wiki:OntologiesInUse

Ontologies used for extensions

ontologyabbrtracker URL
Cell OntologyCLhttps://github.com/obophenotype/cell-ontology/issues
CHEBICHEBIhttps://sourceforge.net/p/chebi/curator-requests/
Gene OntologyGOhttps://github.com/geneontology/go-ontology/issues
PATOPATOhttps://github.com/gkoutos/pato/issues/
PfamPfamN/A, but contact helpdesk - pfam-help at sanger.ac.uk
Protein OntologyPRhttp://sourceforge.net/p/pro-obo/term-requests/
PSI-MODMODhttp://sourceforge.net/p/psidev/mod-controlled-vocab-changes/
Sequence OntologySOhttps://github.com/The-Sequence-Ontology/SO-Ontologies/issues

An example of each relation used should be added here:

ListOfRelationsForGO

For some ontologies, terms used should be added to the collection of ontology subsets that we maintain (as a /mini-ontologies/ sub-directory of the pombe-embl svn repository)

  • chebi.obo
  • pato.obo
  • cl.obo

For these ontologies please edit the is_a parent to point to PATO:0000001 ("quality"), CL:0000000 ("cell"), or CHEBI:24431 ("chemical entity") as appropriate.

Last modified 5 years ago Last modified on Aug 5, 2015, 4:43:12 PM