Sep2008 ontology report
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Ontology Development & GO Editorial Office Report - September 2008
I. Ontology Development
- SourceForge
- Items opened: 127
- Items closed: 127
- GO Eds: 65
- MOD curators: 40 (details in Appendix 1)
- GO Ed/MOD collaborations: 22 (details in Appendix 2)
- Items still open: 255
- assigned, GO Eds: 74
- assigned, MOD curators: 90
- unassigned: 91
- Chris Mungall visited the EBI GO editors early in September. We discussed quite a few topics, including:
- OBO-Edit 2 editing features and release prospects
- Function-process links
- Cross-products
- Regulation term generation
- PAMGO regulation term
- Minutes available at CJM_EBI_Visit_September_2008
- Content items resolved
- Several SourceForge items resolved
- Content items in progress
- additions almost ready to go live (Jane, with PAMGO curators)
- 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_-#22nd_September (Jen, David)
- File of triggers for annotation QC - work continuing; see taxon links (Jen, Chris)
- Function-process links for electron transport, metabolic pathways (Jen, Harold, et al.; for electron transport see Electron_transport_mf-bp_Sept_2007_onwards.#22nd_September)
- 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:
- OBO-Edit 2 testing and documentation (including developer documentation from Jen)
- Dictionary additions for OBO-Edit2 spell checking (Jen)
- Additional work on Tree Viewer (Jen)
- Advocacy/outreach
- Jen participated in science career fair for Ph.D. students and postdocs in London (EMBL stand)
- Usual gohelp traffic
- Publications
- OBO naming conventions manuscript revisions (Jane, with Daniel Schober)
- Meetings
- Chris Mungall's visit, as noted in part I
- Anything else
- GO bibliography has 2124 entries
Appendix 1: MOD curators' SF items 1187644 David 1571642 David, Michelle 1695781 David, Erika 1695784 David, Mike Bada, ChEBI curators 1708986 Tanya, David 1965487 David, Petra 1986533 Tanya, David 2008308 Tanya, David 2023442 Tanya, David 2041554 Tanya, David 2043272 Tanya, David 2045137 Tanya, David 2045139 Tanya, David 2045148 Tanya, David 2045154 Tanya, David 2045162 Tanya, David 2053370 Tanya, David 2062602 Tanya, David 2062826 Tanya, David 2067034 Tanya, David, Alex 2067127 David 2067442 Tanya, David 2074434 Tanya, David 2080977 Harold 2081298 Donghui 2082549 Tanya, David 2100600 John G 2102537 Tanya, David 2103785 Tanya, David 2107128 Tanya, David 2107237 Tanya, David 2119157 Tanya, David 2124786 David 2128801 Tanya, David 2129960 Tanya, David 2133876 Tanya, David 2134350 Tanya, David 2134403 Tanya, David 2134562 Tanya, David 2134582 Tanya, David Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved 1795417 Maria 1980926 Chris, Peter, Eurie 2019054 Debby, David 2019924 Tanya, David, Karen C 2034990 several curators, esp. Ruth 2039153 Chris 2047476 Rama 2082618 David 2088662 Karen C 2089772 Karen C, Julie 2093276 David 2093500 Peter, Michelle 2097061 Peter 2100734 Rama 2101051 Jodi, Karen C 2103409 Val, SGD curators 2104158 Alex 2106442 David 2114070 Jane, Tanya 2118556 Karen C 2119862 David, Ruth 2124312 David (Note: "MOD curator" is shorthand for any non-GO-Ed curator)