Aug2008 ontology report
Ontology Development & GO Editorial Office Report - July 2008
I. Ontology Development
- SourceForge
- Items opened: 114
- Items closed: 123
- GO Eds: 70
- MOD curators: 35 (details in Appendix 1)
- GO Ed/MOD collaborations: 18 (details in Appendix 2)
- Items still open: 259
- assigned, GO Eds: 73
- assigned, MOD curators: 97
- unassigned: 89
- Content items resolved
- peptidase MF terms - high-level terms organized; gene-product terms obsolete (Midori, Colin, Peter, Ben, Darren Natale, MEROPS)
- Several SourceForge items resolved
- Content items in progress
- Regulates relationships within MF and between MF and BP are planned, and have been announced (David, Tanya)
- additions (Jane, with PAMGO curators)
- Processes affecting cellular components (Jane, David, Midori, Val, et al.)
- Signal transduction overhaul continuing, with high-level terms now in place; latest notes at Signaling_Meeting_Minutes_April_2008_- (Jen, David)
- File of triggers for annotation QC - first set based on applicability will be tested by Ensembl (EBI) programmers; previously reported as taxon links (Jen, Chris)
- Regulates relationships for multi-organism processes (Jane)
- Function-process links for electron transport, metabolic pathways (Jen, Harold, et al.)
- Red light/fluence terms - file in scratch directory (Jen)
- Quality control reports generated by Chris
- Regulation (David, Tanya)
- Many others to be dealt with; we've made a start on multiple part_of parents (several GO curators)
- 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
- Configuration system updated for Graphviz Viewer and Tree Viewer (Jen)
- Advocacy/outreach
- August newsletter released
- Usual gohelp traffic
- Publications
- AmiGO manuscript in preparation (AmiGO/web presence wg)
- Meetings
- OBO Foundry meeting July 7-8 (Jane)
- High Throughput Cell Based Screening Workshop, July 17-18 (Midori)
- Anything else
- GO bibliography has 2090 entries
Appendix 1: MOD curators' SF items [will be added Weds., Sept. 3rd] Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved [will be added Weds., Sept. 3rd] (Note: "MOD curator" is shorthand for any non-GO-Ed curator)