Nov2008 ontology report

Ontology Development & GO Editorial Office Report - November 2008

I. Ontology Development

• SourceForge
  • Items opened: 64
  • Items closed: 77
    • GO Eds: 46
    • MOD curators: 14 (details in Appendix 1)
    • GO Ed/MOD collaborations: 17 (details in Appendix 2)
  • Items still open: 253
    • assigned, GO Eds: 75
    • assigned, MOD curators: 84
    • unassigned: 94

• Content items resolved
  • Several SourceForge items resolved

• Content items in progress
  • New: Work has begun on cross-products within GO -- see Category:Internal_Cross_Products and Editors_cross-product_implementation_plan (David, Midori, Jane, Jen, Chris)
  • New: Work on virus-related terms initiated (Jane, Michelle, Candace, Ariane Toussaint, Brenley McIntosh)
  • Continuing work on processes affecting cellular components (Jane, David, Midori, Val, et al.)
  • Signal transduction overhaul continuing; latest notes at Signaling_Meeting_Minutes_April_2008_- (Jen, David)
  • Function-process links for electron transport, metabolic pathways - presented at GOC (Jen, Harold, et al.; for electron transport see Electron_transport_mf-bp_Sept_2007_onwards.)
  • Quality control reports generated by Chris
    • Regulation (David, Tanya)
    • Multiple part_of parents (several GO curators, especially Tanya & David)
  • 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:
  • Lots of OBO-Edit 2 testing -- list of testing tasks for 2.0 release drafted
  • Dictionary additions for OBO-Edit2 spell checking released (Jen)
  • Improved Tree Viewer released (Jen)

• Advocacy/outreach
  • Visit from Hein van der Steen on ATO development (reported to managers; see minutes from Nov. 5 and 19
  • Discussions with Ana Barat on cancer and ontologies (Jen, Jane, plus Rachael for GOA)
  • Usual gohelp traffic

• Publications
  • PAMGO manuscript submitted (PAMGO curators, Jane)

• Meetings
  • Java web services course (Jen)

• Anything else
  • Sabina Leonelli visited to interview GO editors and other curators
  • IMG mapping resumed (Jane)
  • Developing teaching materials for a Java programming course to be run at the EBI in January (Jen, with EBI programmers and training staff)
  • GO bibliography has 2296 entries

Appendix 1: MOD curators' SF items
1998775 Alex, David, Tanya
2097052 David
2100260 Tanya & David
2129906 Tanya, David, Ruth
2174782 Tanya & David
2191743 Tanya & David
2204363 David, Susan
2220109 Tanya & David
2234901 Tanya & David
2237362 Tanya & David
2314971 Tanya & David
2315019 Tanya & David
2315763 David
2339392 Tanya & David


Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved
1645340 Maria
1733770 CC organization wg
1811126 Karen C, Harold, Jodi
1835495 Tanya
1929532 Tanya & David
1977434 Val
2094844 Rachael, Debby, community expert Michael Melkonian
2100763 Karen C, Rama, Val
2105604 Tanya & David
2140895 Tanya & David
2145073 Chris
2226623 Maria
2230375 Alex, Ruth
2234277 Alex
2234713 Alex, David
2255163 Alex, Tanya, David
2263304 PAMGO curators


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

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