Infectious Disease: A New Challenge for Biomedical Informatics

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Presentation transcript:

Infectious Disease: A New Challenge for Biomedical Informatics September 21, 2007 Cold Spring Harbor Laboratory Supported by: The Burroughs Wellcome Fund

Workshop on Infectious Disease Ontology September 19 – 20, 2007 Cold Spring Harbor Laboratory Supported by the Burroughs Wellcome Fund

Purpose of Infectious Disease Ontology (IDO) Integration of infectious disease relevant data and information Sequence and protein data for various pathogens Case report data for patients Clinical trial data Epidemiological Data Basic biomedical, clinical care, and public health data

Scope of IDO What content is needed to adequately cover the infectious domain? Host-related terms (e.g. carrier, susceptible) Pathogen-related terms (e.g. virulence) Terms for the biology of disease pathogenesis (e.g. evasion of host defense) Population-level terms (e.g. epidemic) What should be in other ontologies? Gene Ontology Biological Process Ontology Clinical Trial Ontology

Currently Envisioned Structure of IDO Reference ontology with terms relevant to any infectious disease Built on OBO Foundry principles and ontologies Disease-specific ontologies built as extensions

Preliminary Development Work Generated term list Discussed definitions Developed hierarchy Asserted part_of relations

Future Work Identify missing terms Identify terms already in existing ontologies Create definitions UT Southwestern – pathogen terms Richard Scheuerman University of Michigan – vaccine terms Yongqun He

Test IDO by developing disease-specific ontologies U of Michigan - Brucella (Brucilosis) Yongqun He IMBB: Vector borne diseases (emphasis on malaria) Christos Louis Colorado State University: Denque fever Saul Lozano-Fuentes Duke: Tuberculosis Carol Dukes-Hamilton Cleveland Clinic – Infective Endocarditis Sivaram Arabandi MITRE, Mt Sinai – influenza Joann Luciano, Stuart Sealfon

Getting Involved Wiki Email list http://www.bioontology.org/wiki/index.php/ Infectious_Disease_Ontology Email list ido@duke.edu https://lists.duke.edu/sympa/ Infectious Disease Ontology Consortium