Jul2008 ontology report

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Ontology Development & GO Editorial Office Report - July 2008

I. Ontology Development

  • SourceForge
    • Items opened: 106
    • Items closed: 80
      • GO Eds: 50
      • MOD curators: 15 (details in Appendix 1)
      • GO Ed/MOD collaborations: 15 (details in Appendix 2)
    • Items still open: 268
      • assigned, GO Eds: 80
      • assigned, MOD curators: 107
      • unassigned: 81
  • Content items resolved
    • Several SourceForge items resolved
  • Content items in progress
    • New additions for (Jane, with PAMGO curators)
    • Processes affecting cellular components - meeting July 9, with follow-up work planned (Jane, David, Midori, Val, et al.)
    • More progress on peptidase MF terms, with planned obsoletions announced (Midori, Colin, Peter, Ben, Darren Natale, MEROPS)
    • Considerable progress on taxon links, including timeline, editing pipeline, scripts, and some content (Jen, Chris, others ad hoc)
    • Several things continuing as reported in May and June.
      • Signal transduction overhaul continuing; latest notes at Signaling_Meeting_Minutes_April_2008_- (Jen, David)
      • Drug transport (part of latest round of transport work|Steve_Oliver%27s_Transport_Group#3rd_June.2C_2008) (Jen, with Paul Dobson)
      • Regulates relationships for multi-organism processes (Jane)
      • Function-process links for electron transport, metabolic pathways (Jen, Harold, et al.)
    • Various SourceForge items

See monthly report in CVS for ontology statistics.

II. GO Editorial Office activities not represented in part I

  • Amelia at Berkeley
  • OBO-Edit working group:
    • OBO-Edit 2 testing continues; considerable progress on documentation
    • Jen doing further work on the GraphViz viewer (now mainly configuration and obomerge GUI
  • Advocacy/outreach
    • Usual gohelp traffic
  • Publications
    • Updated version of Current Protocols in Bioinformatics article in press (Judy, Midori)
  • Meetings
    • OBO Foundry meeting July 7-8 (Jane)
    • High Throughput Cell Based Screening Workshop, July 17-18 (Midori)
  • Anything else
    • GO bibliography has 2049 entries
Appendix 1: MOD curators' SF items
1482309 David
1605697 David
1913922 David
1962458 Tanya, David, Karen C
1963303 David, Tanya
1968595 David
1970310 David
1986941 Donghui
1990703 David, Tanya
1992453 David, Tanya
1998647 David, Tanya
2013889 Donghui
2015913 David
2023438 David
2023442 David, Tanya


Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved
1729553 Rama
1778552 Val, Rama, Karen C
1900079 Rama, Karen C, Maria
1995003 David, Val
2006931 Kimberly, Gary Schindlema
2008569 Chris
2014185 Peter
2016121 Chris, David
2016180 Ruth
2016244 Peter
2020664 Karen C, Val
2020863 Karen 
2023698 Peter
2024659 Val
2032612 Karen C


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

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