Annotation Conf. Call 2019-08-20: Difference between revisions

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=== happens_during ===
=== happens_during ===
*happens_during is not defined in the [https://www.ebi.ac.uk/ols/ontologies/ro/properties?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FRO_0002092 relations ontology]
* Current recommendations are that 'happens during' is used to define a biological phase or life stage during which a molecular function occurs
* However, happens_during is not defined in the [https://www.ebi.ac.uk/ols/ontologies/ro/properties?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FRO_0002092 relations ontology]
* There is a comment, however:
* There is a comment, however:
** X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y))
** X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y))
** This implies that the start and end of the molecular function and phase are known
** For things like cell cycle phases, this seems fairly straightforward
* What about annotations that referred to a function that 'happens during' a biological process?


= Minutes =
= Minutes =

Revision as of 11:11, 19 August 2019

Agenda

October GOC Meeting - Berkeley

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

happens_during

  • Current recommendations are that 'happens during' is used to define a biological phase or life stage during which a molecular function occurs
  • However, happens_during is not defined in the relations ontology
  • There is a comment, however:
    • X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y))
    • This implies that the start and end of the molecular function and phase are known
    • For things like cell cycle phases, this seems fairly straightforward
  • What about annotations that referred to a function that 'happens during' a biological process?

Minutes

  • Present: