Dec2009 ontology report
Ontology Development & GO Editorial Office Report - December 2009
I. Ontology Development
- SourceForge
- Items opened: 100
- Items closed: 90 (2 duplicates deleted)
- Items still open: 287
- assigned: 213
- unassigned: 74
- Content items in progress
- Terms added from ASCB - about 150 so far, with more to come; COPII vesicle-mediated transport, cholesterol transport, cell migration, sphingolipid metabolism, organelle fission/fusion, eye morphogenesis (David, Tanya)
- Release of first internal cross-products on track for January 18, 2010. Review of sets such as BP-xp-self and CC-xp-self continues; see plan to add internal cross-products. (Jen, Jane, Midori, Chris, David, Tanya)
- Work to resume soon on terms for kidney development; content meeting scheduled for January 25, 2010
- Conference call held on evaluating new link suggestions and mismatches from ChEBI cross-products (Midori, Chris, Jane, David, ChEBI curators); minutes available in ontology-editors list archive
- Continuing to add function-process part-of links in gene_ontology_write.obo and gene_ontology_ext.obo (David, Tanya)
- Work continues on overhauling terms related to viruses (Jane)
- Signal transduction overhaul: new draft of structure and definitions for top terms, and an example signaling pathway, now completed and soon to be available for comment; see Signaling_Meeting_Minutes_December_2009 for latest notes (Jen and experts including Sandra Orchard)
- Quality control continues as usual - reports generated by Chris (cronjobs)
- Various SourceForge items
- Publications
- Manuscript on taxon triggers in preparation, to be submitted to BMC Bioinformatics (Jen, Chris)
- Continued from November:
- Manuscript on Taxon triggers in preparation (follow links from main page for recent notes) (Jen)
- Resuming work on manuscript on regulates relations (Jane, Midori, David, Chris, Tanya, maybe other annotators)
II. GO Editorial Office activities not represented in part I
- OBO-Edit working group:
- See meeting minutes from December 15 and 22, and monthly report
- Advocacy/outreach (Jane, Jen)
- See monthly report
- Anything else
- GO bibliography has 3034 entries