Ontology Development: Difference between revisions

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**[[cell growth/proliferation/division]]
**[[cell growth/proliferation/division]]
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**[[oxidoreductases]]
**[[Uberon alignment]]


===Timeline===
===Timeline===

Revision as of 11:14, 9 August 2011

This group's purpose is to ensure that the Gene Ontology represents biology in a way that is useful for gene product annotation of reference genomes and other MODs using the GO for annotation. The group serves as the link between biological knowledge that is gained from wet-bench scientists and the representation of that knowledge in the GO. Members of the group are responsible for reporting areas of the GO that need development and for suggesting changes and additions to the GO as needs arise. Members of the group serve as biological experts in domains that are covered by their organism. They are responsible for reviewing changes to be sure that they accurately reflect our current understanding of biology.

Administrative

Content Development

Priority ranking

Timeline

2010 Timeline

2011 Timeline

Current content work

  • Chemical terms in GO - manually curate GOCHE (June 2010), fix relationships in GOCHE (June/July 2010), align GOCHE with ChEBI (July 2010), submit paper (sept 2010).
  • Internal cross-products (first set Jan 2010, cc x cc (po) May 2010, bp x bp (po) June 2010
  • Virus-related term overhaul (Michelle Gwinn Giglio, Jane Lomax, Candace Collmer, Ariane Toussaint, Brenley McIntosh & others)(waiting on file from Philipe le Mercier - some time 2010)
  • Signaling overhaul (high-level terms committed Feb 2010), Becky clean-up until May 2010
  • Transcription & transcription factor activity overhaul - started June 2008 completion target July 2010
  • Taxon data (file committed Feb 2010, Jane maintaining file until UniProt new person takes it over in summer)
  • Function-Process Links - pilot projects begun Feb. 2008; first links added May 2009, transporters->transport finished May 2010, catalytic activities end 2010
  • Generic GO slim overhaul - (finished first round, needs refining)
  • kidney development (generic kidney finished March 2010, metanephros April 2010, pronephros May 2010, mesonephros, June 2010, fly renal, July 2010, Sept 2010 write paper)
  • Non-symbiotic multi-organism processes
  • QC - ongoing
  • SF ongoing
  • Enzyme reaction mappings to EC, MetaCyc, KEGG, other dbs? - ongoing

Future content work

Selected SourceForge links

Completed content work

Proposed content work

A list of topics that we propose to address, but for which a timeline has not been set

Other Ontology Development Group Activities

Reports

Beginning with the November 2006 document, reports emphasize ontology development work. Reports issued between November 2006 and December 2009 also include a section that gives an overview of other GO Editorial Office staff activities, with the emergence of regular reports from other management groups, the second section has become redundant. Reports issued prior to November 2006 are not divided into parts, and have a GO Editorial Office-centric perspective, but do cover a substantial portion of the GOC's ontology development work.

Editor's Conference calls-fortnightly 8-8:30PST

GO Clinics