NIH HPC Systems

The NIH HPC group plans, manages and supports high-performance computing systems specifically for the intramural NIH community. These systems include Biowulf, a 105,000+ processor Linux cluster; Helix, an interactive system for file transfer and management, Sciware, a set of applications for desktops, and Helixweb, which provides a number of web-based scientific tools. We provide access to a wide range of computational applications for genomics, molecular and structural biology, mathematical and graphical analysis, image analysis, and other scientific fields.

Current Status

All Services Operational

COVID-19 Research Support

61.5+ Million CPU hours used
1.4+ Million jobs run

Sample projects (All projects):

Text mining of COVID-related scientific literature in LitCovid and CORD-19 [NLM/NCBI]
Modeling unreported SARS-Cov2 infection from observed cases, computational modeling of Covid-19 biological systems. [NIDDK]
SARS-CoV-2 RNA structural analyses [NIAMS]
Assessing newly generated and previously known compounds for activity against SARS-Cov-2 [NCI]
Cryo-electron microscopy of virus proteins and complexes [NCI_CCR]
Surveillance sequencing of SARS-CoV-2 and tracking of emerging variants of concern, Microbiome analysis of respiratory samples from covid19 patients. [NIAID]
Atomic-level structure of the SARS-CoV-2 spike using cryo-electron microscopy [NIAID_VRC]

Biowulf users with COVID-related projects should contact the HPC staff to get increased priority for their jobs.

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Biowulf Utilization

Friday, May 7th, 2021

Last 24 hrs
126,653 jobs submitted 100,905 jobs completed 3,097,149 CPU hrs used	23 NIH Institutes 233 Principal Investigators 467 users

Announcements

(All)

6 May 2021 : Zoom-In Consult for Biowulf Users (Wed 12 May)
4 May 2021 : Request for information about Covid-related papers and preprints
3 May 2021 : NIH HPC Biowulf Cluster Downtime Jun 5, 2021
29 Apr 2021 : Connectivity to Biowulf cluster has been restored
20 Apr 2021 : REMINDER: Zoom-In Consult with HPC staff tomorrow (Wed 21 Apr)
20 Apr 2021 : Upcoming NIH HPC class "Deep Learning by Example on Biowulf - Class #2"
15 Apr 2021 : Zoom-In Consult for Biowulf Users (Wed 21 Apr)

Recent Papers that used Biowulf & HPC Resources

(All publications)

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)

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)

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)

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)