Papers that used NIH HPC Systems resources

Papers that used NIH HPC (Biowulf) resources

If you have published research that has made significant use of these systems, please let us know by sending email to staff@hpc.nih.gov

2021 to date (170 papers)

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)
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)
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)
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)
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)
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)
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)
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)
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)
Prospective representations in rat orbitofrontal ensembles Zhou, J; Zong, W; Jia, C et al. Behav Neurosci, DOI://10.1037/bne0000451 (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)
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)

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)
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)
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)
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)
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)

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)
Immune transcriptomes from hospitalized patients infected with the SARS-CoV-2 variants B.1.1.7 and B.1.1.7 carrying the E484K escape mutation Lee, HK; Knabl, L; Knabl, L et al. medRxiv, DOI://10.1101/2021.05.27.21257952 (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)
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)
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)
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)

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)
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)
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)
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)

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)
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)
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)
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)
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)
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)
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)
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)
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)

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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)
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)

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)
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)
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)
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 (432 papers)

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)
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)
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)

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)
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)
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)
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)

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)

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)
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)
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)
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)

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)
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)
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)
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)
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)
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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)
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)
Interaction between Epithelial Sodium Channel γ-Subunit and Claudin-8 Modulates Paracellular Sodium Permeability in Renal Collecting Duct Sassi, A; Wang, Y; Chassot, A et al. J. Am. Soc. Nephrol., DOI://10.1681/ASN.2019080790 (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)
Distribution and evolution of the serine/aspartate racemase family in plants Uda, K; Edashige, Y; Nishimura, R et al. Phytochemistry, DOI://10.1016/j.phytochem.2019.112164 (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)

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)
Mammalian Surface Display Screening of Diverse Cystine-Dense Peptide Libraries for Difficult-to-Drug Targets Crook, ZR; Sevilla, GP; Mhyre, AJ; Olson, JM; Methods Mol. Biol., DOI://10.1007/978-1-4939-9853-1_21 (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)

2019 (522 papers)

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)
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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 (494 papers)

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)
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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 (409 papers)

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)
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)
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)
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)
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)
Extracellular vesicles, exosomes and shedding vesicles in regenerative medicine - a new paradigm for tissue repair Bjørge, IM; Kim, SY; Mano, JF; Kalionis, B; Chrzanowski, W; Biomater Sci, DOI://10.1039/c7bm00479f (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)
The emerging importance and challenges of the human mycobiome Kong, HH; Morris, A; Virulence, DOI://10.1080/21505594.2017.1279780 (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)
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)
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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)
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)
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)
Designer Drugs 2.0 Huestis, MA; Tyndale, RF; Clin. Pharmacol. Ther., DOI://10.1002/cpt.575 (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)
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)
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)
Immobilized MutS-Mediated Error Removal of Microchip-Synthesized DNA Wan, W; Wang, D; Gao, X; Hong, J; Methods Mol. Biol., DOI://10.1007/978-1-4939-6343-0_17 (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 (408 papers)

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)
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; Taghdir, M; Naderi-Manesh, H; J. Photochem. Photobiol. B, Biol., 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)
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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 (340 papers)

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)
Distribution and evolution of the serine/aspartate racemase family in invertebrates Kouji Uda, Keita Abe, Yoko Dehara, Kiriko Mizobata, Natsumi Sogawa, Yuki Akagi, Mai Saigan, Atanas D. Radkov, Luke A. Moe Amino Acids, doi://10.1007/s00726-015-2092-0 (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)
A Transcriptional Map of the Renal Tubule: Linking Structure to Function Kretzler, M; Ju, W; J. Am. Soc. Nephrol., DOI://10.1681/ASN.2015030242 (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)
Cell Migration and Invadopodia Formation Require a Membrane-binding Domain of CARMIL2 M. Hunter Lanier, Patrick McConnell and John A. Cooper J. Biol. Chem. , doi: 10.1074/jbc.M115.676882 (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)
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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)
Renal Type A Intercalated Cells Contain Albumin in Organelles with Aldosterone-Regulated Abundance Thomas Buus Jensen, Muhammad Umar Cheema, Agata Szymiczek, Helle Hasager Damkier, and Jeppe Praetorius PLoS One, doi: 10.1371/journal.pone.0124902 (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)
High-Level Expression of Endo-β-N-Acetylglucosaminidase H from Streptomyces plicatus in Pichia pastoris and Its Application for the Deglycosylation of Glycoproteins Fei Wang, Xiaojuan Wang, Xiaolan Yu, Lin Fu, Yunyun Liu, Lixin Ma , Chao Zhai PLoS One, DOI: 10.1371/journal.pone.0120458 (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)
Vasopressin-responsive miRNAs and AQP2-targeting miRNAs in kidney collecting duct cells Jae-Eun Kim , Hyun Jun Jung , Yu-Jung Lee , Tae-Hwan Kwon Am. J. Physiol. - Renal Physiol., DOI: 10.1152/ajprenal.00334.2014 (2015)
A highly potent human antibody neutralizes dengue virus serotype 3 by binding across three surface proteins Guntur Fibriansah, Joanne L. Tan et al. Nature Communications, doi:10.1038/ncomms7341 (2015)
Design, Synthesis, and Application of Spinach Molecular Beacons Triggered by Strand Displacement Sanchita Bhadra, Andrew D. Ellington Methods in Enzymology, doi:10.1016/bs.mie.2014.10.049 (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)
Analysis of soluble protein entry into primary cilia using semipermeabilized cells David K. Breslow, Maxence V. Nachury Methods in Cell Biology, doi:10.1016/bs.mcb.2014.12.006 (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)
Structures of oxalate oxidoreductase : C₂ activation by a microbial TPP-dependent ferredoxin oxidoreductase Gibson, Marcus Ian PhD Thesis, MIT Dept of Chemistry (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)
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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)
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