Sep2009 ontology report
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Ontology Development & GO Editorial Office Report - September 2009
I. Ontology Development
- SourceForge
- Items opened: 110
- Items closed: 102
- Items still open: 271
- assigned: 209
- unassigned: 62
- Content items resolved
- Improvements to RNA interference and related terms
- Several SourceForge items resolved, including some handled at GO meeting "clinic" session
- Content items in progress
- Additions from heart development content meeting held at UCL September 22, 2009 (David, Varsha, Doug, et al.)
- The plan to add internal cross-products to the go_write (and therefore also go_ext) file is in progress.
- Work continues on terms for kidney development
- Evaluating new link suggestions and mismatches from ChEBI cross-products
- Continuing to add function-process part-of links in gene_ontology_write.obo and gene_ontology_ext.obo
- Work continues on overhauling terms related to viruses
- Signal transduction overhaul is going very well; see Signaling_Meeting_Minutes_July_2009#3rd_August_2009 for latest notes (Jen and experts including Sandra Orchard)
- Also continuing
- Additional progress on Cellular component organization and biogenesis, in light of internal cross-products
- Taxon triggers; finished moving "sensu" information from synonyms to definitions. Now resolving the inconsistencies found using the rules and Chris's script (see Taxon-GO_Implementation_April_2009_onwards#5th_August_2009 and Taxon-GO_Implementation_August_28th_2009_onwards for latest)
- Work on branching organ development (David)
- Quality control continues as usual - reports generated by Chris
- Reasoner-based implied links for new regulation terms - also see above (David, Tanya)
- Multiple part_of parents (several GO curators, especially Tanya & David)
- Abduced links (David, Tanya)
- Problematic regulates terms (David, Tanya)
- Various SourceForge items
- Meetings
- Heart development content meeting (see above)
- Cambridge Combined GO Consortium and SAB Meeting Jesus College, Cambridge, UK, September 23-25, 2009 - also see GOC Meeting Minutes September 2009
II. GO Editorial Office activities not represented in part I
- OBO-Edit working group:
- Continued testing of OBO-Edit 2.1 beta
- See meeting minutes from September 3, 15 and 24, and monthly report
- Advocacy/outreach (Jane, Jen)
- Cambridge Clinical Neuroscience and Mental Health Symposium, 29th - 30th September 2009 (Jen - poster)
- See monthly report
- Anything else
- GO bibliography has 2829 entries