Difference between revisions of "Manager Call 2020-03-25"

From GO Wiki
Jump to: navigation, search
m (Alliance)
 
Line 10: Line 10:
 
=== Community curation with post-docs/grad students ===
 
=== Community curation with post-docs/grad students ===
 
While they cannot work in the lab, could we get students/post docs to do GO curation ?
 
While they cannot work in the lab, could we get students/post docs to do GO curation ?
 +
 +
*Need a solution with as little training as possible, little effort from GO
 +
**SGD's "author response"= quick summary form (https://www.yeastgenome.org/submitData), accessible by curators on another site
 +
** Canto- heavier than SGD
 +
** Google form- lighter than SGD's setup
 +
** Targeted audience- viral focus?
 +
* GO CAMs on pre-pubs
 +
* Partnerships- may be easier for novices to enter through something like Pathways (https://www.yeastgenome.org/submitData), getting user to think about how to create this model, or if they've published schematics that can transfer to GO-CAMs
  
 
=== GO Release ===
 
=== GO Release ===
 
Alliance seem to need our release to be on time. Anyone knows how often/when we should release?  
 
Alliance seem to need our release to be on time. Anyone knows how often/when we should release?  
 +
 +
* Urgent need now
 +
* Expect GO release today
 +
* GO needs to look at ways to prevent bad data in upstreams
 +
* There is a statistic (not yet turned on) that will pick up changes in qualifier counts
  
 
=== GO virtual meeting Paris ===
 
=== GO virtual meeting Paris ===
* (Pascale proposal:) Chris had suggested we do some virtual trainings- why dont we get that started now so we get some experience prior to the users meeting ?
+
(Pascale proposal:) Chris had suggested we do some virtual trainings- why dont we get that started now so we get some experience prior to the users meeting ?
 
* New wiki pages and eventbrite registrations - ready to announce again for registration, especially user meeting
 
* New wiki pages and eventbrite registrations - ready to announce again for registration, especially user meeting
 +
 +
* New eventbrite registration is available
  
 
=== COVID-19 ===
 
=== COVID-19 ===
* What can/should GO be doing, not just in terms of virus annotation, but wrt helping direct energy towards curation efforts, e.g. from graduate students who can't go into their labs?
+
What can/should GO be doing, not just in terms of virus annotation, but wrt helping direct energy towards curation efforts, e.g. from graduate students who can't go into their labs?
 
* mockup page: http://www.geneontology.xyz/covid-19.html
 
* mockup page: http://www.geneontology.xyz/covid-19.html
 +
 +
* Waiting for UniProt IDs to be integrated into Noctua
 +
* Are about small number of papers
 +
 +
Mockup for COVID-19 page: LP is contact, will email Managers list
 +
* Would like to see EA link on COVID-19 page
 +
* Be careful of nomenclature
 +
* Immune or host Slim may be more appropriate? Alliance is general, good for Human
  
 
===MGI and WB Imports===
 
===MGI and WB Imports===
* Status updates
+
Status updates
** WB
+
* WB
*** Alex will work on preparing a test GPAD file with annotation history for WB - hopes to have it on the GOA ftp site some time next week
+
** Alex will work on preparing a test GPAD file with annotation history for WB - hopes to have it on the GOA ftp site some time next week
** MGI
+
* MGI
** Have a periodic follow-up call to review progress?
+
* Have a periodic follow-up call to review progress?
 +
 
 +
*Sidenote: interest from XenBase, want to get Noctua annotations into AmiGO.  Can we just fast track these through (directly load, not go back through XenBase)? No legacy history attached. https://github.com/geneontology/go-site/issues/1434.
 +
 
 +
*Malcolm already attends Judy's meeting, TO-DO: invite him (and/or xenbase reps) to GO-annotation calls.  Need to make sure XB maintains own annotations, is in line with GO SOPs.
  
 
===Pathway Genome Databases and the Alliance===
 
===Pathway Genome Databases and the Alliance===

Latest revision as of 09:35, 25 March 2020

Agenda

  • Agenda: Huaiyu
  • Minutes: Suzi
  • Present: Chris, Judy, Huaiyu, Kimberly, David H, Seth, Laurent-Philippe, Pascale, Paul T, Suzi
  • Regrets:

Discussion points

Community curation with post-docs/grad students

While they cannot work in the lab, could we get students/post docs to do GO curation ?

  • Need a solution with as little training as possible, little effort from GO
    • SGD's "author response"= quick summary form (https://www.yeastgenome.org/submitData), accessible by curators on another site
    • Canto- heavier than SGD
    • Google form- lighter than SGD's setup
    • Targeted audience- viral focus?
  • GO CAMs on pre-pubs
  • Partnerships- may be easier for novices to enter through something like Pathways (https://www.yeastgenome.org/submitData), getting user to think about how to create this model, or if they've published schematics that can transfer to GO-CAMs

GO Release

Alliance seem to need our release to be on time. Anyone knows how often/when we should release?

  • Urgent need now
  • Expect GO release today
  • GO needs to look at ways to prevent bad data in upstreams
  • There is a statistic (not yet turned on) that will pick up changes in qualifier counts

GO virtual meeting Paris

(Pascale proposal:) Chris had suggested we do some virtual trainings- why dont we get that started now so we get some experience prior to the users meeting ?

  • New wiki pages and eventbrite registrations - ready to announce again for registration, especially user meeting
  • New eventbrite registration is available

COVID-19

What can/should GO be doing, not just in terms of virus annotation, but wrt helping direct energy towards curation efforts, e.g. from graduate students who can't go into their labs?

  • Waiting for UniProt IDs to be integrated into Noctua
  • Are about small number of papers

Mockup for COVID-19 page: LP is contact, will email Managers list

  • Would like to see EA link on COVID-19 page
  • Be careful of nomenclature
  • Immune or host Slim may be more appropriate? Alliance is general, good for Human

MGI and WB Imports

Status updates

  • WB
    • Alex will work on preparing a test GPAD file with annotation history for WB - hopes to have it on the GOA ftp site some time next week
  • MGI
  • Have a periodic follow-up call to review progress?
  • Malcolm already attends Judy's meeting, TO-DO: invite him (and/or xenbase reps) to GO-annotation calls. Need to make sure XB maintains own annotations, is in line with GO SOPs.

Pathway Genome Databases and the Alliance

See Chris' email

  • Explore bringing in other existing curated pathways in a similar way that we did for Reactome
  • Follow-up to Alliance call with Peter K. two weeks ago?

Publications

  • Val's matrix paper is available as a draft
  • Authors have reviewed and made comments
  • Do the GO PIs (besides Chris who is last author) also need to read?