Mar2008 ontology report

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Ontology Development & GO Editorial Office Report - March 2008

I. Ontology Development

  • SourceForge
    • Items opened: 56
    • Items closed: 48
      • GO Eds: 32
      • MOD curators: 4 (details in Appendix 1)
      • GO Ed/MOD collaborations: 12 (details in Appendix 2)
    • Items still open: 281
      • assigned, GO Eds: 56
      • assigned, MOD curators: 63
      • unassigned: 162
  • Content items resolved
  • Content items in progress
    • Follow-up to 'regulates' work -- David and Tanya are still correcting errors reported by Chris' QC scripts; error reports will continue to be generated at least until OBO-Edit 2.0 is released (http://wiki.geneontology.org/index.php/Regulation_Main_Page).
    • Function-process pilot projects under way (http://wiki.geneontology.org/index.php/Function-Process_Links)
      • electron transport
      • glycolysis & TCA cycle (Harold)
    • Lipoprotein-related process and component terms - small collaboration with UCL and Reactome (Midori)
    • Signal transduction overhaul (Jen doing initial work and finding experts)
    • Additional transport work (Jen plus experts including Steve Oliver's group)
    • Initial exploration of plant processes affected by herbicides
    • Various SourceForge items
  • IMG mapping update in progress (Jane)

See monthly report in CVS for ontology statistics.

II. GO Editorial Office activities not represented in part I

  • Jane's back!
  • Amelia is preparing for another stint at Berkeley
  • OBO-Edit working group:
    • More bug testing and documentation for OBO-Edit 2.0 (it never ends ...)
    • Jen contributing to programming (e.g. GUI for obomerge)
  • Advocacy/outreach
    • AmiGO release to use 'regulates'
    • GO demo for WTGC master's students
    • Discussion with Steve Oliver on Aspergillus annotation jamboree
  • Meetings
    • GO talk and AmiGO demo at EBI training roadshow, Ghent (Jen)
    • Workshop on "Making Small Facts Travel: Labels, Packages and Vehicles", London School of Economics (Midori)
Appendix 1: MOD curators' SF items
1863992 David, Tanya
1912005 David
1929541 David
1929546 David, Tanya


Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved
1192485 Harold, Val
1807790 Jim
1881722 sporulation group
1894620 Peter
1898404 Chris, Alex, David
1901792 Karen C
1908887 Cindy
1909714 Rama
1911038 Alex
1911964 Rama, Val
1916944 Julie
1929533 Alex


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

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