Ontology meeting 2014-06-05

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Attendees:

Minutes:


Setting priorities for ontology group

As we didn't get a chance to do this yet we should discuss our priorities for the next quarter. The quarterly call for all GOC where we report on this is on June 18.


Formalising the localization branch.

https://www.ebi.ac.uk/panda/jira/browse/GO-232?focusedCommentId=100753&page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel#comment-100753

  • To discuss
    • Do we need 'has agent' clause ?
    • Are we comfortable with glossing the distinction between participant (movement/stabilisation) and participants (accumulation)?


Adding binding terms defined by activity of the enzyme they bind

Should we be doing this?


InterPro in GO (related to above)

For example protein domain binding terms. Chris has made a set of test mappings and equivalence axioms:

http://viewvc.geneontology.org/viewvc/GO-SVN/trunk/experimental/domo/ http://viewvc.geneontology.org/viewvc/GO-SVN/trunk/experimental/x-domain.obo

Shall we make it a priority to implement these?


CHEBI

(Stemming from the 'secondary metabolite' merge issue) Jane to report from the CHEBI workshop.


Prefixing 'obsolete' to all obsolete classes

Done?


Change relation for metabolism terms

https://sourceforge.net/p/geneontology/ontology-requests/10881/


Links to annotation guidance

For background, see http://wiki.geneontology.org/index.php/Ontology_meeting_2014-05-08#Links_to_annotation_guidance

Chris added 'curator guidance link' RO_0002484.

To discuss today:

- how should we record the propagation rule (I,P,R) - axiom annotation

- using axioms rather than regexps

- consistent location of docs: go wiki, drupal, or go nuts?


Follow-ups from last week

http://wiki.geneontology.org/index.php/Ontology_meeting_2014-05-29