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Influenza Application Ontology Home Page

History

• This project had it's beginnings with the purpose to develop an Influenza Infectious Disease Ontology (I-IDO), as part of the IDO (Infectious Disease Ontology) family of ontologies. The IDO ontologies are a set of interoperable ontologies that together provide coverage of the infectious disease domain.
• The Influenza Application Ontology has developed and grown as part of this project into a fuller and richer ontology, extensible for any virus sequence and surveillance collection project which encompasses the core IDO biomedical and clinical aspects of infectious diseases for influenza.

Consortium Members

• A collaborative group of influenza researchers have established an influenza application ontology.
• Working together Joanne Luciano (MITRE), Lynn Schriml (University of Maryland, School of Medicine), Burke Squires (University of Texas Southwestern Medical Center (UTSW)) and Richard Scheuermann (UTSW) have consolidated influenza sequence and surveillance terms from resources such as the BioHealthBase (BHB), a Bioinformatics Resource Center (BRC) for Biodefense and Emerging and Re-emerging Infectious Diseases, the Centers for Excellence in Influenza Research and Surveillance (CEIRS) with the help of Eric Bortz (Mount Sinai School of Medicine) and Torsten Staab (Los Alamos National Laboratory), and the Gemina and Influenza Virus Genome Projects.

Project Goal

• The immediate goal of I-IDO is to apply the Influenza Infectious Disease Ontology to data collected as part of the CEIRS projects in an effort to enable influenza researchers to more easily elucidate the causes of influenza virulence and pathogenesis.

Links

Internal Project Links

• Curation Files
  • Burke's hierarchy of terms: I-IDO Structure Version 2
  • Ontologies to Map
  • Influenza Ontology Google Docs Home Page
  • This is our overview working document, found in google docs: flu ontology 28:
  • I-IDO V3 Ontology Matching
    • Spreadsheet we are now using to map terms from Burke's hierarchy, found on (1 : I-IDO V2)
  • Team Members Definition Assignments: Joanne's definition spread sheet, with our three worksheets, splitting up the terms to define

External Links

• • CEIRS Pilot Project Mapping Data
  • Influenza Google Groups
  • HTML Version of OBI
  • [1] EBI’s Ontology Lookup Service (list of browsable ontologies)]
  • EBI’s Ontology Lookup Service Search Box
  • OBI’s Wiki
    • OBI’s Wiki: Digital Entity Terms (information entity)
  • OBI’s Google Groups page
    • Has listservs for various topics like
      • obi-denrie-branch - List to discuss terms in the ontology of digital_entity/non-realizable_info_entity branch such as digital document, data set...
      • obi-role-branch - List to discuss terms in the ontology of roles such as Principle investigator, Patient, Reagent...
      • obi-instrument-branch - List to discuss terms in the ontology of instrument branch such as microarray, flow cytometer...
      • obi-relations - List to discuss terms in the ontology of relations branch such as is_manufactured_by, has_function...
  • OBI Sourceforge Issue Tracker
  • OBO Foundry's wiki on naming conventions