Aug2008 ontology report: Difference between revisions
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Ontology Development & GO Editorial Office Report - | Ontology Development & GO Editorial Office Report - August 2008 | ||
===I. Ontology Development=== | ===I. Ontology Development=== |
Revision as of 08:25, 1 October 2008
Ontology Development & GO Editorial Office Report - August 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
- AmiGO 1_5_2_2 now in production
- 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 981451 David, Michelle, Rama 1187644 David, Pascale 1388826 David 1459158 David, Doug, Erika 1472252 David 1629027 David 1766338 David, Doug, Michelle 1940087 David, David OS 1955525 David, Tanya, David OS, Susan 1968619 Tanya, David 1986235 Tanya, David 1990110 Tanya, David 2012941 Donghui 2013833 Tanya 2013886 Donghui 2013895 Donghui 2013902 Donghui 2015841 Tanya, David 2016145 Tanya, David 2021843 Tanya, David 2023398 Tanya, David 2030820 Donghui 2031961 Donghui 2031970 Donghui 2031980 Tanya 2034198 Donghui 2039409 David 2040801 Harold 2044782 Tanya 2048702 Tanya 2053749 David, Tanya 2053758 Donghui 2053765 Donghui 2059033 David 2074156 Harold Appendix 2: GO Ed-MOD collaboration SF items - MOD curator(s) involved 1226219 peptidase wg 1439673 David, Harold 1441782 Alex, David 1515279 David 1561376 Tanya, David 1943157 peptidase wg 1943255 peptidase wg 1953281 Val, Julie 2019054 Debby 2023928 Peter 2027305 David, Tanya 2029645 David 2034849 Rama, John Garavelli 2034960 Tanya, David 2035166 Rama 2043737 Colin 2062881 Rama 2068235 Alex (Note: "MOD curator" is shorthand for any non-GO-Ed curator)