Immunology Ontologies and Their Applications in Processing Clinical Data

The National Center for Biomedical Ontology in collaboration with the Protein Ontology (PRO) and the Infectious Disease Ontology (IDO) Consortia will host a three-day dissemination workshop in Buffalo, NY on June 11-13, 2012.

Goals

Provisional goals of the meeting are:

To identify and coordinate activities on-going in the field of immunology ontology, with special attention to the use of ontologies to support clinical data analysis in flow cytometry and other fields.

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Draft Schedule

Day 1: Monday, June 11, 2012: 10:00am-5:00pm

An Overview of Ontologies to Support Research in Immunology and Infectious Disease

Morning: GO, PRO, CL, IO, IEO

Ideas:

Immune pathway representations

Representation of cells used in experiments such as: PBMCs, splenocytes, adherent cells

Representation of immunology experiments using OBI

Representing epitope mapping experiments for IEDB

Afternoon: IDO and Its Extensions

Day 2: Tuesday, June 12, 2012: 9:00am - 5:00pm

Practical Applications of Ontologies in Clinical Research

Day 3: Wednesday, June 13, 2012: 9:00am - 4:00pm

Practical Applications of Ontologies in Flow Cytometry Research

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Relevant ontology efforts

GO-IP Gene Ontology -- Immunological Process (Alex Diehl)

CL Cell ontology immune branches (e.g. for dendritic cells)

PRO Protein Ontology

IO Immunology Ontology (Lindsay Cowell and Alex Diehl)

IEO Immune Epitope Ontology (Bjoern Peters)

MHC Major Histocompatibility Complex Ontology (Bjoern Peters)

OGMS Ontology for General Medical Science (Albert Goldfain)

IDO Infectious Disease Ontology (Lindsay Cowell)

Vaccine Ontology

AO Allergy Ontology (Alex C. Yu)

ND Neurological Disease Ontology (Alex Diehl)

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Participants will include

Ryan Brinkman (University of British Columbia, June 11-12)

Cliburn Chan (Duke University, June 11-12)

Lindsay Cowell (University of Texas Southwestern Medical Center)

Peter d'Eustachio (New York University, June 11-12)

Alex Diehl (University at Buffalo)

Albert Goldfain (University at Buffalo, Syracuse University and Blue Highway, Inc.)

Anna Maria Masci (Duke University)

Darren Natale (Georgetown University)

Bjoern Peters, (University of California at San Diego)

Alan Ruttenberg (University at Buffalo)

Richard Scheuermann (University of Texas Southwestern Medical Center)

Barry Smith (University at Buffalo)

Alex C. Yu (University at Buffalo)

Cathy Yu (University of Delaware, Georgetown University)