo Nagarajavel, V; Iben, JR; Howard, BH; Maraia, RJ; Clark, DJ; Nucleic Acids Res., DOI://10.1093/nar/gkt611 (2013)
Imputation of variants from the 1000 Genomes Project modestly improves known associations and can identify low-frequency variant-phenotype associations undetected by HapMap based imputation Wood, AR; Perry, JR; Tanaka, T et al. PLoS ONE, DOI://10.1371/journal.pone.0064343 (2013)
Human papillomavirus type 58 genome variations and RNA expression in cervical lesions Li, Y; Wang, X; Ni, T et al. J. Virol., DOI://10.1128/JVI.01154-13 (2013)

De novo identification of VRC01 class HIV-1-neutralizing antibodies by next-generation sequencing of B-cell transcripts Zhu, J; Wu, X; Zhang, B et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1306262110 (2013)
The role of macrophage class a scavenger receptors in a laser-induced murine choroidal neovascularization model Jawad, S; Liu, B; Li, Z et al. Invest. Ophthalmol. Vis. Sci., DOI://10.1167/iovs.12-11380 (2013)
Suppression of genetic recombination in the pseudoautosomal region and at subtelomeres in mice with a hypomorphic Spo11 allele Smagulova, F; Brick, K; Pu, Y; Sengupta, U; Camerini-Otero, RD; Petukhova, GV; BMC Genomics, DOI://10.1186/1471-2164-14-493 (2013)
Regional replication of association with refractive error on 15q14 and 15q25 in the Age-Related Eye Disease Study cohort Simpson, CL; Wojciechowski, R; Yee, SS; Soni, P; Bailey-Wilson, JE; Stambolian, D; Mol. Vis., 1090-0535 (2013)
The Papillomavirus Episteme: a central resource for papillomavirus sequence data and analysis Van Doorslaer, K; Tan, Q; Xirasagar, S et al. Nucleic Acids Res., DOI://10.1093/nar/gks984 (2013)
The origin of B cell recurrent chromosomal translocations: proximity versus DNA damage Casellas, R; Resch, W; Hakim, O; Nussenzweig, MC; Mol. Cell, DOI://10.1016/j.molcel.2013.07.020 (2013)
NGSPE: A pipeline for end-to-end analysis of DNA sequencing data and comparison between different platforms Huang, K; Yellapantula, V; Baier, L; Dinu, V; Comput. Biol. Med., DOI://10.1016/j.compbiomed.2013.05.025 (2013)
Genetic associations with valvular calcification and aortic stenosis Thanassoulis, G; Campbell, CY; Owens, DS et al. N. Engl. J. Med., DOI://10.1056/NEJMoa1109034 (2013)
Transforming growth factor-β3 (TGF-β3) knock-in ameliorates inflammation due to TGF-β1 deficiency while promoting glucose tolerance Hall, BE; Wankhade, UD; Konkel, JE et al. J. Biol. Chem., DOI://10.1074/jbc.M113.480764 (2013)
Chromatin stretch enhancer states drive cell-specific gene regulation and harbor human disease risk variants Parker, SC; Stitzel, ML; Taylor, DL et al. Proc. Natl. Acad. Sci. U.S.A., DOI://10.1073/pnas.1317023110 (2013)
Using exome sequencing to reveal mutations in TREM2 presenting as a frontotemporal dementia-like syndrome without bone involvement Guerreiro, RJ; Lohmann, E; Brás, JM et al. JAMA Neurol, DOI://10.1001/jamaneurol.2013.579 (2013)
Exome array analysis identifies new loci and low-frequency variants influencing insulin processing and secretion Huyghe, JR; Jackson, AU; Fogarty, MP et al. Nat. Genet., DOI://10.1038/ng.2507 (2013)

PhosSA: Fast and accurate phosphorylation site assignment algorithm for mass spectrometry data Fahad Saeed, Trairak Pisitkun, Jason D Hoffert, Sara Rashidian, Guanghui Wang, Marjan Gucek and Mark A Knepper Proteome Sci. , doi: 10.1186/1477-5956-11-S1-S14 (2013)
Molecular insights into the reversible formation of tau protein fibrils Yin Luo, Paul Dinkel, Xiang Yu, Martin Margittai, Jie Zheng, Ruth Nussinov, Guanghong Wei and Buyong Ma Chem. Commun., DOI: 10.1039/C3CC00241A (2013)
Interactome Maps of Mouse Gene Regulatory Domains Reveal Basic Principles of Transcriptional Regulation Kyong-Rim Kieffer-Kwon, Zhonghui Tang, Ewy Mathe et al. Cell, doi://10.1016/j.cell.2013.11.039 (2013)
Design of RNA splicing analysis null models for post hoc filtering of Drosophila head RNA-Seq data with the splicing analysis kit (Spanki) David Sturgill, John H Malone, Xia Sun, Harold E Smith, Leonard Rabinow, Marie-Laure Samson and Brian Oliver BMC Bioinformatics, doi:10.1186/1471-2105-14-320 (2013)
Theta band activity in response to emotional expressions and its relationship with gamma band activity as revealed by MEG and advanced beamformer source imaging Qian Luo, Xi Cheng, Tom Holroyd, Duo Xu, Frederick W. Carver and James Blair Frontiers in Human Neuroscience, doi: 10.3389/fnhum.2013.00940 (2013)
Overfitting, generalization, and MSE in class probability estimation with high-dimensional data Kyung In Kim, Richard Simon Biometric Journal, DOI: 10.1002/bimj.201300083 (2013)

Radionuclide labeling and evaluation of candidate radioligands for PET imaging of histone deacetylase in the brain Young Jun Seo, Lisa Muench, Alicia Reid, Jinzhu Chen, Yeona Kang, Jacob M. Hooker, Nora D. Volkow, Joanna S. Fowler, Sung Won Kim Bioorganic and Medicinal Chemistry Letters 23:6700-6705 (2013)
An integrated systems genetics screen reveals the transcriptional structure of inherited predisposition to metastatic disease Farhoud Faraji, Ying Hu, Gang Wu, Natalie E. Goldberger, Renard C. Walker, Jinghui Zhang and Kent W. Hunter Genome Research, doi: 10.1101/gr.166223.113 (2013)
Efficacy of Cyclin Dependent Kinase 4 Inhibitors as Potent Neuroprotective Agents against Insults Relevant to Alzheimer's Disease Priyankar Sanphui, Sumit Kumar Pramanik, Nandini Chatterjee, Ponnusamy Moorthi, Biswadip Banerji, Subhas Chandra Biswas PLoS One, doi: 10.1371/journal.pone.0078842 (2013)
Multiple Transport-Active Binding Sites Are Available for a Single Substrate on Human P-Glycoprotein (ABCB1) Eduardo E. Chufan, Khyati Kapoor, Hong-May Sim, Satyakam Singh, Tanaji T. Talele, Stewart R. Durell, Suresh V. Ambudkar PLoS One, DOI: 10.1371/journal.pone.0082463 (2013)
Prediction of the location and size of the stomach using patient characteristics for retrospective radiation dose estimation following radiotherapy Stephanie Lamart, Rebecca Imran, Steven L Simon, Kazutaka Doi, Lindsay M Morton, Rochelle E Curtis, Choonik Lee, Vladimir Drozdovitch, Roberto Maass-Moreno, Clara C Chen, Millie Whatley, Donald L Miller, Karel Pacak and Choonsik Lee Physics in Medicine and Biology, doi:10.1088/0031-9155/58/24/8739 (2013)
Optimization of virus detection in cells using massively parallel sequencing Shasta D. McClenahan, Christine Uhlenhaut, Philip R. Krause Biologicals, DOI://10.1016/j.biologicals.2013.11.002 (2013)

Whole exome sequencing identifies variation in CYB5A and RNF10 associated with adiposity and type 2 diabetes. Huang K, Nair AK, Muller YL, Piaggi P, Bian L, Del Rosario M, Knowler WC, Kobes S, Hanson RL, Bogardus C, Baier LJ. Obesity, doi: 10.1002/oby.20647 (2013)
Antimicrobial activity of eugenol and cinnamaldehyde against extended spectrum beta lactamase producing enterobacteriaceae by in vitro and molecular docking analysis Lena Dhara, Anusri Tripathi Eur.J.Integrative Med., 10.1016/j.eujim.2013.08.005 (2013)
Efficient logistic regression designs under an imperfect population identifier Paul S. Albert, Aiyi Liu, Tonja Nansel Biometrics, DOI: 10.1111/biom.12106 (2013)
Molecular Isotopic Distribution Analysis (MIDAs) with Adjustable Mass Accuracy Gelio Alves, Aleksey Y. Ogurtsov, Yi-Kuo Yu J. Am. Soc. for Mass Spectrometry, doi://10.1007/s13361-013-0733-7 (2013)
Vitamin D-Binding Protein and Vitamin D Status of Black Americans and White Americans Camille E. Powe, , Michele K. Evans, Julia Wenger, Alan B. Zonderman, Anders H. Berg, Michael Nalls, Hector Tamez, Dongsheng Zhang, Ishir Bhan, S. Ananth Karumanchi, Neil R. Powe, and Ravi Thadhani New England J. Medicine, DOI: 10.1056/NEJMoa1306357 (2013)
PW02-001 - Exome sequencing for autoinflammatory disorders SE Boyden, Q Zhou, I Aksentijevich and DL Kastner Pediatric Rheumatology, doi:10.1186/1546-0096-11-S1-A141 (2013)
Endogenous Carbamylation of Renal Medullary Proteins J'Neka S. Claxton, Pablo C. Sandoval, Gary Liu, Chung-Lin Chou, Jason D. Hoffert, and Mark A. Knepper PLoS One, doi: 10.1371/journal.pone.0082655 (2013)
Interpreting the effects of altered brain anatomical connectivity on fMRI functional connectivity: a role for computational neural modeling Barry Horwitz, Chuhern Hwang, and Jeff Alstott Frontiers in Human Neuroscience, doi: 10.3389/fnhum.2013.00649 (2013)
Shared Genetic Susceptibility to Ischemic Stroke and Coronary Artery Disease Dichgans, Malik et al. Stroke, doi: 10.1161/STROKEAHA.113.002707 (2013)
Mtr4-like Protein Coordinates Nuclear RNA Processing for Heterochromatin Assembly and for Telomere Maintenance Nathan N. Lee, Venkata R. Chalamcharla, Francisca Reyes-Turcu, Sameet Mehta, Martin Zofall, Vanivilasini Balachandran, Jothy Dhakshnamoorthy, Nitika Taneja, Soichiro Yamanaka, 5, Ming Zhou, Shiv I.S. Grewal Cell, doi://10.1016/j.cell.2013.10.027 (2013)
Testing multiple biological mediators simultaneously Simina M. Boca, Rashmi Sinha, Amanda J. Cross, Steven C. Moore and Joshua N. Sampson Bioinformatics, doi: 10.1093/bioinformatics/btt633 (2013)
Variational Optimization of an All-Atom Implicit Solvent Force Field To Match Explicit Solvent Simulation Data Sandro Bottaro, Kresten Lindorff-Larsen, and Robert B. Best J. Chem. Theory and Computation, DOI: 10.1021/ct400730n (2013)

Mechanism of Membrane Permeation Induced by Synthetic β-Hairpin Peptides Kshitij Gupta, Hyunbum Jang, Kevin Harlen, Anu Puri, Ruth Nussinov, Joel P. Schneider, Robert Blumenthal Biophys. J. , doi: 10.1016/j.bpj.2013.09.040 (2013)
Ebola Virus RNA Editing Depends on the Primary Editing Site Sequence and an Upstream Secondary Structure Masfique Mehedi, Thomas Hoenen, Shelly Robertson, Stacy Ricklefs, Michael A. Dolan, Travis Taylor, Darryl Falzarano, Hideki Ebihara, Stephen F. Porcella, Heinz Feldmann PLoS Pathogens, doi:10.1371/journal.ppat.1003677 (2013)
Massively Parallel Sequencing Reveals an Accumulation of De Novo Mutations and an Activating Mutation of LPAR1 in a Patient with Metastatic Neuroblastoma JS Wei, P Johansson, L Chen et al PLoS One, doi:10.1371/journal.pone.0077731 (2013)
Mitochondrial DNA sequence associations with dementia and amyloid-β in elderly African Americans GJ Tranah, JS Yokoyoma, SM Katzman et al. Neurobiology of Aging, doi:/10.1016/j.neurobiolaging.2013.05.02 (2013)
Functional Linear Models for Association Analysis of Quantitative Traits Ruzong Fan, Yifan Wang, James L. Mills, Alexander F. Wilson, Joan E. Bailey-Wilson, Momiao Xiong Genetic Epidemiology, DOI: 10.1002/gepi.21757 (2013)
Singular Value Decomposition of the Radial Distribution Function for Hard Sphere and Square Well Potentials Travis Hoppe PLoS One, doi:10.1371/journal.pone.0075792 (2013)

Brain Docosahexaenoic Acid [DHA] Incorporation and Blood Flow Are Increased in Chronic Alcoholics: A Positron Emission Tomography Study Corrected for Cerebral Atrophy J.C. Umhau, W. Zhou, S. Thada et al PLoS One, doi:10.1371/journal.pone.0075333 (2013)
Cyclic N-Terminal Loop of Amylin Forms Non Amyloid Fibers Stephanie M. Cope, Sandip Shinde, Robert B. Best, Giovanna Ghirlanda, Sara M. Vaiana Biophys. J. , doi: 10.1016/j.bpj.2013.08.026 (2013)
Infrared, Raman, and Ultraviolet Absorption Spectra and Theoretical Calculations and Structure of 2, 6-Difluoropyridine in its Ground and Excited Electronic States Hong-Li Sheu, Sunghwan Kim, and Jaan Laane J. Phys. Chem. A, DOI://10.1021/jp407592r (2013)
Assessment of Parkinson's disease risk loci in Greece E. Kara, G. Xiromerisiou, C. Spanaki et al Neurobiology of Aging, doi://10.1016/j.neurobiolaging.2013.07.011 (2013)
Sequential Monte Carlo Tracking for Marginal Artery Segmentation on CT Angiography by Multiple Cue Fusion Shijun Wang, Brandon Peplinski, Le Lu, Weidong Zhang, Jianfei Liu, Zhuoshi Wei, Ronald M. Summers Medical Image Computing and Computer-Assisted Intervention 8150:518-525 (2013)
Strategies for developing prediction models from genome-wide association studies. Jincao Wu, Ruth M. Pfeiffer andMitchell H. Gail Genet Epidemiol. , doi: 10.1002/gepi.21762 (2013)

Phosphate release coupled to rotary motion of F1-ATPase Kei-ichi Okazaki and Gerhard Hummer PNAS, doi: 10.1073/pnas.1305497110 (2013)
Genome-wide analysis of blood pressure variability and ischemic stroke Yadav, S; Cotlarciuc, I; Munroe, PB et al. Stroke, DOI://10.1161/STROKEAHA.113.002186 (2013)
Expression and regulation of intergenic long noncoding RNAs during T cell development and differentiation Gangqing Hu, Qingsong Tang, Suveena Sharma, Fang Yu, Thelma M Escobar, Stefan A Muljo, Jinfang Zhu & Keji Zhao Nature Immunology, doi:10.1038/ni.2712 (2013)
Specific and Non-Specific Protein Association in Solution: Computation of Solvent Effects and Prediction of First-Encounter Modes for Efficient Configurational Bias Monte Carlo Simulations Antonio Cardone , Harish C. Pant , and Sergio A Hassan J. Phys. Chem. B, DOI: 10.1021/jp4050594 (2013)
Molecular Structure of β-Amyloid Fibrils in Alzheimer's Disease Brain Tissue Jun-Xia Lu, Wei Qiang, Wai-Ming Yau, Charles D. Schwieters, Stephen C. Meredith, Robert Tycko Cell, doi: 10.1016/j.cell.2013.08.035 (2013)
A fast multilocus test with adaptive SNP selection for large-scale genetic-association studies Han Zhang, Jianxin Shi, Faming Liang, William Wheeler, Rachael Stolzenberg-Solomon and Kai Yu Eur. J. Human Genetics, doi: 10.1038/ejhg.2013.201 (2013)

Sequence selectivity of the cleavage sites induced by topoisomerase I inhibitors: a molecular dynamics study Fung-Ming Siu and Yves Pommier Nucleic Acids Research, doi://10.1093/nar/gkt791 (2013)
Gene Synthesis Method Based on Overlap Extension PCR and DNAWorks Program Gang Li, Bing-Xue Dong, Yu-Huan Liu, Chang-Jie Li, Li-Ping Zhang Synthetic Biology - Methods in Molecular Biology 1073:9-17 (2013)
Effect of acute acid-base disturbances on ErbB1/2 tyrosine phosphorylation in rabbit renal proximal tubules Lara A. Skelton, Walter F. Boron Am. J. Physiol. - Renal Physiol., DOI: 10.1152/ajprenal.00307.2013 (2013)
Genetic comorbidities in Parkinson's disease MA Nalls,M Saad et al. Human Molecular Genetics, doi: 10.1093/hmg/ddt465 (2013)
Familial Alzheimer's Disease Osaka Mutant (ΔE22) β-Barrels Suggest an Explanation for the Different Aβ1-40/42 Preferred Conformational States Observed by Experiment Hyunbum Jang , Fernando Teran Arce , Srinivasan Ramachandran , Bruce L. Kagan , Ratnesh Lal , and Ruth Nussinov J. Phys. Chem. B, DOI: 10.1021/jp405389n (2013)
Life and death of a cardiac calcium spark Michael D. Stern, Eduardo Ríos, and Victor A. Maltsev J. Gen. Physiol. , doi: 10.1085/jgp.201311034 (2013)

Conformational Analysis of NMDA Receptor GluN1, GluN2, and GluN3 Ligand-Binding Domains Reveals Subtype-Specific Characteristics Yongneng Yao, John Belcher, Anthony J. Berger, Mark L. Mayer, Albert Y. Lau Structure, doi: 10.1016/j.str.2013.07.011 (2013)
Correlated vibrations in ion-pair dynamics in mechanoactivation identify functional domains of force-dependent titin kinase Ming-Chya Wu, Jeffrey G. Forbes and Kuan Wang Soft Matter, DOI: 10.1039/C3SM51539G (2013)
Genome-Wide Association of Body Fat Distribution in African Ancestry Populations Suggests New Loci Ching-Ti Liu, Keri L. Monda, Kira C. Taylor et al PLoS Genetics, doi:10.1371/journal.pgen.1003681 (2013)
Intragenic DNA methylation modulates alternative splicing by recruiting MeCP2 to promote exon recognition Alika K Maunakea, Iouri Chepelev, Kairong Cui and Keji Zhao Cell Research, doi: 10.1038/cr.2013.110 (2013)
RCircos: an R package for Circos 2D track plots Hongen Zhang, Paul Meltzer, Sean Davis BMC Bioinformatics, doi:10.1186/1471-2105-14-244 (2013)
Top3 β is an RNA topoisomerase that works with fragile X syndrome protein to promote synapse formation Xu D, Shen W, Guo R, Xue Y, Peng W, Sima J, Yang J, Sharov A, Srikantan S, Yang J, Fox D 3rd, Qian Y, Martindale JL, Piao Y, Machamer J, Joshi SR, Mohanty S, Shaw AC, Lloyd TE, Brown GW, Ko MS, Gorospe M, Zou S, Wang W. Nature Neuroscience, doi: 10.1038/nn.3479 (2013)

Computational detection of abundant long-range nucleotide covariation in Drosophila genomes Eckart Bindewald and Bruce A Shapiro RNA, doi: 10.1261/rna.037630.112 (2013)
Genome-wide meta-analysis identifies new susceptibility loci for migraine Anttila, V; Winsvold, BS; Gormley, P et al. Nat. Genet., DOI://10.1038/ng.2676 (2013)
Multi-SNP Analysis of GWAS Data Identifies Pathways Associated with Nonalcoholic Fatty Liver Disease Qing-Rong Chen, Rosemary Braun, Ying Hu, Chunhua Yan, Elizabeth M. Brunt, Daoud Meerzaman, Arun J. Sanyal, Kenneth Buetow PLoS One, doi:10.1371/journal.pone.0065982 (2013)
Genomic Analysis of Stress Response against Arsenic in Caenorhabditis elegans Surasri N. Sahu, Jada Lewis, Isha Patel, Serdar Bozdag, Jeong H. Lee, Robert Sprando, and Hediye Nese Cinar PLoS One, doi://10.1371/journal.pone.0066431 (2013)
Reduced thalamic volumes in major depressive disorder AC Nugent, RM Davis, CA Zarate Jr, WC Drevets Psych. Res. Neuroimaging, doi://10.1016/j.pscychresns.2013.05.004 (2013)
Graph theoretical analysis of resting magnetoencephalographic functional connectivity networks Lindsay Rutter, Sreenivasan R. Nadar, Tom Holroyd, Frederick W. Carver, Jose Apud, Daniel R. Weinberger and Richard Coppola Frontiers in Computational Neuroscience, doi://10.3389/fncom.2013.00093 (2013)

Evaluation of the Use of Surrogate Tissues for Calculating Radiation Dose to Lymphatic Nodes from External Photon Beams Stephanie Lamart, Brian E. Moroz and Choonsik Lee Radiation Protection Dosimetry, doi: 10.1152/ajprenal.00210.2013 (2013)
Visual Phrase Learning and Its Application in Computed Tomographic Colonography Shijun Wang, Matthew McKenna, Zhuoshi Wei, Jiamin Liu, Peter Liu, Ronald M. Summers Medical Image Computing and Computer-Assisted Intervention 8149:243 (2013)
Ordinal latent variable models and their application in the study of newly licensed teenage drivers John C Jackson, Paul S. Albert, Zhiwei Zhang and Bruce Simons-Morton Appl. Statist. , DOI: 10.1111/j.1467-9876.2012.01065.x (2013)
Striatal dopamine release and genetic variation of the serotonin 2C receptor in humans Brian J Mickey, Benjamin J Sanford, Tiffany M Love, Pei-Hong Shen, Colin Hodgkinson, Christian S Stohler, David Goldman, Jon-Kar Zubieta J Neurosci., doi: 10.1523/JNEUROSCI.1260-12.2012 (2013)
DRD2/ANKK1 Taq1A polymorphism (rs1800497) has opposing effects on D2/3 receptor binding in healthy controls and patients with major depressive disorder Savitz J, Hodgkinson CA, Martin-Soelch C, Shen PH, Szczepanik J, Nugent AC, Herscovitch P, Grace AA, Goldman D, Drevets WC Int J Neuropsychopharmacol., doi: 10.1017/S146114571300045X (2013)
Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding X He, R Chatterjee, S John, H Bravo, Bk Sathyanarayana, SC Biddie, PC FitzGerald, JA Stamatoyannopoulos, GL Hager, C Vinson BMC Genomics, doi:10.1186/1471-2164-14-428 (2013)

Probing the transient dark state of substrate binding to GroEL by relaxation-based solution NMR David S. Libich, Nicolas L. Fawzia, Jinfa Ying, and G. Marius Clore PNAS, doi: 10.1073/pnas.1305715110 (2013)
HASP server: a database and structural visualization platform for comparative models of influenza A hemagglutinin proteins Xavier I Ambroggio, Jennifer Dommer, Vivek Gopalan, Eleca J Dunham, Jeffery K Taubenberger and Darrell E Hurt BMC Bioinformatics, doi:10.1186/1471-2105-14-197 (2013)
Host immune constraints on malaria transmission: insights from population biology of within-host parasites Philip G McQueen, Kim C Williamson and F Ellis McKenzie Malaria Journal, doi:10.1186/1475-2875-12-206 (2013)
VLDP web server: a powerful geometric tool for analysing protein structures in their environment Jérémy Esque, Sylvain Léonard, Alexandre G. de Brevern and Christophe Oguey Nucleic Acids Research, doi: 10.1093/nar/gkt509 (2013)
mRNA expression, splicing and editing in the embryonic and adult mouse cerebral cortex. Dillman AA, Hauser DN, Gibbs JR, Nalls MA, McCoy MK, Rudenko IN, Galter D, Cookson MR. Nature Neuroscience, doi: 10.1038/nn.3332 (2013)
Proteome-Wide Measurement of Protein Half-Lives and Translation Rates in Vasopressin-Sensitive Collecting Duct Cells Pablo C. Sandoval, Dane H. Slentz, Trairak Pisitkun, Fahad Saeed, Jason D. Hoffert and Mark A. Knepper J. Am. Soc. Nephrologu, doi: 10.1681/ASN.2013030279 (2013)

Anatomical coupling among distributed cortical regions in youth varies as a function of individual differences in vocabulary abilities Nancy Raitano Lee, Armin Raznahan, Gregory L. Wallace, Aaron Alexander-Bloch, Liv S. Clasen, Jason P. Lerch, Jay N. Giedd Human Brain Mapping, DOI://10.1002/hbm.22299 (2013)
Serum Iron Levels and the Risk of Parkinson Disease: A Mendelian Randomization Study I Pichler, F Del Greco et al. PLoS Medicine, doi:10.1371/journal.pmed.1001462 (2013)
HIV-1 Envelope Glycoprotein Trimers Display Open Quaternary Conformation When Bound to the gp41 Membrane-Proximal External-Region-Directed Broadly Neutralizing Antibody Z13e1 Audray K. Harris, Alberto Bartesaghi, Jacqueline L. S. Milne and Sriram Subramaniam J. Virology, doi:10.1128/JVI.03284-12 (2013)
DRD2 polymorphisms modulate reward and emotion processing, dopamine neurotransmission and openness to experience Peciña M, Mickey BJ, Love T, Wang H, Langenecker SA, Hodgkinson C, Shen PH, Villafuerte S, Hsu D, Weisenbach SL, Stohler CS, Goldman D, Zubieta JK Cortex, doi: 10.1016/j.cortex.2012.01.010 (2013)
Prefrontal white matter impairment in substance users depends upon the catechol-o-methyl transferase (COMT) val158met polymorphism Zhang X, Lee MR, Salmeron BJ, Stein DJ, Hong LE, Geng X, Ross TJ, Li N, Hodgkinson C, Shen PH, Yang Y, Goldman D, Stein EA. Neuroimage, doi: 10.1016/j.neuroimage.2012.11.056 (2013)
The functional DRD3 Ser9Gly polymorphism (rs6280) is pleiotropic, affecting reward as well as movement Savitz J, Hodgkinson CA, Martin-Soelch C, Shen PH, Szczepanik J, Nugent A, Herscovitch P, Grace AA, Goldman D, Drevets WC. PLoS One, doi: 10.1371/journal.pone.0054108 (2013)

Association of genetic variation in pharmacodynamic factors with methadone dose required for effective treatment of opioid addiction Levran O, Peles E, Randesi M, Shu X, Ott J, Shen PH, Adelson M, Kreek MJ. Pharmacogenomics, doi: 10.2217/pgs.13.58 (2013)
Atomic-resolution structural information from scattering experiments on macromolecules in solution Jürgen Köfinger & Gerhard Hummer Phys. Rev. E , DOI:10.1103/PhysRevE.87.052712 (2013)
Evolutionary Pressure on the Topology of Protein Interface Interaction Networks Margaret E Johnson & Gerhard Hummer J. Phys. Chem. B, DOI: 10.1021/jp402944e (2013)
Genome-wide localization of exosome components to active promoters and chromatin insulators in Drosophila Lim SJ, Boyle PJ, Chinen M, Dale RK, Lei EP Nucleic Acids Research, doi: 10.1093/nar/gkt037 (2013)
A compendium of RNA-binding motifs for decoding gene regulation Ray D1, Kazan H, Cook KB, et al. Nature, doi: 10.1038/nature12311 (2013)
Messenger RNA is a functional component of a chromatin insulator complex Matzat LH1, Dale RK, Lei EP EMBO Rep., DOI: 10.1038/embor.2013.118 (2013)

Global analysis of the effects of the V2 receptor antagonist satavaptan on protein phosphorylation in collecting duct. Hoffert JD, Pisitkun T, Saeed F, Wilson JL, Knepper MA Am J Physiol Renal Physiol., DOI: 10.1152/ajprenal.00497.2013 (2013)
CAMS-RS: Clustering Algorithm for Large-Scale Mass Spectrometry Data Using Restricted Search Space and Intelligent Random Sampling Saeed F, Hoffert JD, Knepper MA IEEE/ACM Trans Comput Biol Bioinform., doi://10.1109/TCBB.2013.152 (2013)
A Genome-wide Map of CTCF Multivalency Redefines the CTCF Code Hirotaka Nakahashi, Kyong-Rim Kieffer Kwon, Wolfgang Resch, Laura Vian, Marei Dose, Diana Stavreva, Ofir Hakim, Nathanael Pruett, Steevenson Nelson, Arito Yamane, Jason Qian, Wendy Dubois, Scott Welsh, Robert D. Phair, B. Franklin Pugh, Victor Lobanenkov, Gordon L. Hager, and Rafael Casellas Cell Reports, doi://10.1016/j.celrep.2013.04.024 (2013)
Global Regulation of Promoter Melting in Naive Lymphocytes Fedor Kouzine, Damian Wojtowicz, Arito Yamane, Wolfgang Resch, Kyong-Rim Kieffer-Kwon, Russell Bandle, Steevenson Nelson, Hirotaka Nakahashi, Parirokh Awasthi, Lionel Feigenbaum, Herve Menoni, Jan Hoeijmakers, Wim Vermeulen, Hui Ge, Teresa M. Przytycka, David Levens, and Rafael Casellas Cell , doi://10.1016/j.cell.2013.04.033 (2013)
Therapeutic Response in Feline Sandhoff Disease Despite Immunity to Intracranial Gene Therapy Bradbury AM, Cochran JN, McCurdy VJ, Johnson AK et al Mol. Ther. , doi: 10.1038/mt.2013.86 (2013)
A 5′-Flanking Region of Gonadotropin-Regulated Testicular RNA Helicase (GRTH/DDX25) Gene Directs Its Cell-Specific Androgen-Regulated Gene Expression in Testicular Germ Cells Raghuveer Kavarthapu, Chon-Hwa Tsai-Morris, Masato Fukushima, James Pickel and Maria L. Dufau Endocrinology, doi: 10.1210/en.2012-2230 (2013)

Improving Peptide Identification Sensitivity in Shotgun Proteomics by Stratification of Search Space Gelio Alves and Yi-Kuo Yu J. Proteome Research, DOI: 10.1021/pr301139y (2013)
A simplified representation of anisotropic charge distributions within proteins Travis Hoppe J. Chem. Phys., doi://10.1063/1.4803099 (2013)
Proteomic Profiling and Pathway Analysis of the Response of Rat Renal Proximal Convoluted Tubules to Metabolic Acidosis Kevin L. Schauer, Dana M Freund, Jessica E. Prenni, and Norman P. Curthoys Renal Physiology, doi: 10.1152/ajprenal.00210.2013 (2013)
Three-Dimensional Structure of CAP-Gly Domain of Mammalian Dynactin Determined by Magic Angle Spinning NMR Spectroscopy: Conformational Plasticity and Interactions with End Binding Protein EB1 S. Yan, G. Hou, CD Schwieters, S Ahmed, JC Williams T Polenova J. Mol. Biol. , doi://10.1016/j.jmb.2013.04.027 (2013)
CG methylated microarrays identify a novel methylated sequence bound by the CEBPB| ATF4 heterodimer that is active in vivo Ishminder K. Mann, Raghunath Chatterjee, Jianfei Zhao et al. Genome Research, doi:10.1101/gr.146654.112 (2013)
Pointwise confidence intervals for a survival distribution with small samples or heavy censoring Michael P. Fay, Erica H. Brittain and Michael A. Proschan Biostatistics, doi: 10.1093/biostatistics/kxt016 (2013)
Degenerate polymerase chain reaction strategy with DNA microarray for detection of multiple and various subtypes of virus during blood screening K. Takizawa, T. Nakashima, T Mizukami et al. Transfusion, DOI: 10.1111/trf.12193 (2013)
Genome-wide association study of age at menarche in African-American women EW Demerath, C-T Liu, N Franceschini et al. Human Molecular Genetics, doi: 10.1093/hmg/ddt181 (2013)
Reconciling Mediating and Slaving Roles of Water in Protein Conformational Dynamics Li Zhao, Wenzhao Li, and Pu Tian PLoS One, doi://10.1371/journal.pone.0060553 (2013)
Vasopressin and the regulation of aquaporin-2 Justin L. L. Wilson, Carlos A. Miranda, Mark A. Knepper Clinical and Experimental Nephrology, doi://10.1007/s10157-013-0789-5 (2013)
Apolipoprotein E genotype, cardiovascular biomarkers and risk of stroke: Systematic review and meta-analysis of 14 015 stroke cases and pooled analysis of primary biomarker data from up to 60 883 individuals TA Khan, T Shah, D Prieto et al. Int. J. Epidemiol. , doi: 10.1093/ije/dyt034 (2013)
Controlling the local false discovery rate in the adaptive Lasso Joshua N Sampson & Nilanjan Chatterjee Biostatistics, doi: 10.1093/biostatistics/kxt008 (2013)

Molecular mechanisms for the subversion of MyD88 signaling by TcpC from virulent uropathogenic Escherichia coli GA Snyder, C Cirl, J Jiang et al PNAS, doi: 10.1073/pnas.1215770110 (2013)
A crossed random effects modeling approach for estimating diagnostic accuracy from ordinal ratings without a gold standard Yunlong Xie, Zhen Chen, Paul S. Albert Statistics in Medicine, DOI: 10.1002/sim.5784 (2013)
Pharmacophore and 3D-QSAR Characterization of 6-arylquinazolin-4-amines as Cdc2-like kinase 4 (Clk4) and Dual Specificity Tyrosine-phosphorylation-regulated Kinase 1A (Dyrk1A) Inhibitors Yongmei Pan , Yanli Wang, and Stephen H. Bryant J. Chem. Inf. Model. , DOI: 10.1021/ci300625c (2013)
Effects of pre-existing anti-carrier immunity and antigenic element multiplicity on efficacy of a modular virus-like particle vaccine Yap P. Chuan, Tania Rivera-Hernandez, Nani Wibowo, Natalie K. Connors, Yang Wu, Fiona K. Hughes, Linda H. L. Lua, Anton P. J. Middelberg Biotech. & Bioengg. , DOI: 10.1002/bit.24907 (2013)
Global Analysis of Neuronal Phosphoproteome Regulation by Chondroitin Sulfate Proteoglycans Panpan Yu, Trairak Pisitkun, Guanghui Wang, Rong Wang, Yasuhiro Katagiri, Marjan Gucek, Mark A. Knepper, Herbert M. Geller PLoS One, doi:10.1371/journal.pone.0059285 (2013)
The alkaline pectate lyase PEL168 of Bacillus subtilis heterologously expressed in Pichia pastoris is more stable and efficient for degumming ramie fiber Chengjie Zhang, Jia Yao,Cheng Zhou,Liangwei Mao, Guimin Zhang, Yanhe Ma BMC Biotechnology, doi:10.1186/1472-6750-13-26 (2013)

In Silico, In Vitro, and In Vivo Studies Indicate the Potential Use of Bolaamphiphiles for Therapeutic siRNAs Delivery Taejin Kim, Kirill A. Afonin, Mathias Viard, Alexey Y Koyfman, Selene Sparks, Eliahu Heldman, Sarina Grinberg, Charles Linder, Robert P Blumenthal and Bruce A Shapiro Mol. Therapy - Nuc. Acids, doi:10.1038/mtna.2013.5 (2013)
RNAi triggered by specialized machinery silences developmental genes and retrotransposons Soichiro Yamanaka, Sameet Mehta, Francisca E. Reyes-Turcu, Fanglei Zhuang, Ryan T. Fuchs, Yikang Rong, Gregory B. Robb & Shiv I. S. Grewal Nature, doi:10.1038/nature11716 (2013)
Transcription-dependent dynamic supercoiling is a short-range genomic force Fedor Kouzine, Ashutosh Gupta, Laura Baranello, Damian Wojtowicz, Khadija Ben-Aissa, Juhong Liu, Teresa M Przytycka & David Levens Nature Structural & Molecular Biology, doi:10.1038/nsmb.2517 (2013)
X-Ray crystallographic structural characteristics of Arabidopsis hemoglobin I and their functional implications Nitika Mukhi, Sonali Dhindwal, Sheetal Uppal, Pravindra Kumar, Jagreet Kaur, Suman Kundu Biochim. et Biophys. Acta, doi://10.1016/j.bbapap.2013.02.024 (2013)
Engineering strategy to improve peptide analogs: from structure-based computational design to tumor homing David Zanuy, Francisco J. Sayago, Guillem Revilla-López, Gema Ballano, Lilach Agemy, Venkata Ramana Kotamraju, Ana I. Jiménez, Carlos Cativiela, Ruth Nussinov, April M. Sawvel, Galen Stucky, Erkki Ruoslahti, Carlos Alemán J. Computer-Aided Mol. Design, doi:10.1007/s10822-012-9623-5 (2013)
A novel taurocyamine kinase found in the protist Phytophthora infestans Kouji Uda, Michihiro Hoshijima, Tomohiko Suzuki Comp. Biochem. Phys. Part B: Biochem & Mol. Bio. , doi://10.1016/j.cbpb.2013.03.003 (2013)

Structure and accessibility of HA trimers on intact 2009 H1N1 pandemic influenza virus to stem region-specific neutralizing antibodies AK Harris, JR Meyerson, Y Matsuoka, O Kuybeda, A Moran, D Bliss, SR Das, JW Yewdell, G Sapiro, K Subbarao, and S Subramaniam PNAS, doi: 10.1073/pnas.1214913110 (2013)
Gene Synthesis by Assembly of Deoxyuridine-Containing Oligonucleotides Romualdas Vaisvila, Jurate Bitinaite Methods in Molecular Biology, doi: 10.1007/978-1-62703-293-3_12 (2013)
The Molecular Mechanism of Substrate Engagement and Immunosuppressant Inhibition of Calcineurin Simina Grigoriu, Rachel Bond, Pilar Cossio, Jennifer A. Chen, Nina Ly, Gerhard Hummer, Rebecca Page, Martha S. Cyert, Wolfgang Peti PLoS Biology, doi:10.1371/journal.pbio.1001492 (2013)
Genome-wide association analysis of red blood cell traits in African Americans: the COGENT Network Z Chen, H Tang, R Qayyum, UM Schick, MA Nalls et al. Human Molecular Genetics, doi: 10.1093/hmg/ddt087 (2013)
Common Variants Within Oxidative Phosphorylation Genes Influence Risk of Ischemic Stroke and Intracerebral Hemorrhage CD Anderson, A Biffi, MA Nalls, et al. & the International Stroke Genetics Consortium Stroke, doi: 10.1161/STROKEAHA.112.672089 (2013)
Antedependence models for nonstationary categorical longitudinal data with ignorable missingness likelihood-based inference Yunlong Xie, Dale Zimmerman Statistics in Medicine, DOI: 10.1002/sim.5763 (2013)

Sequence dependence of C-end rule peptides in binding and activation of neuropilin-1 receptor David Zanuy, Rohith Kotla, Ruth Nussinov, Tambet Teesalu, Kazuki N. Sugahara, Carlos Alemán, Nurit Haspel J. Struct. Biol. , doi://10.1016/j.jsb.2013.02.006 (2013)
Electrostatic spectral tuning mechanism of the green fluorescent protein Ville R. I. Kaila , Robert Send and Dage Sundholm Phys. Chem. Chem. Phys., DOI: 10.1039/C3CP00058C (2013)
Alzheimer's disease: Which type of amyloid-preventing drug agents to employ? Hyunbum Jang , Laura Connelly , Fernando Teran Arce , Srinivasan Ramachandran , Ratnesh Lal , Bruce L Kagan and Ruth Nussinov Phys. Chem. Chem. Phys., DOI: 10.1039/C3CP00017F (2013)
Control of breathing by interacting pontine and pulmonary feedback loops Yaroslav I. Molkov, Bartholomew J. Bacak, Thomas E. Dick, and Ilya A. Rybak Frontiers in Neural Circuits, doi: 10.3389/fncir.2013.00016 (2013)
Protein charge and mass contribute to the spatio-temporal dynamics of protein-protein interactions in a minimal proteome Yu Xu, Hong Wang, Ruth Nussinov, Buyong Ma Proteomics, DOI: 10.1002/pmic.201100540 (2013)
Differential requirements for mRNA folding partially explain why highly expressed proteins evolve slowly C Park, X Chen, J-R Yang, J Zhang PNAS, doi: 10.1073/pnas.1218066110 (2013)

The Val158Met COMT polymorphism is a modifier of the age at onset in Parkinson's disease with a sexual dimorphism S Klebe, J-L Golmard, MA Nalls et al, French Parkinson's Disease Genetics Study Group and the International Parkinson's Disease Genomics Consortium J Neurol Neurosurg Psychiatry , doi:10.1136/jnnp-2012-304475 (2013)
The Convergence of Maturational Change and Structural Covariance in Human Cortical Networks Aaron Alexander-Bloch, Armin Raznahan, Ed Bullmore, and Jay Giedd J. Neuroscience , doi: 10.1523/JNEUROSCI.3554-12.2013 (2013)
Genome-wide profiles of CtBP link metabolism with genome stability and epithelial reprogramming in breast cancer Li-Jun Di, Jung S. Byun, Madeline M. Wong, Clay Wakano, Tara Taylor, Sven Bilke, Songjoon Baek, Kent Hunter, Howard Yang, Maxwell Lee, Cecilia Zvosec, Galina Khramtsova, Fan Cheng, Charles M. Perou, C. Ryan Miller, Rachel Raab, Olufunmilayo I. Olopade & Kevin Gardner Nature Communications, doi:10.1038/ncomms2438 (2013)
Ischemic stroke is associated with the ABO locus: The EuroCLOT study FMK Williams, AM Carter, PG Hysi et al and EuroCLOT Investigators, the Wellcome Trust Case Control Consortium 2, MORGAM, MetaStroke and the International Stroke Genetics Consortium Annals of Neurology, DOI: 10.1002/ana.23838 (2013)
Initial Assessment of the Pathogenic Mechanisms of the Recently Identified Alzheimer Risk Loci P Holton, M Ryten, MA Nalls et al. Annals of Human Genetics, DOI: 10.1111/ahg.12000 (2013)
Alternative Complex III from phototrophic bacteria and its electron acceptor auracyanin Erica L.W. Majumder, Jeremy D. King, Robert E. Blankenship Biochim. et Biophys. Acta - Bioenergetics, doi://10.1016/j.bbabio.2013.01.008 (2013)

Identification of Early Replicating Fragile Sites that Contribute to Genome Instability JH Barlow, RB Faryabi, E Callen, N Wong, A Malhowski, H Tang Chen, G Gutierrez-Cruz, H-W Sun, P McKinnon, G Wright, R Casellas, DF Robbiani, L Staudt, O Fernandez-Capetillo, A Nussenzweig Cell, doi://10.1016/j.cell.2013.01.006 (2013)
Genetic variation associated with circulating monocyte count in the eMERGE Network DR Crosslin, A McDavid, N Weston et al Hum. Mol. Genetics, doi: 10.1093/hmg/ddt010 (2013)
PI(4,5)P2-Mediated Cell Signaling: Emerging Principles and PTEN as a Paradigm for Regulatory Mechanism Arne Gericke, Nicholas R. Leslie, Mathias Lösche, Alonzo H. Ross Adv Exp Med Biol, doi: 10.1007/978-94-007-6331-9_6 (2013)

2012 (144 papers)

Pair diffusion, hydrodynamic interactions, and available volume in dense fluids Mittal, J; Hummer, G; , J Chem Phys, DOI://10.1063/1.4732515 (2012)
An efficient algorithm for clustering of large-scale mass spectrometry data Saeed F, Pisitkun T, Knepper MA, Hoffert JD Proceedings (IEEE Int Conf Bioinformatics Biomed), doi://10.1109/BIBM.2012.6392738 (2012)
A Dual Polybasic Motif Determines Phosphoinositide Binding and Regulation in the P2X Channel Family Louis-Philippe Bernier, Dominique Blais, É ́ric Boué-Grabot, Philippe Séguéla PLoS One 7:1-9, doi: 10.1371/journal.pone.0040595 (2012)

Estimating Diagnostic Accuracy of Raters Without a Gold Standard by Exploiting a Group of Experts Zhang B, Chen Z, Albert PS. Biometrics, doi: 10.1111/j.1541-0420.2012.01789.x (2012)
Entropy of single-file water in (6,6) carbon nanotubes Aparna Waghe, Jayendran C. Rasaiah, and Gerhard Hummer J. Chem. Phys. , doi://10.1063/1.4737842 (2012)
Assessment of the Effect of 24-Hour Aldosterone Administration on Protein Abundance in Fluorescence-Sorted Mouse Distal Renal Tubules by Mass Spectrometry Jensen T.B., Pisitkun T., Hoffert J.D., Jensen U.B., Fenton R.A, Praetorius H.A, Knepper M.A, Praetorius J. Nephron Physiology, DOI:10.1159/000346832 (2012)
On the Origins of the Linear Free Energy Relationships: Exploring the Nature of the Off-Diagonal Coupling Elements in SN2 Reactions Edina Rosta and Arieh Warshal J Chem Theory Comput. , doi: 10.1021/ct2009329 (2012)
An efficient dynamic programming algorithm for phosphorylation site assignment of large-scale mass spectrometry data Fahad Saeed, Trairak Pisitkun, Jason D. Hoffert, Guanghui Wang, Marjan Gucek, and Mark A. Knepper Proceedings of IEEE Int Conf Bioinformatics Biomed, doi://10.1109/BIBMW.2012.6470210 (2012)
Cell population-specific expression analysis of human cerebellum A Kuhn, A Kumar, A Beilina, A Dillman, MR Cookson, AB Singleton BMC Genomics, doi:10.1186/1471-2164-13-610 (2012)

Both Genome Segments Contribute to the Pathogenicity of Very Virulent Infectious Bursal Disease Virus Olivier Escaffre, Cyril Le Nouën, Michel Amelot, Xavier Ambroggio, Kristen M. Ogden, Olivier Guionie, Didier Toquin, Hermann Müller, Mohammed R. Islam and Nicolas Eterradossi J. Virology, doi: 10.1128/JVI.02360-12 (2012)
Using dissociation energies to predict observability of b- and y-peaks in mass spectra of short peptides. II. Results for hexapeptides with non-polar side chains O. I. Obolensky, Wells W. Wu, Rong-Fong Shen, Yi-Kuo Yu Rapid Comm. in Mass. Spec., DOI: 10.1002/rcm.6451 (2012)
Melatonin inhibits matrix metalloproteinase-9 activity by binding to its active site Deep Sankar Rudra, Uttam Pal, Nakul Chandra Maiti, Russel J. Reiter, Snehasikta Swarnakar J. Pineal Research, DOI: 10.1111/jpi.12034 (2012)
RPA Accumulation during Class Switch Recombination Represents 5'-3' DNA-End Resection during the S-G2/M Phase of the Cell Cycle Arito Yamane, Davide F. Robbiani, Wolfgang Resch, Anne Bothmer, Hirotaka Nakahashi, Thiago Oliveira, Philipp C. Rommel, Eric J. Brown, Andre Nussenzweig, Michel C. Nussenzweig, Rafael Casellas Cell Reports, doi://10.1016/j.celrep.2012.12.006, (2012)
Molecular structures of trimeric HIV-1 Env in complex with small antibody derivatives Joel R. Meyerson, Erin E. H. Tran, Oleg Kuybeda, Weizao Chen, Dimiter S. Dimitrov, Andrea Gorlani, Theo Verrips, Jeffrey D. Lifson, and Sriram Subramaniam PNAS, doi:10.1073/pnas.1214810110 (2012)
Effect of compatible and noncompatible osmolytes on the enzymatic activity and thermal stability of bovine liver catalase H. Sepasi Tehrani, A.A. Moosavi-Movahedia, H. Ghourchian, F. Ahmad, A. Kiany, M.S. Atri, Sh Ariaeenejad, K. Kavousi & A.A. Sabourya J. Biomol. Struct. Dynamics, DOI:10.1080/07391102.2012.742460 (2012)
RNA Interference Mediated Inhibition of Dengue Virus Multiplication and Entry in HepG2 Cells MA Alhoot, SM Wang, SD Sekaran PLoS One, RNA Interference Mediated Inhibition of Dengue Virus Multiplication and Entry in HepG2 Cells (2012)
On the edge of web-based multiple sequence alignment services Nguyen, Ken D. Tsinghua Science and Technology 17(6):629-637 (2012)
Using dissociation energies to predict observability of b- and y-peaks in mass spectra of short peptides. O. I. Obolensky, Wells W. Wu, Rong-Fong Shen, Yi-Kuo Yu Rapid Comm. in Mass. Spec., DOI: 10.1002/rcm.6451 (2012)
Mechanisms for the Insertion of Toxic, Fibril-like β-Amyloid Oligomers into the Membrane Hyunbum Jang , Laura Connelly , Fernando Teran Arce , Srinivasan Ramachandran , Bruce L. Kagan , Ratnesh Lal , and Ruth Nussinov J. Chem. Theory Compt. , DOI: 10.1021/ct300916f (2012)
Structural Ensemble of an Intrinsically Disordered Polypeptide Jeetain Mittal , Tae Hyeon Yoo , George Georgiou , and Thomas Michael Truskett J. Phys. Chem. B, DOI: 10.1021/jp308984e (2012)
STATs Shape the Active Enhancer Landscape of T Cell Populations Golnaz Vahedi, Hayato Takahashi, Shingo Nakayamada, Hong-wei Sun, Vittorio Sartorelli, Yuka Kanno, John J. O'Shea Cell, doi://10.1016/j.cell.2012.09.044, (2012)
Screening system for orthogonal suppressor tRNAs based on the species-specific toxicity of suppressor tRNAs Hong Tian, Danni Deng, Jie Huang, Dongning Yao, Xiaowei Xu, Xiangdong Gao Biochimie, doi://10.1016/j.biochi.2012.12.010 (2012)
Structural and Mechanistic Investigations of Phosphothreonine Lyase Class of Enzymes Alok Gopalkrishna Shenoy Graduate Thesis, Utah State University (2012)
Evaluation of Gene Association Methods for Coexpression Network Construction and Biological Knowledge Discovery Sapna Kumari, Jeff Nie, Huann-Sheng Chen, Hao Ma, Ron Stewart, Xiang Li, Meng-Zhu Lu, William M. Taylor, Hairong Wei PLoS One, doi:10.1371/journal.pone.0050411 (2012)
Common genetic variation near the Connexin-43 gene is associated with resting heart rate in African Americans: A Genome-wide Association Study of 13,372 participants R Deo, MA Nalls, CL Avery, JG Smith et al. Heart Rhythm, doi://10.1016/j.hrthm.2012.11.014 (2012)
Protein Secondary Structure Determination by Constrained Single-Particle Cryo-Electron Tomography Alberto Bartesaghi, Federico Lecumberry, Guillermo Sapiro, Sriram Subramaniam Structure 20(12):2003-2013 (2012)
A Systematic Approach for Development of an OPLS-Like Force Field and Its Application to Hydrofluorocarbons Eugene Paulechka , Kenneth Kroenlein , Andrei Kazakov , and Michael Frenkel J. Phys. Chem. B, DOI: 10.1021/jp309119h (2012)

The Impact of Ancestry and Common Genetic Variants on QT Interval in African Americans JG Smith, CL Avery, DS Evans, MA Nalls et al. Circulation: Cardiovascular Genetics, doi: 10.1161/CIRCGENETICS.112.962787 (2012)
The effect of spatial smoothing on fMRI decoding of columnar-level organization with linear support vector machine Masaya Misaki, Wen-Ming Luh, Peter A. Bandettini J. Neuroscience Methods, doi://10.1016/j.jneumeth.2012.11.004 (2012)
Candidate Gene Association Study of BMI-Related Loci, Weight, and Adiposity in Old Age Rachel A. Murphy, Michael A. Nalls, Margaux Keller, Melissa Garcia, Stephen B. Kritchevsky, Frances A. Tylavsky, Anne B. Newman, Gregory J. Tranah, Gudny Eiriksdottir, Vilmundur Gudnason and Tamara B. Harris J. Gerontology A, doi: 10.1093/gerona/gls227 (2012)
Conformational Exploration of Two Peptides and Their Hybrid Polymer Conjugates: Potentialities as Self-Aggregating Materials Nurit Haspel, Adéle D. Laurent, David Zanuy , Ruth Nussinov, Carlos Aleman, Jordi Puiggali, and Guillermo Revilla-López J. Phys. Chem. B, DOI: 10.1021/jp3043363 (2012)
Watching a signaling protein function in real time via 100-ps time-resolved Laue crystallography F Schotte, HS Cho, VRI Kaila, H Kamikubo, N Dashdorj, ER Henry, TJ Graber, R Henning, M Wulff, G Hummer, M Kataoka, and PA Anfinrud PNAS, doi: 10.1073/pnas.1210938109 (2012)
Effects of the BDNF Val66Met Polymorphism on White Matter Microstructure in Healthy Adults H Tost, T Alam, M Geramita, C Rebsch, B Kolachana, D Dickinson, BA Verchinski, H Lemaitre, AS Barnett, JW Trampush, DR Weinberger and S Marenco Neuropsychopharmacology , doi: 10.1038/npp.2012.214 (2012)

Sodium and calcium mechanisms of rhythmic bursting in excitatory neural networks of the pre-Bötzinger complex: a computational modelling study Patrick E. Jasinski, Yaroslav I. Molkov, Natalia A. Shevtsova, Jeffrey C. Smith, Ilya A. Rybak Eur. J. Neuroscience, DOI: 10.1111/ejn.12042 (2012)
Effects of image contrast on functional MRI image registration Javier Gonzalez-Castillo, Kristen N. Duthie, Ziad S. Saad, Carlton Chu, Peter A. Bandettini, Wen-Ming Luh NeuroImage, doi://10.1016/j.neuroimage.2012.10.076 (2012)
Accurate decoding of sub-TR timing differences in stimulations of sub-voxel regions from multi-voxel response patterns Masaya Misaki, Wen-Ming Luh, Peter A. Bandettini NeuroImage, doi://10.1016/j.neuroimage.2012.10.069, (2012)
Novel Loci Associated with PR Interval in a Genome-Wide Association Study of Ten African American Cohorts AM Butler, X Yin, DS Evans, MA Nalls et al. Circulation: Cardiovascular Genetics, doi: 10.1161/CIRCGENETICS.112.963991 (2012)
Response of the Mitochondrial Proteome of Rat Renal Proximal Convoluted Tubules to Chronic Metabolic Acidosis D Freund, JE Prenni, NP Curthoys Renal Physiology, ,doi: 10.1152/ajprenal.00526.2012 (2012)
PTEN: An Intercellular Peacekeeper? Nick R. Leslie Science Signaling, DOI: 10.1126/scisignal.2003685 (2012)
Gene Silencing Mediated by siRNA-binding Fusion Proteins Is Attenuated by Double-stranded RNA-binding Domain Structure James C Geoghegan, Brian L Gilmore and Beverly L Davidson Molecular Therapy Nucleic Acids, doi:10.1038/mtna.2012.43 (2012)
A collaborative framework for 3D alignment and classification of heterogeneous subvolumes in cryo-electron tomography Oleg Kuybeda, Gabriel A. Frank, Alberto Bartesaghi, Mario Borgnia, Sriram Subramaniam , Guillermo Sapiro J. Struct. Biol. , doi://10.1016/j.jsb.2012.10.010 (2012)
Novel inhibitors of a Grb2 SH3C domain interaction identified by a virtual screen Philip C. Simister, James Luccarelli, Sam Thompson, Daniel H. Appella, Stephan M. Feller , Andrew D. Hamilton Bioorganic & Medicinal Chemistry, doi://10.1016/j.bmc.2012.10.023 (2012)
Statistical tests for detecting associations with groups of genetic variants: generalization, evaluation, and implementation John Ferguson, William Wheeler, YiPing Fu, Ludmila Prokunina-Olsson, Hongyu Zhao and Joshua Sampson Eur. J. Hum. Genetics, doi: 10.1038/ejhg.2012.220 (2012)
Imputation of Exome Sequence Variants into Population- Based Samples and Blood-Cell-Trait-Associated Loci in African Americans: NHLBI GO Exome Sequencing Project Paul L. Auer, Jill M. Johnsen, Andrew D. Johnson et al. Am. J. Hum. Genet., doi://10.1016/j.ajhg.2012.08.031 (2012)
SHAVE: shrinkage estimator measured for multiple visits increases power in GWAS of quantitative traits Osorio D Meirelles, Jun Ding, Toshiko Tanaka, Serena Sanna, Hsih-Te Yang, Dawood B Dudekula, Francesco Cucca, Luigi Ferrucci, Goncalo Abecasis and David Schlessinger European J. Hum. Genetics, doi: 10.1038/ejhg.2012.215 (2012)

Membrane Association of the PTEN Tumor Suppressor: Electrostatic Interaction with Phosphatidylserine-Containing Bilayers and Regulatory Role of the C-Terminal Tail Siddharth S. Shenoy, Hirsh Nanda, c, Mathias Lösche J. Struct. Biol. , doi://10.1016/j.jsb.2012.10.003, (2012)
Characterization of synonymous codon usage bias in the pseudorabies virus US1 gene Meili Li, Zhiyao Zhao, Jianhong Chen, Bingyun Wang, Zi Li, Jian Li and Mingsheng Cai Virologica Sinica, DOI: 10.1007/s12250-012-3270-9 (2012)
Overlapping ETS and CRE Motifs (G/CCGGAAGTGACGTCA) Preferentially Bound by GABPα and CREB Proteins Raghunath Chatterjee, Jianfei Zhao, Ximiao He, Andrey Shlyakhtenko, Ishminder Mann, Joshua J. Waterfall, Paul Meltzer, B. K. Sathyanarayana, Peter C. FitzGerald, Charles Vinson Genes | Genomes | Genetics, doi://10.1534/g3.112.004002 (2012)
Genetic risk factors for ischaemic stroke and its subtypes (the METASTROKE Collaboration): a meta-analysis of genome-wide association studies M Traylor, M Farrall, EG Holliday et al & International Stroke Genetics Consortium The Lancet Neurology, doi://10.1016/S1474-4422(12)70234-X, (2012)
Siblings with Ischemic Stroke Study (SWISS): Results of a Genome-wide Scan for Stroke Loci JF. Meschia, M Nalls, M Matarin, TG. Brott, RD. Brown, Jr., J Hardy, B Kissela, SS. Rich, A Singleton, D Hernandez, L Ferrucci, K Pearce, M Keller, BB. Worrall, for the Siblings with Ischemic Stroke Study (SWISS) Investigators Stroke, doi: 10.1161/STROKEAHA.111.620484 (2012)
Effect of Complement CR1 on Brain Amyloid Burden During Aging and Its Modification by APOE Genotype M Thambisetty, Y An, M Nalls et al for the Baltimore Longitudinal Study of Aging and the Alzheimer's Disease Neuroimaging Initiative Biological Psychiatry, doi://10.1016/j.biopsych.2012.08.015 (2012)

CPhos: a program to calculate and visualize evolutionarily conserved functional phosphorylation sites Boyang Zhao, Trairak Pisitkun, Jason D. Hoffert, Mark A. Knepper, Fahad Saeed Proteomics, DOI: 10.1002/pmic.201200189 (2012)
Quantitative Phosphoproteomics in Nuclei of Vasopressin-Sensitive Renal Collecting Duct Cells Steven J. Bolger, Patricia A. Gonzales Hurtado, Jason D. Hoffert, Fahad Saeed, Trairak Pisitkun, and Mark A. Knepper Am J Physiol Cell Physiol, doi:10.1152/ajpcell.00260.2012 (2012)
Are Myocardial Infarction-Associated Single-Nucleotide Polymorphisms Associated With Ischemic Stroke? Cheng YC, Anderson CD, Bione S et al Stroke, doi: 10.1161/STROKEAHA.111.632075 (2012)
Lin28b Reprograms Adult Bone Marrow Hematopoietic Progenitors to Mediate Fetal-Like Lymphopoiesis Joan Yuan, Cuong K. Nguyen, Xiuhuai Liu, Chrysi Kanellopoulou, Stefan A. Muljo Science 335 (6073):1195-1200 (2012)
Mouse model of endemic Burkitt translocations reveals the long-range boundaries of Ig-mediated oncogene deregulation AL Kovalchuk, C Ansarah-Sobrinho, O Hakim, W Resch, Helena Tolarová, W Dubois, A Yamane, M Takizawa, IKlein, GL Hager, HC Morse III, M Potter, MC Nussenzweig, and R Casellas PNAS, doi: 10.1073/pnas.1200106109 (2012)
Testing associations of copy number variations in genome-wide association studies Jianxin Shi and Peng Li Statistica Sinica, doi://10.5705/ss.2012.071s (2012)

Systems Biology in Physiology: The Vasopressin Signaling Network in Kidney Mark A. Knepper Am. J. Physiol. - Cell Physiol. , doi: 10.1152/ajpcell.00270.2012 (2012)
Comparing the Expected Misclassification Cost for Two Classifiers Based on Estimates From the Same Sample James F. Troendle, Kai F. Yu, Peter H. Westfall, Gene Pennello & Enrique F. Schisterman Statistics in Biopharmaceutical Research, DOI:10.1080/19466315.2012.695263 (2012)
Theory for cross effect dynamic nuclear polarization under magic-angle spinning in solid state nuclear magnetic resonance: The importance of level crossings Kent Thurber and Robert Tycko J. Chem. Phys. , doi://10.1063/1.4747449 (2012)
Prediction of variable translation rate effects on cotranslational protein folding Edward P. O'Brien, Michele Vendruscolo & Christopher M. Dobson Nature Communications, doi:10.1038/ncomms1850 (2012)
Directed evolution reveals requisite sequence elements in the functional expression of P450 2F1 in Escherichia coli JBYH Behrendorff, CD Moore, K-H Kim, D-H Kim, CA Smith, WA Johnston, C-H Yun, GS Yost, and EMJ Gillam Chemical Research in Toxicology, DOI: 10.1021/tx300281g (2012)
Using Genome-wide Complex Trait Analysis to quantify 'missing heritability' in Parkinson's disease MF Keller, M Saad, et al and International Parkinson's Disease Genomics Consortium and the Wellcome Trust Case Control Consortium 2 Human Molecular Genetics, doi: 10.1093/hmg/dds335 (2012)

Burkitt lymphoma pathogenesis and therapeutic targets from structural and functional genomics R Schmitz, RM Young et al Nature, doi:10.1038/nature11378 (2012)
Automated subcortical segmentation using FIRST: Test-retest reliability, interscanner reliability, and comparison to manual segmentation Allison C. Nugent, David A. Luckenbaugh, Suzanne E. Wood, Wendy Bogers, Carlos A. Zarate Jr., Wayne C Drevets Human Brain Mapping, DOI: 10.1002/hbm.22068 (2012)
Optimization of the Additive CHARMM All-Atom Protein Force Field Targeting Improved Sampling of the Backbone φ, ψ and Side-Chain χ1 and χ2 Dihedral Angles Robert B. Best, Xiao Zhu, Jihyun Shim, Pedro E. M. Lopes, Jeetain Mittal, Michael Feig, and Alexander D. MacKerell, Jr. J. Chem. Theory Comput., DOI: 10.1021/ct300400x (2012)
Profibrogenic chemokines and viral evolution predict rapid progression of hepatitis C to cirrhosis Patrizia Farci, Kurt Wollenberg, Giacomo Diaz, Ronald E. Engle, Maria Eliana Lai, Paul Klenerman, Robert H. Purcell, Oliver G. Pybus, and Harvey J. Alter PNAS, doi: 10.1073/pnas.1210592109 (2012)
Multiple Testing of Composite Null Hypotheses in Heteroscedastic Models Wenguang Sun & Alexander C. McLain Journal of the American Statistical Association 107(498):637-687 (2012)
Use of support vector machines for disease risk prediction in genome-wide association studies: Concerns and opportunities F Mittag, F Büchel, M Saad, A Jahn, C Schulte, Z Bochdanovits, J Simón-Sánchez, MA Nalls, M Keller, DG Hernandez, JR Gibbs, S Lesage, A Brice, P Heutink, M Martinez, NW Wood, J Hardy, AB Singleton, A Zell, T Gasser, M Sharma for the International Parkinson's Disease Genomics Consortium (IPDGC) Human Mutation, DOI: 10.1002/humu.22161 (2012)
Drying Transition in the Hydrophobic Gate of the GLIC Channel Blocks Ion Conduction Fangqiang Zhu and Gerhard Hummer Biophys. J. 103(2):219-227, doi://10.1016/j.bpj.2012.06.003 (2012)
Structural Mechanism of Trimeric HIV-1 Envelope Glycoprotein Activation Erin E. H. Tran, Mario J. Borgnia, Oleg Kuybeda, David M. Schauder, Alberto Bartesaghi, Gabriel A. Frank, Guillermo Sapiro, Jacqueline L. S. Milne, Sriram Subramaniam PLoS Pathogens, doi:10.1371/journal.ppat.1002797 (2012)
The impact of random-effect misspecification on percentile estimation for longitudinal growth data Kyeongmi Cheon, Paul S. Albert, Zhiwei Zhang Statistics in Medicine, DOI: 10.1002/sim.5437 (2012)
Mitochondrial DNA Sequence Variation Associated with Dementia and Cognitive Function in the Elderly Tranah GJ, Nalls MA, Katzman SM, Yokoyama JS, Lam ET, Zhao Y, Mooney S, Thomas F, Newman AB, Liu Y, Cummings SR, Harris TB, Yaffe K J. Alzheimer's Disease, doi://10.3233/JAD-2012-120466 (2012)
Weighted logrank tests for interval censored data when assessment times depend on treatment Michael P. Fay, Joanna H. Shih Statistics in Medicine, DOI: 10.1002/sim.5447 (2012)
Genetic Contributions to Individual Differences in Vulnerability to Addiction and Abilities to Quit George R. Uhl and Tomas Drgon in Drug Abuse and Addiction in Mental Illness, DOI: 10.1007/978-1-4614-3375-0-7 (2012)
Design and Assembly of Large Synthetic DNA Constructs Aleksandr E. Miklos, Randall A. Hughes, Andrew D. Ellington Current Protocols in Molecular Biology, DOI: 10.1002/0471142727.mb0323s99 (2012)
Leptin regulates dopamine responses to sustained stress in humans Paul R Burghardt, Tiffany M Love, Christian S. Stohler, Colin Hodgkinson, Pei-Hong Shen, Mary Ann Enoch, David Goldman, Jon-Kar Zubieta J. Neurosci. , doi: 10.1523/JNEUROSCI.2521-12.2012 (2012)
Estimating ancestral proportions in a multi-ethnic US sample: implications for studies of admixed populations Orna Levran, Olaoluwakitan Awolesi, Pei-Hong Shen, Miriam Adelson, and Mary Jeanne Kreek Human Genomics, doi: 10.1186/1479-7364-6-2 (2012)
The Peptide-Receptive Transition State of MHC Class I Molecules: Insight from Structure and Molecular Dynamics Michael G. Mage, Michael A. Dolan, Rui Wang, Lisa F. Boyd, Maria Jamela Revilleza, Howard Robinson, Kannan Natarajan, Nancy B. Myers, Ted H. Hansen and David H. Margulies J. Immunol. , doi: 10.4049/jimmunol.1200831 (2012)
The Folliculin-FNIP1 pathway deleted in human Birt-Hogg-Dubé syndrome is required for B cell development Baba M, Keller JR, Sun HW, Resch W, Kuchen S, Suh HC, Hasumi H, Hasumi Y, Kieffer-Kwon KR, Gonzalez CG, Hughes RM, Klein ME, Oh HF, Bible P, Southon E, Tessarollo L, Schmidt LS, Linehan WM, Casellas R. Blood, DOI 10.1182/blood-2012-02-410407 (2012)
Identifying Protein Kinase Target Preferences Using Mass Spectrometry Jacqueline Douglass, Ruwan Gunaratne, Davis Bradford, Fahad Saeed, Jason D. Hoffert, Peter J. Steinbach, Mark A. Knepper, and Trairak Pisitkun Cell Physiol., doi: 10.1152/ajpcell.00166.2012 (2012)

Improving the CHARMM Force Field for Polyunsaturated Fatty Acid Chains Jeffery B. Klauda, Viviana Monje, Taehoon Kim, and Wonpil Im J. Phys. Chem. B, DOI: 10.1021/jp304056p (2012)
Crystal structure of a plectonemic RNA supercoil Jason R. Stagno, Buyong Ma, Jess Li, Amanda S. Altieri, R. Andrew Byrd & Xinhua Ji Nature Communications, doi:10.1038/ncomms1903 (2012)
Codon optimization for high level expression of human bone morphogenetic protein-2 in Escherichia coli Debbie S. Retnoningruma, H.T. Pramestia, P.Y. Santikaa, O. Valeriusb, S. Asjariea, T. Suciatia Prot. Expr. and Pur., doi://10.1016/j.pep.2012.05.010 (2012)
Engineering domain fusion chimeras from I-OnuI family LAGLIDADG homing endonucleases Sarah Baxter, Abigail R. Lambert, Ryan Kuhar, Jordan Jarjour, Nadia Kulshina, Fabio Parmeggiani, Patrick Danaher, Jacob Gano, David Baker, Barry L. Stoddard and Andrew M. Scharenberg Nucleic Acids Research, doi: 10.1093/nar/gks502 (2012)
Trigger factor slows co-translational folding through kinetic trapping while sterically protecting the nascent chain from aberrant cytosolic interactions Edward P O'Brien, John Christodoulou, Michele Vendruscolo, and Christopher M. Dobson J. Am. Chem. Soc. , DOI: 10.1021/ja302305u (2012)
Genomic Analysis of Immune Response against Vibrio cholerae Hemolysin in Caenorhabditis elegans Surasri N. Sahu, Jada Lewis, Isha Patel, Serdar Bozdag, Jeong H. Lee, Joseph E. LeClerc, and Hediye Nese Cinar PLoS One, doi: 10.1371/journal.pone.0038200 (2012)

Spontaneous High-Gamma Band Activity Reflects Functional Organization of Auditory Cortex in the Awake Macaque Makoto Fukushima, Richard C. Saunders, David A. Leopold, Mortimer Mishkin, and Bruno B. Averbeck Neuron, DOI 10.1016/j.neuron.2012.04.014 (2012)
Mitochondrial DNA sequence variation is associated with free-living activity energy expenditure in the elderly Gregory J. Tranah, Ernest T. Lam, Shana M. Katzman, Michael A. Nalls, Yiqiang Zhao, Daniel S. Evans, Jennifer S. Yokoyama, Ludmila Pawlikowska, Pui-Yan Kwok, Sean Mooney, Stephen Kritchevsky, Bret H. Goodpaster, Anne B. Newman, Tamara B. Harris, Todd M. Manini, Steven R. Cummings, For the Health, Aging and Body Composition Study Biochim. et Biophys. Acta - Bioenergetics, doi://10.1016/j.bbabio.2012.05.012 (2012)
An online tool for calculation of free-energy balance for the renal inner medulla Ryan L. Vilbig, Abhijit Sarkar, Joseph Zischkau, Mark A. Knepper, and Trairak Pisitkun Am. J. Physiol. , doi: 10.1152/ajprenal.00147.2012 (2012)
Application of systems biology principles to protein biomarker discovery: Urinary exosomal proteome in renal transplantation Trairak Pisitkun, Maria T. Gandolfo, Samarjit Das, Mark A. Knepper, Serena M. Bagnasco Proteomics -- Clinical Applications, doi://10.1002/prca.201100108 (2012)
Methods of adjusted comparison of medians James F. Troendle, Zhiwei Zhang, Megan E. Mathews, Junchi Guo Biometrical Journal, DOI: 10.1002/bimj.201100220 (2012)
Characterization of a Dynamic String Method for the Construction of Transition Pathways in Molecular Reactions Margaret E. Johnson and Gerhard Hummer J. Phys. Chem. B, DOI: 10.1021/jp212611k (2012)

Tissue-Specific Regulation of Chromatin Insulator Function Leah H. Matzat, Ryan K. Dale, Nellie Moshkovich, and Elissa P. Lei PLoS Genetics, doi: 10.1371/journal.pgen.1003069 (2012)
A Subset-Based Approach Improves Power and Interpretation for the Combined Analysis of Genetic Association Studies of Heterogeneous Traits Samsiddhi Bhattacharjee, Preetha Rajaraman, Kevin B. Jacobs, William A. Wheeler, Beatrice S. Melin, Patricia Hartge, GliomaScan Consortium, Meredith Yeager, Charles C. Chung, Stephen J. Chanock, Nilanjan Chatterjee Am. J. Hum. Genet., doi:/10.1016/j.ajhg.2012.03.015 (2012)
Seeing is believing: video classification for computed tomographic colonography using multiple-instance learning. Shijun Wang, Matthew T McKenna, Tan B Nguyen, Joseph E Burns, Nicholas Petrick, Berkman Sahiner, Ronald M Summers IEEE Transactions on Medical Imaging 31 (5):1141 (2012)
Cross-seeding and Conformational Selection between Three- and Four-repeat Human Tau Proteins Xiang Yu, Yin Luo, Paul Dinkel, Jie Zheng, Guanghong Wei, Martin Margittai, Ruth Nussinov, Buyong Ma J. Biol. Chem., doi: 10.1074/jbc.M112.340794 (2012)
An Integrative Segmentation Method for Detecting Germline Copy Number Variations in SNP Arrays Jianxin Shi, Peng Li Genetic Epidemiology 36(4):373-383, DOI: 10.1002/gepi.21631 (2012)
Structural and Functional Consequences of Phosphate-Arsenate Substitutions in Selected Nucleotides: DNA, RNA, and ATP Yu Xu, Buyong Ma, and Ruth Nussinov J. Phys. Chem. B, doi: 10.1021/jp300307u (2012)

Imino Hydrogen Positions in Nucleic Acids from Density Functional Theory Validated by NMR Residual Dipolar Couplings Alexander Grishaev, Jinfa Ying, Ad Bax J. Am. Chem. Soc., doi: 10.1021/ja301775j (2012)
The transcriptome of Spodoptera exigua larvae exposed to different types of microbes Laura Pascual, Agata K. Jakubowska, Jose M. Blanca, Joaquin Cañizares, Juan Ferré, Gernot Gloeckner, Heiko Vogel, Salvador Herrero Insect Biochem. Mol. Bio. , doi://10.1016/j.ibmb.2012.04.003 (2012)
A Two-Platform Design for Next Generation Genome-Wide Association Studies Joshua N. Sampson, Kevin Jacobs, Zhaoming Wang, Meredith Yeager, Stephen Chanock, Nilanjan Chatterjee Genetic Epidemiology, doi: 10.1002/gepi.21634 (2012)
Postnatal development-and age-related changes in DNA-methylation patterns in the human genome Paraskevi Salpea, Valya R. Russanova, Tazuko H. Hirai, Thomae G. Sourlingas, Kalliope E. Sekeri-Pataryas, Roberto Romero, Jonathan Epstein and Bruce H. Howard Nucleic Acids Research, doi: 10.1093/nar/gks312 (2012)
Restraints on backbone conformations in solid state NMR studies of uniformly labeled proteins from quantitative amide¹⁵N-¹⁵N and carbonyl ¹³C-¹³C dipolar recoupling data Kan-Nian Hua, Wei Qiang, Guillermo A. Bermejo, Charles D. Schwieters, Robert Tycko J. Magnetic Resonance, doi:10.1016/j.jmr.2012.03.001 (2012)
The interleukin-6 receptor as a target for prevention of coronary heart disease: a mendelian randomisation analysis The Interleukin-6 Receptor Mendelian Randomisation Analysis (IL6R MR) Consortium Lancet, doi: 10.1016/S0140-6736(12)60110-X (2012)

Distinct contributions of human hippocampal theta to spatial cognition and anxiety Brian R. Cornwell, Nicole Arkin, Cassie Overstreet, Frederick W. Carver, Christian Grillon Hippocampus, doi: 10.1002/hipo.22019 (2012)
Simple models of human brain functional networks Petra E. Vértes, Aaron F. Alexander-Bloch, Nitin Gogtay, Jay N. Giedd, Judith L. Rapoport, and Edward T. Bullmore PNAS, doi: 10.1073/pnas.1111738109 (2012)
Computational tools for metabolic engineering Wilbert B. Copeland, Bryan A. Bartley, Deepak Chandran, Michal Galdzicki, Kyung H. Kim, Sean C. Sleight, Costas D. Maranas, Herbert M. Sauro Metabolic Engineering, doi:10.1016/j.ymben.2012.03.001 (2012)
Nickel (II)-Schiff base complex recognizing domain II of bovine and human serum albumin: Spectroscopic and docking studies Aurkie Ray, Banabithi Koley Seth, Uttam Pal, Samita Basu Spectrochimica Acta Part A: Molecular and Biomolecular Spect, doi:10.1016/j.saa.2012.02.060 (2012)
Modular engineering of a microbially-produced viral capsomere vaccine for influenza Nani Wibowo, Yap P. Chuan, Linda H.L. Lua, Anton P.J. Middelberg Chemical Engineering Science, doi:10.1016/j.ces.2012.04.001 (2012)
Predicting kinase-substrate interactions in the era of proteomics. Focus on “Identifying protein kinase target preferences using mass spectrometry” Ewout J. Hoorn and Marcel E. Meima Am J. Phyiol. Cell Physiol., 10.1152/ajpcell.00232.2012 (2012)
Search and Analysis of Identical Reverse Octapeptides in Unrelated Proteins Konda Mani Saravanan, Samuel Selvaraj Genomics, Proteomics & Bioinformatics, doi://10.1016/j.gpb.2012.11.005 (2012)
Self-consistent treatment of the local dielectric permittivity and electrostatic potential in solution for polarizable macromolecular force fields Sergio A Hassan J. Chem. Phys. , doi://10.1063/1.4742910 (2012)
Effects of Point Substitutions on the Structure of Toxic Alzheimer's β-Amyloid Channels: Atomic Force Microscopy and Molecular Dynamics Simulations Connelly L, Jang H, Arce FT, Ramachandran S, Kagan BL, Nussinov R, Lal R. Biochemistry, doi: 10.1021/bi300257e (2012)
Quantitative Proteomics Identifies Vasopressin-Responsive Nuclear Proteins in Collecting Duct Cells. Laura K. Schenk, Steven J. Bolger, Kelli Luginbuhl, Patricia A. Gonzales, Markus M. Rinschen, Ming-Jiun Yu, Jason D. Hoffert, Trairak Pisitkun and Mark A. Knepper J. Am. Soc. Nephrology, doi: 10.1681/ASN.2011070738 (2012)
Whole-brain, time-locked activation with simple tasks revealed using massive averaging and model-free analysis Javier Gonzalez-Castillo, Ziad S. Saad, Daniel A. Handwerker, Souheil J. Inati, Noah Brenowitz, and Peter A. Bandettini PNAS, doi: 10.1073/pnas.1121049109 (2012)
Comprehensive Research Synopsis and Systematic Meta-Analyses in Parkinson's Disease Genetics: The PDGene Database Lill CM , Roehr JT , McQueen MB , Kavvoura FK , Bagade S , et al. PLoS Genetics, doi:10.1371/journal.pgen.1002548 (2012)
Unraveling the ORE1 Regulon in Arabidopsis thaliana: Molecular and Functional Characterization of Up- and Down-stream Components von Lilian Paola Matallana-Ramírez PhD Thesis, University of Potsdam (2012)
SRC Homology 2 Domain Binding Sites in Insulin, IGF-1 and FGF receptor mediated signaling networks reveal an extensive potential interactome BA Liu, BW Engelmann, K Jablonowski, K Higginbotham, AB Stergachis and PD Nash Cell Communication and Signaling 10:27 (2012)
Optimization and Modeling of Protein Refolding Conditions Bernd Rainer Kurt Anselment PhD Thesis, Institute of Biochemical Engineering of the Technische Universit�t M�nchen (2012)
Cooperative Genome-Wide Analysis Shows Increased Homozygosity in Early Onset Parkinson's Disease Simón-Sánchez J , Kilarski LL , Nalls MA , Martinez M , Schulte C , et al. PLoS One, doi:10.1371/journal.pone.0028787 (2012)
Stochastic Modeling for the Expression of a Gene Regulated by Competing Transcription Factors Hsih-Te Yang, Minoru S. H. Ko PLoS One, doi:10.1371/journal.pone.0032376 (2012)
Marginal analysis of longitudinal count data in long sequences: Methods and applications to a driving study Zhiwei Zhang, Paul S. Albert, and Bruce Simons-Morton Ann.Appl.Stat. 6(1):27-54 (2012)

Theory and simulation of ion conduction in the pentameric GLIC channel Fangqiang Zhu and Gerhard Hummer J. Chem. Theory and Computation, doi: 10.1021/ct2009279 (2012)
A Meta-Analysis and Genome-Wide Association Study of Platelet Count and Mean Platelet Volume in African Americans Qayyum R , Snively BM , Ziv E , Nalls MA , Liu Y , et al. PLoS Genetics, doi:10.1371/journal.pgen.1002491 (2012)
Distinct Regulatory Mechanisms and Functions for p53-Activated and p53-Repressed DNA Damage Response Genes in Embryonic Stem Cells Mangmang Li, Yunlong He, Wendy Dubois, Xiaolin Wu, Jianxin Shi, Jing Huang Molecular Cell, doi:10.1016/j.molcel.2012.01.020 (2012)
Modeling fecundity in the presence of a sterile fraction using a semi-parametric transformation model for grouped survival data Alexander McLain, Rajeshwari Sundaram, Germaine Buck Louis Stat. Meth. in Med. Res. , doi: 10.1177/0962280212438646 (2012)
Sensitive mapping of recombination hotspots using sequencing-based detection of ssDNA Pavel P Khil, Fatima Smagulova, Kevin M Brick, R. Daniel Camerini-Otero and Galina V Petukhova Genome Res., doi:10.1101/gr.130583.111 (2012)
A Bayesian approach to mixture cure models with spatial frailties for population-based cancer relative survival data Binbing Yu, Ram C. Tiwari Canadian Journal of Statistics, doi: 10.1002/cjs.10135 (2012)

Using DNAWorks in Designing Oligonucleotides for PCR-Based Gene Synthesis. David Hoover Methods in Molecular Biology 852(3):215-223 (2012)
Comparison of Common Homology Modeling Algorithms: Application of User-Defined Alignments. Michael A. Dolan, James W. Noah and Darrell Hurt Methods in Molecular Biology 857:399-414 (2012)
The elusive phosphotyrosine: pinning down a rare species. Focus on “Large-scale phosphotyrosine proteomic profiling of rat renal collecting duct epithelium reveals predominance of proteins involved in cell polarity determination Carolyn M. Ecelbarger Am J Physiol Cell Physiol January 302:C16-C17 (2012)
Computational separation of conformational heterogeneity using cryo-electron tomography and 3D sub-volume averaging Gabriel A. Frank, Alberto Bartesaghi, Oleg Kuybeda, Mario J. Borgnia, Tommi A. White, Guillermo Sapiro, Sriram Subramaniam J. Struct. Biol. , doi:/10.1016/j.jsb.2012.01.004 (2012)
A Joint Mixed Effects Dispersion Model for Menstrual Cycle Length and Time-to-Pregnancy Alexander C. McLain, Kirsten J. Lum, Rajeshwari Sundaram Biometrics, doi: 10.1111/j.1541-0420.2011.01711.x (2012)
PDB Ligand Conformational Energies Calculated Quantum-Mechanically Markus Sitzmann, Iwona Wedlich, Igor V Filippov, Chenzhong Liao, Megan L. Peach, Wolf-Dietrich Ihlenfeldt, Rajeshri G Karki, Yulia V Borodina, Raul E Cachau, and Marc C Nicklaus J. Chem. Inf. Model. , doi: 10.1021/ci200595n (2012)

Genome-wide association study identifies a variant in HDAC9 associated with large vessel ischemic stroke The International Stroke Genetics Consortium (ISGC), the Wellcome Trust Case Control Consortium et al. Nature Genetics, doi:10.1038/ng.1081 (2012)
A simple recipe for the non-expert bioinformaticist for building experimentally-testable hypotheses for proteins with no known homologs Alexander Zawaira and Youtaro Shibayama J. Struct. Funct. Genomics, doi://10.1007/s10969-012-9141-7 (2012)
DNA damage defines sites of recurrent chromosomal translocations in B lymphocytes Ofir Hakim, Wolfgang Resch, Arito Yamane, Isaac Klein, Kyong-Rim Kieffer-Kwon, Mila Jankovic, Thiago Oliveira, Anne Bothmer, Ty C. Voss, Camilo Ansarah-Sobrinho, Ewy Mathe, Genqing Liang, Jesse Cobell, Hirotaka Nakahashi, Davide F. Robbiani, Andre Nussenzweig, Gordon L. Hager, Michel C. Nussenzweig & Rafael Casellas Nature, doi:10.1038/nature10909 (2012)
Bubblegrams Reveal the Inner Body of Bacteriophage φKZ Weimin Wu, Julie A. Thomas, Naiqian Cheng, Lindsay W. Black, Alasdair C. Steven Science 335 (6065):182 (2012)
Integrated cross-species transcriptional network analysis of metastatic susceptibility Ying Hu, Gang Wu, Michael Rusch, Luanne Lukes, Kenneth H. Buetow, Jinghui Zhang, and Kent W. Hunter PNAS, doi: 10.1073/pnas.1117872109 (2012)
All-D-Enantiomer of β-Amyloid Peptide Forms Ion Channels in Lipid Bilayers Ricardo Capone, Hyunbum Jang, Samuel A Kotler, Laura S Connelly, Fernando Teran Arce, Srinivasan Ramachandran, Bruce L. Kagan, Ruth Nussinov, and Ratnesh Lal J. Chem. Theory and Computation, doi: 10.1021/ct200885r (2012)
Inositol phosphate-induced stabilization of inositol 1, 3, 4, 5, 6-pentakisphosphate 2-kinase and its role in substrate specificity Varin Gosein, Ting-Fung Leung, Oren Krajden, Gregory J. Miller Protein Science, doi: 10.1002/pro.2049 (2012)
Probing Structural Features of Alzheimer's β-Amyloid Pores in Bilayers Using Site-Specific Amino Acid Substitutions Ricardo Capone, Hyunbum Jang, Samuel A Kotler, Bruce L. Kagan, Ruth Nussinov, and Ratnesh Lal J. Phys. Chem. B, doi: 10.1021/bi2017427 (2012)
Atomic Force Microscopy and MD Simulations Reveal Pore-Like Structures of All-D-Enantiomer of Alzheimer's β-Amyloid Peptide: Relevance to the Ion Channel Laura S Connelly, Fernando Teran Arce, Hyunbum Jang, Ricardo Capone, Samuel A Kotler, Srinivasan Ramachandran, Bruce L. Kagan, Ruth Nussinov, and Ratnesh Lal J. Phys. Chem. B, doi: 10.1021/jp2108126 (2012)

2011 (131 papers)

Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies International Parkinson Disease Genomics Consortium Lancet, doi: 10.1016/S0140-6736(10)62345-8 (2011)
Comparing statistical methods for removing seasonal variation from vitamin D measurements in case-control studies Hong Zhang, Jiyoung Ahn, and Kai Yu Statistics and its Interface 3:85-93 (2011)
Antimicrobial Protegrin-1 Forms Amyloid-Like Fibrils with Rapid Kinetics Suggesting a Functional Link Hyunbum Jang, Fernando Teran Arce, Mirela Mustata, Srinivasan Ramachandran, Ricardo Capone, Ruth Nussinov, Ratnesh Lal Biophys. J., doi: 10.1016/j.bpj.2011.01.072 (2011)
Quantifying Protein-Protein Interactions Within Noncovalent Complexes Using Electrospray Ionization Mass Spectrometry Elisabetta Boeri Erba, Konstantin Barylyuk, Yang Yang, and Renato Zenobi Anal. Chem. 83(24):9251-9259 (2011)
Translocation-capture sequencing reveals the extent and nature of chromosomal rearrangements in B lymphocytes Klein IA, Resch W, Jankovic M, Oliveira T, Yamane A, Nakahashi H, Di Virgilio M, Bothmer A, Nussenzweig A, Robbiani DF, Casellas R, Nussenzweig MC. Cell 147(1):95-106 (2011)
Recombination mapping using Boolean logic and high-density SNP genotyping for exome sequence filtering Thomas C. Markello, Ted Han, Hannah Carlson-Donohoe, Chidi Ahaghotu, Ursula Harper, MaryPat Jones, Settara Chandrasekharappa, Yair Anikster, David R. Adams, NISC Comparative Sequencing Program, William A. Gahl, Cornelius F. Boerkoel Mol. Genetics & Metabolism, doi:10.1016/j.ymgme.2011.12.014 (2011)
Independent component analysis of resting brain activity reveals transient modulation of local cortical processing by transcranial direct current stimulation. Venkatakrishnan A, Contreras-Vidal JL, Sandrini M, Cohen LG. Conf Proc IEEE Eng Med Biol Soc. Aug:8102-5 (2011)
The Anatomical Distance of Functional Connections Predicts Brain Network Topology in Health and Schizophrenia Aaron F. Alexander-Bloch, Petra E. Vértes, Reva Stidd, François Lalonde, Liv Clasen, Judith Rapoport, Jay Giedd, Edward T. Bullmore and Nitin Gogtay Cerebral Cortex, doi:10.1093/cercor/bhr388 (2011)
Parietofrontal integrity determines neural modulation associated with grasping imagery after stroke Ethan R. Buch, Amirali Modir Shanechi, Alissa D. Fourkas, Cornelia Weber, Niels Birbaumer and Leonardo G. Cohen Brain, doi:10.1093/brain/awr331 (2011)

Analysis of Biological Features Associated with Meiotic Recombination Hot and Cold Spots in Saccharomyces cerevisiae Loren Hansen, Nak-Kyeong Kim, Leonardo Mariño-Ramírez, David Landsman PLoS One, doi:10.1371/journal.pone.0029711 (2011)
Tryptic y++ Fragment Ion Distributions Are Guided by Coulombic Repulsion Karl K. Irikura, John K. Merle and Yamil Sim´n-Manso J. Am. Soc. Mass Spec., doi:10.1007/s13361-011-0293-7 (2011)
Structural models of TREK channels and their gating mechanism Adina L Milac, Andriy Anishkin, Sarosh N Fatakia, Carson C Chow, Sergei Sukharev, and H Robert Guy Channels, doi: 10.4161/chan.5.1.13905 (2011)
Overproduction of recombinant proteins in plants Erin Egelkrout, Vidya Rajan, John A. Howard Plant Science, doi:10.1016/j.plantsci.2011.12.005 (2011)
Expression, purification and characterization of recombinant human serine proteinase inhibitor Kazal-type 6 (SPINK6) in Pichia pastoris Hairong Lu, Jinjiang Huang, Guodong Li, Kuikui Ge, Hongyu Wu, Qingshan Huang Protein Expression and Purification, doi:10.1016/j.pep.2011.12.004 (2011)
Condensin dysfunction in human cells induces nonrandom chromosomal breaks in anaphase, with distinct patterns for both unique and repeated genomic regions Alexander Samoshkin, Stanimir Dulev, Dmitry Loukinov, Jeffrey A. Rosenfeld and Alexander V. Strunnikov Chromosoma Biology of the Nucleus, doi: 10.1007/s00412-011-0353-6 (2011)

Effects of pH on proteins: Predictions for ensemble and single molecule pulling experiments Edward P O'Brien , Bernard R. Brooks , and Devarajan Thirumalai JACS, doi: 10.1021/ja206557y (2011)
Inherited Variation at Chromosome 12p13. 33, Including RAD52, Influences the Risk of Squamous Cell Lung Carcinoma Jianxin Shi, Nilanjan Chatterjee, Melissa Rotunno, Yufei Wang, Angela C. Pesatori, Dario Consonni, Peng Li, William Wheeler, Peter Broderick, Marc Henrion, Timothy Eisen, Zhaoming Wang, Wei Chen, Qiong Dong, Demetrius Albanes, Michael Thun, Margaret R. Spitz, Pier Alberto Bertazzi, Neil E. Caporaso, Stephen J. Chanock, Christopher I. Amos, Richard S. Houlston and Maria Teresa Landi Cancer Discovery, doi: 10.1158/2159-8290.CD-11-024 (2011)
Causal Inference on Quantiles with an Obstetric Application Zhiwei Zhang, Zhen Chen, James F. Troendle, and Jun Zhang Biometrics, doi: 10.1111/j.1541-0420.2011.01712.x (2011)
Does feature selection improve classification accuracy? Impact of sample size and feature selection on classification using anatomical magnetic resonance images Carlton Chu, Ai-Ling Hsu, Kun-Hsien Chou, Peter Bandettini, Ching-Po Lin, , and the Alzheimer's Disease Neuroimaging Initiative NeuroImage, doi:10.1016/j.neuroimage.2011.11.066 (2011)
Structural basis of anthrax edema factor neutralization by a neutralizing antibody Michelle Makiya, Michael Dolan, Liane Agulto, Robert Purcell, Zhaochun Chen Biochem. Biophys. Res. Comm., doi:10.1016/j.bbrc.2011.11.108 (2011)
High-level expression and characterization of a highly thermostable chitosanase from Aspergillus fumigatus in Pichia pastoris Xiaomei Chen, Chao Zhai, Lixin Kang, Chunhua Li, Hong Yan, Yuling Zhou, Xiaolan Yu and Lixin Ma Biotech. Letters, doi: 10.1007/s10529-011-0816-0 (2011)

Determination of Molecular Structures of HIV Envelope Glycoproteins using Cryo-Electron Tomography and Automated Sub-tomogram Averaging. Joel R. Meyerson, Tommi A. White et al J. Visualized Experiments, doi: 10.3791/2770 (2011)
Interaction of Merocyanine 540 with Serum Albumins: Photophysical and Binding Studies Mousumi Banerjee, Uttam Pal, Arijita Subudhhi, Abhijit Chakrabarti, Samita Basu J. Photochemistry and Photobiology B, doi:10.1016/j.jphotobiol.2011.12.005 (2011)
Gene Expression Databases for Kidney Epithelial Cells Jennifer C. Huling, Trairak Pisitkun, Jae H. Song, Ming-Jiun Yu, Jason D. Hoffert, and Mark A. Knepper Am. J. Physiol. - Renal Physiol., doi: 10.?1152/?ajprenal.?00457.?2011 doi: 10.?1152/?ajprenal.?00457.?2011 (2011)
Dynamics of the G protein-coupled vasopressin V2 receptor signaling network revealed by quantitative phosphoproteomics Jason D. Hoffert, Trairak Pisitkun, Fahad Saeed, Jae V. Song, Chung-Lin Chou and Mark A. Knepper Mol. Cell Proteomics, doi: 10.1074/mcp.M111.014613 (2011)
Standard reactions for comparative rate studies: Experiments on the dehydrochlorination reactions of 2-chloropropane, chlorocyclopentane, and chlorocyclohexane Iftikhar A. Awan, Donald R. Burgess Jr., Wing Tsang, Jeffrey A. Manion Int. J. Chem. Kinetics, doi: 10.1002/kin.20566 (2011)
Convergence and error estimation in free energy calculations using the weighted histogram analysis method Fangqiang Zhu, Gerhard Hummer J. Comp. Chem. , doi: 10.1002/jcc.21989 (2011)

The discovery of population differences in network community structure: New methods and applications to brain functional networks in schizophrenia Aaron Alexander-Bloch, Renaud Lambiotte, Ben Roberts, Jay Giedd, Nitin Gogtay, Ed Bullmore NeuroImage, doi:10.1016/j.neuroimage.2011.11.035 (2011)
A linear mixed model for predicting a binary event from longitudinal data under random effects misspecification Paul S. Albert Stat. Med., doi: 10.1002/sim.4405 (2011)
Antimicrobial Properties of Amyloid Peptides Bruce Kagan , Hyunbum Jang , Ricardo Capone , Fernando Teran Arce , Srinivasan Ramachandran , Ratnesh Lal , and Ruth Nussinov Molecular Pharmaceutics, doi: 10.1021/mp200419b (2011)
Extensive chromatin remodelling and establishment of transcription factor 'hotspots' during early adipogenesis Rasmus Siersbæk, Ronni Nielsen, Sam John, Myong-Hee Sung, Songjoon Baek, Anne Loft, Gordon L Hager and Susanne Mandrup Embo J. , doi:10.1038/emboj.2011.65 (2011)
Material properties of matrix lipids determine the conformation and intermolecular reactivity of diacetylenic phosphatidylcholine in the lipid bilayer Anu Puri , Hyunbum Jang , Amichai Yavlovich , Athar M Masood , Timothy D. Veenstra , Carlos Luna , Helim Aranda-Espinoza , Ruth Nussinov , and Robert Blumenthal Langmuir, doi: 10.1021/la203453x (2011)
Expressão e caracterização de fragmentos de anticorpos recominanes Anti-CD3 humano em Pichia pastoris Sousa, Victor Edgard Tavares Master's thesis, University of Brasilia (2011)

Genome-Wide Association Analysis of Ischemic Stroke in Young Adults Yu-Ching Cheng, Jeffrey R. O'Connel et al Genes | Genomes | Genetics, doi: 10.1534/g3.111.001164 (2011)
Three-Dimensional Structures of Soluble CD4-Bound States of Trimeric Simian Immunodeficiency Virus Envelope Glycoproteins Determined by Using Cryo-Electron Tomography Tommi A. White, Alberto Bartesaghi, Mario J. Borgnia, M. Jason V. de la Cruz, Rachna Nandwani, James A. Hoxie, Julian W. Bess, Jeffrey D. Lifson, Jacqueline L. S. Milne and Sriram Subramaniam J. Virol., doi: 10.1128/?JVI.05297-11 (2011)
Dehydratase Mediated 1-Propanol Production in Metabolically Engineered Escherichia coli. Rachit Jain, Yajun Yan Microbial Cell Factories, doi:10.1186/1475-2859-10-97 (2011)
The Histone Database: an integrated resource for histones and histone fold-containing proteins Leonardo Mariño-Ramírez, Kevin M. Levine, Mario Morales, Suiyuan Zhang, R. Travis Moreland, Andreas D. Baxevanis and David Landsman J. Biol. Databases and Curation, doi: 10.1093/database/bar048 (2011)
Water-Exclusion Effects and Liquid-Structure Forces in Implicit Solvation Sergio A Hassan and Peter J Steinbach J. Phys. Chem. B, doi: 10.1021/jp208184e (2011)
Impact of surface roughness on diffusion of confined fluids William P. Krekelberg, Vincent K. Shen, Jeffrey R. Errington, and Thomas M. Truskett J. Chem. Phys. , doi:10.1063/1.3651478 (2011)
An electrostatic switch controls palmitoylation of the large conductance voltage-and calcium-activated potassium (BK) channel Owen Jeffries, Lijun Tian, Heather McClafferty & Michael J. Shipston. J. Biol. Chem. , doi: 10.1074/jbc.M111.224840 (2011)
Energetics of direct and water-mediated proton-coupled electron transfer. Ville R. I. Kaila and Gerhard Hummer JACS, doi: 10.1021/ja2082262 (2011)
Resting and Active States of the ERK2: HePTP Complex Dana M. Francis, Bartosz Rózycki, Antoni Tortajada, Gerhard Hummer, Wolfgang Peti, and Rebecca Page JACS, doi: 10.1021/ja2075136 (2011)
Dynamic water networks in cytochrome cbb3 oxidase Vivek Sharma, Mårten Wikströma, Ville R.I. Kaila Biochim. et Biophys. Acta, doi:10.1016/j.bbabio.2011.09.010 (2011)
Identification, Replication, and Fine-Mapping of Loci Associated with Adult Height in Individuals of African Ancestry N'Diaye A, Chen GK et al. PLoS Genetics, doi:10.1371/journal.pgen.1002298 (2011)
Synthesis and bio-evaluation of human macrophage migration inhibitory factor inhibitor to develop anti-inflammatory agent Athar Alama, Chinmay Pala, Manish Goyala, Milan Kumar Kundub, Rahul Kumara, Mohd Shameel Iqbala, Sumanta Deya, Samik Bindua, Souvik Sarkara, Uttam Palc, Nakul C. Maitic, Susanta Adhikarid, Uday Bandyopadhyay Bioorganic and Medicinal Chemistry, doi:10.1016/j.bmc.2011.10.056 (2011)

Investigation of Anatomical Thalamo-Cortical Connectivity and fMRI Activation in Schizophrenia Stefano Marenco, Jason L Stein, Antonina A Savostyanova, Fabio Sambataro, Hao-Yang Tan, Aaron L Goldman, Beth A Verchinski, Alan S Barnett, Dwight Dickinson, José A Apud, Joseph H Callicott, Andreas Meyer-Lindenberg and Daniel R Weinberger Neuropsychopharmacology, doi: 10.1038/npp.2011.215 (2011)
NHLBI-AbDesigner: An online tool for design of peptide-directed antibodies Trairak Pisitkun, Jason D. Hoffert, Fahad Saeed, and Mark A. Knepper Am. J. Cell. Physiol. , doi: 10.1152/ajpcell.00325.201 (2011)
A coarse-grained model for PEGylated lipids: the effect of PEGylation on size and shape of self-assembled structures Hwankyu Lee, Richard W. Pastor J. Phys. Chem. B, doi: 10.1021/jp2020148 (2011)
Oncogenically active MYD88 mutations in human lymphoma V.N. Ngo, R.M. Young, R. Schmitz et al Nature, doi:10.1038/nature09671 (2011)
Overexpression of synthesized cephalosporin C acylase containing mutations in the substrate transport tunnel Ying Wang, Huimin Yu, Wensi Song, Ming An, Jing Zhang, Hui Luo, Zhongyao Shen J. Biosci. Bioeng., doi:10.1016/j.jbiosc.2011.08.027 (2011)
Capsomer Vaccines Protect Mice from Vaginal Challenge with Human Papillomavirus Wai-Hong Wu, Elizabeth Gersch, Kihyuck Kwak, Subhashini Jagu, Balasubramanyam Karanam, Warner K. Huh, Robert L. Garcea, Richard B. S. Roden PLoS One, doi:10.1371/journal.pone.0027141 (2011)

N-Protonated Isomers as Gateways to Peptide Ion Fragmentation Fredrik Haeffner, John K. Merle and Karl K. Irikura J. Am. Soc. Mass Spec., doi: 10.1007/s13361-011-0241-6 (2011)
PubChem3D: Biologically relevant 3-D similarity Sunghwan Kim , Evan E Bolton and Stephen H Bryant J. Cheminform., doi:10.1186/1758-2946-3-26 (2011)
Genomic Risk Profiling of Ischemic Stroke: Results of an International Genome-Wide Association Meta-Analysis James F. Meschia, Andrew Singleton, Michael A. Nalls, Stephen S. Rich, Pankaj Sharma, Luigi Ferrucci, Mar Matarin, Dena G. Hernandez, Kerra Pearce, Thomas G. Brott, Robert D. Brown Jr., John Hardy, Bradford B. Worrall PLoS One, doi:10.1371/journal.pone.0023161 (2011)
Large-Scale Phosphotyrosine Proteomic Profiling of Rat Renal Collecting Duct Epithelium Reveals Predominance of Proteins Involved in Cell Polarity Determination Boyang Zhao, Mark A. Knepper, Chung-Lin Chou, and Trairak Pisitkun Cell Physiol. , doi: 10.?1152/ajpcell.00300.2011 (2011)
Logistic regression analysis of biomarker data subject to pooling and dichotomization Z. Zhang, A. Liu, R.H., Lyles, B. Mukherjee Statistics in Medicine, doi: 10.1002/sim.4367 (2011)
Generalized degrees of freedom and adaptive model selection in linear mixed-effects models Bo Zhang, Xiaotong Shen, Sunni L. Mumford Comp. Stats & Data Anal., doi:10.1016/j.csda.2011.09.001 (2011)

Flexible cullins in cullin-ring E3 ligases allosterically regulate ubiquitination Jin Liu and Ruth Nussinov J. Biol. Chem. , doi: 10.1074/jbc.M111.277236 (2011)
Application of a yeast two-hybrid based screening system in the identification of amyloid-beta aggregation inhibitors in pharmaceutical plants Li-Wei Wang, Yan-Fang Yang, Ying-Tao Zhang J. Chinese Pharm. Sciences 20(5):510-517 (2011)
Arl2-GTP and Arl3-GTP regulate a GDI-like transport system for farnesylated cargo Shehab A Ismail, Yong-Xiang Chen, Alexandra Rusinova, Anchal Chandra, Martin Bierbaum, Lothar Gremer, Gemma Triola, Herbert Waldmann, Philippe I H Bastiaens & Alfred Wittinghofer Nature Chem. Bio. , doi:10.1038/nchembio.686 (2011)
In silico implementation of synthetic gene networks. Mario Andrea Marchisio Methods in Mol. Bio. , doi: 10.1007/978-1-61779-412-4_1 (2011)
Selective cell-surface labeling of the molecular motor protein prestin Ryan M. McGuire, Jonathan J. Silberg, Fred A. Pereira, c, Robert M. Raphael Biochem. Biophys. Res. Comm., doi://10.1016/j.bbrc.2011.05.121 (2011)
The Core of Ure2p Prion Fibrils Is Formed by the N-Terminal Segment in a Parallel Cross-? Structure: Evidence from Solid-State NMR Dmitry S. Kryndushkin, Reed B. Wickner, Robert Tycko J. Mol. Biol. , doi://10.1016/j.jmb.2011.03.067 (2011)
Latent class models for joint analysis of disease prevalence and high-dimensional semicontinuous biomarker data Bo Zhang, Zhen Chen and Paul S. Albert Biostatistics, doi: 10.1093/biostatistics/kxr024 (2011)
White Matter Microstructural Correlates of Superior Long-term Skill Gained Implicitly under Randomized Practice Sunbin Song, Nikhil Sharma, Ethan R. Buch and Leonardo G. Cohen Cerebral Cortex, doi: 10.1093/cercor/bhr247 (2011)
Genetic Association for Renal Traits among Participants of African Ancestry Reveals New Loci for Renal Function C-T Liu, MK Garnaas et al. PLoS Genetics, doi:10.1371/journal.pgen.1002264 (2011)
A Network-Based Approach to Prioritize Results from Genome-Wide Association Studies N. Akula, A. Baranova, D Seto, J Solka, MA Nalls, A Singleton, L Ferrucci, T Tanaka, S Bandinelli, YS Cho, YJ Kim, J-Y Lee, B-G Han, Bipolar Disorder Genome Study (BiGS) Consortium, The Wellcome Trust Case-Control Consortium, FJ McMahon PLoS One, doi:10.1371/journal.pone.0024220 (2011)
Conditional Allele Mouse Planner (CAMP): software to facilitate the planning and design of breeding strategies involving mice with conditional alleles Jason D. Hoffert, Trairak Pisitkun, R. Lance Miller. Transgenic Research, doi: 10.1007/s11248-011-9545-3 (2011)
Tackling Force-Field Bias in Protein Folding Simulations: Folding of Villin HP35 and Pin WW Domains in Explicit Water Jeetain MIttal and Robert B. Best Biophys. J. , doi: 10.1016/j.bpj.2010.05.005 (2011)

Rbx1 Flexible Linker Facilitates Cullin-RING Ligase Function Before Neddylation and After Deneddylation Jin Liu and Ruth Nussinov Biophys. J. , doi: 10.1016/j.bpj.2010.05.021 (2011)
Polymorphic Triple β-Sheet Structures Contribute to Amide Hydrogen/Deuterium (H/D) Exchange Protection in the Alzheimer Amyloid β42 Peptide Buyong Ma and Ruth Nussinov J. Biol. Chem. , doi: 10.1074/jbc.M111.241141 (2011)
Effect modification by population dietary folate on the association between MTHFR genotype, homocysteine, and stroke risk: a meta-analysis of genetic studies and randomised trials Holmes MV, Newcombe, P, Hubacek JA et a. The Lancet, doi:10.1016/S0140-6736 (2011)
Genome-wide Association Study for Serum Urate Concentrations and Gout among African Americans Identifies Genomic Risk Loci and a Novel URAT1 Loss-of-Function Allele Tin, A, Woordward OM et al. Hum. Mol. Genet., doi: 10.1093/hmg/ddr307 (2011)
Structural variants of IFNα preferentially promote antiviral functions Nancy Vázquez, Hana Schmeisser, Michael A. Dolan, Joseph Bekisz, Kathryn C. Zoon and Sharon M. Wahl Blood, doi:10.1182/blood-2010-12-325027 (2011)
Enhanced translation by Nucleolin via G-rich elements in coding and non-coding regions of target mRNAs Kotb Abdelmohsen, Kumiko Tominaga, Eun Kyung Lee, Subramanya Srikantan, Min-Ju Kang, Mihee M. Kim, Roza Selimyan, Jennifer L. Martindale, Xiaoling Yang, France Carrier, Ming Zhan, Kevin G. Becker and Myriam Gorospe Nucleic Acids Research, doi: 10.1093/nar/gkr488 (2011)

A Two-Stage Meta-Analysis Identifies Several New Loci for Parkinson's Disease. International Parkinson's Disease Genomics Consortium (IPDGC) and Wellcome Trust Case Control Consortium 2 (WTCCC2) PLoS Genetics, doi: 10.1371/journal.pgen.1002142 (2011)
A general Monte Carlo/simulated annealing algorithm for resonance assignment in NMR of uniformly labeled biopolymers Kan-Nian Hu, Wei Qiang and Robert Tycko J. Biomol. NMR, doi: 10.1007/s10858-011-9517-1 (2011)
Trimeric HIV-1 glycoprotein gp140 immunogens and native HIV-1 envelope glycoproteins display the same closed and open quaternary molecular architectures Audray Harris, Mario J. Borgnia, Dan Shi, Alberto Bartesaghi, Haifeng He, Robert Pejchal, Yun (Kenneth) Kang, Rafael Depetris, Andre J. Marozsan, Rogier W. Sanders, Per Johan Klasse, Jacqueline L. S. Milne, Ian A. Wilson, William C. Olson, John P. Moore, and Sriram Subramaniam PNAS, doi: 10.1073/pnas.1101414108 (2011)
Genome-Wide Association Study of White Blood Cell Count in 16,388 African Americans: the Continental Origins and Genetic Epidemiology Network (COGENT) Reiner AP, Lettre G, Nalls MA, Ganesh SK, Mathias R, et al. PLoS Genetics, doi:10.1371/journal.pgen.1002108 (2011)
Multiple Loci Are Associated with White Blood Cell Phenotypes Nalls MA, Couper DJ, Tanaka T, van Rooij FJA, Chen M-H, et al. PLoS Genetics, doi:10.1371/journal.pgen.1002113 (2011)
Phage display of tissue inhibitor of metalloproteinases-2 (TIMP-2): Identification of selective inhibitors of collagenase-1 (MMP-1) Harinath Bahudhanapati, Yingnan Zhang, Sachdev S. Sidhu and Keith Brew J. Biol. Chem. , doi: 10.1074/jbc.M111.253328 (2011)

Energetics and dynamics of proton transfer reactions along short water wires Ville R. I. Kaila and Gerhard Hummer Phys. Chem. Chem. Phys. , doi:10.1039/C1CP21112A (2011)
A survival analysis approach to modeling human fecundity Rajeshwari Sundaram, Alexander C. Mclain and Germaine M. Buck Louis Biostatistics, doi: 10.1093/biostatistics/kxr015 doi: 10.1093/biostatistics/kxr015 doi: 10.1093/biostatistics/kxr01 (2011)
Simulated Self-Assembly of the HIV-1 Capsid: Protein Shape and Native Contacts Are Sufficient for Two-Dimensional Lattice Formation Bo Chen and Robert Tycko Biophys. J. , doi: 10.1016/j.bpj.2011.05.025 (2011)
PubChem3D: Similar conformers Evan Bolton, Sunghwan Kim and Stephen H Bryant J. Cheminform. , doi: 10.1186/1758-2946-3-13. (2011)
Microscopic events in β-hairpin folding from alternative unfolded ensembles Robert Best & Jeetain Mittal PNAS, doi: 10.1073/pnas.1016685108 (2011)
The Role of Response Elements Organization in Transcription Factor Selectivity: The IFN-β Enhanceosome Example Yongping Pan, Ruth Nussinov PLoS Computational Biology, doi:10.1371/journal.pcbi.1002077 (2011)

Thermodynamics of Boroxine Formation from the Aliphatic Boronic Acid Monomers R-B (OH) 2 (R= H, H3C, H2N, HO, and F): A Computational Investigation Krishna L. Bhat, George D. Markham, Joseph D. Larkin, and Charles W. Bock J. Phys. Chem. A, doi: 10.1021/jp202409m (2011)
Agricultural intensification, priming for persistence and the emergence of Nipah virus: a lethal bat-borne zoonosis Juliet R. C. Pulliam, Jonathan H. Epstein, Jonathan Dushoff, Sohayati A. Rahman, Michel Bunning, Aziz A. Jamaluddin, Alex D. Hyatt, Hume E. Field, Andrew P. Dobson and Peter Daszak, the Henipavirus Ecology Research Group (HERG) Journal of the Royal Society Interface, doi: 10.1098/?rsif.2011.0223 (2011)
Tools for Vaccine Design: Prediction and Validation of Highly Immunogenic and Conserved Class II Epitopes and Development of Epitope-Driven Vaccines Manmohan Singh, Indresh K. Srivastava Anne S. De Groot, Matthew Ardito, Ryan Tassone, Paul Knopf, Leonard Moise, William Martin Development of Vaccines: From Discovery to Clinical Testing, John Wiley & Sons, doi: 10.1002/9781118023648.ch3 (2011)
Improved genetic association tests for an ordinal outcome representing the disease progression process Hong Zhang, Sholom Wacholder, Jing Qin, Allan Hildesheim, Kai Yu Genetic Epidemiology, doi: 10.1002/gepi.20599 (2011)
Roles of the four DNA polymerases of the crenarchaeon Sulfolobus solfataricus and accessory proteins in DNA replication Jeong-Yun Choi, Robert L. Eoff, Matthew G. Pence, Jian Wang, Martha V. Martin, Eun-Jin Kim, Lindsay M. Folkmann and F. Peter Guengerich J. Biol. Chem. , doi: 10.1074/jbc.M111.258038 (2011)
RNAi-independent role for Argonaute2 in CTCF/CP190 chromatin insulator function Moshkovich N, Nisha P, Boyle PJ, Thompson BA, Dale RK, Lei EP Genes Dev., doi: 10.1101/gad.16651211 (2011)

Polymorphism of amyloid β peptide in different environments: implications for membrane insertion and pore formation Fernando Terán Arce, Hyunbum Jang, Srinivasan Ramachandran, Preston B. Landon, Ruth Nussinov and Ratnesh Lal Soft Matter, doi: 10.1039/C1SM05162H (2011)
Catalytic Mechanism of RNA Backbone Cleavage by Ribonuclease H from QM/MM Simulations Edina Rosta , Marcin Nowotny , Wei Yang , and Gerhard Hummer JACS, doi: 10.1021/ja200173a (2011)
Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements Ofir Hakim, Myong-Hee Sung, Ty C. Voss, Erik Splinter, Sam John, Peter J. Sabo, Robert E. Thurman, John A. Stamatoyannopoulos, Wouter de Laat, and Gordon L. Hager Genome Research, doi:10.1101/gr.111153.110 (2011)
The association between inflammation-related genes and serum androgen levels in men: The prostate, lung, colorectal, and ovarian study Tamra E. Meyer, Lisa W. Chu, Qizhai Li, Kai Yu, Philip S. Rosenberg, Idan Menashe, Anand P. Chokkalingam, Sabah M. Quraishi, Wen-Yi Huang, Jocelyn M. Weiss, Rudolf Kaaks, Richard B. Hayes, Stephen J. Chanock, Ann W. Hsing The Prostate, doi: 10.1002/pros.21407 (2011)
Cystine knot peptides binding to Alpha IIb Beta 3 integrins and methods of use Cochran, J, Silverman, AP, Kariolis, Mihalis S. US Patent application 20110136740 (2011)
Protein Tertiary Structure Prediction based on main chain angle using a hybrid Bees Colony Optimization Algorithm ZN Mahmood, M. Mahmuddin, M.N. Mahmood International Journal of Modern Physics: Conference Series, DOI: 10.1142/S201019451200520X (2011)
Cloning and overexpression of influenza a H1N1 NS1 protein in escherichia coli Ong, Lih Lih Masters thesis, Universiti Teknologi Malaysia (2011)
Synergistic interactions between repeats in tau protein and Aβ amyloids may be responsible for accelerated aggregation via polymorphic states Yifat Miller, Buyong Ma, and Ruth Nussinov Biochemistry, doi: 10.1021/bi200400u (2011)
Driving Forces Enable High-Titer Anaerobic 1-Butanol Synthesis in Escherichia coli Claire R. Shen, Ethan I. Lan, Yasumasa Dekishima, Antonino Baez, Kwang Myung Cho, and James C. Liao App. Env. Microbiology, doi:10.1128/AEM.03034-10 (2011)
A joint modeling approach to data with informative cluster size: Robustness to the cluster size model Zhen Chen, Bo Zhang, Paul S. Albert Statistics in Medicine, doi: 10.1002/sim.4239 (2011)
On the stability and ranking of predictors from random forest variable importance measures Kristin K Nicodemus Brief. Bioinfo., doi: 10.1093/bib/bbr016 (2011)
Human Insulin production in E.Coli: Gene optimization, Assembly, Cloning and Protein Expression Gamal Abd El-Aziz, Metwali M.Reda, S.H.Abdel-Aziz, EL-Rashdy M. Redwan J. Biotech. Res. 11:37 (2011)

Thermochemistry of imidazolium-based ionic liquids: experiment and first-principles calculations Sergey P. Verevkin, Vladimir N. Emel'yanenko, Dzmitry H. Zaitsau, Andreas Heintz, Chris D. Muzny and Michael Frenkel Phys. Chem. Chem. Phys., doi:10.1039/C0CP00747A (2011)
Intermittent Hypoxia-Induced Sensitization of Central Chemoreceptors Contributes to Sympathetic Nerve Activity during Late Expiration in Rats Yaroslav I. Molkov, Daniel B Zoccal, Davi J.A. Moraes, Julian F.R. Paton, Benedito H. Machado, and Ilya A Rybak J. Neurophysiol., doi: 10.?1152/jn.00070.2011 (2011)
Exploring the energy landscape of a molecular engineered analog of a tumor-homing peptide Guillem Revilla-López, Juan Torras, Ruth Nussinov, Carlos Alemán and David Zanuy Physical Chemistry Chemical Physics, doi: 10.1039/C0CP02572K (2011)
PubChem3D: Diversity of shape Evan Bolton, Sunghwan Kim, and Stephen Bryant J. Cheminform. , doi: 10.1186/1758-2946-3-9 (2011)
Crystal structure of basic 7S globulin, a xyloglucan-specific endo-β-1, 4-glucanase inhibitor protein-like protein from soybean lacking inhibitory activity against endo-β-glucanase Takuya Yoshizawa, Toshiyuki Shimizu, Mayuki Yamabe, Misako Taichi, Yuji Nishiuchi, Naoki Shichijo, Satoru Unzai, Hisashi Hirano, Mamoru Sato, Hiroshi Hashimoto FEBS Journal, doi: 10.1111/j.1742-4658.2011.08111.x (2011)
Conformational Relaxation and Water Penetration Coupled to Ionization of Internal Groups in Proteins Ana Damjanovic, Bernard R. Brooks, and Bertrand García-Moreno E J. Phys. Chem. , published online 23 Mar (2011)

Efficient Adaptively Weighted Analysis of Secondary Phenotypes in Case-Control Genome-Wide Association Studies Huilin Li and Mitchell Gail Human Heredity, DOI: 10.1159/000338943 (2011)
Structural basis of p38α regulation by hematopoietic tyrosine phosphatase Dana M Francis, Bartosz Rózycki, Dorothy Koveal, Gerhard Hummer, Rebecca Page & Wolfgang Peti Nature Chem. Bio. , doi:10.1038/nchembio.707 (2011)
Microscopic mechanism of nanocrystal formation from solution by cluster aggregation and coalescence Sergio A. Hassan J. Chem. Phys. 134:114508 (2011)
PubChem3D: a new resource for scientists Evan E Bolton, Jie Chen, Sunghwan Kim, Lianyi Han, Siqian He, Wenyao Shi, Vahan Simonyan, Yan Sun, Paul A Thiessen and Jiyao Wang, et al. J. Cheminform. 3:32 (2011)
Water Transport through Nanotubes with Varying Interaction Strength between Tube Wall and Water Matthew Melillo, Fangqiang Zhu, Mark A. Snyder, and Jeetain Mittal J. Phys. Chem. Letters (2011)
Large-scale Exploration of Gene-Gene Interactions in Prostate Cancer Using a Multistage Genome-wide Association Study Julia Ciampa, Meredith Yeager, Laufey Amundadottir, Kevin Jacobs, Peter Kraft, Charles Chung, Sholom Wacholder, Kai Yu, William Wheeler, Michael J Thun, W Ryan Divers, Susan Gapstur, Demetrius Albanes, Jarmo Virtamo, Stephanie Weinstein, Edward Giovannucci, Walter C Willet, Geraldine Cancel-Tassin, Olivier Cussenot, Antoine Valeri, David Hunter, Robert Hoover, Gilles Thomas, Stephen Chanock, and Nilanjan Chatterjee Cancer Res., doi: 10.1158/0008-5472.CAN-10-2646 (2011)

PubChem3D: Conformer generation. Evan E Bolton, Sunghwan Kim, and Stephen H Bryant J. Cheminform., doi: 10.1186/1758-2946-3-4 (2011)
Molecular-Level Examination of Cu2+ Binding Structure for Amyloid Fibrils of 40-Residue Alzheimer's β by Solid-State NMR Spectroscopy Sudhakar Parthasarathy, Fei Long, Yifat Miller, Yiling Xiao, Dan McElheny, Kent Thurber, Buyong Ma, Ruth Nussinov, and Yoshitaka Ishii JACS, published online 22 Feb (2011)
Symmetry-Based Self-Assembled Nanotubes Constructed Using Native Protein Structures: The Key Role of Flexible Linkers Buch, Idit; Tsai, Chung-Jung; J. Wolfson, Haim; Nussinov, Ruth Protein & Peptide Letters 18(4):362-372 (2011)
Genome-Wide Association Studies of the PR Interval in African Americans JG Smith, JW. Magnani, C Palmer, YA Meng, EZ Soliman, SK Musani, KF Kerr, RB Schnabel, SA Lubitz, N Sotoodehnia, S Redline, A Pfeufer, M Müller, DS Evans, MA Nalls, Y Liu, AB Newman, AB Zonderman, MK Evans, R Deo, PT Ellinor, DN Paltoo, C Newton-Cheh, E J Benjamin, R Mehra, A Alonso, SR Heckbert, ER Fox, Candidate-gene Association Resource (CARe) Consortium PLoS Genetics, doi:10.1371/journal.pgen.1001304 (2011)
Modelling batched Gaussian longitudinal weight data in mice subject to informative dropout Paul S. Albert, Joanna H Shih Stat. Meth. in Med. Res., doi: 10.1177/0962280210397886 (2011)
The Unique Alzheimer's β-Amyloid Triangular Fibril Has a Cavity along the Fibril Axis under Physiological Conditions Yifat Miller, Buyong Ma, and Ruth Nussinov J. Am. Chem. Soc., doi: 10.1021/ja1100273 (2011)

Novel HIV-1 protease inhibitors (PIs) containing a bicyclic P2 functional moiety, tetrahydropyrano-tetrahydrofuran, that are potent against multi-PI-resistant HIV-1 variants Kazuhiko Ide, Manabu Aoki, Masayuki Amano, Yasuhiro Koh, Ravikiran S. Yedidi, Debananda Das, Sofiya Leschenko, Bruno Chapsal, Arun K. Ghosh, and Hiroaki Mitsuya Antimicrob Agents Chemother., doi:10.1128/AAC.01540-10 (2011)
Binding of a C-end rule peptide to neuropilin-1 receptor: A molecular modeling approach Nurit Haspel , David Zanuy , Ruth Nussinov , Tambet Teesalu , Erkki Ruoslahti , and Carlos Aleman Biochemistry, doi: 10.1021/bi101662j (2011)
SAXS Ensemble Refinement of ESCRT-III CHMP3 Conformational Transitions Bartosz Rózycki, Young C. Kim and Gerhard Hummer Structure, doi:10.1016/j.str.2010.10.006 (2011)
Distinct DNA methylation changes highly correlated with chronological age in the human brain Dena G Hernandez, Michael A Nalls, J Raphael Gibbs, Sampath Arepalli, Marcel van der Brug, Sean Chong, Matthew Moore, Dan L Longo, Mark Cookson, Bryan J Traynor and Andrew Singleton Human Molecular Genetics, published online 7 Jan (2011)
An Audit Strategy for Progression-Free Survival Lori E. Dodd, Edward L. Korn, Boris Freidlin, Robert Gray, Suman Bhattacharya Biometrics, doi: 10.1111/j.1541-0420.2010.01539.x (2011)
Atomistic modeling of peptides bound to a chemically active surface: conformational implications David Curcó, Guillem Revilla-López, Carlos Alemán, David Zanuy J. Peptide Science, doi: 10.1002/psc.1321 (2011)
Genome-wide association study implicates PARD3B-based AIDS restriction Troyer, J.L., Nelson, G.W., Lautenberger, J.A., Chinn, L., McIntosh, C., Johnson, R.C., Sezgin, E., Kessing, B., Malasky, M., Hendrickson, S.L., Li, G., Pontius, J., Tang, M., An, P., Winkler, C.A., Limou, S., Le Clerc, S., Delaneau, O., Zagury, J.-F., Schuitemaker, H., van Manen, D., Bream, J.H., Gomperts, E.D., Buchbinder, S., Goedert, J.J., Kirk, G.D., O'Brien, S.J. J. Infect. Dis 203(10):1491-502 (2011)
De novo Synthesis and Expression of a Thermostable Xylanase from Geobacillus stearothermophilus in Escherichia coli Zhang Zhigang, Pei Xiaoqiong & Wu Zhongliu Chin. J. Appl. Environ. Biol., doi: 10.3724/SP.J.1145.2009.00271 (2011)

2010 (94 papers)

Polymorphic C-terminal β-sheet interactions determine the formation of fibril or ADDL-like globulomer for the Alzheimer Aβ42 dodecamer Buyong Ma and Ruth Nussinov J. Biol. Chem. , doi: 10.1074/jbc.M110.133488 (2010)
Dependence of Protein Folding Stability and Dynamics on the Density and Composition of Macromolecular Crowders Jeetain Mittal and Robert B Best BIophys. J. 98(2):315-320 (2010)
Predicting In Vitro Drug Sensitivity using Random Forests Gregory Riddick, Hua Song, Susie Ahn, Jennifer Walling, Diego Borges-Rivera, Wei Zhang, and Howard A. Fine Bioinformatics, published online 5 Dec (2010)
Large-Scale Phosphoproteomic Analysis of Membrane Proteins in Renal Proximal and Distal Tubule Marina Feric, Boyang Zhao, Jason D. Hoffert, Trairak Pisitkun, and Mark A. Knepper Am. J. Physiol. - Cell Physiol. , doi: 10.1152/ajpcell.00360.2010 (2010)
Microarray Meta-Miner (MMM): An integrated method and a web tool to identify genes with similar expression profile Nagarajan, V.; Varma, S.; Hurt, D.; Yongjian Guo; Huyen, Y Computer Technology and Development, doi:10.1109/ICCTD.2010.5646068 (2010)
Atomic-Scale Simulations Confirm that Soluble β-Sheet-Rich Peptide Self-Assemblies Provide Amyloid Mimics Presenting Similar Conformational Properties Xiang Yu, Jingdai Wang, Jui-Chen Yang, Qiuming Wang, Stephen Z.D. Cheng, Ruth Nussinov, and Jie Zheng Biophys. J. 98(1):27-36 (2010)
Nonspecific binding limits the number of proteins in a cell and shapes their interaction networks Margaret E. Johnson and Gerhard Hummer PNAS, doi: 10.1073/pnas.1010954108 (2010)
Molecular Architectures of Trimeric SIV and HIV-1 Envelope Glycoproteins on Intact Viruses: Strain-Dependent Variation in Quaternary Structure Tommi A. White, Alberto Bartesaghi, Mario J. Borgnia, Joel R. Meyerson, M. Jason V. de la Cruz, Julian W. Bess, Rachna Nandwani, James A. Hoxie, Jeffrey D. Lifson, Jacqueline L. S. Milne, Sriram Subramaniam PLoS Pathogens, doi:10.1371/journal.ppat.1001249 (2010)
Nanoscale architecture of integrin-based cell adhesions Kanchanawong P, Shtengel G, Pasapera AM, Ramko EB, Davidson MW, Hess HF, Waterman CM. Nature 468(7323):580-4 (2010)
Accounting for multiple comparisons in a genome-wide association study (GWAS) Randall C Johnson, George W Nelson, Jennifer L Troyer, James A Lautenberger, Bailey D Kessing, Cheryl A Winkler, Stephen J O'Brien BMC Genomics 11:724 (2010)

Stability tests on known and misfolded structures with discrete and all atom molecular dynamics simulations Sijung Yun and Robert H Guy J. Mol. Graph. and Modeling, doi:10.1016/j.jmgm.2010.12.002 (2010)
Free-energy landscape of the GB1 hairpin in all-atom explicit solvent simulations with different force fields: Similarities and differences Robert B Best, Jeetain Mittal Proteins: Structure, Function and Bioinf, doi: 10.1002/prot.22972 (2010)
The Human Glucocorticoid Receptor as an RNA-Binding Protein: Global Analysis of Glucocorticoid Receptor-Associated Transcripts and Identification of a Target RNA Motif Ishmael FT, Fang X, Houser KR, Pearce K, Abdelmohsen K, Zhan M, Gorospe M, Stellato C. J. Immunol. , doi:10.4049/jimmunol.1001794 (2010)
Comprehensive engineering of Escherichia coli for enhanced expression of IgG antibodies Tomohiro Makinoa, Georgios Skretas, Tae Hyun Kang and George Georgiou Metabolic Engg. , doi:10.1016/j.ymben.2010.11.002 (2010)
Analysis of progression-free survival data using a discrete time survival model that incorporates measurements with and without diagnostic error Sally Hunsberger, Paul S Albert, Lori Dodd Clinical Trials, doi: 10.1177/1740774510384887 (2010)
Microscopic properties of nanopore water from its time-dependent dielectric response Jürgen Köfinger and Christoph Dellago Phy. Rev. B 82:205416 (2010)

Detecting sequence polymorphisms associated with meiotic recombination hotspots in the human genome Jie Zheng, Pavel P Khil, R Daniel Camerini-Otero and Teresa M Przytycka Genome Biology 11:R103, doi:10.1186/gb-2010-11-10-r103 (2010)
Expression of Recombinant Cytochromes c in E. coli. Yuri Londer Methods in Molecular Biology 705:123-150 (2010)
Analysis of the stabilities of hexameric amyloid-β (1-42) models using discrete molecular dynamics simulations Sijung Yun, Sajung Yun and H. Robert Guy J. Mol. Graphics and Modelling, doi:10.1016/j.jmgm.2010.11.008 (2010)
Crystal Structures Exploring the Origins of the Broader Specificity of Escherichia coli Heat-Labile Enterotoxin Compared to Cholera Toxin Holmner A, Mackenzie A, Okvist M, Jansson L, Lebens M, Teneberg S, Krengel U. J. Mol. Biol. , doi:10.1016/j.jmb.2010.11.060 (2010)
RAId_aPS: MS/MS Analysis with Multiple Scoring Functions and Spectrum-Specific Statistics Gelio Alves, Aleksey Y. Ogurtsov, and Yi-Kuo Yu PLoS One 5(11):e15438 (2010)
Origin of Twist-Bend Coupling in Actin Filaments Enrique M. De La Cruz, Jeremy Roland, Brannon R. McCullough, Laurent Blanchoin, Jean-Louis Martiel Biophys. J. , doi:10.1016/j.bpj.2010.07.009 (2010)

Approximating probabilities of correlated events Li QiZhai, Zheng Gang, Liu AiYi, Li ZhaoHai & Yu Kai Science China Mathematics 53(11):2937-2948 (2010)
Water in the Polar and Nonpolar Cavities of the Protein Interleukin-1β Hao Yin, Guogang Feng, G. Marius Clore, Gerhard Hummer, and Jayendran C. Rasaiah J. Phy. Chem. B, doi: 10.1021/jp108731r (2010)
Assigning statistical significance to proteotypic peptides via database searches Gelio Alves, Aleksey Ogurtsov, Yi-Kuo Yu J. Proteomics, doi:10.1016/j.jprot.2010.10.005 (2010)
A Computational Investigation of the Nitrogen-Boron Interaction in o-(N, N-Dialkylaminomethyl) arylboronate Systems Joseph D. Larkin, John S. Fossey, Tony D. James, Bernard R. Brooks, and Charles W. Bock J. Phys. Chem. A, doi: 10.1021/jp1087674 (2010)
Multiple imputation for estimating the risk of developing dementia and its impact on survival Binbing Yu, Jane S. Saczynski, Lenore Launer Biometrical Journal 52(5) :616-627 (2010)
Pore opening and closing of a pentameric ligand-gated ion channel Fangqiang Zhu and Gerhard Hummer PNAS, doi: 10.1073/pnas.1009313107 (2010)

Protein Simulations with an Optimized Water Model: Cooperative Helix Formation and Temperature-Induced Unfolded State Collapse Robert B Best and Jeetain Mittal J. Phys. Chem. B, doi: 10.1021/jp108618d (2010)
Nematic Order in Small Systems: Measuring the Elastic and Wall-Anchoring Constants in Vibrofluidized Granular Rods Jennifer Galanis, Ralph Nossal, Wolfgang Losert, and Daniel Harries Phys. Rev. Let. 105:168001 (2010)
β-Barrel Topology of Alzheimer's β-Amyloid Ion Channels Hyunbum Jang, Fernando Teran Arce, Srinivasan Ramachandran, Ricardo Capone, Ratnesh Lal, and Ruth Nussinov J. Mol. Biol. , doi:10.1016/j.jmb.2010.10.025 (2010)
Quantitative protein and mRNA profiling shows selective post-transcriptional control of protein expression by vasopressin in kidney cells Sookkasem Khositseth, Trairak Pisitkun, Dane H. Slentz, Guanghui Wang, Jason D. Hoffert, Mark A. Knepper* and Ming-Jiun Yu Molecular & Cellular Proteomics, doi: 10.1074/mcp.M110.004036 (2010)
An approach for jointly modeling multivariate longitudinal measurements and discrete time-to-event data Paul S. Albert and Joanna H. Shih Ann. Appl. Stat. 4(3):1517-1532 (2010)
Electrostatic Interactions and Binding Orientation of HIV-1 Matrix Studied by Neutron Reflectivity Hirsh Nanda, Siddhartha A.K. Datta, Frank Heinrich, Mathias L�sche, Alan Rein, Susan Krueger, Joseph E. Curtis Biophys. J. , doi: 10.1016/j.bpj.2010.07.062 (2010)

Biological Validation of Increased Schizophrenia Risk With NRG1, ERBB4, and AKT1 Epistasis via Functional Neuroimaging in Healthy Controls Kristin K. Nicodemus, Amanda J. Law, Eugenia Radulescu, Augustin Luna, Bhaskar Kolachana, Radhakrishna Vakkalanka, Dan Rujescu, Ina Giegling, Richard E. Straub, Kate McGee, Bert Gold, Michael Dean, Pierandrea Muglia, Joseph H. Callicott, Hao-Yang Tan, Daniel R. Weinberger Arch. Gen. Psych. 67(10):991-1001 (2010)
Conformational Profile of a Proline-Arginine Hybrid Guillermo Revilla-López, Ana I. Jiménez, Carlos Cativiela, Ruth Nussinov, Carlos Alemán, and David Zanuy J. Chem. Inf. and Modeling, doi: 10.1021/ci100135f (2010)
Mapping mouse IL-13 binding regions using structure modeling, molecular docking, and high-density peptide microarray analysis Satish K Madala, Michael A. Dolan, Deepak Sharma, Thirumalai R. Ramalingam, Mark S. Wilson, Margaret M. Mentink-Kane, Daniel C. Masison, Thomas A. Wynn Proteins: Structure, Function and Bioinf, doi: 10.1002/prot.22881 (2010)
Robust and accurate data enrichment statistics via distribution function of sum of weights. Stojmirovic A, Yu YK Bioinformatics, doi: 10.1093/bioinformatics/btq511 (2010)
Using Principal Components of Genetic Variation for Robust and Powerful Detection of Gene-Gene Interactions in Case-Control and Case-Only Studies Samsiddhi Bhattacharjee, Zhaoming Wang, Julia Ciampa, Peter Kraft, Stephen Chanock, Kai Yu and Nilanjan Chatterjee Am. J. Hum. Genet. 86(3):331-342 (2010)
Crystal structure of Lon protease: molecular architecture of gated entry to a sequestered degradation chamber Sun-Shin Cha1, Young Jun An, Chang Ro Lee, Hyun Sook Lee, Yeon-Gil Kim, Sang Jin Kim, Kae Kyoung Kwon, Gian Marco De Donatis, Jung-Hyun Lee, Michael R Maurizi and Sung Gyun Kang Embo J. , doi:10.1038/emboj.2010.226 (2010)

Models of membrane-bound Alzheimer's abeta peptide assemblies Yinon Shafrir, Stewart Durell, Nelson Arispe, H. Robert Guy Proteins, doi: 10.1002/prot.22853 (2010)
In Vitro Selection of Highly Darunavir-Resistant and Replication-Competent HIV-1 Variants by Using a Mixture of Clinical HIV-1 Isolates Resistant to Multiple Conventional Protease Inhibitors Yasuhiro Koh, Masayuki Amano, Tomomi Towata, Matthew Danish, Sofiya Leshchenko-Yashchuk, Debananda Das, Maki Nakayama, Yasushi Tojo, Arun K. Ghosh, and Hiroaki Mitsuya J. Virol. , doi:10.1128/JVI.00967-10 (2010)
Structural and Dynamic Determinants of Ligand Binding and Regulation of Cyclin-Dependent Kinase 5 by Pathological Activator p25 and Inhibitory Peptide CIP A. Cardone, S.A. Hassan, R.W. Albers, R.D. Sriram and H.C. Pant J. Mol. Biol., doi:10.1016/j.jmb.2010.06.040 (2010)
Hollow core of Alzheimer's Aβ42 amyloid observed by cryoEM is relevant at physiological pH Yifat Miller, Buyong Ma, Chung-Jung Tsai, Ruth Nussinov PNAS, 10.1073/pnas.1004704107 (2010)
Population dynamics of a pathogen: the conundrum of vivax malaria Philip G. McQueen Biophys. Revs. 2(3):111-120 (2010)
Scaling Factors and Uncertainties for ab Initio Anharmonic Vibrational Frequencies Russell D. Johnson, III, Karl K. Irikura, Raghu N. Kacker and Rdiger Kessel J. Chem. Theory. Comp., doi: 10.1021/ct100244d (2010)

Molecular Basis for the Structural Stability of an Enclosed β Barrel Loop Pu Tian and Harris D. Bernstein J. Mol. Biol. , doi:10.1016/j.jmb.2010.07.035 (2010)
Predictive Correlations Based on Large Experimental Datasets: Critical Constants for Pure Compounds Andrei Kazakov, Chris D. Muzny, Vladimir Diky, Robert D. Chirico and Michael Frenkel Fluid Phase Equilibria 298(1):131-142 (2010)
Using Cases to Strengthen Inference on the Association between Single Nucleotide Polymorphisms and a Secondary Phenotype in Genome-Wide Association Studies Huilin Li, Mitchell H. Gail, Sonja Berndt, and Nilanjan Chatterjee Genet. Epidemiol. 34(5):427-433 (2010)
Lysine120 Interactions with p53 Response Elements can Allosterically Direct p53 Organization Yongping Pan and Ruth Nussinov PLoS Computational Biology, doi: 10.1371/journal.pcbi.1000878. (2010)
Release of genotype 1 hepatitis E virus from cultured hepatoma and polarized intestinal cells depends on ORF3 protein and requires an intact PXXP motif Suzanne U. Emerson, Hanh T. Nguyen, Udana Torian, Danielle Burke, Ronald Engle and Robert H. Purcell J. Virol. , doi:10.1128/JVI.00593-10 (2010)
Structural Convergence Among Diverse, Toxic β-Sheet Ion Channels Hyunbum Jang, Fernando Teran Arce, Srinivasan Ramachandran, Ricardo Capone, Ratnesh Lal and Ruth Nussinov J. Phys. Chem. B, doi: 10.1021/jp104073k (2010)

The Influence of GABRA2, Childhood Trauma and their Interaction on Alcohol, Heroin and Cocaine Dependence Mary-Anne Enoch, Colin A Hodgkinson, Qiaoping Yuan, Pei-Hong Shen, David Goldman, Alec Roy Biol Psychiatry., doi: 10.1016/j.biopsych.2009.08.019 (2010)
Genome-wide association identifies candidate genes that influence the human electroencephalogram Colin A. Hodgkinson, Mary-Anne Enoch, Vibhuti Srivastava et al. PNAS, doi: 10.1073/pnas.0908134107 (2010)
Multiple chronic pain states are associated with a common amino acid�changing allele in KCNS1 Michael Costigan, Inna Belfer, Robert S. Griffin et al. Brain, doi: 10.1093/brain/awq195 (2010)
Haplotype-Based Study of the Association of Alcohol Metabolizing Genes with Alcohol Dependence in Four Independent Populations Jixia Liu, Zhifeng Zhou, Colin A. Hodgkinson, Qiaoping Yuan, Pei-Hong Shen, Connie J. Mulligan, Alex Wang, Rebecca R. Gray, Alec Roy, Matti Virkkunen, David Goldman, Mary-Anne Enoch Alcohol Clin Exp Res., doi: 10.1111/j.1530-0277.2010.01346.x (2010)
Mutations from a family-shuffling-library reveal amino acid residues responsible for the thermostability of endoglucanase CelA from Clostridium thermocellum Zhuo-Lin Yi and Zhong-Liu Wu Biotech. Letters, 10.1007/s10529-010-0363-0 (2010)
Rational design of an orthogonal tryptophanyl nonsense suppressor tRNA Randall A. Hughes and Andrew D. Ellington Nucleic Acids Research, doi:10.1093/nar/gkq521 (2010)

Phosphoproteomic profiling reveals vasopressin-regulated phosphorylation sites in collecting duct Bansal AD, Hoffert JD, Pisitkun T, Hwang S, Chou CL, Boja ES, Wang G, Knepper MA. J. Am. Soc. Nephrol. 21(2):303-15 (2010)
De novo structure generation using chemical shifts for proteins with high-sequence identity but different folds Shen Y, Bryan PN, He Y, Orban J, Baker D, Bax A. Protein Science 19(2):349-56 (2010)
Balance between α and β Structures in Ab Initio Protein Folding Robert B. Best and Jeetain Mittal J. Phys. Chem. B , doi: 10.1021/jp102575b (2010)
Tautomerism and Magnesium Chelation of HIV-1 Integrase Inhibitors: A Theoretical Study Chenzhong Liao and Marc C. Nicklaus Chem Med Chem, published online 8 Jun (2010)
FastMEDUSA: A parallelized tool to infer gene regulatory networks Serdar Bozdag, Aiguo Li, Stefan Wuchty, Howard A. Fine Bioinformatics, doi:10.1093/bioinformatics/btq275 (2010)
Structural basis of G protein-coupled receptor-G protein interactions Jianxin Hu, Yan Wang, Xiaohong Zhang, John R Lloyd, Jian Hua Li, Joel Karpiak, Stefano Costanzi, J¨rgen Wess Nature Chem. Biol., doi:10.1038/nchembio.385 (2010)
Antimicrobial Protegrin-1 Forms Ion Channels: Molecular Dynamic Simulation, Atomic Force Microscopy, and Electrical Conductance Studies Ricardo Capone, Mirela Mustata, Hyunbum Jang, Fernando Teran Arce, Ruth Nussinov, and Ratnesh Lal Biophys. J., doi: 10.1016/j.bpj.2010.02.024 (2010)
Update of the CHARMM All-Atom Additive Force Field for Lipids: Validation on Six Lipid Types Jeffery B. Klauda, Richard M. Venable, J. Alfredo Freites, Joseph W. O'Connor, Douglas J. Tobias, Carlos Mondragon-Ramirez, Igor Vorobyov, Alexander D. MacKerell, Jr. and Richard W. Pastor J. Phys. Chem. B, published online 24 May (2010)
Comparison of multivariate classifiers and response normalizations for pattern-information fMRI Masaya Misaki, Youn Kima, Peter A. Bandettini and Nikolaus Kriegeskorte Neuroimage, doi:10.1016/j.neuroimage.2010.05.051 (2010)
Abundant Quantitative Trait Loci Exist for DNA Methylation and Gene Expression in Human Brain J. Raphael Gibbs, Marcel P. van der Brug, Dena G. Hernandez, Bryan J. Traynor, Michael A. Nalls, Shiao-Lin Lai, Sampath Arepalli, Allissa Dillman, Ian P. Rafferty, Juan Troncoso, Robert Johnson, H. Ronald Zielke, Luigi Ferrucci, Dan L. Longo, Mark R. Cookson, Andrew B. Singleton PLoS Genetics 6(5):e1000952, doi:10.1371/journal.pgen.1000952 (2010)
Zinc ions promote Alzheimer Aβ aggregation via population shift of polymorphic states Yifat Miller, Buyong Ma, and Ruth Nussinov PNAS, published online 6 May (2010)
Efficient expression and purification of human aglycosylated Fcγ receptors in Escherichia coli Sang Taek Jung, Tae Hyun Kang, George Georgiou Biotech. and Bioengg., published online 7 May (2010)

Emotional Automaticity Is a Matter of Timing Qian Luo, Tom Holroyd, Catherine Majestic, Xi Cheng, Julia Schechter, and R. James Blair J. Neuroscience 30(17):5825-5829 (2010)
How Does the Reductase Help To Regulate the Catalytic Cycle of Cytochrome P450 3A4 Using the Conserved Water Channel? Dan Fishelovitch, Sason Shaik, Haim J. Wolfson and Ruth Nussinov J. Phys. Chem. B 114(17):5964-5970 (2010)
Improving polyp detection algorithms for CT colonography: Pareto front approach Adam Huang, Jiang Li, Ronald M. Summers, Nicholas Petrick, Amy K. Hara Pattern Recognition Letters, doi:10.1016/j.patrec.2010.03.013 (2010)
Solution conformation and dynamics of the HIV-1 integrase core domain Nicholas C. Fitzkee, James E. Masse, Yang Shen, David R. Davies, and Ad Bax J. Biol. Chem. , doi/10.1074/jbc.M110.113407 (2010)
Use of Multiple Assays Subject to Detection Limits With Regression Modeling in Assessing the Relationship Between Exposure and Outcome Albert, Paul S, Harel, Ofer, Perkins, Neil, Browne, Richard Epidemiology, doi: 10.1097/EDE.0b013e3181ce9eed (2010)
Low-Temperature Dynamic Nuclear Polarization at 9.4 Tesla With a 30 Milliwatt microwave source Kent R. Thurber, Wai-Ming Yau and Robert Tycko J. Magnetic Resonance :doi:10.1016/j.jmr.20 (2010)

Neural substrates of graphomotor sequence learning: A combined fMRI and kinematic study Bruce A. Swett, Jose L. Contreras-Vidal, Rasmus Birn and Allen R. Braun J. Neurophysiol., doi:10.1152/jn.00449.2009 (2010)
Extensive and Modular Intrinsically Disordered Segments in C. elegans TTN-1 and Implications in Filament Binding, Elasticity and Oblique Striation Jeffrey G. Forbes, Denise B. Flaherty, Kan Ma, Hiroshi Qadota, Guy M. Benian, and Kuan Wang J. Mol. Biol. , doi:10.1016 (2010)
A Novel Point Mutation in Helix 10 of the Human Glucocorticoid Receptor Causes Generalized Glucocorticoid Resistance by Disrupting the Structure of the Ligand-Binding Domain Nancy Nader, Bert E. Bachrach, Darrell E. Hurt, Sonia Gajula, Amy Pittman, Rachel Lescher, and Tomoshige Kino J. Clin. Endocrin. & Metab., published online 24 March (2010)
Engineering anti-VEGF disulfide-stabilized single chain antibody variable fragments (sc-dsFv) with phage displayed sc-dsFv libraries Yi-Jen Huang, Ing-Chien Chen, Chung-Ming Yu, Yu-Ching Lee, Hung-Ju Hsu, Anna Ching-Ching Tung, Hung-Ju Chang and An-Suei Yang J. Biol. Chem. , published online 12 Jan (2010)
Engineering Anti-vascular Endothelial Growth Factor Single Chain Disulfide-stabilized Antibody Variable Fragments (sc-dsFv) with Phage-displayed sc-dsFv Libraries Yi-Jen Huang, Ing-Chien Chen, Chung-Ming Yu, Yu-Ching Lee, Hung-Ju Hsu, Anna Tung Ching Ching, Hung-Ju Chang, An-Suei Yang J. Biol. Chem. 285:7880-7891 (2010)
Depletion forces drive polymer-like self-assembly in vibrofluidized granular materials Jennifer Galanis, Ralph Nossal, and Daniel Harries Soft Matter 6:1026-1034 (2010)

The behaviour of random forest permutation-based variable importance measures under predictor correlation Kristin Nicodemus, James Malley, Carolin Srobl, Andreas Ziegler BMC Bioinformatics 11:110 (2010)
Molecular Dynamics Reveal the Essential Role of Linker Motions in the Function of Cullin-RING E3 Ligases Jin Liu and Ruth Nussinov J. Mol. Biol. 396(5):1508-1523 (2010)
Quantitative phosphoproteomic analysis reveals vasopressin V2-receptor-dependent signaling pathways in renal collecting duct cells Markus M. Rinschen, Ming-Jiun Yu, Guanghui Wang, Emily S. Boja, Jason D. Hoffert, Trairak Pisitkun, and Mark A. Knepper PNAS, doi/10.1073/pnas.0910646107 (2010)
Noncoding RNA Gas5 Is a Growth Arrest-and Starvation-Associated Repressor of the Glucocorticoid Receptor Tomoshige Kino, Darrell E. Hurt, Takamasa Ichijo, Nancy Nader, and George P. Chrousos Sci. Signal. 3(107):ra8 (2010)
Functional Significance for an Heterogenous Ribonucleoprotein A18 (hnRNP A18) Signature RNA Motif in the 3'UTR of Ataxia Telengiectasia Mutated and RAD3 Related (ATR) Transcript Ruiqing Yang, Ming Zhan, Narasimha Rao Nalabothula, Qingyuan Yang, Fred E. Indig and France Carrier J. Biol. Chem., published online 26 Jan (2010)
Evidence of statistical epistasis between DISC1, CIT and NDEL1 impacting risk for schizophrenia: biological validation with functional neuroimaging Kristin K. Nicodemus, Joseph H. Callicott, Rachel G. Higier, Augustin Luna, Devon C. Nixon, Barbara K. Lipska, Radhakrishna Vakkalanka, Ina Giegling, Dan Rujescu, David St. Clair, Pierandrea Muglia, Yin Yao Shugart and Daniel R. Weinberger Human Genetics 10.1007:s00439-009-0782-y (2010)

Meta-analysis of genome-wide association data detects a risk locus for major mood disorders on chromosome 3p21. 1 Francis J McMahon, Nirmala Akula, Thomas G Schulze, Pierandrea Muglia, Federica Tozzi, Sevilla D Detera-Wadleigh, C J M Steele, René Breuer, Jana Strohmaier, Jens R Wendland, Manuel Mattheisen, Thomas W Mühleisen, Wolfgang Maier, Markus M Nöthen, Sven Cichon, Anne Farmer, John B Vincent, Florian Holsboer, Martin Preisig & Marcella Rietschel for the Bipolar Disorder Genome Study (BiGS) Consortium Nature Genetics 42:128-131 (2010)
Interfacial thermodynamics of confined water near molecularly rough surfaces Jeetain Mittal and Gerhard Hummer Faraday Discussions: Wetting Dynamics of Hydrophobic and Str (2010)
Genetic Crossovers Are Predicted Accurately by the Computed Human Recombination Map Pavel P. Khil and R. Daniel Camerini-Otero PLoS Genetics 6(1):e1000831 (2010)
Genome Wide Association for Addiction: Replicated Results and Comparisons of Two Analytic Approaches Tomas Drgon, Ping-Wu Zhang, Catherine Johnson, Donna Walther, Judith Hess, Michelle Nino, and George R. Uhl PLoS One 5(1):e8832 (2010)
Construction of synthetic open reading frame encoding human interferon alpha 2b for high expression in Escherichia coli and characterization of its gene product Debbie S. Retnoningrum, Ratih A. Ningruma, Yohanes N. Kurniawana, Ana Indrayatia and Heni Rachmawati J. Biotechnol. 145(2):193-198 (2010)
JAGS Version 2.2.0 user manual Martyn Plummer Testing of JAGS was carried out on Helix. (2010)

2009 (84 papers)

Preferred drifting along the DNA major groove and cooperative anchoring of the p53 core domain: mechanisms and scenarios Yongpin Pan and Ruth Nussinov J. Mol. Recognit. 23(2):232-40 (2009)
Computational Investigation of the Oxidative Deboronation of Boroglycine, H2N-CH2-B (OH) 2, Using H2O and H2O2 Larkin JD, Markham GD, Milkevitch M, Brooks BR, Bock CW. J. Phys. Chem. A 113(41):11028-34 (2009)
Modeling Familial Association of Ages at Onset of Disease in the Presence of Competing Risk Joanna Shih and Paul S Albert Biometrics, published online 9 Dec (2009)
JAGS v2.0 Martyn Plummer (2009)
Prediction of Xaa-Pro peptide bond conformation from sequence and chemical shifts Yang Shen and Ad Bax J. Biomolec. NMR 10.1007:s10858-009-9395-y (2009)
Homology modeling and molecular dynamics simulations of HgiDII methyltransferase in complex with DNA and S-adenosyl-methionine: Catalytic mechanism and interactions with DNA Juan A. Castelán-Vega, Alicia Jiménez-Alberto and Rosa M. Ribas-Aparicio J. Molecular Modeling 10.1007:s00894-009-0632-9 (2009)

An experimentally based computer search identifies unstructured membrane-binding sites in proteins: Application to class-I myosins, PAKs and CARMIL Hanna Brzeska, Jake Guag, Kirsten Remmert, Susan Chacko and Edward D. Korn J. Biol. Chem. 285:5738-5747 (2009)
Using Compressibility Factor as a Predictor of Confined Hard-Sphere Fluid Dynamics Jeetain Mittal J. Phys. Chem. B 113(42):13800-13804 (2009)
Prediction of Potency of Protease Inhibitors Using Free Energy Simulations with Polarizable Quantum Mechanics-Based Ligand Charges and a Hybrid Water Model Debananda Das, Yasuhiro Koh, Yasushi Tojo, Arun K. Ghosh and Hiroaki Mitsuya J. Chem. Inf. Mod. 49(12):2851-2862 (2009)
Misfolded Amyloid Ion Channels Present Mobile β-Sheet Subunits in Contrast to Conventional Ion Channels Hyunbum Jang, Fernando Teran Arce, Ricardo Capone, Srinivasan Ramachandran, Ratnesh Lal, and Ruth Nussinov Biophys. J. 97(11):3029-3037 (2009)
Effectiveness of Hair Bundle Motility as the Cochlear Amplifier Bora Sul and Kuni H. Iwasa Biophys. J. 97(10):2653-2663 (2009)
Oligonucleotide Design and Codon Optimization for PCR-based Gene Synthesis Paul Jamesen Steiner Master's Thesis, MIT (2009)

Symmetry-restrained molecular dynamics simulations improve homology models of potassium channels. Anishkin A, Milac AL, Guy HR. Proteins 78(4):932-949 (2009)
Electrophysiological investigation of prestin function: Impact of cysteine replacement and characterization of self-association during voltage stimulation Ryan M. McGuire PhD Thesis, Rice University (2009)
NF90 selectively represses the translation of target mRNAs bearing an AU-rich signature motif Yuki Kuwano, Rudolf Pullmann, Jr., Bernard S. Marasa, Kotb Abdelmohsen, Eun Kyung Lee, Xiaoling Yang, Jennifer L. Martindale, Ming Zhan and Myriam Gorospe Nucleic Acids Research 38(1):225-38 (2009)
Thermodynamic Perspective on the Dock-Lock Growth Mechanism of Amyloid Fibrils ? Edward P. O'Brien, Yuko Okamoto, John E. Straub, Bernard R. Brooks and D. Thirumalai J. Phys. Chem. B 113(43):14421-14430 (2009)
MicroRNA Expression in Squamous Cell Carcinoma and Adenocarcinoma of the Esophagus: Associations with Survival Ewy A. Mathé, Giang Huong Nguyen, Elise D. Bowman, Yiqiang Zhao, Anuradha Budhu, Aaron J. Schetter, Rosemary Braun, Mark Reimers, Kensuke Kumamoto, Duncan Hughes, Nasser K. Altorki, Alan G. Casson, Chang-Gong Liu, Xin Wei Wang, Nozomu Yanaihara, Nobutoshi Hagiwara, Andrew J. Dannenberg, Masao Miyashita, Carlo M. Croce and Curtis C. Harris Clin. Cancer. Res. 15:6192 (2009)
K3 Fragment of Amyloidogenic β2-Microglobulin Forms Ion Channels: Implication for Dialysis Related Amyloidosis Mirela Mustata, Ricardo Capone, Hyunbum Jang, Fernando Teran Arce, Srinivasan Ramachandran, Ratnesh Lal and Ruth Nussinov J. Am. Chem. Soc. 131(41):14938-14945 (2009)
Modeling Aqueous Solvent Effects through Local Properties of Water S.A. Hassan and E.L. Mehler , in Modeling Solvent Environments, Ed. M. Feig, Wiley-VCH (2009)
Evidence for a Partially Structured State of the Amylin Monomer Sara M. Vaiana, Robert B. Best, Wai-Ming Yau, William A. Eaton, and James Hofrichter Biophys. J. 97(11):2948-2957 (2009)
The Mechanism of Ubiquitination in the Cullin-RING E3 Ligase Machinery: Conformational Control of Substrate Orientation Jin Lui and Ruth Nussinov PLoS Computational Biology 5(10):e1000527 (2009)
Generalized Rosenfeld scalings for tracer diffusivities in not-so-simple fluids: Mixtures and soft particles William P. Krekelberg, Mark J. Pond, Gaurav Goel, Vincent K. Shen, Jeffrey R. Errington, Thomas M. Truskett Phys. Rev. E 80:061205 (2009)
Enhanced bacterial expression of several mammalian cytochrome P450s by codon optimization and chaperone coexpression Zhong-Liu Wu, Jing Qiao, Zhi-Gang Zhang, F. Peter Guengerich, Yan Liu and Xiao-Qiong Pei Biotechnology Letters 31(10):1589-1593 (2009)
Theoretical Characterization of Substrate Access/Exit Channels in the Human Cytochrome P450 3A4 Enzyme: Involvement of Phenylalanine Residues in the Gating Mechanism Dan Fishelovitch, Sason Shaik, Haim J. Wolfson, and Ruth Nussinov J. Phys. Chem B 113(39):13018-13025 (2009)

A simple and efficient algorithm for genome-wide homozygosity analysis in disease Wei Liu, Jinhui Ding, Jesse Raphael Gibbs, Sue Jane Wang, John Hardy & Andrew Singleton Molecular Systems Biology 5:304 (2009)
A fast mean-field method for large-scale high-dimensional data and its application in colonic polyp detection at CT colonography Shijun Wang, Ronald M Summers, Changshui Zhang IEEE International Joint Conference on Neural Networks ijcnn:32511-3258 (2009)
Polymorphism of Alzheimer's A β 17-42(p3) Oligomers: The Importance of the Turn Location and Its Conformation Yifat Miller, Buyong Ma, and Ruth Nussinov Biophys. J. 97(4):1168-1177 (2009)
Quantitative Mitochondrial Phosphoproteomics Using iTRAQ on an LTQ-Orbitrap with High Energy Collision Dissociation Emily Boja, Darci Phillips, Stephanie A French, Robert A. Harris, and Robert Stephen Balaban J. Proteome Research 8(10):4665-4675 (2009)
Molecular Dynamics Simulations of PIP 2 and PIP 3 in Lipid Bilayers: Determination of Ring Orientation, and the Effects of Surface Zheng Li, Richard M. Venable, Laura A. Rogers, Diana Murray, and Richard W. Pastor Biophys. J. 97(1):155-163 (2009)
Cooperativity Dominates the Genomic Organization of p53-Response Elements: A Mechanistic View Yongpin Pan and Ruth Nussinov PLoS Computational Biology :e1000448. (2009)

Functional but not structural changes associated with learning: An exploration of longitudinal Voxel-Based Morphometry (VBM) Thomas AG, Marrett S, Saad ZS, Ruff DA, Martin A, Bandettini PA. Neuroimage 48(1):117-25 (2009)
Phosphine Polymerization by Nitric Oxide: Experimental Characterization and Theoretical Predictions of Mechanism Yi-Lei Zhao, Jason W. Flora, William David Thweatt, Stephen L. Garrison, Carlos Gonzalez, K. N. Houk and Manuel Marquez Inorg. Chem. 48(3):1223-1231 (2009)
Protein Segments with Conformationally Restricted Amino Acids Can Control Supramolecular Organization at the Nanoscale David Zanuy, Gema Ballano, Ana I. Jimnez, Jordi Casanovas, Nurit Haspel, Carlos Cativiela, David Curc, Ruth Nussinov and Carlos Alemán J. Chem. Info. and Modeling 49(7):1623=9 (2009)
Amygdala function and 5-HTT gene variants in adolescent anxiety and major depressive disorder Lau JY, Goldman D, Buzas B, Fromm SJ, Guyer AE, Hodgkinson C, Monk CS, Nelson EE, Shen PH, Pine DS, Ernst M. Biol. Psychiatry , doi: 10.1016/j.biopsych.2008.08.037 (2009)
HTR3B is associated with alcoholism with antisocial behavior and alpha EEG power�an intermediate phenotype for alcoholism and co-morbid behaviors Ducci F, Enoch MA, Yuan Q, Shen PH, White KV, Hodgkinson C, Albaugh B, Virkkunen M, Goldman D. Alcohol, doi: 10.1016/j.alcohol.2008.09.005 (2009)
Association of Substance Use Disorders With Childhood Trauma but not African Genetic Heritage in an African American Cohort Ducci F, Roy A, Shen PH, Yuan Q, Yuan NP, Hodgkinson CA, Goldman LR, Goldman D. Am. J. Psychiatry, doi: 10.1176/appi.ajp.2009.08071068 (2009)

Kinetic Barriers of H-Atom Transfer Reactions in Alkyl, Allylic, and Oxoallylic Radicals as Calculated by Composite Ab Initio Methods Carrigan J. Hayes and Donald R. Burgess, Jr. J. Phys. Chem. A 113(11):2473-2482 (2009)
On the Mechanism of Nitrosoarene-Alkyne Cycloaddition Andrea Penoni, Giovanni Palmisano, Yi-Lei Zhao, Kendall N. Houk, Jerome Volkman and Kenneth M. Nicholas J. Am. Chem. Soc. 131(2):653-661 (2009)
Artificial reaction coordinate “tunneling” in free-energy calculations: The catalytic reaction of RNase H Edina Rosta, H. Lee Woodcock, Bernard R. Brooks, Gerhard Hummer J. Comput. Chem. 30(11):1634-41 (2009)
Building and assessing atomic models of proteins from structural templates: Learning and benchmarks Brinda Kizhakke Vallat, Jaroslaw Pillardy, Peter M�jek, Jaroslaw Meller, Thomas Blom, BaoQiang Cao, Ron Elber Proteins 76(4):930-945 (2009)
Imaging incorporation of circulating docosahexaenoic acid into the human brain using positron emission tomography John C. Umhau, Weiyin Zhou, Richard E. Carson, Stanley I. Rapoport, Alla Polozova, James Demar, Nahed Hussein, Abesh K. Bhattacharjee, Kaizong Ma, Giuseppe Esposito, Sharon Majchrzak, Peter Herscovitch, William C. Eckelman, Karen A. Kurdziel, and Norman Salem . Jr J. Lipid Res. 50(7):1259-68 (2009)
Error and efficiency of replica exchange molecular dynamics simulations Edina Rosta and Gerhard Hummer J. Chem. Phys. 131:165102 (2009)

Insights Into Crowding Effects on Protein Stability From a Coarse-Grained Model VK Shen, J Cheung, JR Errington, TM Truskett J. Biomech. Engg. 131(7):0710002 (2009)
The bis-Electrophile Diepoxybutane Cross-Links DNA to Human Histones but Does Not Result in Enhanced Mutagenesis in Recombinant Systems Elisabeth M. Loecken, Surendra Dasari, Salisha Hill, David L. Tabb and F. Peter Guengerich Chem. Res. Toxicol. 22(6):1069-1076 (2009)
Revealing the dimer dissociation and existence of a folded monomer of the mature HIV-2 protease Louis JM, Ishima R, Aniana A, Sayer JM. Protein Science 18(12):2442-53 (2009)
Molecular dynamics study of the structure and interparticle interactions of polyethylene glycol-conjugated PAMAM dendrimers Hwankyu Lee and Ronald G. Larson J. Phys. Chem. B 113(40):13202-13207 (2009)
Computer Assisted Analysis of Genes MV Fachal, M Furlan Reproductive Endocrinology Part 2:113-117 (2009)
Optimized Molecular Dynamics Force Fields Applied to the Helix-Coil Transition of Polypeptides Robert B Best, Gerhard Hummer J. Phys. Chem B 113(26):9004-9015 (2009)

Predictor Correlation Impacts Machine Learning Algorithms: Implications for Genomic Studies Kristin K. Nicodemus and James D. Malley Bioinformatics 25:1884-1889 (2009)
A Partially Linear Tree-based Regression Model for Multivariate Outcomes Kai Yu, William Wheeler, Qizhai Li, Andrew W. Bergen, Neil Caporaso, Nilanjan Chatterjee, and Jinbo Chen Biometrics, published online 10 May (2009)
A finite mixture survival model to characterize risk groups of neuroblastoma Sally Hunsberger, Paul S. Albert and Wendy B. London Stat. Med. 28:1301-1314 (2009)
Post-rituximab Burkitt transformation of PTLD: loss of CD20 expression accompanied by a switch in light-chain expression Yu-Yan Hwang, Kai Y. Wong, Rock Y. Y. Leung, Simon H. M. Wong, See-Ching Chan, Gopesh Srivastava and Wing Y. Au Annals of Hematology 89(1):1432-0584 (2009)
De novo protein structure generation from incomplete chemical shift assignments Yang Shen, Robert Vernon, David Baker, and Ad Bax J. Biomol. 43(2):63-78 (2009)
In Silico Molecular Engineering for a Targeted Replacement in a Tumor-Homing Peptide. Zanuy D, Flores-Ortega A, Jiménez AI, Calaza MI, Cativiela C, Nussinov R, Ruoslahti E, Alemán C. J. Phys. Chem. B 113(22):7879-89 (2009)

Widespread Reductions of Cortical Thickness in Schizophrenia and Spectrum Disorders and Evidence of Heritability Aaron L. Goldman, Lukas Pezawas, Venkata S. Mattay, Bruce Fischl, Beth A. Verchinski, Qiang Chen, Daniel R. Weinberger, Andreas Meyer-Lindenberg. Archives of General Psychiatry 66(5):467-477 (2009)
Gene Composer: database software for protein construct design, codon engineering, and gene synthesis Don Lorimer, Amy Raymond, John Walchli. Mark Mixon, Adrienne Barrow, Ellen Wallace, Rena Grice, Alex Burgin, Lance Stewart BMC Biotechnology 9:36 (2009)
Available states and available space: static properties that predict self-diffusivity of confined fluids Gaurav Goel, William P Krekelberg, Mark J Pond, Jeetain Mittal, Vincent K Shen, Jeffrey R Errington and Thomas M Truskett J. Stat. Mech., doi:10.1088/1742-5468/2009/04/P04006 (2009)
Identification of cis-regulatory elements in gene co-expression networks using A-GLAM. Mariño-Ramírez L, Tharakaraman K, Bodenreider O, Spouge J, Landsman D. Methods Mol. Biol. 541:1-22 (2009)
Thermostat Artifacts in Replica Exchange Molecular Dynamics Simulations Edina Rosta, Nicolae-Viorel Buchete and Gerhard Hummer J. Chem. Theory and Computation 5(5):1393-1399 (2009)
Pathway analysis by adaptive combination of P-values Kai Yu, Qizhai Li, Andrew W. Bergen, Ruth M. Pfeiffer, Philip S. Rosenberg, Neil Caporaso, Peter Kraft, Nilanjan Chatterjee Genetic Epidemiology 33(8):700-9 (2009)

Comparison of the Extended Isotropic Periodic Sum and Particle Mesh Ewald Methods for Simulations of Lipid Bilayers and Monolayers Richard M. Venable, Linda E. Chen and Richard W. Pastor J. Phys. Chem B 113(17):5855-5862 (2009)
Genetic background comparison using distance-based regression, with applications in population stratification evaluation and adjustment Qizhai Li, Sholom Wacholder, David J. Hunter, Robert N. Hoover, Stephen Chanock, Gilles Thomas, Kai Yu Genetic Epidemiology 33(5):432-441 (2009)
Self-guided langevin dynamics study of regulatory interactions in NtrC Ana Damjanovic, Betrand Garcia-Moreno E., Bernard R. Brooks Proteins: Structure, Function and Bioinformatics 76(4):1007-19 (2009)
Engineered Integrin Binding Peptides Cochran, Jennifer R., Kimura, Richard, Levin, Aron M., Silverman, Adam, Gambhir, Sanjiv S., Cheng, Zhen, Lahti, Jennifer Patent # 12/418376 (2009)
Different Patterns of Regulation for the Copper and Cadmium Metallothioneins of the Ectomycorrhizal Fungus Hebeloma cylindrosporum G. Ramesh, G. K. Podila, G. Gay, R. Marmeisse, and M. S. Reddy App. Env. Microbiology 75(8):2266-2274 (2009)
Hybrid Structural Model of the Complete Human ESCRT-0 Complex Xuefeng Ren, Daniel P. Kloer, Young C. Kim, Rodolfo Ghirlando, Layla F. Saidi, Gerhard Hummer and James H. Hurley Structure 17(3):406-416 (2009)
Combining heterogeneous features for colonic polyp detection in CTC based on semi-definite programming Shijun Wang ; Jianhua Yao ; Nicholas A. Petrick ; Ronald M. Summers SPIE Proceedings, doi:10.1117/12.811219 (2009)
Identification of active sites of biomolecules II: Saccharide and transition metal ion in aqueous solution Coskuner O, Bergeron DE, Rincon L, Hudgens JW, Gonzalez CA. J. Phys. Chem. A 113(11):2491-9 (2009)
Intramolecular Disulfide Bonds of the Prolactin Receptor Short Form are Required for its Inhibitory Action on the Function of the Long form of the Receptor Y-L. Xie, S. A. Hassan, A. M. Qazi, C. H. Tsai-Morris, and M. L. Dufau Mol. Cell. Biol. 29(10):2546-55 (2009)
Adjacency Method for Finding Connected Subsets of a Graph: An Application of Graph Theory to Spatial Statistics Jun Luo, Lan Huang, Mark Hachey, Ram Tiwari Comm. in Stat.: Simulation and Computation 38(5):1136-1151 (2009)
Genetic Studies on Stuttering Families Muhammed Hashim Raza PhD Thesis, University of the Punjab, Lahore, Pakistan (2009)
Large-scale production and characterization of an engineered human olfactory receptor Brian Lee Cook PhD thesis in Biological Engineering at MIT (2009)

Ionic Hydrogen-Bond Networks and Ion Solvation. 1. An Efficient Monte Carlo/Quantum Mechanical Method for Structural Search and Energy Computations: Ammonium/Water Yi-Lei Zhao, Michael Meot-Ner (Mautner) and Carlos Gonzalez J. Phys. Chem. A 113(12):2967-74 (2009)
High-Level Production, Solubilization and Purification of Synthetic Human GPCR Chemokine Receptors CCR5, CCR3, CXCR4 and CX3CR1 Hui Ren, Daoyong Yu, Baosheng Ge, Brian Cook, Zhinan Xu, and Shuguang Zhang PLoS ONE 4(2):e4509 (2009)
A Model for Fine Mapping in Family Based Association Studies Stefan Boehringer and Ruth M. Pfeiffer Hum. Heredit. 67(4):226-236 (2009)
The Factor VIIIa C2 Domain (Residues 2228-2240) Interacts with the Factor IXa Gla Domain in the Factor Xase Complex Tetsuhiro Soeda, Keiji Nogami, Katsumi Nishiya, Masahiro Takeyama, Kenichi Ogiwara, Yoichi Sakata, Akira Yoshioka, and Midori Shima J. Biol. Chem. 284(6):3379-3388 (2009)
Proteomic Analysis of Human Urinary Exosomes Patricia Amalia Gonzales Mancilla PhD thesis, U. Maryland (2009)
Available states and available space: Static properties that predict dynamics of confined fluids Gaurav Goel, William P. Krekelberg, Mark J. Pond, Jeetain Mittal, Vincent K. Shen, Jeffrey R. Errington, Thomas M. Truskett J. Stat. Mech. :P04006 (2009)

Optimizing computer-aided colonic polyp detection for CT colonography by evolving the Pareto front Jiang Li, Adam Huang, Jack Yao, Jiamin Liu, Robert L. Van Uitert, Nicholas Petrick, Ronald M. Summers Medical Physics 36:201-212 (2009)
Rigorous treatment of electrostatics for spatially varying dielectrics based on energy minimization O. I. Obolensky, T. P. Doerr, R. Ray, and Yi-Kuo Yu Bulletin of the American Physical Society 54:P40.00008 (2009)
A coarse-grained model for polyethylene oxide and polyethylene glycol: conformation and hydrodynamics. Lee H, de Vries AH, Marrink SJ, Pastor RW. J. Phys. Chem. B 113(40):13186-94 (2009)
Visual Awareness, Emotion, and Gamma Band Synchronization Qian Luo, Derek Mitchell, Xi Cheng, Krystal Mondillo, Daniel McCaffrey, Tom Holroyd, Frederick Carver, Richard Coppola and James Blair Cerebral Cortex 19(8):1896-1904 (2009)
Bayesian Inference for Smoking Cessation with a Latent Cure State Luo S, Crainiceanu, CM, Louis TA, Chatterjee, N Biometrics 65(3):970-8 (2009)
Bio-Sensing Nanodevice Zhang, Shuguang, Mershin, Andreas, Kaiser, Liselotte, Cook, Brian, Graveland-bikker, Johanna F., Prakash, Manu, Kong, David, Maguire, Yael Patent # 12/183916 (2009)

2008 (102 papers)

Dislocation nucleation during nanoindentation of aluminum R. J. Wagner, L. Ma, F. Tavazza, and L. E. Levine J. Applied Physics 104:114311 (2008)
Pathways and populations: stereoelectronic insights into the exocyclic torsion of 5-(hydroxymethyl) tetrahydropyran. Woodcock HL, Brooks BR, Pastor RW. JACS 130(20):6345-7 (2008)
Biological Entity Recognition with Conditional Random Fields Ying He and Mehmet Kayaalp AMIA Annu Symp Proc. 2008:293-297 (2008)
Lipid bilayer curvature and pore formation induced by charged linear polymers and dendrimers: the effect of molecular shape Hwankyu Lee and Ronald G. Larson J. Phys. Chem. B 112(39):12279-12285 (2008)
The point mutation A34F causes dimerization of GB1. JunGoo Jee, In-Ja L. Byeon, John M. Louis, Angela M. Gronenborn Proteins 71(3):1420-31 (2008)
RAId_DbS: mass-spectrometry based peptide identification web server with knowledge integration Alves G, Ogurtsov AY, Yu YK. BMC Genomics 9:505 (2008)

Enhancing peptide identification confidence by combining search methods. Alves G, Wu WW, Wang G, Shen RF, Yu YK J. Proteome Res. 7(8):3102-13 (2008)
Coarse-grained molecular dynamics studies of the concentration and size dependence of fifth-and seventh-generation PAMAM dendrimers on pore formation in DMPC bilayer Hwankyu Lee and Ronald G. Larson J. Phys. Chem. B 112(26):7778-7784 (2008)
RNA binding activity of the recessive parkinsonism protein DJ-1 supports involvement in multiple cellular pathways Marcel P. van der Brug, Jeff Blackinton, Jayanth Chandran, Ling-Yang Hao, Ashish Lal, Krystyna Mazan-Mamczarz, Jennifer Martindale, Chengsong Xie, Rili Ahmad, Kelly J. Thomas, Alexandra Beilina, J. Raphael Gibbs, Jinhui Ding, Amanda J. Myers, Ming Zhan, Huaibin Cai, Nancy M. Bonini, Myriam Gorospe and Mark R. Cookson PNAS 105(29):10244-10249 (2008)
Influence of the dye presence on the conformational preferences of CREKA, a tumor homing linear pentapeptide. Zanuy D, Curcó D, Nussinov R, Alemán C Biopolymers 92(2):83-93 (2008)
Analysis of Smoking Cessation Patterns Using a Stochastic Mixed-Effects Model With a Latent Cured State Sheng Luo, Ciprian M Crainiceanu, Thomas A Louis, Nilanjan Chatterjee J. Am. Stat. Assoc. 103(483):1002-1013 (2008)
Inference of non-centrality parameter of a truncated non-central chi-squared distribution Qizhai Li and Kai Yu J. Stat. Planning and Inference 139(7):2431-2444 (2008)

Static and dynamic correlations in water at hydrophobic interfaces Jeetain Mittal and Gerhard Hummer PNAS 105:20130-20135 (2008)
Thermodynamics and kinetics of protein folding under confinement Jeetain Mittal and Robert Best PNAS 105(51):20233-8 (2008)
Characterization of a protective Escherichia coli-expressed Plasmodium falciparum merozoite surface protein 3 indicates a non-linear, multi-domain structure Tsai CW, Duggan PF, Jin AJ, Macdonald NJ, Kotova S, Lebowitz J, Hurt DE, Shimp RL Jr, Lambert L, Miller LH, Long CA, Saul A, Narum DL. Mol. Biochem. Parasitol. 164(1):45-56 (2008)
Self-assembly of fused homo-oligomers to create nanotubes Buch I, Tsai CJ, Wolfson HJ, Nussinov R. Methods Mol. Biol. 474:117-31 (2008)
Regulation of a remote Shh forebrain enhancer by the Six3 homeoprotein Yongsu Jeong, Federico Coluccio Leskow, Kenia El-Jaick, Erich Roessler, Maximilian Muenke, Anastasia Yocum, Christele Dubourg, Xue Li, Xin Geng, Guillermo Oliver & Douglas J Epstein Nature Genetics 40:1348-1353 (2008)
Identification of a signature motif in target mRNAs of RNA-binding protein AUF1 Krystyna Mazan-Mamczarz, Yuki Kuwano, Ming Zhan, Elizabeth J. White, Jennifer L. Martindale, Ashish Lal and Myriam Gorospe Nucleic Acids Research 37(1):204-14 (2008)

GRL-02031, a Novel Nonpeptidic Protease Inhibitor (PI) Containing a Stereochemically Defined Fused Cyclopentanyltetrahydrofuran Potent against Multi-PI-Resistant HIV-1 In Vitro Yasuhiro Koh, Debananda Das, Sofiya Leschenko, Hirotomo Nakata, Hiromi Ogata-Aoki, Masayuki Amano, Maki Nakayama, Arun K. Ghosh, and Hiroaki Mitsuya Antimicrob Agents Chemother. 53(3):997-1006 (2008)
A class comparison method with filtering-enhanced variable selection for high-dimensional data sets Lara Lusa, Edward L. Korn, Lisa M. McShane Stat. Med 28:5834-5849 (2008)
Models of voltage-dependent conformational changes in NaChBac channels Shafrir Y, Durell SR, Guy HR. Biophys. J. 95(8):3663-76 (2008)
Prediction of evolutionarily conserved interologs in Mus musculus. Yellaboina S, Dudekula DB, Ko MS. BMC Genomics 9:465 (2008)
Comparing the Use of Gibbs Ensemble and Grand-Canonical Transition-Matrix Monte Carlo Methods to Determine Phase Equilibria Andrew S. Paluch, Vincent K. Shen and Jeffrey R. Errington Ind. Eng. Chem. Res. 47(13):4533-4541 (2008)
Molecular Dynamics Simulations of Perylene and Tetracene Librations: Comparison With Femtosecond Upconversion Data Tilman Rosales, Jianhua Xu, Xiongwu Wu, Milan Hodoscek, Patrik Callis, Bernard R. Brooks and Jay R. Knutson J. Phys. Chem. A 112(25):5593-5597 (2008)
Efficient cell-free production of olfactory receptors: Detergent optimization, structure, and ligand binding analyses Liselotte Kaiser, Johanna Graveland-Bikker, Dirk Steuerwald, Mélanie Vanberghem, Kara Herlihy, and Shuguang Zhang PNAS 105(41):15726-15731 (2008)
Models of Toxic β-Sheet Channels of Protegrin-1 Suggest a Common Subunit Organization Motif Shared with Toxic Alzheimer β-Amyloid Ion Channels. Jang H, Ma B, Lal R, Nussinov R. Biophys. J. 95(10):4631-42 (2008)
Computer Simulation of Ion Cluster Speciation in Concentrated Aqueous Solutions at Ambient Conditions Sergio A. Hassan J. Phys. Chem. B 112:10573-10584 (2008)
Study on allotopic expression of recoded human mitochondrial ND4L genes in mammalian cells Mou-Chieh Kao Master's thesis, National Tsing Hua University, Taiwan (2008)
Considerations for Lipid Force Field Development Jeffery B. Klauda, Richard M. Venable, Alexander D. MacKerell Jr., Richard W. Pastor in Computational Modeling of Membrane Bilayers, in Current Topics in Membranes Vol 60. (2008)
Developmental and epigenetic regulation of the human TLR3 gene Analia Porrás, Sarah Kozar, Valya Russanova, Paraskevi Salpea, Tazuko Hirai, Nicholas Sammons, Pooja Mittal, Ji Young Kim, Keiko Ozato, Roberto Romero and Bruce H. Howard Mol. Immunol. 46(1):27-36 (2008)

Glycosidic linkage conformation of methyl-α-mannopyranoside Orkid Coskuner, Denis E. Bergeron, Luis Rincon, Jeffrey W. Hudgens, and Carlos A. Gonzalez J. Chem. Phys. 129:045102 (2008)
Molecular subtypes of diffuse large B-cell lymphoma arise by distinct genetic pathways. Lenz G, Wright GW, Emre NC, Kohlhammer H, Dave SS, Davis RE, Carty S, Lam LT, Shaffer AL, Xiao W, Powell J, Rosenwald A, Ott G, Muller-Hermelink HK, Gascoyne RD, Connors JM, Campo E, Jaffe ES, Delabie J, Smeland EB, Rimsza LM, Fisher RI, Weisenburger DD, Chan WC, Staudt LM. PNAS 105(36):13520-5 (2008)
Ligand Exchange Reactions in the Formation of Diphosphine-Protected Gold Clusters Denis E. Bergeron, Orkid Coskuner, Jeffrey W. Hudgens, and Carlos A. Gonzalez J. Phys. Chem. C 112(33):12808-12814 (2008)
Evidence That Proline Focuses Movement of the Floppy Loop of Arylalkylamine N-Acetyltransferase (EC 2.3. 1.87) Jiri Pavlicek, Steven L. Coon, Surajit Ganguly, Joan L. Weller, Sergio A. Hassan, Dan L. Sackett, and David C. Klein J. Biol. Chem. 283(21):14552-14558 (2008)
NEIBank: Genomics and bioinformatics resources for vision research Graeme Wistow, Katherine Peterson, James Gao, Patee Buchoff, Cynthia Jaworski, Catherine Bowes-Rickman, Jessica N. Ebright, Michael A. Hauser, and David Hoover Molecular Vision 14:1327-1337 (2008)
mRNA Distribution and Heterologous Expression of Orphan Cytochrome P450 20A1 Katarina Stark, Zhong-Liu Wu, Cheryl J. Bartleson and F. Peter Guengerich Drug Metabolism and Disposition 36(9):1930-1937 (2008)

Molecular dynamics studies of polyethylene oxide and polyethylene glycol: Hydrodynamic radius and shape anisotropy Hwankyu Lee, Richard M. Venable, Alexander D. MacKerell, Jr. and Richard W. Pastor Biophysical Journal 95(4):1590-9 (2008)
Positron Emission Tomography Imaging Using an Inverse Agonist Radioligand to Assess Cannabinoid CB1 Receptors in Rodents Terry G, Liow J-S, Chernet E; Zoghbi SS, Phebus L, Felder CC, Tauscher J, Schaus JM, Pike VW, Halldin C, Innis RB. Neuroimage 41(3):690-8 (2008)
p53-Induced DNA Bending: The Interplay between p53-DNA and p53-p53 Interactions Yongpin Pan, Ruth Nussinov J. Phys. Chem. B 112(21):6716-24 (2008)
11C-Loperamide and its N-desmethyl radiometabolite are avid substrates for brain P-glycoprotein efflux Zoghbi SS, Liow J-S,Yasuno F, Hong J, Tuan E; Lazarova N, Gladding RL; Pike VW, Innis RB J. Nucl. Med. 49(4):649-56 (2008)
CHARMM Force Field Parameters for Nitroalkanes and Nitroarenes Klauda JB, Brooks BR J. Chem. Theory and Computation 4(1):107-115 (2008)
Binding-induced folding of a natively unstructured transcription factor Turjanski, A. G., Gutkind, J.S., Best, R. and Hummer. G. PLoS Computational Biology, e1000060 doi:10.1371 (2008)
Study of a Synthetic Human Olfactory Receptor 17-4: Expression and Purification from an Inducible Mammalian Cell Line Brian L. Cook, Karin E. Ernberg, Hyeyoun Chung, and Shuguang Zhang PLoS One 3(8):e2920 (2008)
Privileged scaffolds targeting reverse-turn and helix recognition Che, Ye & Marshall, Garland. Expert Opinion on Therapeutic Targets 12(1):101-114 (2008)
Genotype, haplotype and copy-number variation in worldwide human populations. Jakobsson M, Scholz SW, Scheet P, Gibbs JR, VanLiere JM, Fung HC, Szpiech ZA, Degnan JH, Wang K, Guerreiro R, Bras JM, Schymick JC, Hernandez DG, Traynor BJ, Simon-Sanchez J, Matarin M, Britton A, van de Leemput J, Rafferty I, Bucan M, Cann HM, Hardy JA, Rosenberg NA, Singleton AB. Nature 451(7181):998-1003 (2008)
Cluster Without Fluster: The Effect of Correlated Outcomes on Inference in Randomized Clinical Trials Proschan MA, Follmann, DA. Statistics in Medicine 27(6):795-809 (2008)
Sigma Stellation: A Design Strategy for Electron Boxes Irikura, Karl K J. Phys. Chem A 112:983-988 (2008)
Coordination Studies of Al-EDTA in Aqueous Solution Orkid Coskuner, Emily A. A. Jarvis J. Phys. Chem. 112(12):2628-2633 (2008)

Layering and Position-Dependent Diffusive Dynamics of Confined Fluids Jeetain Mittal, Thomas M. Truskett, Jeffrey R. Errington, and Gerhard Hummer Phys. Rev. Let. 100:145901 (2008)
Genetic variation in human NPY expression affects stress response and emotion Zhou Z, Zhu G, Hariri AR, Enoch MA et al. Nature, doi: 10.1038/nature06858 (2008)
Addictions biology: haplotype-based analysis for 130 candidate genes on a single array Hodgkinson CA, Yuan Q, Xu K, Shen PH, Heinz E, Lobos EA, Binder EB, Cubells J, Ehlers CL, Gelernter J, Mann J, Riley B, Roy A, Tabakoff B, Todd RD, Zhou Z, Goldman D. Alcohol and Alcoholism, doi: 10.1093/alcalc/agn032 (2008)
Common Genetic Origins for EEG, Alcoholism and Anxiety: The Role of CRH-BP Enoch MA, Shen PH, Ducci F, Yuan Q, Liu J, White KV, Albaugh B, Hodgkinson CA, Goldman D. PLoS One, doi: 10.1371/journal.pone.0003620 (2008)
Comprehensive Structural Studies of 2', 3'-Difluorinated Nucleosides: Comparison of Theory, Solution, and Solid State Joseph J. Barchi, Jr., Rajeshri G. Karki, Marc C. Nicklaus, Maqbool A. Siddiqui, Clifford George, Igor A. Mikhailopulo and Victor E. Marquez J. Am. Chem. Soc. 130(28):9048-9057 (2008)
A template-finding algorithm and a comprehensive benchmark for homology modeling of proteins Vallat BK, Pillardy J, Elber R. Proteins 72(3):910-28 (2008)

MAX-rank: a simple and robust genome-wide scan for case-control association studies. Li Q, Yu K, Li Z, Zheng G. Hum. Genet. 123(6):617-23 (2008)
Backbone relaxation coupled to the ionization of internal groups in proteins: A self-guided Langevin dynamics study Ana Damjanovic, Xiongwu Wu, Bertrand Garcia-Moreno and Bernard R Brooks Biophys. J. 95(9):4091-101 (2008)
The Cytoplasmic Terminus of Kaposi's Sarcoma-Associated Herpesvirus Glycoprotein B Is Not Essential for Virion Egress and Infectivity{triangledown} R. Subramanian, O. D'Auvergne, Haixia Kong, and K. G. Kousoulas J. Virol. 82(14):7144-7154 (2008)
Expression and purification of orphan cytochrome P450 4X1 and oxidation of anandamide Stark K, Dostalek M, Guengerich FP. FEBS J. 275(14):3706-17 (2008)
Towards an automatic classification of protein structural domains based on structural similarity Sam V, Tai CH, Garnier J, Gibrat JF, Lee B, Munson PJ. BMC Bioinformatics 9(1):74 (2008)
Endogenous retrotransposon sequences of the Schistosoma mansoni intermediate snail host, Biomphalaria glabrata Knight M, Bridger J, Ittiprasert W, Odoemelam E, Masabanda J, Miller A, Raghavan, N. Mobile Genetic Elements in Metazoan Para, Brindley PJ (ed). Landes Bioscience, in press. (2008)
The Imaging Probe Development Center and the Production of Molecular Imaging Probes Gary L Griffiths Curr. Chem. Genomics 1:65-69 (2008)
On estimating diagnostic accuracy from studies with multiple raters and partial gold standard evaluation Paul S. Albert and Lori E Dodd J. Am. Stat. Assoc 103(481):61-73 (2008)
In Situ Gas Phase Diagnostics for Hafnium Oxide Atomic Layer Deposition J.E. Maslar, W.S. Hurst, D.R. Burgess, W.A. Kimes, N.V. Nguyen, E.F. Moore, J.T. Hodges ECS Transactions 13(2):139-149 (2008)
Differences in Cysteine Protease Activity in Schistosoma mansoni-Resistant and-Susceptible Biomphalaria glabrata and Characterization of the Hepatopancreas Cathepsin B Full-length cDNA Jocelyn Myers, Wannaporn Ittiprasert, Nithya Raghavan, André Miller, and Matty Knight J. Parasitol. 94:3:659-668 (2008)
Molecular architecture of native HIV-1 gp 120 trimers Jun Liu, Alberto Bartesaghi, Mario J. Borgnia, Guillermo Sapiro & Sriram Subramaniam Nature 455:109-113 (2008)
Dissecting contact potentials for proteins: relative contributions of individual amino acids Buchete NV, Straub JE, Thirumalai D. Proteins 70(1):119-30 (2008)

Synthesis and evaluation of N-Methyl and S-Methyl 11C-Labeled 6-Methylthio-2-(4'-N,N-dimethylamino)phenylimidazo[1,2-a]pyridines as radioligands for imaging beta-amyloid plaques in Alzheimer's disease Cai L, Liow JS, Zoghbi SS, Cuevas J, Baetas C, Hong J, Shetty HU, Seneca NM, Brown AK, Gladding R, Temme SS, Herman MM, Innis RB, Pike VW. J. Med. Chem. 51(1):148-58 (2008)
Residual multiparticle entropy does not generally change sign near freezing Krekelberg WP, Shen VK, Errington JR, Truskett TM. J. Chem. Phys. 128(16):161101 (2008)
Synthesis and pharmacological effects of the enantiomers of the N-phenethyl analogues of the ortho and para e-and f-oxide-bridged phenylmorphans Josef Zezula, Lisa Singer, Anna K. Przyby, Akihiro Hashimoto, Christina M. Dersch, Richard B. Rothman, Jeffrey Deschamps, Yong Sok Lee, Arthur E. Jacobson and Kenner C. Rice Org. and Biomol. Chem. 6:2868-2883 (2008)
A pseudopotential for improving the packing of ellipsoidal protein structures determined by NMR C.D. Schwieters and G.M. Clore. J. Phys. Chem 112(19):6070-6073 (2008)
PCR-based gene synthesis to produce recombinant proteins for crystallization Damien Marsic, Ronny C Hughes, Miranda L Byrne-Steele and Joseph D Ng BMC Biotechnology 8:44 (2008)
Dynamics of Cholesterol Exchange in the OSBP-Related Protein Family Canagarajah, B., Hummer, G., Prinz, W. and Hurley, J. H. J. Mol. Biol. 378(3):737-48 (2008)

Population Substructure and Control Selection in Genome-Wide Association Studies Kai Yu, Zhaoming Wang, Qizhai Li, Sholom Wacholder, David J. Hunter, Robert N. Hoover, Stephen Chanock, and Gilles Thomas PLoS One 3(7):2551 (2008)
Testing logistic regression coefficients with clustered data and few positive outcomes Sally Hunsberger, Ed Korn, and Barry Graubard. Statistics in Medicine 27(8):1305-24 (2008)
Host Control of Malaria Infections: Constraints on Immune and Erythropoeitic Response Kinetics McQueen PG, McKenzie FE PLoS Computational Biology 4(8):e1000149 (2008)
Identification of the transition states in the inversion of 1, 4-benzodiazepines with the Ab Initio Replica Path Method Yong-Sok Lee, Victor W. Pike, and Milan Hodoscek. J. Phys. Chem A 112:1604-1611 (2008)
A frailty mixture cure model with application to hospital readmission cata Yu, B. Biometrical J. 50(3):386-94 (2008)
Efficient Approximation of P-value of the Maximum of Correlated Tests, with Applications to Genome-Wide Association Studies. Li Q.Z., Zheng G., Li Z.H. and Yu K. Annals of Human Genetics 72(3):397-406 (2008)

Probing potential binding modes of the p53 tetramer to DNA based on the symmetries encoded in p53 response elements Ma B, Levine AJ. Nucleic Acids Research 35(22):7733-7747 (2008)
Improved Classifier for Computer-aided Polyp Detection in CT Colonography by Nonlinear Dimensionality Reduction Shijun Wang, Jianhua Yao and Ronald M. Summers Med. Phys. 35(4):1377-86 (2008)
β2-microglobulin amyloid fragment organization and morphology and its comparison to Aβ suggests that amyloid aggregation pathways are sequence specific Zheng J, Jang H, Nussinov R. Biochemistry. Feb 26;47(8):2497-2509 (2008)
Morphology of Ion Clusters in Aqueous Electrolytes SA Hassan. Phys. Rev. E 77:03151 (2008)
Involvement of the second extracellular loop and transmembrane residues of CCR5 in inhibitor binding and HIV-1 fusion: insights into the mechanism of allosteric inhibition Maeda K, Das D, Yin PD, Tsuchiya K, Ogata-Aoki H, Nakata H, Norman RB, Hackney LA, Takaoka Y, Mitsuya H. J. Mol. Biol. 381:956-974 (2008)
Are Current Molecular Dynamics Force Fields too Helical? Robert B Best, Nicolae-Viorel Buchete and Gerhard Hummer Biophysical Letters 95(1):L07-9 (2008)
Concentration and crowding effects on protein stability from a coarse-grained model J. K. Cheung, V. K. Shen, J. R. Errington, and T. M. Truskett. in Statistical Mechanics of Cellular System, MH Zaman ed, Cambridge University Press. (2008)
Heritability of brain morphology related to schizophrenia: a large-scale automated magnetic resonance imaging segmentation study Goldman AL, Pezawas L, Mattay VS, Fischl B, Verchinski BA, Zoltick B, Weinberger DR, Meyer-Lindenberg A. Biol. Psychiatry 63(5):475-83 (2008)
Models of the Structure and Gating Mechanisms of the Pore Domain of the NaChBac Ion Channel Yinon Shafrir, Stewart R Durell and H. Robert Guy Biophys. J. 95(8):3650-62 (2008)
NIST Computational Chemistry Comparison and Benchmark Database Some of the calculations in the CCBD were performed by Russell Johnson on the Biowulf cluster. (2008)
Modeling Longitudinal Biomarker Data from Multiple Assays that Have Different Known Detection Limits Paul S. Albert Biometrics 64:527-537 (2008)
Application of 1-Aminocyclohexane Carboxylic Acid to Protein Nanostructure Computer Design. Rodriguez-Ropero F, Zanuy D, Casanovas J, Nussinov R, Aleman C. J Chem Inf Model. 48(2):333-43 (2008)

Calcium-dependent inactivation terminates calcium release in skeletal muscle of amphibians Eduardo Rios, Jingsong Zhou, Gustavo Brum, Bradley S. Launikonis, and Michael D. Stern. J. Gen. Physiol. 131(4):335-48 (2008)
Classification and 3D averaging with missing wedge correction in biological electron tomography A. Bartesaghi, P. Sprechmann, J. Liu, G. Randall, G. Sapiro and S. Subramaniam J. Struct. Biol. 162(3):436-450 (2008)
Detection of co-eluted peptides using database search methods Gelio Alves, Aleksey Y Ogurtsov, Siwei Kwok, Wells W Wu, Guanghui Wang, Rong-Fong Shen, and Yi-Kuo Yu Biol. Direct. 3:27 (2008)
Coarse Master Equations for Peptide Folding Dynamics N.V. Buchete and G. Hummer. J. Phys. Chem. B 112(19):6057-69 (2008)
Interfacial polar interactions affect gramicidin channel kinetics Rostovtseva, TK; Petrache, HI; Kazemi, N; Hassanzadeh, E; Bezrukov, SM; Biophys. J., DOI://10.1529/biophysj.107.120261 (2008)
Effective approaches for the production of heterologous proteins using the Thermococcus kodakaraensis-based translation system Takashi Endoha, Tamotsu Kanaia and Tadayuki Imanaka J. Biotech. 133(2):177-182 (2008)
Metabolic engineering of Escherichia coli for biosynthesis of hyaluronic acid Huimin Yua and Gregory Stephanopoulos Metabolic Engg. 10(1):24-32 (2008)
Identification of the Active Sites of Biomolecules I: Methyl-alpha-mannopyranoside and Fe(III) Orkid Coskuner, Denis E. Bergeron, Luis Rincon, Jeffrey W. Hudgens, Carlos A. Gonzalez J. Phys. Chem. A 112(3):2940-2947 (2008)
New structures help the modeling of toxic amyloidβ ion channels Jang H, Zheng J, Lal R, Nussinov R. Trends Biochem Sci. Feb;33(2):91-100 (2008)
Peptide folding kinetics from replica exchange molecular dynamics Nicolae-Viorel Buchete and Gerhard Hummer Phys. Rev. E 77:030902 (2008)
Structure and dynamics of Helix-0 of the N-BAR domain in Lipid Micelles and Bilayers Christian Löw, Ulrich Weininger, Hwankyu Lee, Kristian Schweimer, Ines Neundorf, Annette G. Beck-Sickinger, Richard W. Pastor and Jochen Balbach Biophys. J. 95(9):4315-23 (2008)
Reactions of Glyceraldehyde 3-Phosphate Dehydrogenase Sulfhydryl Groups with Bis-Electrophiles Produce DNA-Protein Cross-Links but Not Mutations Elisabeth M. Loecken and F. Peter Guengerich Chem. Res. Toxicol. 21(2):453-358 (2008)

2007 (82 papers)

Validating Pareto optimal operation parameters of polyp detection algorithms for CT colonography Jiang Li ; Adam Huang ; Nicholas Petrick ; Jianhua Yao ; Ronald M. Summers Proc. SPIE 6514, Medical Imaging 2007, doi:10.1117/12.707965 (2007)
Multiple comparisons distortions of parameter estimates Jeffries, NO. Biostatistics 8(2):500-4 (2007)
Engineering Metal Complexes of Chiral Pentaazacrowns as Privileged Reverse-turn Scaffolds. Y Che, Bernard Brooks, Dennis P Riley, Andrea JH Reaka, Garland R Marshall. Chemical Biology & Drug Design 69 (2) : 99-110 (2007)
RAId_DbS: Peptide identification using database searches with realistic statistics Alves G, Ogurtsov AY, Yu YK. Biol. Direct. 2:25 (2007)
Cysteine-cysteine contact preference leads to target-focusing in protein folding Sardiu ME, Cheung MS, Yu YK. Biophys. J. 93(3):938-51 (2007)
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project The ENCODE Project Consortium Nature 447:799-816 (2007)

The structure of receptor-associated protein (RAP) Donghan Lee, Joseph D. Walsh, Molly Migliorini, Ping Yu Tao Cai, Charles D. Schwieters, Susan Krueger, Dudley K. Strickland, and Yun-Xing Wang. Protein Science 16:1628-1640 (2007)
Accounting for Variability in Sample Size Estimation with Applications to Nonadherence and Estimation of Variance and Effect Size Fay, MP, Halloran, ME, Follmann, DA. Biometrics 63(2): 465-474 (2007)
Modeling the Alzheimer A β 17-42 Fibril Architecture: Tight Intermolecular Sheet-Sheet Association and Intramolecular Hydrated Cavities Zheng J, Jang H, Ma B, Tsai CJ, Nussinov R. Biophys. J. 93(9):3046-57 (2007)
Molecular and functional analyses of a novel class I secretory nuclease from the human pathogen, Leishmania donovani Joshi MB, Dwyer DM. J. Biol. Chem. 282(13):10079-95 (2007)
Induction of Epitope-Specific Neutralizing Antibodies against West Nile Virus Theodore Oliphant, Grant E. Nybakken, S. Kyle Austin, Qing Xu, Jonathan Bramson, Mark Loeb, Mark Throsby, Daved H. Fremont, Theodore C. Pierson, and Michael S. Diamond J. Virol. 81(21):11828-11839 (2007)
Ab Initio Modeling of Glycosyl Torsions and Anomeric Effects in a Model Carbohydrate: 2-Ethoxy Tetrahydropyran H. Lee Woodcock, Damian Moran, Richard W. Pastor, Alexander D. MacKerell, Jr. and Bernard R. Brooks Biophys. J. 93:1-10 (2007)
Analysis of failure time data with multilevel clustering, with application to the child vitamin a intervention trial in Nepal Shih JH, Lu SE. Biometrics 63(3):673-80 (2007)
Liquid-structure forces and electrostatic modulation of biomolecular interactions in solution SA Hassan. J. Phys. Chem B 111(1):227-41 (2007)
Natural resonance structures and aromaticity of the nucleobases Guangyu Sun & Marc Nicklaus. Theoretical Chemistry Accounts: Theory, 117(2): 323-332 (2007)
Understanding the structural and functional differences between mouse thyrotropin-releasing hormone receptors 1 and 2 Francesca Deflorian, Stanislav Engel, Anny-Odile Colson, Bruce M. Raaka, Marvin C. Gershengorn, Stefano Costanzi Proteins: Structure, Function and Bioinf 71(2):783 - 794 (2007)
Stability of Tubular Structures Based on β-Helical Proteins: Self-Assembled versus Polymerized Nanoconstructs and Wild-Type versus Mutated Sequences David Zanuy, Francisco Rodríguez-Ropero, Nurit Haspel, Jie Zheng, Ruth Nussinov, and Carlos Alem´n BIomacromolecules 8(10):3135-3146 (2007)
N-Nitrosation of amines by NO2 and NO: A theoretical study Yi-Lei Zhao, Stephen L. Garrison, Carlos Gonzalez, William David Thweatt, and Manuel Marquez J. Phys. Chem. A 111(11):2200-2205 (2007)
Exploring SCC-DFTB Paths for Mapping QM/MM Reaction Mechanisms H. Lee Woodcock, Milan Hodošček, and Bernard R. Brooks J. Phys. Chem A 111(26):5720-5728 (2007)
Comparative Study of the Effect of Tail Corrections on Surface Tension Determined by Molecular Simulation V. K. Shen, R. D. Mountain, and J. R. Errington. J. Phys. Chem B 111:6198 (2007)
A genome-wide genotyping study in patients with ischaemic stroke: initial analysis and data release. Matarin M, Brown WM, Scholz S, Simon-Sanchez J, Fung HC, Hernandez D, Gibbs JR, De Vrieze FW, Crews C, Britton A, Langefeld CD, Brott TG, Brown RD Jr, Worrall BB, Frankel M, Silliman S, Case LD, Singleton A, Hardy JA, Rich SS, Meschia JF. Lancet Neurol. 6(5):414-20 (2007)
A physical picture of atomic motions within the Dickerson DNA dodecamer in solution derived from joint ensemble refinement against NMR and large-angle X-ray scattering data. Schwieters CD, Clore GM. Biochemistry 46(5):1152-66 (2007)
Sugar binding in lactose permease: anomeric state of a disaccharide influences binding structure. Klauda JB, Brooks BR. J Mol Biol. 367(5):1523-34 (2007)
Using Pareto fronts to evaluate polyp detection algorithms for CT colonography Adam Huang ; Jiang Li ; Ronald M. Summers ; Nicholas Petrick ; Amy K. Hara Medical Imaging: Computer-Aided Diagnosis, doi:10.1117/12.709426 (2007)

Spiral structure of Escherichia coli HUαβ provides foundation for DNA supercoiling Fusheng Guo and Sankar Adhya PNAS 104:4309-4314 (2007)
Two-sample Comparison Based on Prediction Error, with Applications to Candidate Gene Association Studies K. Yu, R. Martin, N. Rothman, T. Zheng, Q. Lan. Annals of Human Genetics 71 (1) :107- 118 (2007)
Preferred conformation of the glycosidic linkage of methyl-beta-mannose Coskuner O. J. Chem. Phys 127(1):015101 (2007)
Structure and Dynamics of Parallel β-Sheets, Hydrophobic Core, and Loops in Alzheimer's A β Fibrils Buchete NV, Hummer G. Biophys. J. 92(9):3032-9 (2007)
Molecular dynamics simulation of the P2Y14 receptor. Ligand docking and identification of a putative binding site of the distal hexose moiety Ivanov, A. A.; Fricks, I; Harden, T. K.; Jacobson, K. A. Bioorg. Med. Chem. Lett. 17:761-766 (2007)
Calculation of the Free Energy and Cooperativity of Protein Folding Kentsis A, Gindin T, Mezei M, Osman R. PLoS One 2:e446 (2007)
Coarse-grained strategy for modeling protein stability in concentrated solutions. III: directional protein interactions J. K. Cheung, V. K. Shen, J. R. Errington, and T. M. Truskett. Biophys. J. 92:4316 (2007)
Context-specific amino acid substitution matrices and their use in the detection of protein homologs Goonesekere NC, Lee B. Proteins 71(2):910-919 (2007)
The Origin of Quantal Size Variation: Vesicular Glutamate Concentration Plays a Significant Role Xin-Sheng Wu, Lei Xue, Raja Mohan, Kenneth Paradiso, Kevin D. Gillis, and Ling-Gang Wu. J. Neurosc. 27(11):3046-3056 (2007)
In Situ Monitoring of Hafnium Oxide Atomic Layer Deposition J.E. Maslar, W.S. Hurst, D.R. Burgess, Jr., W.A. Kimes, N.V. Nguyen, and E.F. Moore Frontiers of Char. and Metr. for Nanoelectrics (2007)
Challenges in Projecting Clustering Results Across Gene Expression-Profiling Datasets Lara Lusa, Lisa M. McShane, James F. Reid, Loris De Cecco, Federico Ambrogi, Elia Biganzoli, Manuela Gariboldi, Marco A. Pierotti. J. National Cancer Institute 99(22): 1715-1723 (2007)
The bootstrap variance of the square of a sample mean Dodd, LE and Korn, EL. The American Statistician. 1(2):127-131 (2007)

qPrimerDepot: a primer database for quantitative real time PCR Wenwu Cui, Dennis D. Taub and Kevin Gardner Nucleic Acids Research 35:D805-D809 (2007)
Probes for Narcotic Receptor Mediated Phenomena. 34. Synthesis and Structure-Activity Relationships of a Potent μ-Agonist δ-Antagonist and an Exceedingly Potent Antinociceptive in the Enantiomeric C9-Substituted 5-(3-Hydroxyphenyl)-N-phenylethylmorphan Series Anne-C�cile Hiebel, Yong Sok Lee, Edward Bilsky, Denise Giuvelis, Jeffrey R. Deschamps, Damon A. Parrish, Mario D. Aceto, Everette L. May, Louis S. Harris, Andrew Coop, Christina M. Dersch, John S. Partilla, Richard B. Rothman, Kejun Cheng, Arthur E. Jacobson, and Kenner C. Rice J. Med. Chem. 50(16):3765-3776 (2007)
Effects of Chain Length on the Rates of CC Bond Dissociation in Linear Alkanes and Polyethylene Knyazev V J. Phys. Chem. A 111(19):3875-83 (2007)
Molecular modeling of the human P2Y2 receptor and design of a selective agonist, 2'-amino-2'-deoxy-2-thiouridine 5'-triphosphate. Ivanov AA, Ko H, Cosyn L, Maddileti S, Besada P, Fricks I, Costanzi S, Harden TK, Calenbergh SV, Jacobson KA. J. Med. Chem 50(6):1166-76 (2007)
Testing β-helix terminal coils stability by targeted substitutions with non-proteogenic amino acids: A molecular dynamics study D. Zanuy, F. Rodriguez-Ropero, R. Nussinov, C. Aleman. J. Struct. Biol. 160(2): 177-189 (2007)
Nanostructure Design Using Protein Building Blocks Enhanced by Conformationally Constrained Synthetic Residues Zheng J, Zanuy D, Haspel N, Tsai CJ, Alem C and Nussinov R. Biochemistry 46(5):1205 -1218 (2007)
Substrate-induced Conformational Changes and Dynamics of UDP-N-Acetylgalactosamine: Polypeptide N-Acetylgalactosaminyltransferase-2 Adina L Milac, Nicolae-Viorel Buchete, Timothy A Fritz, Gerhard Hummer, Lawrence A Tabak J. Mol. Biol. Oct 19;373(2):439-51 (2007)
A 2-Year Prospective Study of Human Papillomavirus Persistence among Women with a Cytological Diagnosis of Atypical Squamous Cells of Undetermined Significance or Low-Grade Squamous Intraepithelial Lesion Plummer M, Schiffman M, Castle PE, Maucort-Boulch D, Wheeler CM; ALTS Group. J Infect Dis. 195(11):1582-9 (2007)
Nimbus( BgI): An active non-LTR retrotransposon of the Schistosoma mansoni snail host Biomphalaria glabrata Raghavan N, Tettelin H, Miller A, Hostetler J, Tallon L, Knight M. Int. J. Parasitol. 37(12):1307-18 (2007)
Competition between Hydrogen Abstraction and Halogen Displacement in the Reaction of Br with CH3I, CH3Br, and CH3Cl Irikura, Karl K.; Francisco, J. S. J. Phys. Chem 111:6852-6859 (2007)
Elucidation of a C-Rich Signature Motif in Target mRNAs of RNA-Binding Protein TIAR Kim HS, Kuwano Y, Zhan M, Pullmann R Jr, Mazan-Mamczarz K, Li H, Kedersha N, Anderson P, Wilce MC, Gorospe M, Wilce JA. Mol. Cell. Biol. 27(19):6806-17 (2007)
Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4 Fishelovitch D, Hazan C, Shaik S, Wolfson HJ, Nussinov R. J Am Chem Soc. 14;129(6):1602-11 (2007)

Limits on variations in protein backbone dynamics from precise measurements of scalar couplings Vogeli B, Ying J, Grishaev A, Bax A. J. Am. Chem. Soc 129(30):9377-85 (2007)
Effects of chain length on the rates of C-C bond dissociation in linear alkanes and polyethylene Knyazev, VD J Phys Chem A, DOI://10.1021/jp066419e (2007)
Identification and regional distribution in rat brain of radiometabolites of the dopamine transporter PET radioligand [11C]PE2I Shetty HU, Zoghbi SS, Liow JS, Ichise M, Hong J, Musachio JL, Halldin C, Seidel J, Innis RB, Pike VW. Eur. J. Nucl. Med. Mol. Imaging 34(5):667-78 (2007)
Effect of a P-glycoprotein inhibitor, Cyclosporin A, on the disposition in rodent brain and blood of the 5-HT1A receptor radioligand, [11C](R)-(-)-RWAY Liow JS, Lu S, McCarron JA, Hong J, Musachio JL, Pike VW, Innis RB, Zoghbi SS. Synapse 61(2):96-105 (2007)
Electron Transport Pathway for a Streptomyces Cytochrome P450: Cytochrome P450 105D5-catalyzed fatty acid hydroxylation in Streptomyces Coelicolor A3 (2) Young-Jin Chun, Tsutomu Shimada, Raymundo Sanchez-Ponce, Martha V. Martin, Li Lei, Bin Zhao, Steven L. Kelly, Michael R. Waterman, David C. Lamb and F. Peter Guengerich J. Biol. Chem. 282:17486-17500 (2007)
A detailed transcript-level probe annotation reveals alternative splicing based microarray platform differences Joseph C Lee, David Stiles, Jun Lu, and Margaret C Cam. BMC Genomics 8: 284 (2007)
Genome-wide genotyping in amyotrophic lateral sclerosis and neurologically normal controls: first stage analysis and public release of data. Schymick JC, Scholz SW, Fung HC, Britton A, Arepalli S, Gibbs JR, Lombardo F, Matarin M, Kasperaviciute D, Hernandez DG, Crews C, Bruijn L, Rothstein J, Mora G, Restagno G, Chio A, Singleton A, Hardy J, Traynor BJ. Lancet Neurol. 6(4):322-8 (2007)
The LeFE algorithm, embracing the complexity of gene expression in the interpretation of microarray data Eichler, GS, Reimers, M, Kane, D, Weinstein, JN. Genome Biology 8(9):R185 (2007)
Imputation Approaches for Estimating Diagnostic Accuracy for Multiple Tests from Partially Verified Designs Paul S. Albert. Biometrics 63:947-957 (2007)
An investigation of two multivariate permutation methods for controlling the false discovery proportion Edward L. Korn , Ming-Chung Li , Lisa M. McShane and Richard Simon. Statistics in Medicine 26:4428-4440 (2007)
A survey of genetic human cortical gene expression Myers AJ, Gibbs JR, Webster JA, Rohrer K, Zhao A, Marlowe L, Kaleem M, Leung D, Bryden L, Nath P, Zismann VL, Joshipura K, Huentelman MJ, Hu-Lince D, Coon KD, Craig DW, Pearson JV, Holmans P, Heward CB, Reiman EM, Stephan D, Hardy J. Nature Genetics 39(12):1494-9 (2007)
Changing the Charge Distribution of β-Helical-Based Nanostructures Can Provide the Conditions for charge transfer. Haspel N, Zanuy D, Zheng J, Aleman C, Wolfson H, Nussinov R. Biophys. J. 93(1):245-53 (2007)

Similar Binding Sites and Different Partners: Implications to Shared Proteins in Cellular Pathways Keskin O and Nussinov R. Structure 15:341-354 (2007)
Random Effects Modeling Approaches for Estimating ROC Curves from Repeated Ordinal Tests without a Gold Standard Paul Albert. Biometrics 63:593-602 (2007)
Conformational study of the protegrin-1 (PG-1) dimer interaction with lipid bilayers and its effect. Jang H, Ma B, Nussinov R. BMC Struct Biol. 2;7:21 (2007)
Molecular factors and biochemical pathways induced by febrile temperature in intraerythrocytic Plasmodium falciparum parasites Miranda S. M. Oakley, Sanjai Kumar, Vivek Anantharaman, Hong Zheng, Babita Mahajan, J. David Haynes, J. Kathleen Moch Rick Fairhurst Thomas F. McCutchan and L. Aravind. Infection and Immunity 75: 2012-2025 (2007)
Expression and Purification of Recombinant Wheat Translation Initiation Factors eIF1, eIF1A, eIF4A, eIF4B, eIF4F, eIF(iso)4F, and eIF5 Laura K. Mayberry, Michael D. Dennis, M. Leah Allen, Kelley Ruud Nitka, Patricia A. Murphy, Lara Campbell and Karen S. Browning Methods in Enzymology 430:397-408 (2007)
N-MYC Regulates Focal Adhesion Kinase Expression in Human Neuroblastoma Elizabeth A. Beierle, Angelica Trujillo, Abhilasha Nagaram, Elena V. Kurenova, Richard Finch, Xiaojie Ma, Jennifer Vella, William G. Cance and Vita M. Golubovskaya J. Biol. Chem. 282:12503-12516 (2007)

Calibrating E-values for MS2 database search methods Alves G, Ogurtsov AY, Wu WW, Wang G, Shen RF, Yu YK. Biol. Direct. 2:26 (2007)
Structural basis for p53 binding-induced DNA bending. Pan Y, Nussinov R. J Biol Chem. 5;282(1):691-9 (2007)
Confinement, entropy, and single-particle dynamics of equilibrium hard-sphere mixtures. Mittal J, Shen VK, Errington JR, Truskett TM. J Chem Phys. Oct 21;127(15):154513 (2007)
An Evaluation of Power and Type I Error of Single-Nucleotide Polymorphism Transmission/Disequilibrium-Based Statistical Methods under Different Family Structures, Missing Parental Data, and Population Stratification Kristin K. Nicodemus Augustin Luna and Yin Yao Shugart. Am. J. Hum. Genet. 80:178-185 (2007)
Density functional theory study of the clean and hydrated hematite (1[overline 1]02) surfaces Cynthia S. Lo, Kunaljeet S. Tanwar, Anne M. Chaka, and Thomas P. Trainor Phys. Rev. B 75(7):209901 (2007)
Density-functional study of magnetism in bare Au nanoclusters: Evidence of permanent size-dependent spin polarization without geometry relaxation Magyar, R. J.; Mujica, V.; Marquez, M.; Gonzalez, C. Phys. Rev. B 75(14):14421 (2007)
Optimized clonotypic analysis of T-cell receptor repertoire in immune reconstitution Packer AN, Muraro PA. Exp. Hematol. 35(3):516-21 (2007)
Neural dynamics for facial threat processing as revealed by gamma band synchronization using MEG Qian Luo, Tom Holroyd, Matthew Jones, Talma Hendler and James Blair Neuroimage 34:839-847 (2007)
Interfacing Q-Chem and CHARMM to perform QM/MM reaction path calculations. Woodcock HL 3rd, Hodoscek M, Gilbert AT, Gill PM, Schaefer HF 3rd, Brooks BR. J. Comput. Chem 28(9):1485-502 (2007)
Intrinsic Conformational Characteristics of α, α-Diphenylglycine Casanovas J, Zanuy D, Nussinov R, Aleman C. J. Org. Chem. 16;72(6):2174-81 (2007)
Identification and Biochemical Characterization of Unique Secretory Nucleases of the Human Enteric Pathogen, Entamoeba histolytica Glen C. McGugan, Jr., Manju B. Joshi, and Dennis M. Dwyer J. Biol. Chem. 282(43):31789-31802 (2007)
Use of constrained synthetic amino acids in β-helix proteins for conformational control. Zanuy D, Jimenez AI, Cativiela C, Nussinov R, Aleman C. J Phys Chem B. 111(12):3236-42 (2007)

Models of β-amyloid ion channels in the membrane suggest that channel formation in the bilayer is a Dynamic Process. Jang H, Zheng J, Nussinov R. Biophys. J. 93(6):1938-49 (2007)
Structures of the CCR5 N Terminus and of a Tyrosine-Sulfated Antibody with HIV-1 gp120 and CD4 Chih-chin Huang, Son N. Lam, Priyamvada Acharya, Min Tang, Shi-Hua Xiang, Syed Shahzad-ul Hussan, Robyn L. Stanfield, James Robinson, Joseph Sodroski, Ian A. Wilson, Richard Wyatt, Carole A. Bewley, Peter D. Kwong Science 317:1930-1934 (2007)
Protein recognition motifs: Design of peptidomimetics of helix surfaces Ye Che, Bernard Brooks, Garland R Marshall. Biopolymers 86(4):288 - 297 (2007)
Water dissociation in the presence of metal ions Coskuner O, Jarvis EA, Allison TC. Angew. Chem. Int. Ed 46(41): 7853 (2007)

2006 (57 papers)

Functionalized Self-Assembled Monolayers on Ultraflat Gold as Platforms for Single Molecule Force Spectroscopy and Imaging Yadavalli VK, Forbes JG, Wang K. Langmuir 22(16):6969-76 (2006)
Kinetic Study of the Gas-Phase Reaction of OH with Br2 Mikhail G. Bryukov, Barry Dellinger, and Vadim D. Knyazev J. Phys. Chem. A 110(29):9169-9174 (2006)
Surface-modulated motion switch: Capture and release of iron-sulfur protein in the cytochrome bc₁ complex Lothar Esser, Xing Gong, Shaoqing Yang, Linda Yu, Chang-An Yu and Di Xia PNAS 103(35):13045-13050 (2006)
System size and control parameter effects in reverse perturbation nonequilibrium molecular dynamics Mountain RD. J Chem Phys. 124(10):104109 (2006)
Membrane biophysics Joshua Zimmerberg. Current Biology 16:R272-R276 (2006)
De Novo Tubular Nanostructure Design Based on Self-Assembly of β-Helical Protein Motifs Nurit Haspel, David Zanuy, Carlos Alemán, Haim Wolfson and Ruth Nussinov Structure 14(7):1137-1148 (2006)
Structure by design: from single proteins and their building blocks to nanostructures Tsai C-J, Zheng J, Aleman C, Nussinov R. Trends in Biotechnoloy 24:449-454 (2006)
Constant surface tension molecular dynamics simulations of lipid bilayers with trehalose R. M. Venable, A. Skibinsky and R. W. Pastor. Molecular Simulation 32:849-855 (2006)

Effects of electric fields on proton transport through water chains S A Hassan, G Hummer and Y S Lee J. Chem. Phys 124:204510 (2006)
The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements MAQC Consortium. Nature Biotechnology 24: 1151 - 1161 (2006)
Global similarity and local divergence in human and mouse gene co-expression networks. Tsaparas, P., Marino-Ramirez, L., Bodenreider, O., Koonin, E. V. and Jordan, I. K. BMC Evol Biol. 6:70 (2006)
Concordance of residual dipolar couplings, backbone order parameters and crystallographic B-factors for a small alpha/beta protein: a unified picture of high probability, fast atomic motions in proteins Clore GM, Schwieters CD. J. Mol. Biol. 355(5):879-86 (2006)
Determination of surface tension in binary mixtures using transition-matrix Monte Carlo V. K. Shen and J. R. Errington. J. Chem. Phys 124:24721 (2006)
Genes involved in DNA repair and nitrosamine metabolism and those located on chromosome 14q32 are dysregulated in nasopharyngeal carcinoma. Dodd LE, Sengupta S, Chen IH, den Boon JA, Cheng YJ, Westra W, Newton MA, Mittl BF, McShane L, Chen CJ, Ahlquist P, Hildesheim A. Cancer Epidemiol Biomarkers Prev. 15(11):2216-25 (2006)

Predicting domain-domain interactions using a parsimony approach Katia S Guimaraes, Raja Jothi, Elena Zotenko and Teresa M Przytycka. Genome Biol. 7(11): R104 (2006)
De novo peptide sequencing using exhaustive enumeration of peptide composition. Olson MT, Epstein JA, Yergey AL. J. Am. Soc. Mass. Spectrum 17(8):1041-9 (2006)
PET imaging of brain 5-HT1A receptors in rat in vivo with 18F-FCWAY and improvement by successful inhibition of radioligand defluorination with miconazole Tipre DN, Zoghbi SS, Liow JS, Green MV, Seidel J, Ichise M, Innis RB, Pike VW. J. Nucl. Med 47(2):345-53 (2006)
Chemical shift tensors of protonated base carbons in helical RNA and DNA from NMR relaxation and liquid crystal measurements. Ying J, Grishaev A, Bryce DL, Bax A. J. Am. Chem. Soc 128(35):11443-54 (2006)
Using RNA sample titrations to assess microarray platform performance and normalization techniques Shippy R et al. Nature Biotechnology 24: 1123-1131 (2006)
Interaction of Protegrin-1 with Lipid Bilayers: Membrane Thinning Effect Jang H, Ma B, Woolf TB., Nussinov R Biophysical J. 91:2848-2859 (2006)

The snail (Biomphalaria glabrata) genome project Raghavan N. and Knight M. Trends Parasitol. 22(4):148-51 (2006)
CisView: A Browser and Database of cis-regulatory Modules Predicted in the Mouse Genome Sharov A, Dudekula D, Ko MSH. DNA Research 13(3):123-34 (2006)
Using ancestry-informative markers to define populations and detect population stratification Enoch MA, Shen PH, Xu K, Hodgkinson C, Goldman D. J Psychopharmacol 20:19-26 (2006)
Augmented designs to assess immune response in vaccine trials Follmann, DA. Biometrics 62(4):1161-9 (2006)
“Similarity Trap” in Protein-Protein Interactions Could Be Carcinogenic: Simulations of p53 Core Domain Complexed with 53BP1 and BRCA1 BRCT Domains Liu J, Pan Y, Ma B, and Nussinov R. Structure 14(12):1811-21 (2006)
Engineering Cyclic Tetrapeptides Containing Chimeric Amino Acids as Preferred Reverse-Turn Scaffolds Ye Che and Garland Marshall. J. Med. Chem. 49 (1):111 -124, (2006)

Titin as a giant scaffold for integrating stress and Src homology domain 3-mediated signaling pathways Ma K, Forbes JG, Gutierrez-Cruz G, and Wang K. J. Biol Chem. 281(37):27539-56 (2006)
Development of small molecules designed to modulate protein-protein interactions Ye Che, Bernard Brooks, Garland Marshall. J. Computer-Aided Molecular Design 20(2): 109-130 (2006)
Structural Stability and Dynamics of an Amyloid-Forming Peptide GNNQQNY from the Yeast Prion Sup-35 Zheng J, Ma B, Tsai C-J, Nussinov R. Biophysical Journal 91: 824-833 (2006)
Development of a substrate-based cyclic phosphopeptide inhibitor of protein phosphatase 2Cδ, Wip1 Yamaguchi H, Durell SR, Feng H, Bai Y, Anderson CW, Appella E. Biochemistry 45(44):13193-202 (2006)
Computational Study of the Fibril Organization of Polyglutamine Repeats Reveals a Common Motif Identified in β-Helices David Zanuy, Kannan Gunasekaran, Arthur M. Lesk and Ruth Nussinov J. Mol. Biol. 358(1):330-345 (2006)
Dynamical motions of lipids and a finite size effect in simulations of bilayers Klauda JB, Brooks BR, Pastor RW. J Chem Phys. 125(14):144710 (2006)

The Stability of Monomeric Intermediates Controls Amyloid Formation: A{beta}25-35 and its N27Q Mutant Ma B, Nussinov R. Biophys. J. 90(10):3365-74 (2006)
Interpretation of Data and Identification of Information are Sine Qua Non for Modern Digital Information Services Ying He, and Mehmet Kayaalp. AMIA Annu Symp Proc. : 946 (2006)
Rat toxicogenomic study reveals analytical consistency across microarray platforms Guo, L, Edward K Lobenhofer, Charles Wang, Richard Shippy, Stephen C Harris, Lu Zhang, Nan Mei, Tao Chen, Damir Herman, Federico M Goodsaid, Patrick Hurban, Kenneth L Phillips, Jun Xu, Xutao Deng, Yongming Andrew Sun, Weida Tong, Yvonne P Dragan & Leming Shi Nature Biotechnology. 24: 1162 - 1169 (2006)
Parallel Computation and Visualization Tools for Codetermination Analysis of Multivariate Gene Expression Relations Edward B. Suh, Edward R. Dougherty, Seungchan Kim, Michael L. Bittner, Yidong Chen, Daniel E. Russ and Robert L. Martino Computational and Statistical Approaches to Genomics (2006)
SCIMS: A new algorithm for associating anticancer drug mechanisms with gene ontology categories Gabriel S. Eichler, Mark Reimers and John N. Weinstein Proc. Amer. Assoc. Cancer Res. 47:1565 (2006)
Getting practical with molecular chaperones VM Longshaw, WS Nicoll, M Botha, MH Ludewig, A Shonhai, LL Stephens and GL Blatch Protein Folding (2006)

Nucleation and cavitation of spherical, cylindrical, and slablike droplets and bubbles in small systems L. G. MacDowell, V. K. Shen, and J. R. Errington. J. Chem. Phys 125(3): 34705 (2006)
Altered HIV-1 Gag protein interactions with cyclophilin A (CypA) on the acquisition of H219Q and H219P substitutions in the CypA binding loop Gatanaga H, Das D, Suzuki Y, Yeh DD, Hussain KA, Ghosh AK, Mitsuya H. J Biol Chem. 281(2):1241-50 (2006)
Consensus features in amyloid fibrils: sheet-sheet recognition via a (polar or nonpolar) zipper structure Jie Zheng, Buyong Ma and Ruth Nussinov. Phys. Biol. 3: 1478-3975 (2006)
Impact of Cis-proline analogs on peptide conformation Ye Che, Garland R. Marshall. Biopolymers 81(5): 392 - 406 (2006)
Coarse-grained strategy for modeling protein stability in concentrated solutions. II: phase behavior. V. K. Shen, J. K. Cheung, J. R. Errington, and T. M. Truskett. Biophys. J. 90:1949 (2006)
The influence of tumor oxygenation on 18 F-FDG (Fluorine-18 Deoxyglucose) uptake: A mouse study using positron emission tomography (PET) Linda W Chan, Sebastien Hapdey, Sean English, Jurgen Seidel, Joann Carson, Anastasia L Sowers, Murali C Krishna, Michael V Green, James B Mitchell and Stephen L Bacharach. Radiation Oncology 1:3 (2006)

A Missense Mutation in the Seven-transmembrane Domain of the Human Ca2+ Receptor Converts a Negative Allosteric Modulator into a Positive Allosteric Modulator Jianxin Hu, Jiankang Jiang, Stefano Costanzi, Craig Thomas, Wu Yang, Jean H. M. Feyen, Kenneth A. Jacobson, and Allen M. Spiegel. J. Biol. Chem Vol. 281(3): 21558-21565 (2006)
The histone database: A comprehensive resource for histones and histone fold-containing proteins Marino-Ramirez, L., Hsu, B., Baxevanis, A. D. and Landsman, D Proteins 62:838-842 (2006)
Structural and Molecular Interactions of CCR5 Inhibitors with CCR5 Maeda K, Das D, Ogata-Aoki H, Nakata H, Miyakawa T, Tojo Y, Norman R, Takaoka Y, Ding J, Arnold GF, Arnold E, Mitsuya H. J Biol Chem. 281(18):12688-98 (2006)
ROC and confusion analysis of structure comparison methods identify the main causes of divergence from manual protein classification. Sam V, Tai CH, Garnier J, Gibrat JF, Lee B, Munson PJ. BMC Bioinformatics 7:206 (2006)
Genome-wide genotyping in Parkinson's disease and neurologically normal controls: first stage analysis and public release of data. Fung HC, Scholz S, Matarin M, Simon-Sanchez J, Hernandez D, Britton A, Gibbs JR, Langefeld C, Stiegert ML, Schymick J, Okun MS, Mandel RJ, Fernandez HH, Foote KD, Rodriguez RL, Peckham E, De Vrieze FW, Gwinn-Hardy K, Hardy JA, Singleton A. Lancet Neurol. 5:911-916 (2006)
Multiple independent evolutionary solutions to core histone gene regulation Marino-Ramirez L, Jordan IK, Landsman D. Genome Biol. 7(12):R122 (2006)

Comparison of the Human and Worm p53 Structures Suggests a Way for Enhancing Stability Pan Y, Ma B, Levine AJ, Nussinov R. Biochemistry 45 (12):3925 -3933 (2006)
PET imaging of the dopamine transporter with 18F-FECNT: a polar radiometabolite confounds brain radioligand measurements Zoghbi SS, Shetty HU, Ichise M, Fujita M, Imaizumi M, Liow JS, Shah J, Musachio JL, Pike VW, Innis RB. J. Nucl. Med 47(3):520-7 (2006)
Appropriateness of some resampling-based inference procedures for assessing performance of prognostic classifiers derived from microarray data Lusa L, McShane LM, Radmacher MD, Shih JH, Wright GW, Simon R. Stat Med. 26(5):1102-13 (2006)
Co-evolutionary Rates of Functionally Related Yeast Genes Leonardo Marino-Ramirez, Olivier Bodenreider, Natalie Kantz and I. King Jordan Evolutionary Bioinformatics, Donald Forsdyke (ed), Springer (2006)
Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast. Balaji S, Babu MM, Iyer LM, Luscombe NM, Aravind L. J. Mol. Biol. 360(1):213-27 (2006)
Automatic colonic polyp detection using multiobjective evolutionary techniques Jiang Li, Adam Huang, Jianhua Yao, and Ingmar Bitter, Nicholas Petrick, Ronald M. Summers, Perry J. Pickhardt, J. Richard Choi. In Medical Imaging 2006: Image Processing, Joseph M. Reinhardt, Josien P. W. Pluim (eds) (2006)

Backbone Conformational Preferences and Pseudorotational Ring Puckering of 1-Aminocyclopentane-1-carboxylic Acid Aleman C, Zanuy D, Casanovas J, Cativiela C, Nussinov R. J Phys Chem B 110 (42): 21264 -21271 (2006)

2005 (42 papers)

Score statistics of global sequence alignment from the energy distribution of a modified directed polymer and directed percolation problem Sardiu ME, Alves G, Yu Y-K. Phys. Rev. E 72: 061917 (2005)
Agonist-Induced Conformational Changes in Thyrotropin-Releasing Hormone Receptor Type I: Disulfide Cross-Linking and Molecular Modeling Approaches. Huang W, Osman R, Gershengorn MC. Biochemistry. 44(7):2419-2431 (2005)
CD4 binding partially locks the bridging sheet in gp120 but leaves the β2/3 strands flexible Pan Y, Ma B, Nussinov R. J Mol Biol. 350(3):514-27 (2005)
Robust accurate identification of peptides (RAId): deciphering MS2 data using a structured library search with de novo based statistics Alves G, Yu Y-K. Bioinformatics 21(19):3726-3732 (2005)
Molecular Dynamics Simulations of Alzheimer's beta-Amyloid Protofilaments Buchete NV, Tycko R, and Hummer G. Mol. Biol. 353 (4): 804-821 (2005)

PET imaging of brain with the beta-amyloid probe, [11C]6-OH-BTA-1, in a transgenic mouse model of Alzheimer's disease Toyama H, Ye D, Ichise M, Liow JS, Cai L, Jacobowitz D, Musachio JL, Hong J, Crescenzo M, Tipre D, Lu JQ, Zoghbi S, Vines DC, Seidel J, Katada K, Green MV, Pike VW, Cohen RM, Innis RB. Eur. J. Nucl. Med. Mol. Imaging 32(5):593-600 (2005)
Mutations in PIP5K3 are associated with François-Neetens mouchetée fleck corneal dystrophy Li S, Tiab L, Jiao X, Munier FL, Zografos L, Frueh BE, Sergeev Y, Smith J, Rubin B, Meallet MA, Forster RK, Hejtmancik JF, Schorderet DF. Am. J. Hum. Genet. 77(1):54-63 (2005)
Human P2Y(6) receptor: molecular modeling leads to the rational design of a novel agonist based on a unique conformational preference Costanzi S, Joshi BV, Maddileti S, Mamedova L, Gonzalez-Moa MJ, Marquez VE, Harden TK, Jacobson KA. J Med Chem. 48(26):8108-11 (2005)
In the quest for stable rescuing mutants of p53: computational mutagenesis of flexible loop L1. Pan Y, Ma B, Venkataraghavan RB, Levine AJ, Nussinov R. Biochemistry 44(5):1423-32 (2005)
Adjacent Gauche Stabilization in Linear Alkanes: Implications for Polymer Models and Conformational Analysis Jeffery B. Klauda, Richard W. Pastor, and Bernard R. Brooks J. Phys. Chem. 109(33):15684-15686 (2005)
An ab Initio Study on the Torsional Surface of Alkanes and Its Effect on Molecular Simulations of Alkanes and a DPPC Bilayer Klauda J, Brooks BR, MacKerell AD, Venable RM, Pastor RW. J. Phys. Chem. B 109 (11): 5300 -5311 (2005)

Energy landscape of amyloidogenic peptide oligomerization by parallel-tempering molecular dynamics simulation: significant role of Asn ladder. Tsai HH, Reches M, Tsai CJ, Gunasekaran K, Gazit E, Nussinov R. PNAS 102(23):8174-9 (2005)
Molecular architecture of a eukaryotic DNA transposase. Hickman AB, Perez ZN, Zhou L, Musingarimi P, Ghirlando R, Hinshaw JE, Craig NL, Dyda F. Nat Struct Mol Biol. 12: 715 - 721 (2005)
A Molecular Dynamics Study of the Response of Lipid Bilayers and Monolayers to Trehalose Skibinsky A, Venable RM, Pastor RW. Biophys. J. 89: 4111-4121 (2005)
Sequential testing for efficacy in clinical trials with non-transient effects James F. Troendle, Aiyi Liu, Chengqing Wu, Kai F. Yu. Statistics in Medicine 24(21):3239 - 3250 (2005)
Amino Acid Side Chain Interactions in the Presence of Salts Sergio A. Hassan J. Phys. Chem. 109(46):21989-21996 (2005)
Variable tick protein in two genomic groups of the relapsing fever spirochete Borrelia hermsii in western North America Porcella SF, Raffel SJ, Anderson DE Jr, Gilk SD, Bono JL, Schrumpf ME, Schwan TG. Infect. Immun. 73(10):6647-58 (2005)

Distinguishing Modes of Eukaryotic Gradient Sensing R. Skupsky, W. Losert, and R. J. Nossal Biophys. J. 89(4):2806-2823 (2005)
Bacterial 16S ribosomal DNA in house dust mite cultures Valerio CR, Murray P, Arlian LG, Slater JE. J. Allergy Clin. Immunol. 116(6):1296-300 (2005)
Accurate Determination of Leucine and Valine Side-chain Conformations using U-[15 N/13 C/2H]/[1H-(methine/methyl)-Leu/Val] Isotope Labeling, NOE Pattern Recognition, and Methine Cγ-Hγ/Cβ-Hβ Residual Dipolar Couplings: Application to the 34-kDa Enzyme IIAChitobiose Chun Tang, Junji Iwahara and G. Marius Clore J. Biomol. NMR 33(2):1573-5001 (2005)
Multiple comparisons between two groups on multiple Bernoulli outcomes while accounting for covariates. JF Troendle Stat. Med. 24(23):3581-91 (2005)
Polyproline and the “spectroscopic ruler” revisited with single-molecule fluorescence ? Schuler B, Lipman EA, Steinbach PJ, Kumke M, Eaton WA. PNAS 102(8):2754-9 (2005)
Measurement of Ribose Carbon Chemical Shift Tensors for A-form RNA by Liquid Crystal NMR Spectroscopy David L. Bryce, Alexander Grishaev, and Ad Bax. J. Am. Chem. Soc 127 (20):7387 -7396 (2005)

Molecular Dynamics Simulations of the Influenza Hemagglutinin Fusion Peptide in Micelles and Bilayers: Conformational Analysis of Peptide and Lipids Lague P, Roux B, Pastor RW. J. Mol. Biol 354: 1129-1141 (2005)
From quantum chemistry and the classical theory of polar liquids to continuum approximations in molecular mechanics calculations SA Hassan, EL Mehler. Int.Quantum Chem. 102(5): 986 - 1001 (2005)
A comparative study of amyloid fibril formation by residues 15-19 of the human calcitonin hormone: a single β-sheet model with a small hydrophobic core. Haspel N, Zanuy D, Ma B, Wolfson H, Nussinov R. J Mol Biol. 345(5):1213-27 (2005)
SspA is required for acid resistance in stationary phase by downregulation of H-NS in Escherichia coli Hansen AM, Qiu Y, Yeh N, Blattner FR, Durfee T, Jin DJ. Mol. Microbiol. 56(3):719-34 (2005)
Comparison of the protein-protein interfaces in the p53-DNA crystal structures: towards elucidation of the biological interface Ma B, Pan Y, Gunasekaran K, Venkataraghavan RB, Levine AJ, Nussinov R. PNAS 102(11):3988-93 (2005)
Comprehensive analysis of heterochromatin-and RNAi-mediated epigenetic control of the fission yeast genome Cam H, Sugiyama T, Chen ES, Chen X, Fitzgerald P, Grewal SI. Nat Genet. 37: 809 - 819 (2005)
Modelling longitudinal semicontinuous emesis volume data with serial correlation in an acupuncture clinical trial Paul S. Albert and Joannie Shen Appl. Statist. 54(4):707-720 (2005)
Ion Transport through Membrane-Spanning Nanopores Studied by Molecular Dynamics Simulations and Continuum Electrostatics Calculations Christine Peter and Gerhard Hummer. Biophys. J. 89:2222-2234 (2005)
Identification and functional outcome of mRNAs associated with RNA-binding protein TIA-1 Lopez de Silanes I, Galban S, Martindale JL, Yang X, Mazan-Mamczarz K, Indig FE, Falco G, Zhan M, Gorospe M. Mol. Cell. Biol. 25(21):9520-31 (2005)
The genome of bacteriophage K1F, a T7-like phage that has acquired the ability to replicate on K1 strains of Escherichia coli Scholl D, Merril C. J. Bacteriol. 187(24):8499-503 (2005)
Utilization of a Common Pathway for the Synthesis of High Affinity Macrocyclic Grb 2 SH 2 Domain-Binding Peptide Mimetics That Differ in the Configuration at One Ring Junction Zhen-Dan Shi, Rajeshri G. Karki, Karen M. Worthy, Lakshman K. Bindu, Marc C. Nicklaus, Robert J. Fisher, and Terrence R. Burke Jr. Chem. & Biodiversity 2:447-456 (2005)
Solution Structure of Enzyme IIAChitobiose from the N, N'-Diacetylchitobiose Branch of the Escherichia coli Phosphotransferase System ? Chun Tang, David C. Williams, Jr., Rodolfo Ghirlando, and G. Marius Clore. J. Biol. Chem 280, Issue 12:11770-11780 (2005)

Long dynamics simulations of proteins using atomistic force fields and a continuum representation of solvent effects: Calculation of structural and dynamic properties Li X, Hassan SA, Mehler EL. Proteins. 60(3):464 - 484 (2005)
Utilization of a common pathway for the synthesis of high affinity macrocyclic Grb2 SH2 domain-binding peptide mimetics that differ in the configuration at one ring junction Shi ZD, Karki RG, Worthy KM, Bindu LK, Nicklaus MC, Fisher RJ, Burke TR. Chem. & Biodivers 2:447-456 (2005)
Genome-wide assembly and analysis of alternative transcripts in mouse. Sharov AA, Dudekula DB, Ko MSH. Genome Res. 15:748-754 (2005)
Computed tomographic virtual colonoscopy computer-aided polyp detection in a screening population. Summers RM, Yao J, Pickhardt PJ, Franaszek M, Bitter I, Brickman D, Krishna V, Choi JR. Gastroenterology 129(6):1832-44 (2005)
Titin PEVK segment: charge-driven elasticity of the open and flexible polyampholyte Forbes JG, Jin AJ, Ma K, Gutierrez-Cruz G, Tsai WL, Wang K. J Muscle Res Cell Motil. 26(6-8):291-301 (2005)
Expression of estrogen receptor alpha exon-deleted mRNA variants in the human and non-human primate frontal cortex W.R. Perlman, M. Matsumoto, S. Beltaifa, T.M. Hyde, R.C. Saunders, M.J. Webster, D.R. Rubinow, J.E. Kleinman and C.S. Weickert Neuroscience 134(1):81-95 (2005)

Quantification of brain phosphodiesterase 4 in rat with (R)-[11C]Rolipram-PET Fujita M, Zoghbi SS, Crescenzo MS, Hong J, Musachio JL, Lu JQ, Liow JS, Seneca N, Tipre DN, Cropley VL, Imaizumi M, Gee AD, Seidel J, Green MV, Pike VW, Innis RB. Neuroimage 26(4):1201-10 (2005)

2004 (57 papers)

Nucleic acid transport through carbon nanotube membranes In-Chul Yeh and Gerhard Hummer. PNAS 101(33): 12177-12182 (2004)
Performance of a genetic algorithm for mass spectrometry proteomics Jeffries, NO. BMC Bioinformatics 5:180 (2004)
A Spontaneous Translational Fusion of Bacillus cereus PlcR and PapR Activates Transcription of PlcR-Dependent Genes in Bacillus anthracis via Binding with a Specific Palindromic Sequence Andrei P. Pomerantsev, Olga M. Pomerantseva, and Stephen H. Leppla Infection & Immunity 72(10):5814-5823 (2004)
Combinatorial modeling of protein folding kinetics: free energy profiles and rates Eric R. Henry and William A. Eaton Chemical Physics 307:163-185 (2004)
Dynamics of proton transfer in bacteriorhodopsin Lee YS, Krauss M. J Am Chem Soc. 126(7):2225-30 (2004)
Exploring peptide energy landscapes: A test of force fields and implicit solvent models. Steinbach PJ. Proteins 57(4):665-677 (2004)
Correcting log ratios for signal saturation in cDNA microarrays Dodd LE, Korn EL, McShane LM, Chandramouli GV, Chuang EY. Bioinformatics 20(16):2685-93 (2004)
An efficient algorithm for generating two-way contingency tables with fixed marginal totals and arbitrary mean proportions, with applications to permutation tests Craig Borkowf. Comp. Stat. and Data Analysis 44(3): 431-449 (2004)
Modulating Functional Loop Movements: The Role of Highly Conserved Residues in the Correlated Loop Motions Kannan Gunasekaran, Ruth Nussinov Chem.Bio.Chem. 5(2):224-230 (2004)
IL-15 and IL-2 reciprocally regulate expression of the chemokine receptor CX3CR1 through selective NFAT1- and NFAT2-dependent mechanisms Jana Barlic, David H. McDermott, Maya N. Merrell, Jacqueline Gonzales, Laura E. Via, and Philip M. Murphy J. Biol. Chem. 279(47):48520-48534 (2004)
Side chain interactions determine the amyloid organization: a single layer β-sheet molecular structure of the calcitonin peptide segment 15-19 David Zanuy, Nurit Haspel, Hui-Hsu (Gavin) Tsai, Buyong Ma, Kannan Gunasekaran, Haim J Wolfson and Ruth Nussinov Physical Biology 1(2):89-99 (2004)
How Much Backbone Motion in Ubiquitin Is Required To Account for Dipolar Coupling Data Measured in Multiple Alignment Media as Assessed by Independent Cross-Validation? G. Marius Clore and Charles D. Schwieters J. Am. Chem. Soc. 126(9):2923-2938 (2004)
Structure and Reaction in the Active Site of Mammalian Adenylyl Cyclase Yong-Sok Lee and Morris Krauss J. Phys. Chem. B 108(14):4508-4515 (2004)
Large-scale validation of a computer-aided polyp detection algorithm for CT colonography using cluster computing I Bitter, JE Brown, D Brickman, RM Summers Medical Imaging 2004 (2004)
Quantum Chemical Calculations and Mutational Analysis Suggest Heat Shock Protein 90 Catalyzes Trans- Cis Isomerization of Geldanamycin Lee YS, Marcu MG, Neckers L. Chem Biol. 11(7):991-8 (2004)
DBParser: web-based software for shotgun proteomic data analyses. Yang X, Dondeti V, Dezube R, Maynard DM, Geer LY, Epstein J, Chen X, Markey SP, Kowalak JA. J. Proteome Res. 3(5):1002-8 (2004)
Clustering of DNA sequences in human promoters. FitzGerald PC, Shlyakhtenko A, Mir AA, Vinson C. Genome Research 14(8):1562-74 (2004)
Amplitudes of Protein Backbone Dynamics and Correlated Motions in a Small α/β Protein: Correspondence of Dipolar Coupling and Heteronuclear Relaxation Measurements G. Marius Clore and Charles D. Schwieters Biochemistry 43(33):10678-10691 (2004)
Semirandom Sampling to Detect Differentiation-Related and Age-Related Epigenome Remodeling Valya R. Russanova, Tazuko H. Hirai and Bruce H. Howard J. Gerontology 59:1221-1233 (2004)
Three Roads to Islet Bursting: Emergent Oscillations in Coupled Phantom Bursters Charles L. Zimliki, David Mears and Arthur Sherman. Biophys. J 87:193-206 (2004)
A chlamydial type III translocated protein is tyrosine-phosphorylated at the site of entry and associated with recruitment of actin D. R. Clifton, K. A. Fields, S. S. Grieshaber, C. A. Dooley, E. R. Fischer, D. J. Mead, R. A. Carabeo, and T. Hackstadt PNAS 101(27):10166-10171 (2004)
β-Hairpin Folding Mechanism of a Nine-Residue Peptide Revealed from Molecular Dynamics Simulations in Explicit Water. Wu X and Bernard R. Brooks. Biophys. J. 86(4):1946-58 (2004)
Visualization of α-helical features in a density map constructed using 9 molecular images of the 1.8 MDa icosahedral core of pyruvate dehydrogenase Borgnia MJ, Shi D, Zhang P, Milne JL J. Struct. Biol. 147(2):136-45 (2004)

A Model of Inverse Agonist Action at Thyrotropin-Releasing Hormone Receptor Type 1: Role of a Conserved Tryptophan in Helix 6. Lu X, Huang W, Worthington S, Drabik P, Osman R, Gershengorn MC. Mol Pharmacol. 66(5):1192-200 (2004)
Simian cytomegalovirus encodes five rapidly evolving chemokine receptor homologues Sahagun-Ruiz A, Sierra-Honigmann AM, Krause P, Murphy PM. Virus Genes 28(1):71-83 (2004)
Frequency of gaps observed in a structurally aligned protein pair database suggests a simple gap penalty function Goonesekere NC, Lee B. Nucleic Acids Research 32(9):2838-43 (2004)
Absolute quantification of regional cerebral glucose utilization in mice by 18F-FDG small animal PET scanning and 2-14C-DG autoradiography Toyama H, Ichise M, Liow JS, Modell KJ, Vines DC, Esaki T, Cook M, Seidel J, Sokoloff L, Green MV, Innis RB. J. Nucl. Med 45(8):1398-405 (2004)
Identification and functional characterization of novel scorpion venom peptides with no disulfide bridge from Buthus martensii Karsch Zeng XC, Wang SX, Zhu Y, Zhu SY, Li WX. Peptides 25(2):143-50 (2004)
Rydberg-London potential for diatomic molecules and unbonded atom pairs Kevin Cahill, V. Adrian Parsegian J. Chem. Phys. 121:10839 (2004)

Statistical analysis of over-represented words in human promoter sequences. Marino-Ramirez L, Spouge JL, Kanga GC, Landsman D. Nucleic Acids Research 32(3):949-58 (2004)
Comparative analysis of apicomplexa and genomic diversity in eukaryotes. Templeton TJ, Iyer LM, Anantharaman V, Enomoto S, Abrahante JE, Subramanian GM, Hoffman SL, Abrahamsen MS, Aravind L. Genome Res. 14(9):1686-95 (2004)
Evolutionary and functional relationships within the DJ1 superfamily. Bandyopadhyay S, Cookson MR. BMC Evol Biol. 4(1):6 (2004)
Functionalization of tumor necrosis factor-alpha using phage display technique and PEGylation improves its antitumor therapeutic window Shibata H, Yoshioka Y, Ikemizu S, Kobayashi K, Yamamoto Y, Mukai Y, Okamoto T, Taniai M, Kawamura M, Abe Y, Nakagawa S, Hayakawa T, Nagata S, Yamagata Y, Mayumi T, Kamada H, Tsutsumi Y. Clin. Cancer Res. 10(24):8293-300 (2004)
Peptide sequence and amyloid formation: molecular simulations and experimental study of a human islet amyloid polypeptide fragment and its analogs Zanuy D, Porat Y, Gazit E, Nussinov R. Structure 12(3):439-55 (2004)
Synthesis and evaluation of two 18F-labeled 6-iodo-2-(4'-N,N-dimethylamino)phenylimidazo[1,2-a]pyridine derivatives as prospective radioligands for beta-amyloid in Alzheimer's disease Cai L, Chin FT, Pike VW, Toyama H, Liow JS, Zoghbi SS, Modell K, Briard E, Shetty HU, Sinclair K, Donohue S, Tipre D, Kung MP, Dagostin C, Widdowson DA, Green M, Gao W, Herman MM, Ichise M, Innis RB. J. Med. Chem 47(9):2208-18 (2004)

Mechanistic insights from a refined three-dimensional model of integrin alphaIIbbeta3 Filizola M, Hassan SA, Artoni A, Coller BS, Weinstein H. J Biol Chem 279(23):24624-30 (2004)
In silico protein design by combinatorial assembly of protein building blocks Hui-Hsu (Gavin) Tsai, Chung-Jung Tsai, Buyong Ma and Ruth Nussinov. Protein Science 13:2753-2765 (2004)
The stability and dynamics of the human calcitonin amyloid peptide DFNKF Tsai HH, Zanuy D, Haspel N, Gunasekaran K, Ma B, Tsai CJ, Nussinov R. Biophys. J. 87(1):146-58 (2004)
Mapping Development-Related and Age-Related Chromatin Remodeling by a High Throughput ChIP-HPLC Approach Valya R. Russanova, Tazuko H. Hirai, Andrei V. Tchernov and Bruce H. Howard J. Gerontology 59:1234-1243 (2004)
An Example of Slow Convergence of the Bootstrap in High Dimensions. Troendle J.F.; Korn E.L.; McShane L.M. The American Statistician 58(1): 25-29 (2004)
Discriminating the Helical Forms of Peptides by NMR and Molecular Dynamics Simulation Daron I. Freedberg, Richard M. Venable, Angelo Rossi, Thomas E. Bull, and Richard W. Pastor. J. Am. Chem. Soc 126:10478-10484 (2004)

Impact of Azaproline on Peptide Conformation Ye Che and Garland Marshall. J. Org. Chem 69 (26): 9030 -9042 (2004)
Reversible proton transfer dynamics in bacteriorhodopsin Lee YS and Krauss M. J. Mol. Stru. 700(3):243-246 (2004)
Model of full-length HIV-1 integrase complexed with viral DNA as template for anti-HIV drug design Karki RG, Tang Y, Burke TR Jr, Nicklaus MC. J Comput Aided Mol Des. 18(12):739-60 (2004)
Large-scale analysis of non-synonymous coding region single nucleotide polymorphisms Robert J Clifford, Michael N Edmonson, Cu Nguyen, Kenneth J Buetow. Bioinformatics 20(7):1006-1014 (2004)
Controlling the number of false discoveries: application to high-dimensional genomic data Korn EL, Troendle JF, McShane LM, and Simon R. Journal of Statistical Planning and Infe 124(2):379-398 (2004)
Pressure-Based Long-Range Correction for Lennard-Jones Interactions in Molecular Dynamics Simulations: Application to Alkanes and Interfaces Patrick Lague, Richard W. Pastor, Bernard R Brooks. J. Phys. Chem. B 108:363-368 (2004)

Characterization of the conformational state and flexibility of HIV-1 glycoprotein gp120 core domain Pan Y, Ma B, Keskin O, Nussinov R. J Biol Chem 16;279(29):30523-30 (2004)
Diffusion and Electrophoretic Mobility of Single-Stranded RNA from Molecular Dynamics Simulations In-Chul Yeh and Gerhard Hummer. Biophys. J. 86:681-689 (2004)
LdARF1 in Trafficking and Structural Maintenance of the trans-Golgi Cisternal Network in the Protozoan Pathogen Leishmania donovani Johanna M. Porter-Kelley, Noel J. Gerald, Juan C. Engel, Elodie Ghedin and Dennis M. Dwyer Traffic 5(11):868-883 (2004)
Insights into amyloid structural formation and assembly through computational approaches. Zanuy D, Gunasekaran K, Ma B, Tsai HH, Tsai CJ, Nussinov R. Amyloid. 11(3):143-61 (2004)
Identifying multiple changepoints in heterogeneous binary data with an application to molecular genetics Albert PS, Hunsberger SA, Hu N, Taylor PR. Biostatistics 5(4):515-529 (2004)
A cautionary note on the robustness of latent class models for estimating diagnostic error without a gold standard Albert PS, Dodd LE. Biometrics 60(2):427-35 (2004)

Evaluation of anesthesia effects on [18F]FDG uptake in mouse brain and heart using small animal PET Toyama H, Ichise M, Liow JS, Vines DC, Seneca NM, Modell KJ, Seidel J, Green MV, Innis RB. Nucl. Med. Biol. 31(2):251-6 (2004)
Release factors eRF1 and RF2: a universal mechanism controls the large conformational changes. Ma B, Nussinov R. J Biol Chem. 279(51):53875-85 (2004)
MicC, a second small-RNA regulator of Omp protein expression in Escherichia coli Chen S, Zhang A, Blyn LB, Storz G. J. Bacteriol. 186(20):6689-97 (2004)
Intermolecular Potentials of Mean Force of Amino Acid Side Chain Interactions in Aqueous Medium Hassan SA J. Phys. Chem. B. 108 (50):19501-19509 (2004)

2003 (27 papers)

Genomic analysis of bacteriophages SP6 and K1-5, an estranged subgroup of the T7 supergroup D. Scholl, J. Kieleczawa, P. Kemp, J. Rush, C. C. Richardson, C. Merril. Adhya5 and I. J. Molineux J. Mol. Biol. 335(5):1151-1171 (2003)
Synthesis and Conformational Analysis of a Locked Analogue of Carbovir Built on a Bicyclo [3.1. 0]-hex-2-enyl template. Choi Y, Sun G, George C, Nicklaus MC, Kelley JA, Marquez VE. Nucleotides Nucleic Acids. 22(12):2077-91 (2003)
Short peptide amyloid organization: stabilities and conformations of the islet amyloid peptide NFGAIL Zanuy D, Ma B, Nussinov R. Biophys. J. 84(3):1884-94 (2003)
A peptide with three hyaluronan binding motifs inhibits tumor growth and induces apoptosis Xu XM, Chen Y, Chen J, Yang S, Gao F, Underhill CB, Creswell K, Zhang L. Cancer Res. 63(18):5685-90 (2003)
Exploring the quantum mechanical/molecular mechanical replica path method: a pathway optimization of the chorismate to prephenate Claisen rearrangement catalyzed by chorismate mutase H. Lee Woodcock, Milan Hodoŝĉek, Paul Sherwood, Yong S. Lee, Henry F. Schaefer III and Bernard R. Brooks Theoretical Chemistry Accounts 109(3):140-148 (2003)
Interdependence of Backbone Flexibility, Residue Conservation, and Enzyme Function: A Case Study on β1, 4-Galactosyltransferase-I Gunasekaran K, Ma B, Ramakrishnan B, Qasba PK, Nussinov R. Biochemistry. 42(13):3674-87 (2003)
A Random Effects Transition Model For Longitudinal Binary Data With Informative Missingness Paul S Albert & Dean Follmann. Statistica Neerlandica 57 Issue 1:100-111, (2003)
Binding and Hydrolysis of Ampicillin in the Active Site of a Zinc Lactamase M. Krauss, N. Gresh, and J. Antony J. Phys. Chem B 107(5):1215-1229 (2003)

A super-linear minimization scheme for the nudged elastic band method Jhih-Wei Chu, Bernhardt L. Trout, Bernard R Brooks J. Chem. Phys. 119:12708-12717 (2003)
Changes in mumps virus gene sequence associated with variability in neurovirulent phenotype Rubin SA, Amexis G, Pletnikov M, Li Z, Vanderzanden J, Mauldin J, Sauder C, Malik T, Chumakov K, Carbone KM. J. Virol. 77(21):11616-24 (2003)
On the kinematics of protein folding Sean Cahill, Michael Cahill, Kevin Cahill. J. Comp. Chem Volume 24, Issue 11: Pages 1364-1370 (2003)
Triggering loops and enzyme function: identification of loops that trigger and modulate movements Gunasekaran K, Ma B, Nussinov R. J Mol Biol. 332(1):143-59 (2003)
Characterization of a New γ TuRC Subunit with WD Repeats Ruwanthi N. Gunawardane, Ona C. Martin, and Yixian Zheng Mol. Biol. Cell 14(3):1017-1026 (2003)
The sequence dependence of fiber organization. A comparative molecular dynamics study of the islet amyloid polypeptide segments 22-27 and 22-29. Zanuy D, Nussinov R. J Mol Biol. 329(3):565-84 (2003)
Docking of Protein-Protein Complexes on the Basis of Highly Ambiguous Intermolecular Distance Restraints Derived from 1HN/15N Chemical Shift Mapping and Backbone 15N/1H Residual Dipolar Couplings Using Conjoined Rigid Body/Torsion Angle Dynamics G. Marius Clore and Charles D. Schwieters J. Am. Chem. Soc. 125(10):2902-2912 (2003)
Modeling tumor growth with random onset Albert PS, Shih JH. Biometrics 59(4):897-906 (2003)
Molecular dynamics simulations of the unfolding of β2-microglobulin and its variants Ma B, Nussinov R. Protein Eng. 16(8):561-75 (2003)
Application of NMR, molecular simulation, and hydrodynamics to conformational analysis of trisaccharides Dixon AM, Venable R, Widmalm G, Bull TE, Pastor RW. Biopolymers 69(4):448-60 (2003)
A core-weighted fitting method for docking atomic structures into low-resolution maps: application to cryo-electron microscopy Wu X, Milne JL, Borgnia MJ, Rostapshov AV, Subramaniam S, Brooks BR. J Struct Biol. 141(1):63-76 (2003)
Lathosterolosis: an inborn error of human and murine cholesterol synthesis due to lathosterol 5-desaturase deficiency Krakowiak PA, Wassif CA, Kratz L, Cozma D, Kovárová M, Harris G, Grinberg A, Yang Y, Hunter AG, Tsokos M, Kelley RI, Porter FD. Hum. Mol. Genet. 12(13):1631-41 (2003)

Transcriptome analysis of mouse stem cells and early embryos. Sharov AA, Piao Y, Matoba R, Dudekula DB, Qian Y, VanBuren V, Falco G, Martin PR, Stagg CA, Bassey UC, Wang Y, Carter MG, Hamatani T, Aiba K, Akutsu H, Sharova L, Tanaka TS, Kimber WL, Yoshikawa T, Jaradat SA, Pantano S, Nagaraja R, Boheler KR, Taub D, Hodes RJ, Longo DL, Schlessinger D, Keller J, Klotz E, Kelsoe G, Umezawa A, Vescovi AL, Rossant J, Kunath T, Hogan BL, Curci A, D'Urso M, Kelso J, Hide W, Ko MS. PLoS Biol. 1(3):E74 (2003)
Parallel computation for coefficients of determination in the context of multivariate gene-expression analysis Edward B Suh, Daniel E Russ, Edward R Dougherty, Seungchan Kim, Michael L Bittner, Yidong Chen, Robert L. Martino in Biocomputing, editor Phillip A Laplante (2003)
The influenza A virus PB1-F2 protein targets the inner mitochondrial membrane via a predicted basic amphipathic helix that disrupts mitochondrial function Gibbs JS, Malide D, Hornung F, Bennink JR, Yewdell JW. J. Virol. 77(13):7214-24 (2003)
Direct Observation of the Folding and Unfolding of a Hairpin in Explicit Water through Computer Simulation Xiongwu Wu, Shaomeng Wang, and Bernard R. Brooks. J. Am. Chem. Soc. 124(19):5282-3 (2003)
Microarray reveals differences in both tumors and vascular specific gene expression in de novo CD5+ and CD5− diffuse large B-cell lymphomas Tohru Kobayashi, Motoko Yamaguchi, Seungchan Kim, Jun Morikawa, Shoko Ogawa, Satoshi Ueno, Edward Suh, Edward Dougherty, Ilya Shmulevich, Hiroshi Shiku, and Wei Zhang Cancer Res. 63:60 (2003)
Hydrogen bonding interactions between aldose reductase complexed with NADP(H) and inhibitor tolrestat studied by molecular dynamics simulations and binding assay Lee YS, Hodoscek M, Kador PF, Sugiyama K. Chem. Biol. Interact 143-144:307-16 (2003)
Cyclin E expression during development in Caenorhabditis elegans Brodigan TM, Liu J, Park M, Kipreos ET, Krause M. Dev. Biol. 254(1):102-115 (2003)

2002 (18 papers)

Cyclin-dependent kinase 5 (cdk5) activation requires interaction with three domains of p35 Amin, ND; Albers, W; Pant, HC; J. Neurosci. Res., DOI://10.1002/jnr.10116 (2002)
A preliminary transcriptome map of non-small cell lung cancer Fujii T, Dracheva T, Player A, Chacko S, Clifford R, Strausberg RL, Buetow K, Azumi N, Travis WD, Jen J. Cancer Res. 62(12):3340-6 (2002)
The Sm-like Hfq protein increases OxyS RNA interaction with target mRNAs Zhang A, Wassarman KM, Ortega J, Steven AC, Storz G. Mol. Cell 9(1):11-22 (2002)
Features of the NIH ATLAS Small Animal PET Scanner and Its Use with a Coaxial Small Animal Volume CT Scanner Seidel J, Vacquero JJ, Pascua J, Desco M, Johnson CA, Green M IEEE International Symposium on Biomedic, Washington, DC, 2002:TP-P1.9 (2002)
Hydrophobicity Maps of the N-Peptide Coiled Coil of HIV-1 gp41 Xavier Siebert and Gerhard Hummer Biochemistry 41(9):2956-2961 (2002)
A Latent Autoregressive Model for Longitudinal Binary Data Subject to Informative Missingness Albert, PS, Follmann, DA, Wang, SA, Suh, EB. Biometrics 58 Issue 3:631-642 (2002)
Micelle-bound conformation of a hairpin-forming peptide: combined NMR and molecular dynamics study Dixon AM, Venable RM, Pastor RW, Bull TE. Biopolymers 65(4):284-98 (2002)
Structure Activity of 3-Aryl-1, 3-diketo-Containing Compounds as HIV-1 Integrase Inhibitors1 Godwin C. G. Pais, Xuechun Zhang, Christophe Marchand, Nouri Neamati, Kiriana Cowansage, Evguenia S. Svarovskaia, Vinay K. Pathak, Yun Tang, Marc Nicklaus, Yves Pommier, and Terrence R. Burke, Jr. J. Med. Chem. 45(15):3184-3194 (2002)
Isolation and sequencing of a putative promoter region of the murine G protein beta 1 subunit (GNB1) gene Kitanaka J, Kitanaka N, Takemura M, Wang XB, Hembree CM, Goodman NL, Uhl GR. DNA Seq. 13(1):39-45 (2002)
Parametric and semiparametric approaches to testing for seasonal trend in serial count data Hunsberger S, Albert PS, Follmann DA, Suh E. Biostatistics. 3(2):289-98 (2002)
Fast-growth Thermodynamic Integration: Results for Sodium Ion Hydration G. Hummer Molecular Simulation 28:81-90 (2002)

Peptide loop-closure kinetics from microsecond molecular dynamics simulations in explicit solvent Yeh IC, Hummer G. J Am Chem Soc. 124(23):6563-8 (2002)
Ssdp proteins interact with the LIM-domain-binding protein Ldb1 to regulate development Chen L, Segal D, Hukriede NA, Podtelejnikov AV, Bayarsaihan D, Kennison JA, Ogryzko VV, Dawid IB, Westphal H. PNAS 99(22):14320-5 (2002)
Stabilities and conformations of Alzheimer's β-amyloid peptide oligomers (Aβ_16-22, Aβ_16-35, and Aβ_10-35): Sequence effects Buyong Ma and Ruth Nussinov PNAS 99(22):14126-14131 (2002)
Ixolaris, a novel recombinant tissue factor pathway inhibitor (TFPI) from the salivary gland of the tick, Ixodes scapularis: identification of factor X and factor Xa as scaffolds for the inhibition of factor VIIa/tissue factor complex Francischetti IM, Valenzuela JG, Andersen JF, Mather TN, Ribeiro JM. Blood 99(10):3602-12 (2002)
Assembly, verification, and initial annotation of the NIA mouse 7.4 K cDNA clone set VanBuren V, Piao Y, Dudekula DB, Qian Y, Carter MG, Martin PR, Stagg CA, Bassey UC, Aiba K, Hamatani T, Kargul GJ, Luo AG, Kelso J, Hide W, Ko MS. Genome Res. 12(12):1999-2003 (2002)
Mutant deoxynucleotide carrier is associated with congenital microcephaly Rosenberg MJ, Agarwala R, Bouffard G, Davis J, Fiermonte G, Hilliard MS, Koch T, Kalikin LM, Makalowska I, Morton DH, Petty EM, Weber JL, Palmieri F, Kelley RI, Schaffer AA, Biesecker LG. Nat Genet. 32(1):175-9 (2002)
The neurogenetics of mucolipidosis type IV G. Altarescu, MD, M. Sun, MD, PhD, D. F. Moore, MD, PhD, DIC, J. A. Smith, MD, E. A. Wiggs, PhD, B. I. Solomon, MS, N. J. Patronas, MD, K. P. Frei, MD, S. Gupta, MD, C. R. Kaneski, MS, O. W. Quarrell, MD, S. A. Slaugenhaupt, PhD, E. Goldin, PhD and R. Schiffmann, MD Neurology 59:306-313 (2002)

2001 (14 papers)

Identification of fifteen novel mutations and genotype-phenotype relationship in Fabry disease Altarescu GM, Goldfarb LG, Park KY, Kaneski C, Jeffries N, Litvak S, Nagle JW, Schiffmann R. Clin. Genet. 60(1):46-51 (2001)
Circularly permuted proteins in the protein structure database Jongsun Jung and Byungkook Lee. Protein Science 10:1881-1886 (2001)
Limited heterogeneity of T cell receptor BV usage in aplastic anemia Zeng W, Maciejewski JP, Chen G, Young NS. J. Clin. Invest. 108(5):765-73 (2001)
Molecular Dynamics Simulations of Octyl Glucoside Micelles: Dynamic Properties Stephen Bogusz, Richard M. Venable, and Richard W. Pastor J. Phys. Chem. 105(35):8312-8321 (2001)
ERGL, a novel gene related to ERGIC-53 that is highly expressed in normal and neoplastic prostate and several other tissues Yerushalmi N, Keppler-Hafkemeyer A, Vasmatzis G, Liu XF, Olsson P, Bera TK, Duray P, Lee B, Pastan I. Gene 265(1-2):55-60 (2001)

Simultaneous Determination of Orientational and Order Parameter Distributions from NMR Spectra of Partially Oriented Model Membranes Edward Sternin, Hartmut Schafer, Ivan V. Polozov and Klaus Gawrisch. J. Mag. Res 149(1): 110-113 (2001)
Parallel Computing Methods for Analyzing Gene Expression Relationships Edward B. Suh, Edward R. Dougherty, Seungchan Kim, Daniel E. Russ, and Robert L. Martino Proc. SPIE 4266:213-221 (2001)
Lowering the isoelectric point of the Fv portion of recombinant immunotoxins leads to decreased nonspecific animal toxicity without affecting antitumor activity Onda M, Nagata S, Tsutsumi Y, Vincent JJ, Wang Q, Kreitman RJ, Lee B, Pastan I. Cancer Res. 61(13):5070-7 (2001)
Cloning, mRNA distribution, and functional expression of an avian counterpart of the chemokine receptor/HIV coreceptor CXCR4 Liang TS, Hartt JK, Lu S, Martins-Green M, Gao JL, Murphy PM. J. Leukoc. Biol. 69(2):297-305 (2001)
Fast-growth thermodynamic integration: Error and efficiency analysis G. Hummer J. Chem. Phys. 114(17):7330 (2001)
Genomic organization of the murine G protein beta subunit genes and related processed pseudogenes J. Kitanaka, XB Wang, N Kitanaka, CM Hembree, GR Uhl DNA Sequence 12:345-354 (2001)

PET, CT, and MR Image Registration of the Rat Brain and Skull Juan José Vaquero, Manuel Desco, Javier Pascau, Andrés Santos, E, Injae Lee, Jürgen Seidel, and Michael V. Green IEEE Transactions on Nuclear Science 48(4):1440-1445 (2001)
Crystal structure of the 14-3-3ζ: serotonin N-acetyltransferase complex: a role for scaffolding in enzyme regulation Obsil T, Ghirlando R, Klein DC, Ganguly S, Dyda F. Cell 105(2):257-67 (2001)
A novel myeloid-restricted zebrafish CCAAT/enhancer-binding protein with a potent transcriptional activation domain Lyons SE, Shue BC, Oates AC, Zon LI, Liu PP. Blood 97(9):2611-7 (2001)

2000 (17 papers)

Prediction of IC50 values for ACAT inhibitors from molecular structure Patankar, SJ; Jurs, PC; , J Chem Inf Comput Sci, DOI://10.1021/ci990125r (2000)
Immunomorphometric Study of Rat Renal Inner Medulla Raymond Mejia and James B Wade Am. J. Physiol. - Renal Physiol. 10.1152:ajprenal.00340.2000 (2000)
Structure and Promoter Analysis of the Human unc-33-like Phosphoprotein Gene Tatsuya Matsuo, Jimmy K. Stauffer, Robert L. Walker , Paul Meltzer , and Carol J. Thiele J. Biol. Chem. 275(22):16560-16568 (2000)

Multiple quantum solid-state NMR indicates a parallel, not antiparallel, organization of beta-sheets in Alzheimer's beta-amyloid fibrils. Antzutkin ON, Balbach JJ, Leapman RD, Rizzo NW, Reed J, Tycko R. PNAS 97(24):13045-50 (2000)
Characterization and Sequencing of Prototypic Human T-Lymphotropic Virus Type 1 (HTLV-1) from an HTLV-1/2 Seroindeterminate Patient Allen Waziri, Samantha S. Soldan, Michael D. Graf, Jim Nagle, and Steven Jacobson J. Virol. 74(5):2178-2185 (2000)
Amyloid fibril formation by Aβ16-22, a seven-residue fragment of the Alzheimer's beta-amyloid peptide, and structural characterization by solid state NMR. Balbach JJ, Ishii Y, Antzutkin ON, Leapman RD, Rizzo NW, Dyda F, Reed J, Tycko R. Biochemistry 39(45):13748-59 (2000)
Oligodendrocytes in aging mice lacking myelin-associated glycoprotein are dystrophic but not apoptotic Weiss MD, Hammer J, Quarles RH. J. Neurosci. Res. 62(6):772-80 (2000)
Genomic imbalance in rat mammary gland carcinomas induced by 2-Amino-1-methyl-6-phenylimidazo(4,5-b)pyridine Minshu Yu, Doug-Young Ryu, Elizabeth G. Snyderwine Molecular Carcinogenesis 27(2):76-83 (2000)
Molecular Dynamics Simulations of Octyl Glucoside Micelles: Structural Properties Stephen Bogusz, Richard M. Venable, and Richard W. Pastor J. Phys. Chem. 104(23):5462-5470 (2000)

General nonlinear framework for the analysis of gene interaction via multivariate expression arrays Kim S, Dougherty ER, Bittner ML, Chen Y, Sivakumar K, Meltzer P, Trent JM. J. Biomed. Opt. 5(4):411-24 (2000)
Multivariate measurement of gene expression relationships. Kim S, Dougherty ER, Chen Y, Sivakumar K, Meltzer P, Trent JM, Bittner M. Genomics 67(2):201-9 (2000)
XAGE-1, a new gene that is frequently expressed in Ewing's sarcoma Liu XF, Helman LJ, Yeung C, Bera TK, Lee B, Pastan I. Cancer Res. 60(17):4752-5 (2000)
Bioactive motifs of agouti signal protein Virador VM, Santis C, Furumura M, Kalbacher H, Hearing VJ. Exp. Cell Res. 259(1):54-63 (2000)
Mutation analysis and description of sixteen RSH/Smith-Lemli-Opitz syndrome patients: Polymerase chain reaction-based assays to simplify genotyping Patrycja A. Krakowiak, Ngozi A. Nwokoro, Christopher A. Wassif, Kevin P. Battaile, Magorzata J.M. Nowaczyk, William E. Connor, Cheryl Maslen, Robert D. Steiner, Forbes D. Porter Am. J. Med. Genetics 94(3):214-227 (2000)
Rhesus and pig-tailed macaque parvoviruses: identification of two new members of the erythrovirus genus in monkeys Green SW, Malkovska I, O'Sullivan MG, Brown KE. Virology 269(1):105-12 (2000)

A stage-specific preparation to study the Ca2+-triggered fusion steps of exocytosis: Rationale and perspectives Joshua Zimmerberg, Paul S. Blank, Irina Kolosova, Myoung-Soon Cho, Masahiro Tahara, and Jens R. Coorssen Biochimie 82(4):303-314 (2000)
Theoretical formalism for kinesin motility I. Bead movement powered by single one-headed kinesins. Chen Y. Biophys. J. 78(1):313-21 (2000)

1999 (9 papers)

The zebrafish genome contains two distinct selenocysteine tRNA[Ser]sec genes Xu XM, Zhou X, Carlson BA, Kim LK, Huh TL, Lee BJ, Hatfield DL FEBS Lett. 454(1-2):16-20 (1999)
Characterization of a multicopy family of genes encoding a surface-expressed serine endoprotease in rat Pneumocystis carinii Russian DA, Andrawis-Sorial V, Goheen MP, Edman JC, Vogel P, Turner RE, Klivington DL, Angus CW, Kovacs JA. Proc. Assoc. Am. Physicians 111(4):347-56 (1999)
Asymmetry and direction reversal in fluctuation-induced biased Brownian motion Chen YD, Yan B, Miura R. Phys Rev E Stat Phys Plasmas Fluids Rela 60(4 Pt A):3771-5 (1999)
Novel Genes in the PAGE and GAGE Family of Tumor Antigens Found by Homology Walking in the dbEST Database Ulrich Brinkmann, George Vasmatzis, Byungkook Lee and Ira Pastan Cancer Res. 59:1445-1448 (1999)

Reduction of the nonspecific animal toxicity of anti-Tac(Fv)-PE38 by mutations in the framework regions of the Fv which lower the isoelectric point Onda M, Kreitman RJ, Vasmatzis G, Lee B, Pastan I. J. Immunol. 163(11):6072-7 (1999)
Expression profiling using cDNA microarrays Duggan DJ, Bittner M, Chen Y, Meltzer P, Trent JM. Nat Genet. 21(1 Suppl):10-4 Review. (1999)
Genomic organization and mapping of the human and mouse neuronal β2-nicotinic acetylcholine receptor genes Lueders KK, Elliott RW, Marenholz I, Mischke D, DuPree M, Hamer D. Mamm. Genome 10(9):900-5 (1999)
GalR mutants defective in repressosome formation Geanacopoulos M, Vasmatzis G, Lewis DE, Roy S, Lee B, Adhya S. Genes Dev. 13(10):1251-62 (1999)
Analysis of selenocysteine (Sec) tRNA([Ser]Sec) genes in Chinese hamsters Xu XM, Carlson BA, Kim LK, Lee BJ, Hatfield DL, Diamond AM. Gene 239(1):49-53 (1999)

1998 (2 papers)

Information technology applications in biomedical research Martino, R.L. Kempner, K.M. Johnson, C.A. Information Technology Applications in B ITAB98:28-34 (1998)

Parallel computing strategies for determining viral capsidstructure by cryoelectron microscopy Lanczycki, C.J. Johnson, C.A. Trus, B.L. Conway, J.F. Steven, A.C. Martino, R.L. Computational Science & Engineering, IEE 5(2):76-91 (1998)