Ontology meeting 2016-12-01: Difference between revisions

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Attendees:  
Attendees: Moni, Jim, Melanie, Tanya, Paola, Harold, DavidH, DavidOS, Chris (on a plane), Paul T


Regrets:  
Regrets: Judy




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==PI discussion of next months' EBI-GO work plan==
==PI discussion of next months' EBI-GO work plan==


End of subcontract with EBI  of February 2017. EBI-GO (DOS, Paola, Melanie).  Helen has proposed that EBI-GO will step off the GO rotas (GH, TG, Helpdesk) starting December 12th to allow wrap-up of existing tickets concomitantly with other tasks.  David Hill  (as Ontology Lead ) as GO PIs will discuss further with Helen.
End of subcontract with EBI  of February 2017 - influences work of  EBI-GO (DOS, Paola, Melanie) team.  Helen has proposed that EBI-GO will step off the GO rotas (GH, TG, Helpdesk) starting December 12th to allow wrap-up of existing tickets concomitantly with other tasks.  David Hill  (as Ontology Lead ) and GO PIs will discuss further with Helen.


Note that TAIR's subcontract also ends at the end of Feb. 2017.
Others funded by GOC are interested in training and joining Ontology Dev team - training being planned.
 
Note that TAIR's subcontract also ends at the end of Feb. 2017. TAIR/Phoenix plans to scale back involvement in day to day, non-plant related ontology work after March 1, 2017, stepping off the GH/TG rota, and scaling back GO Helpdesk participation to 2x/year.


==Tickets for discussion at this meeting:==
==Tickets for discussion at this meeting:==
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See https://github.com/geneontology/go-ontology/projects/1, column labeled "Ontology Call December 1, 2016" on the right
See https://github.com/geneontology/go-ontology/projects/1, column labeled "Ontology Call December 1, 2016" on the right


#[https://github.com/geneontology/go-ontology/issues/12843 uberon_import includes a MIREOTed subset of GO, and this plays havoc with the inference pipeline]
#[https://github.com/geneontology/go-ontology/issues/12815 Add check for identical definitions in ontology file?]
#[https://github.com/geneontology/go-ontology/issues/12815 Add check for identical definitions in ontology file?]
#[https://github.com/geneontology/go-ontology/issues/12766 Review MF term GO:0050827 'toxin receptor binding']
#[https://github.com/geneontology/go-ontology/issues/12766 Review MF term GO:0050827 'toxin receptor binding']

Latest revision as of 01:22, 2 December 2016

Attendees: Moni, Jim, Melanie, Tanya, Paola, Harold, DavidH, DavidOS, Chris (on a plane), Paul T

Regrets: Judy


GoToMeeting invite: https://global.gotomeeting.com/join/859015101

PI discussion of next months' EBI-GO work plan

End of subcontract with EBI of February 2017 - influences work of EBI-GO (DOS, Paola, Melanie) team. Helen has proposed that EBI-GO will step off the GO rotas (GH, TG, Helpdesk) starting December 12th to allow wrap-up of existing tickets concomitantly with other tasks. David Hill (as Ontology Lead ) and GO PIs will discuss further with Helen.

Others funded by GOC are interested in training and joining Ontology Dev team - training being planned.

Note that TAIR's subcontract also ends at the end of Feb. 2017. TAIR/Phoenix plans to scale back involvement in day to day, non-plant related ontology work after March 1, 2017, stepping off the GH/TG rota, and scaling back GO Helpdesk participation to 2x/year.

Tickets for discussion at this meeting:

See https://github.com/geneontology/go-ontology/projects/1, column labeled "Ontology Call December 1, 2016" on the right

  1. uberon_import includes a MIREOTed subset of GO, and this plays havoc with the inference pipeline
  2. Add check for identical definitions in ontology file?
  3. Review MF term GO:0050827 'toxin receptor binding'
  4. Ghost relations in the obo-file
  5. Discussion of 'positive regulation' and 'maintenance'
  6. MP: (recently removed ) parentage in amino acid metabolism
  7. Merge directly_activates/inhibits relations into directly_positively/negatively_regulates.