Aug2010 ontology report

Ontology Development Report - July 2010

I. Ontology Development

Tracker

• Items opened: 102
• Items closed: 88
• Items still open: 325
  • assigned: 231
  • unassigned: 94

Completed content items

• Kidney development: mesonephros terms are done [David]
• BPxBP (BP involved_in BP) clean-up for parsing is done [David and Tanya]
• Various SourceForge items [all]

Content items in progress

• Overhaul of transcription proposal complete, and has been sent out to GOC for comments. Almost ready to proceed with edits [David & Karen]
• Final stages of checking the BP-BP cross-products. Clean-up done (all 'during' terms fixed), now need to look at the reasoner results and fix up the details [David & Tanya]
• Chemicals in GO project: we had a successful GOCHE meeting, with CHEBI, 22-25 July. Next steps are to add missing GOCHE terms to CHEBI, make some fixes to GO and CHEBI then make CHEBI xps in GO. [David, Tanya, Jane & Harold]
• Ready to commit mesonephros terms for kidney project [David]
• Automatic cross product term submission tool almost ready to release to wider group (regulates terms only) [Chris, Seth, Jane, David, Tanya, Amelia]
• F-P links for transporters complete. Beginning work on catalytic activity [David, Tanya]

• Quality control continues as usual - reports generated by Chris (cronjobs)
  • Reasoner-based implied links for new regulation terms - also see above (David, Tanya)
  • Abduced links [[1]](David, Tanya)

Publications

• Heart development paper is in the draft stage [David, Varsha]
• GOCHE paper manuscript started [David, Tanya, Jane & Harold]
• "Unifying Themes in Microbial Associations with Animal and Plant Hosts Described Using the Gene Ontology" accepted by Microbiology and Molecular Biology Reviews [Jane, Michelle, PAMGO consortium]
• Case studies for publication on "revisability" of GO, proposed and coordinated by Sabina Leonelli - in progress [Midori, Jane, Alex, Karen C]

Anything else

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