- 1 GO Managers Phone Conference
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
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
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.
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.
RC: new Dolan graphs were loaded onto a GO site Mar 1.
JB: need more thought about interfaces to display
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.
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
6. Staffing and Personnel
7. Budget issues
9. Other Current Topics and Concerns