June2007 ontology report

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Ontology Development & GO Editorial Office Report - June 2007

I. Ontology Development

  • SourceForge
    • Items opened: 62
    • Items closed: 62
      • GO Eds: 42
      • MOD curators: 5 (details in Appendix 1)
      • GO Ed/MOD collaborations: 15 (details in Appendix 2)
    • Items still open: 279
      • assigned, GO Eds: 57
      • assigned, MOD curators: 49
      • unassigned: 173


  • Other content items resolved
    • Disjointness violations in process ontology resolved (Jane and David)
    • Some additions/updates for PAMGO (Jane)
    • All cellular component terms now defined
    • Various small things for SourceForge items


See monthly report in CVS for ontology statistics.

II. GO Editorial Office activities not represented in part I

  • OBO-Edit working group:
    • Additional OBO-Edit 2.0 betas released; demos and testing under way
  • Software hub group (Jane, Amelia):
    • AmiGO working group (Jane, Amelia)
      • Continuing development to prepare for next AmiGO 1.0 release
      • Discussing various interface options
    • Further work on SourceForge tracker submission tool (programmed by Seth; tested by AWG and GO Eds)
  • Advocacy group (Jane):
    • Usual gohelp traffic; a few more curators have joined the rota
  • Annotation outreach (Jen) (note: much more detail in Jen's group report)
    • More work on flowcharts
    • Jen has learned the art of UniProt GO annotation from Emily
  • Conferences/meetings
    • Wellcome Advanced Course: Functional Genomics - talk on "Using GO for analysis of expression data" (Jane)
    • Cardio content meeting (David, Simon, experts; see above)
    • Planning for muscle content meeting (Jen, Erika; see above)
    • Fact-finding on running annotation/ontology development courses at EBI (Jen, for Ruth Lovering & WT grant application)
  • Anything else
    • IMG mapping: "terms" done; "pathways" in progress (Jane)
    • GO Bibliography now has 1451 entries
Appendix 1: MOD curators' SF items
1723713 - David
1728531 - David
1723691 - David, Maria, Val
1730751 - David
1732046 - David

Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved
1578969 - Eurie, Val
1731073 Chris, Melissa
1729186 - Petra
1731477 - Karen C
1734036 - Karen C
1499218 - Sue, Donghui
1741185 - Michelle
1741376 - Matt, David Roos (community expert)
1740879 - David, Louise Dougherty
1742917 - Alex
1728308 - Vladimir Mironov (community expert)
1728275 - Val
1744717 - Val
1728276 - Val
1728279 - Val, Rob, Eurie


(Note: "MOD curator" is shorthand for any non-GO-Ed curator)

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