Dec2007 ontology report

Ontology Development & GO Editorial Office Report - December 2007

I. Ontology Development

• SourceForge
  • Items opened: 100
  • Items closed: 79 (also 2 duplicates deleted)
    • GO Eds: 32
    • MOD curators: 37 (details in Appendix 1)
    • GO Ed/MOD collaborations: 10 (details in Appendix 2)
  • Items still open: 299
    • assigned, GO Eds: 40
    • assigned, MOD curators: 55
    • unassigned: 204

• Several SourceForge items resolved

• Content items in progress
  • content meeting on lung development held December 5-6 (http://wiki.geneontology.org/index.php/Lung_Development)
  • Work on sensu terms is almost finished; see http://gocwiki.geneontology.org/index.php/Meeting_Notes_3
  • David and Tanya are keeping track of rules they've applied in working on Chris' file of "regulation of non-process" anomalies; the next thing is to define the 'regulates' relationship, and meet with Chris (Jan. 11th, afternoon; as usual, see http://gocwiki.geneontology.org/index.php/Regulation_Main_Page)
  • Electron transport terms are being reorganized (David, Jen, Pascale, Jim, Michelle, and Debby Siegele)
  • Various SourceForge items

• David is writing up the cardio meeting work for publication
• Erika and Jen are preparing a manuscript on the muscle content meeting, with help from Judy

See monthly report in CVS for ontology statistics.

II. GO Editorial Office activities not represented in part I

• Jane on maternity leave
• Amelia visiting Berkeley database/software group

• OBO-Edit working group:
  • Farewell to John! Nomi Harris filling in.
  • A few more OBO-Edit 2.0 betas released
  • Nomi and wg members focusing on documentation (updating and filling gaps in user guide)

• Advocacy/outreach group (Jane; Jen while Jane is away):
  • Web presence
    • Much testing of AmiGO release candidate
  • Annotation
    • Ongoing discussions about wiki-based annotation tools/pages
    • Improving SOPs, involving Ref. Genome annotators and web presence group
  • Community
    • Usual gohelp traffic

• Anything else
  • Current Protocols article update submitted (Midori, Judy)
  • GO bibliography has 1713 entries

Appendix 1: MOD curators' SF items
1456229 David, Erika
1693852 David, Chris
1773424 Donghui
1773507 Donghui
1773515 Donghui, David
1790378 Tanya
1799275 Tanya
1823598 David
1824802 David, Tanya
1825022 David, Jim
1826264 David, Tanya
1826281 Donghui, David
1835267 David
1835499 Tanya
1836102 Donghui
1836131 Donghui
1836135 Donghui
1843544 Donghui
1843547 Donghui
1843557 Donghui
1843570 Donghui
1843683 Donghui
1843763 Donghui
1843775 Donghui
1844408 Donghui
1844416 Donghui
1844426 Donghui
1844444 Donghui
1846579 Tanya
1848185 David, Tanya
1849397 Tanya, David, Val
1849525 Donghui
1849534 Donghui, Rama, Karen C
1849536 Tanya
1849543 Donghui
1852820 Eurie
1852821 Eurie

Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved
1660160 Donghui
1789457 Colin, Ben
1826886 Peter, Kirill
1836964 Maria, Val
1841927 Peter
1842613 Peter
1842689 Val
1843766 Karen C
1844310 Donghui, Tanya
1845958 Karen C


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

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