Www.viprbrc.org Yun Zhang J. Craig Venter Institute San Diego, CA, USA August 4, 2012 Integrated Bioinformatics Data and Analysis Tools for Herpesviridae.

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Presentation transcript:

Yun Zhang J. Craig Venter Institute San Diego, CA, USA August 4, 2012 Integrated Bioinformatics Data and Analysis Tools for Herpesviridae Viruses in the Virus Pathogen Resource (ViPR)

NIH/NIAID-funded free bioinformatics database online – Bioinformatics Resource Centers (BRC) contract Fourteen human virus families including Herpesviridae Integrated data from various sources Suite of data analysis and visualization tools Introduction to Virus Pathogen Resource (ViPR)

Integrated Data from Many Sources

Sequence Search Options

Analysis and Visualization Tools

GBrowse for Genome Viewing

Multiple Sequence AlignmentPhylogenetic Tree Metadata-driven Comparative Analysis Tool (Meta-CATS) Comparative Analysis Tools

3D Protein Structure Visualization

Lynn Enquist / Moriah Szpara, Princeton University Obtain and assemble deep sequencing data of HSV-1 isolates Differentially expressed genes in human neuronal cells during a time course of infection Host Factor Data

Free and open access with no use restrictions Developed by a team of research scientists, bioinformaticians and professional software developers Comprehensive collection of public data Novel derived data, novel analytical tools, unique functions – New tools and new data driven by user requests Training and support Summary

J. Craig Venter Institute Richard H. Scheuermann, Ph.D., Principal Investigator Brett Pickett, Ph.D. Lucy Stewart, MBA Yun Zhang, M.Sc. Northrop Grumman Health IT Mike Atassi, Program Manager Ed Klem, Ph.D., Project Manager Patty Berger Zhiping Gu, Ph.D. Sherry He Wenjie Hua Wei Jen Sanjeev Kumar Xiaomei Li, Ph.D. Jason Lucas Bruce Quesenberry Barbara Rotchford Prabhu Shankar Tom Smith, Ph.D. Hongbo Su, Ph.D. Bryan Walters Sam Zaremba, Ph.D. Hongtao Zhao, Ph.D. Liwei Zhou, Ph.D. Vecna Technologies Chris Larsen, Ph.D. Al Ramsey, Ph.D. Guangyu Sun, Ph.D. Co-PI’s Michael Gale, Ph.D. (University of Washington) Jingming Ma, Ph.D. (University of Rochester Medical Center) Scientific Working Group Richard Kuhn ( Purdue University) Raul Andino ( University of California, San Francisco) Slobodan Paessler ( University of Texas Medical Branch at Galveston) X.J. Meng ( Virginia Polytechnic Institute and State University) Colin Parrish ( Cornell University) Elliot Lefkowitz ( University of Alabama, Birmingham) Carla Kuiken ( Los Alamos National Laboratory) David Knipe ( Harvard University) Matthew Henn ( Broad Institute) Richard Whitley ( University of Alabama, Birmingham) John Young ( Salk Institute for Biological Studies) NIAID / DMID Alison Yao, Ph.D., Program Officer, Microbial Genomics & Advanced Technologies N01AI Acknowledgements