May2010 ontology report

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Ontology Development Report - May 2010

I. Ontology Development


  • Items opened: 75
  • Items closed: 65
  • Items still open: 245
    • assigned: 135
    • unassigned: 110

Completed content items

  • cc x cc (part_of only) added to live ontology
  • Various SourceForge items

Content items in progress

  • Lots of preparation for annotation camp [all]
  • Transcription revamp (BP & MF) in preparation for transcription meeting in Spain, June [David & Karen]
  • F-P links between transporter activities and transport processes almost finished [David & Tanya]
  • BP-BP cross products for part_of links [David & Tanya]
  • Signaling- working through the existing signaling terms to make them more consistent and fill in any gaps. [Becky]
  • More work on kidney terms [Becky, David, Yasmin, Doug]
  • Chemical_terms_in_GO - continuing to edit the GOCHE ontology (chemicals in GO) [David, Tanya, Jane & Harold]
  • Adding lots of transmembrane transport terms for Val's goslim mappings. [Becky]
  • Standardizing the GO terms that contain the word 'during'. [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)
    • Multiple part_of parents (several GO curators, especially Tanya & David)
    • Abduced links [[1]](David, Tanya)
    • Problematic regulates terms [[2]](David, Tanya)


  • Case studies for publication on "revisability" of GO, proposed and coordinated by Sabina Leonelli - in progress (Midori, Jane, Alex, Karen C)

Anything else

  • GOCHE meeting planned late July in CA

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