Managers 14Mar07
GO Managers Phone Conference
March 14, 2007
Participants: David Hill, Judy Blake, Chris Mungall, Jane Lomax, Midori Harris, Jen Clark, Eurie Hong, Suzi Lewis, Mike Cherry
1. Specific items:
Crediting contributors: how to reference individuals (Ontology Development, User Advocacy)
--Action Item: Chris and Jane will make a proposal on how best to do this. – Ongoing.
Standards for including tools on GO Tools page (User Advocacy, Software)
--Action Item: Jane will circulate to GO list for comments then to GO-friends after revision.
GOC meeting minutes: has everyone commented?
--Action Item: everyone should take a final look. FINALIZED.
2. The usual topics:
Review Action Items from previous meeting:
Webex - complete purchase, issue passwords.
--Action Item: contract and need to finalize in the next day or two – DONE
Outreach report circulated—DONE.
--Action Item: Chris will try to automatically mine biochemical pathways from Reactome, IMG, etc .
CM:set up mailing list
CM: Nice way of linking GO terms and other resources.
DH: Liked tool Chris pointed everyone to. Perhaps use Webex to discuss further and demo tool.
Individual Manager reports
Ontology Development
MH: meeting at MIT for GO engineering starts Thursday. There was a conference call to do preplanning. Wiki page on Ontology development. One goal to develop metrics for ontology development.
DH: Sensu revamp. Met twice since last meeting. Used WEBEX effectively, now down to a couple hundred terms, The next batch are hard, such as oogenesis, behavioral terms, perhaps don’t need sensu. Should add specific terms instead.
CM: Should we bring in other people interested in behavior ontologies.
DH: Yes. Should it be in GO or in a separate aligned ontology? GO could hold high level terms.
DH: Often there single genes responsible, so use for annotation seems reasonable
JB: A single gene involved is not sufficient. Needs much more discussion. Useful for GO to think critically about the role of behavior in GO.
RC: needs to be discussed at the next GOC but might also want a working group
JB: supported a working group to prepare
MH: sourceforge assignment of entries is moving forward.
DH: concerned that ref genome annotators are not making more requests.
RC: need to address this with ref genome group.
MH: especially need to do this if there are roadblocks
MH: Jen, Val, Michelle working on transporters
JC: reviewed by expert and liked what they saw
Outreach.
JC: monthly report. Possible collaboration with Cancer Bioinformatics group. Evelyn putting in a cancer annotation grant.
CM: what would the topics be? Is there overlap with Disease Ontology?
RC: group of evelyn, jb, cm, jen clark to explore
JC: GO lacking process that would be affected by herbacides
DH: means plant metabolism must be lacking
JB: need to focus on plants more this way. Definitely worth following up.
DH: Contact TAIR.
Software
CM: working Michael A. to get GO to CHEbi process. Also working with REACTOME to develop a GO to Reactome mapping. Still lacking fair amount of specificity. Probably need a working group
CM: First software group meeting in 30 minutes.
Reference Genomes.
RC: new Dolan graphs were loaded onto a GO site Mar 1.
JB: need more thought about interfaces to display
User Advocacy:
JL: set priorities for June amigo 1.0 release. Include term term enrichment tool, download options, sort search results, more sophisticated search tools; filtering by species. Reorganizing GO home page to merge with Amigo page
JL: GOdatabase help queries should now go to GO help
EH: newsletter could be longer, keep the PDF 1 page but allow the web version to be long.
3. Meetings
JB:Interoperability of ontologies in march
JB: ISMB abstracts due april 6 do we want to be coordinated
JB: New program soliciting new sessions/speakers based on papers published in 2006.
MH: good idea to coordinate. Could ontology development be worth of a poster such as describing is_a completeness
JB: may be impacted by budget issues
JL/MH: GO posters will generate randome go questions is it is good outreach
EH: Fungal genetics meeting 1.5 hr workshop
JL: JGI users meeting looks like not worth a GO rep going
JL: Ontogenesis meeting next week
4. Collaborations and Interactions, active and new
JL: IMG people in touch with JL who will work on IMG to GO mapping
CM: Reported a paper on naming conventions is in the works.
5. Operations and Procedures
Nothing
6. Staffing and Personnel
Nothing
7. Budget issues
Nothing
8. Publications
Nothing
9. Other Current Topics and Concerns
Nothing