Annotation Conf. Call 2019-08-13: Difference between revisions
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= Agenda = | = Agenda = | ||
== October GOC Meeting - Berkeley == | |||
* [http://wiki.geneontology.org/index.php/2019_Berkeley_GOC_Meeting_Logistics Logistics and Sign-Up] | |||
== Protein oligomerization terms in GO == | == Protein oligomerization terms in GO == | ||
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** On today's call, we will review the annotation extension relations currently used with MF terms and the proposed updates to their use in order to align conventional annotation and GO-CAM models | ** On today's call, we will review the annotation extension relations currently used with MF terms and the proposed updates to their use in order to align conventional annotation and GO-CAM models | ||
** [https://docs.google.com/spreadsheets/d/1zB8UKtG3JRGMkHgXmMpby-K5RFmYxGGRMEXULCCtcPo/edit#gid=1539887761 Google summary spreadsheet of MF extensions] | ** [https://docs.google.com/spreadsheets/d/1zB8UKtG3JRGMkHgXmMpby-K5RFmYxGGRMEXULCCtcPo/edit#gid=1539887761 Google summary spreadsheet of MF extensions] | ||
*** MF annotation extensions to review: | |||
**** part_of (GO:CC, CL, UBERON) | |||
**** has_input (not highest priority, but groups can review existing has_input to see if NOT direct; refer to previous [https://github.com/geneontology/go-annotation/issues/2076 github ticket] for now) | |||
**** occurs_at (occurs_in OR has_input - discuss useful granularity of SO terms for GO annotation) | |||
**** happens_during (GO:BP (that is not a biological phase)) | |||
**** activated_by and inhibited_by (TBD) | |||
**** long tail..... | |||
*** gorel relations to obsolete: | |||
**** not_happens_during | |||
**** in_presence_of | |||
= Minutes = | = Minutes = | ||
*Present: | *Present: Chris, David, Dmitry, Edith, Giulia, Harold, Kimberly, Laurent-Philippe, Midori, Pascale, Patrick, Rob, Sabrina, Seth, Shur-Jen, Stacia, Suzi, Tanya | ||
* We discussed annotation extension relations. | |||
* Most extension relations in the Google spreadsheet that are proposed for discontinuation were non-controversial. | |||
* Relations that may need more discussion/clarification include: happens_during, occurs_at, activated_by, inhibited_by | |||
* We will continue discussion of these relations on subsequent calls to make sure we address sufficiently any outstanding curation issues | |||
[[Category:Annotation Working Group]] | [[Category:Annotation Working Group]] |
Latest revision as of 10:53, 19 August 2019
Agenda
October GOC Meeting - Berkeley
Protein oligomerization terms in GO
- Check on how the review of BP terms is going
- Will start on MF terms, specifically 'protein dimerization activity' GO:0046983
GO-CAMs and Annotation Extensions
- After USC hackathon in June, we formed a small working group to fully articulate the GO-CAM model specifications
- This will allow for consistent GO-CAM curation using Noctua workbenches, import projects (e.g. Reactome and MOD imports)
- Will also allow us to move forward with harmonizing AE relations used in GO-CAM and conventional annotation
- On today's call, we will review the annotation extension relations currently used with MF terms and the proposed updates to their use in order to align conventional annotation and GO-CAM models
- Google summary spreadsheet of MF extensions
- MF annotation extensions to review:
- part_of (GO:CC, CL, UBERON)
- has_input (not highest priority, but groups can review existing has_input to see if NOT direct; refer to previous github ticket for now)
- occurs_at (occurs_in OR has_input - discuss useful granularity of SO terms for GO annotation)
- happens_during (GO:BP (that is not a biological phase))
- activated_by and inhibited_by (TBD)
- long tail.....
- gorel relations to obsolete:
- not_happens_during
- in_presence_of
- MF annotation extensions to review:
Minutes
- Present: Chris, David, Dmitry, Edith, Giulia, Harold, Kimberly, Laurent-Philippe, Midori, Pascale, Patrick, Rob, Sabrina, Seth, Shur-Jen, Stacia, Suzi, Tanya
- We discussed annotation extension relations.
- Most extension relations in the Google spreadsheet that are proposed for discontinuation were non-controversial.
- Relations that may need more discussion/clarification include: happens_during, occurs_at, activated_by, inhibited_by
- We will continue discussion of these relations on subsequent calls to make sure we address sufficiently any outstanding curation issues