https://wiki.geneontology.org/index.php?title=Managers_25Apr07&feed=atom&action=historyManagers 25Apr07 - Revision history2024-03-29T14:49:38ZRevision history for this page on the wikiMediaWiki 1.40.0https://wiki.geneontology.org/index.php?title=Managers_25Apr07&diff=52396&oldid=prevGail at 16:48, 30 June 20142014-06-30T16:48:48Z<p></p>
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</table>Gailhttps://wiki.geneontology.org/index.php?title=Managers_25Apr07&diff=8785&oldid=prevCjm: New page: GO Managers, Weds. April 25 8 AM PDT / 10 AM CDT / 11 AM EDT / 4 PM BST Agenda/chair: Eurie Minutes: Chris Present: all -m, -j **The usual topics: 1. Review Action Items from previous m...2007-05-23T14:48:09Z<p>New page: GO Managers, Weds. April 25 8 AM PDT / 10 AM CDT / 11 AM EDT / 4 PM BST Agenda/chair: Eurie Minutes: Chris Present: all -m, -j **The usual topics: 1. Review Action Items from previous m...</p>
<p><b>New page</b></p><div>GO Managers, Weds. April 25<br />
8 AM PDT / 10 AM CDT / 11 AM EDT / 4 PM BST<br />
<br />
Agenda/chair: Eurie<br />
Minutes: Chris<br />
<br />
Present: all -m, -j<br />
<br />
**The usual topics:<br />
1. Review Action Items from previous meeting<br />
<br />
a. Chris and the biochemists involved in making links between function and process to set up WebEx with folks working on this project to set the stage and get a scope of the project.<br />
<br />
ACTION: remaining<br />
<br />
b. Evelyn Camon, Judy Blake, Chris Mungall, Jennifer Clark to explore possible cancer grant proposal.<br />
<br />
Had a conference call. Going in for grant together. Funding for<br />
GOA. Basic GO annotation of cancer-related genes.<br />
<br />
(Jen will send extra details for minutes)<br />
<br />
c. PIs: should we send someone to MGED?<br />
<br />
ACTION: still to discuss (10am)<br />
<br />
MGED is in Brisbane this year<br />
<br />
Mike did discuss this - does not think it is a good use of money. Jen<br />
will talk to Fiona. Fiona may be there, does not know. If Fiona was<br />
going there anyway she could give a talk.<br />
<br />
d. Jane to set up a conference call with the folks at ChEBI to begin working with them so ChEBI can align better with GO.<br />
<br />
Ball is rolling<br />
<br />
e. Chris to write up a summary of the issues and reasons in order to incorporate an ontology versioning system to present at an upcoming manager's call.<br />
<br />
ACTION: remaining<br />
<br />
2. Individual Manager reports<br />
a. Ontology Development<br />
<br />
# Inner ear development<br />
# Sensu - set up a webex for tomorrow<br />
# Spindles, mitotic and meiotic<br />
# Transport<br />
# Summary of MIT work has been sent round<br />
<br />
ACTION: David circulate to wider group<br />
<br />
David going to Milwaukee for cardio physiologist meetings. Focus<br />
ontology development meetings.<br />
<br />
Erika has 5 muscle experts + postdocs learned to use oboedit<br />
<br />
Erika has written Italian tutorial<br />
<br />
(Judy joins in)<br />
<br />
Jane: mapping IMG to GO is well underway, first pass. Prokaryotic enzymes<br />
<br />
b. Outreach<br />
* Jen: should I sign up to be on the chicken committee?<br />
<br />
Emily and Jen asked by Dave Burt + AGBase, international<br />
committee. Should both join?<br />
<br />
Mike: gotop has no problem<br />
<br />
* should I put a different outreach group member in charge while I am away in May?<br />
<br />
ACTION: Eurie will talk to Rama<br />
<br />
3 groups, ISS IEA and literature. Meet on skype instead of phone.<br />
<br />
c. Software<br />
<br />
- ID mapping<br />
<br />
- refgenomes<br />
<br />
- amigo <br />
<br />
- func-process enrichment<br />
<br />
- new docs for SQL DDL<br />
<br />
- oe 1.1 released last week<br />
<br />
d. Reference Genomes<br />
* documentation of reference genome methodology<br />
<br />
Mary Dolan new refgenomes graphs. See which organisms are<br />
annotated. todo integrate with AmiGO.<br />
<br />
assignment of orthology: at most basic level, go into YOGY, nothing<br />
there, claim there is no orthology. Other people root around on their<br />
own. People identify things that look like orthologs, full length,<br />
recprical best hits, not just a domain. Idiosyncratic. Some people<br />
uncomfortable with sequence based approach, but in some cases it's the<br />
best we can do.<br />
<br />
Suzi: stresses importance of writing this down<br />
<br />
Rex: groups have different algorirthms<br />
<br />
Chris: both protocols and evidence/source must be recorded<br />
<br />
Sohel has created a prototype. Spreadsheets aren't working.<br />
<br />
Judy: Mary using homologene<br />
<br />
Judy: refgenome meeting<br />
<br />
Rex: looking for location in Chicago, late summer?<br />
<br />
Judy: GOC meeting already there in September<br />
<br />
Suzi: write stuff down, must be reconstructable<br />
<br />
Suzi: has looked at treefam code, combine w software from Paul Thomas<br />
<br />
Judy: vertebrate set has a lot of work down, more complex adding in<br />
other groups<br />
<br />
ACTION: Rex will get group to document process, unfiied approach down<br />
the road<br />
<br />
ACTION: Rex will set up meeting<br />
<br />
f. User Advocacy<br />
<br />
gohelp, central entry point on gmail, recruiting other people on<br />
gohelp.<br />
<br />
webex to demo <br />
<br />
amigo-wg, seth sent out for testing<br />
<br />
may newsletter is being put together<br />
<br />
3. Meetings<br />
<br />
David: Wisconsin (see above)<br />
<br />
David: devbio poster<br />
<br />
Judy: ISMB, Bio-Ontology SIGs. Due May 1<br />
<br />
Chris: Chado paper<br />
<br />
Karen: RNA meeting @ Madison, protein feature people & Janet thornton,<br />
merging efforts<br />
<br />
Suzi: honeybee @ CSHL<br />
<br />
Judy: applied tutorial for international mouse genome meeting<br />
<br />
4. Collaborations and Interactions, active and new<br />
<br />
ACTION: Suzi will send out details on SO + PharmGKB meeting, poss<br />
meeting on sequence variations<br />
<br />
Midori: biosapiens protein annotation ontology, will talk to Gaby Reeves<br />
<br />
Suzi: need to coordinate on this<br />
<br />
5. Operations and Procedures<br />
<br />
-<br />
<br />
6. Staffing and Personnel<br />
<br />
Midori: in May GO Editors will be away<br />
<br />
Evelyn is moving to Ireland. Will still be GOA for 6 months<br />
<br />
new MGI curator<br />
<br />
7. Budget issues<br />
<br />
-<br />
<br />
8. Publications<br />
<br />
-<br />
<br />
9. Other Current Topics and Concerns</div>Cjm