Immunology Ontologies: Difference between revisions
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The Protein Ontology ([http://pir.georgetown.edu/pro/ PRO]) | The Protein Ontology ([http://pir.georgetown.edu/pro/ PRO]) | ||
The Gene Ontology ([http://www.geneontology.org/ GO]) | The Gene Ontology ([http://www.geneontology.org/ GO]) | ||
The Cell Ontology ([http://www.obofoundry.org/cgi-bin/detail.cgi?id=cell CL]) | The Cell Ontology ([http://www.obofoundry.org/cgi-bin/detail.cgi?id=cell CL]) | ||
The Immune Epitope Ontology ([http://70.167.3.46/iedb/ ONTIE]) | The Immune Epitope Ontology ([http://70.167.3.46/iedb/ ONTIE]) | ||
The Infectious Disease Ontology ([http://infectiousdiseaseontology.org/page/Main_Page IDO]) | The Infectious Disease Ontology ([http://infectiousdiseaseontology.org/page/Main_Page IDO]) | ||
== Portals == | == Portals == | ||
Revision as of 23:52, 19 April 2013
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
- 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.
