Mar2008 ontology report

Ontology Development & GO Editorial Office Report - March 2008

I. Ontology Development

• SourceForge
  • Items opened:
  • Items closed:
    • GO Eds:
    • MOD curators: (details in Appendix 1)
    • GO Ed/MOD collaborations: (details in Appendix 2)
  • Items still open:
    • assigned, GO Eds:
    • assigned, MOD curators:
    • unassigned:

• Content items resolved
  • 'Regulates' relationships live (yay!) (David, Tanya, Chris, et al.)
  • Electron transport reorganization live (Jen and electron transport wg)
  • Sporulation terms reorganized (connected with the last of the sensu revamp, http://wiki.geneontology.org/index.php/Sporulation_Meeting_Notes)
  • Several SourceForge 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
  • Lipoprotein-related process and component terms - small collaboration with UCL and Reactome
  • Signal transduction overhaul
  • Various SourceForge items

• Switched to new go/ontology/directory structure ( Ontology_CVS_Directory_Layout_Overhaul )

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 ...)

• Advocacy/outreach
  • AmiGO release to use 'regulates'

• 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)

• Anything else
  • GO bibliography has 1876 entries

Appendix 1: MOD curators' SF items


Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved


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

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