Influenza Research Database (IRD)

www.fludb.org

Influenza Research Database(IRD)

26 September 2011

Richard H. Scheuermann, Ph.D.

Department of Pathology

U.T. Southwestern Medical Center

www.fludb.orgHistory of IRD

SEP2004

APR2007

DEC2009

www.fludb.orgCEIRS Network

www.fludb.orgInfluenza Virus

Orthomyxoviridae familyNegative-strand RNASegmentedEnveloped

8 RNA segments encode11 proteinsClassified based on serology of HA and NA

www.fludb.orgPublic Health Impact of Influenza

• Seasonal flu epidemics occur yearly during the fall/ winter months and result in 3-5 million cases of severe illness worldwide.

• More than 200,000 people are hospitalized each year with seasonal flu-related complications in the U.S.

• Approximately 36,000 deaths occur due to seasonal flu each year in the U.S.

• Populations at highest risk are children under age 2, adults age 65 and older, and groups with other co-morbidities.

• Pandemics– 1918 Spanish flu (H1N1); 20 - 100 million deaths– 1957 Asian flu (H2N2); 1 - 1.5 million deaths– 1968 Hong Kong flu (H3N2); 750,000 - 1 million deaths– 2009 Swine origin (H1N1); > 16,000 deaths as of March 2010

Source: World Health Organization - http://www.who.int/mediacentre/factsheets/fs211/en/index.html

www.fludb.orgIRD Overview

www.fludb.org

www.fludb.orgData Summary

www.fludb.orgData Sources

www.fludb.orgSearch Access to Data

www.fludb.org

www.fludb.orgData Types

www.fludb.orgAnalysis and Visualizationwww.fludb.org

www.fludb.orgAnalysis and Visualization Tools

www.fludb.orgWorkbench Access

www.fludb.org

www.fludb.orgData Submission

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www.fludb.orgData Submission Page

www.fludb.org

DATA INTEGRATION

www.fludb.org3D Structure Viewer

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UNIQUE COMMUNITY DATA

www.fludb.orgSurveillance Search

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www.fludb.orgGoogle Maps Display

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UNIQUE IRD DATA

www.fludb.orgSFVT

www.fludb.orgSF definition

• SF can be defined for any region of interest because of structural or functional properties

• Defined based on experimentation reported in the literature, 3D protein structures (PDB records), UniProt annotations and IEDB epitope records

• Defined by the specific amino acid positions in the polypeptide chain

• Manually curated and externally validated

www.fludb.orgSF Counts

www.fludb.orgNS1 Functional SFs

www.fludb.orgSF Details

www.fludb.orgVTs

www.fludb.orgVT-specific Strain List

www.fludb.orgIRD Summary

• Funded by U.S. National Institute of Allergy and Infectious Diseases (NIAID)

• 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

• Integration – Integration – Integration

• www.fludb.org

www.fludb.orgChallenges and Future Directions

• Inconsistent annotations• Competition with other influenza-focused resources• GISAID collaboration• Host systems biology and “omics” data

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• U.T. Southwestern– Richard Scheuermann (PI)– Burke Squires– Jyothi Noronha– Victoria Hunt– Shubhada Godbole– Brett Pickett– Yun Zhang

• MSSM– Adolfo Garcia-Sastre– Eric Bortz– Gina Conenello– Peter Palese

• Vecna– Chris Larsen– Al Ramsey

• LANL– Catherine Macken– Mira Dimitrijevic

• U.C. Davis– Nicole Baumgarth

• Northrop Grumman– Ed Klem– Mike Atassi– Kevin Biersack– Jon Dietrich– Wenjie Hua– Wei Jen– Sanjeev Kumar– Xiaomei Li– Zaigang Liu– Jason Lucas– Michelle Lu– Bruce Quesenberry– Barbara Rotchford– Hongbo Su– Bryan Walters– Jianjun Wang– Sam Zaremba– Liwei Zhou

• IRD SWG– Gillian Air, OMRF– Carol Cardona, Univ. Minnesota– Adolfo Garcia-Sastre, Mt Sinai– Elodie Ghedin, Univ. Pittsburgh– Martha Nelson, Fogarty– Daniel Perez, Univ. Maryland– Gavin Smith, Duke Singapore– David Spiro, JCVI– Dave Stallknecht, Univ. Georgia– David Topham, Rochester– Richard Webby, St Jude

• USDA– David Suarez

• Sage Analytica– Robert Taylor– Lone Simonsen

• CEIRS Centers

Acknowledgments

N01AI40041