Dec2006 ontology report: Difference between revisions
Jump to navigation
Jump to search
No edit summary |
mNo edit summary |
||
Line 126: | Line 126: | ||
(Note: "MOD curator" is shorthand for any non-GO-Ed curator) | (Note: "MOD curator" is shorthand for any non-GO-Ed curator) | ||
</pre> | </pre> | ||
[[Category:Reports]] |
Revision as of 06:42, 2 April 2009
Ontology Development & GO Editorial Office Report - December 2006
I. Ontology Development A. SourceForge 1. Items opened 49 2. Items closed 49 a. GO Eds 17 b. MOD curators 21* c. GO Ed/MOD collaborations 11** 3. Items still open a. assigned, GO Eds 73 b. assigned, MOD curators 22 c. unassigned 174 *details in Appendix 1 **details in Appendix 2 B. The major item ins once again the is_a-complete biological process work (mainly David, Jane, Jen, Midori, Tanya; occasionally other curators). We have now frozen the "live" process ontology, and will commit the is_a-complete ontology immediately after the holidays. As noted last month, more detail is available on the internal wiki (http://gocwiki.geneontology.org/index.php/Isa-complete_BP) and in the Google spreadsheet. C. Collaboration with Jonathan Liu, MIT, also continues; based on his suggestions we have identified a few ontology changes to do once we "un-freeze." We're also looking into the possibility of meeting with him in early 2007, which could lead to a nice measurable set of changes. D. GO editing informal tutorial plans -- see Meetings, in part 2. E. Other content items resolved 1. High-level cellular component terms (Jane) 2. Usual small things for diverse SF items F. Other content items in progress 1. Damaged DNA binding terms (Midori, with RefGen group, esp. Varsha & Eurie) 2. Cardiac muscle terms, round 2 (Jen, with Varsha) 3. Specific cytokine/interleukin production terms (Midori, Alex, Evelyn) 4. General and specific transcription (Karen C, Midori, Val) 5. Synaptic transmission (David) 6. Several DNA repair items (Eurie) David & Midori have imposed a bit of organization on the ontology development main page in the internal wiki. See monthly report in CVS for ontology statistics. II. GO Editorial Office activities not represented in part I A. OBO-Edit working group: 1. OBO-Edit 1.1 beta testing really near completion (delayed by tricky bugs); target release by end 2006. 2. "Question plugin" available for testing B. AmiGO working group (Jane, Amelia): 1. AmiGO new look released (much work by Amelia) 2. Documentation/user guide updated (Jane, Amelia, several MOD curators) C. Software hub group (Jane, Amelia): 1. AmiGO 2.0 features, continued; sample workflows on wiki D. Advocacy group (Jane): 1. Calendar investigation 2. SourceForge summary emails to be available to subscribers outside GOC E. Annotation outreach (Jen) (note: may overlap with Jen's group report) 1. Follow-up to Aspergillus Annotation Jamboree 2. More work on annotation SOP for wiki F. Conferences/meetings 1. Preparation for Jan. 2007 GOC meeting a. Plans for a post-meeting hands-on session for curators to learn tips & tricks for GO editing, OBO-Edit, and GO CVS from the GO Eds G. Anything else 1. GO Bibliography now has 1193 entries Appendix 1: MOD curators' SF items 1568082 - Donghui, Tanya 1569614 - Donghui 1589483 - Donghui 1589610 - Donghui 1592307 - Rama 1598086 - Rama 1604808 - Donghui 1604814 - Donghui 1604823 - Donghui 1604835 - Donghui 1604874 - Donghui 1604902 - Donghui 1604923 - Donghui 1606243 - David 1606978 - David 1609295 - David 1609506 - David 1610358 - Donghui 1610449 - Donghui 1610463 - Donghui 1610471 - Donghui Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved 1493487 - Alex, Ruth 1521222 - David 1556522, 1558202 - Jodi 1573652 - Eurie, Varsha 1575217 - Eurie, Val 1578284 - Eurie, Varsha 1587269 - Alex 1605425 - Doug 1605707 - Alex 1613177 - Karen C (Note: "MOD curator" is shorthand for any non-GO-Ed curator)