Integrated Bioinformatics Data and Analysis Tools for ... - ViPR

signtruculentBiotechnology

Oct 2, 2013 (3 years and 10 months ago)

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www.viprbrc.org

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
)


www.viprbrc.org

Integrated Data from Many Sources

Sequence Search Options

Analysis and Visualization Tools

GBrowse

for Genome Viewing

M
ultiple
S
equence
A
lignment

P
hylogenetic
T
ree

Metadata
-
driven Comparative Analysis Tool (M
eta
-
CATS
)

Comparative Analysis Tool
s

3D P
rotein Structure Visualization

Lynn
Enquist

/
Moriah

Szpara
, Princeton University


Obtain and assemble deep
s
equencing data of HSV
-
1 isolates


Differentially expressed genes in human neuronal cells during a time course of infection

H
ost 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


www.viprbrc.org/



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

N01AI2008038

Acknowledgements