Manager Call 2020-04-01: Difference between revisions

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=== File Formats ===
=== File Formats ===
* https://github.com/geneontology/go-annotation/issues/2864
*GPAD/GPI 2.0 - need to decide on realistic timeline for switching GOC over internally
*GPAD/GPI 2.0 - need to decide on realistic timeline for switching GOC over internally
*GAF - proposed update wrt gp2term relations
** Use term labels as is or modified with underscores?
** Proposed timeline for this change
** Proposed timeline for this change
** How much lead time is going to be needed?
** How much lead time is going to be needed?
*** GOC, GOC members, users
*** GOC, GOC members, users
*** Will ask for this feedback on the annotation call
*** Will ask for this feedback on the annotation call
*GAF - proposed update wrt gp2term relations
** Use term labels as is or modified with underscores?
** Need to create a ticket for comment and also think about release timeline here


===MGI and WB Imports===
===MGI and WB Imports===

Revision as of 10:06, 1 April 2020

Agenda

  • Agenda: Suzi
  • Minutes: Seth
  • Present:
  • Regrets:

Discussion points

Community curation with post-docs/grad students

  • Any updates here?
    • May have an influx of C. elegans researchers creating GO-CAMs with an eye towards accompanying micropublications
    • Will require initial training and ongoing supervision (at least for awhile)
  • Want to follow the SOP for new user onboarding
  • 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
  • Also have a scheduled call with Xenbase curator(s) for Noctua training

GO virtual meeting Paris

  • 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
  • Noctua annotation: Annotating UniProt protein chains - can we use the UniProt_PRO_chain as entities ?

File Formats

  • https://github.com/geneontology/go-annotation/issues/2864
  • GPAD/GPI 2.0 - need to decide on realistic timeline for switching GOC over internally
    • Proposed timeline for this change
    • How much lead time is going to be needed?
      • GOC, GOC members, users
      • Will ask for this feedback on the annotation call
  • GAF - proposed update wrt gp2term relations
    • Use term labels as is or modified with underscores?
    • Need to create a ticket for comment and also think about release timeline here

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 soon
  • 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?
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