Immunology Ontologies

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Events

Lecture and practical session on Immunology Ontology as part of Summer School for Quantitative Systems Immunology, Boston, MA, June 11, 2013


Ontologies

The Protein Ontology (PRO) The Gene Ontology (GO) The Cell Ontology (CL) The Immune Epitope Ontology (ONTIE) The Infectious Disease Ontology (IDO)


Portals

ImmPort

to support data analysis (example: GO enrichment of microarray data)
to support text mining and NLP, document retrieval
example: GOPubMed
to integrate heterogeneous data / heterogeneous research communities (example: the OBO (Open Biological and Biomedical Ontologies) Foundry)

1:00-3:00pm: Practical Session

Hands-on example of building a small ontology in the immunological domain

Background Reading

Diehl AD, Augustine AD, Blake JA, Cowell LG, et al. Hematopoietic cell types: prototype for a revised cell ontology. J Biomed Inform. 2011; 44(1).

Meehan TF, Masci AM, Abdulla A, Cowell LG, et al. Logical development of the cell ontology. BMC Bioinformatics. 2011; 12.

Aravind Subramanian, et al. Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles, PNAS, 102 (43), 15545–15550.

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