Apr. 26th, 2016 Ontology Working Group Meeting: Difference between revisions

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=Agenda=
==Update on the plans for the PhenoHarmonIS Meeting in Montpellier, 9-13 May 2016==


* Link to website: https://sites.google.com/a/cgxchange.org/cropontologycommunity/home
* http://tinyurl.com/hzsho6v


* About 70+ Participants are signed up:
** [https://sites.google.com/a/cgxchange.org/cropontologycommunity/workshop-on-harmonization-semantic-and-integration-of-phenotypic-and-agronomic-data-9-13-may-2016-montpellier-france/list-of-participants PhenoHarmonIS_List-of-participants]


* Still finalizing the agenda, meeting weds, final version TBA
** https://docs.google.com/a/cgxchange.org/document/d/1rRVEu8X-E_a5tgTFYMrC10Ag-cGE0mqUf_yICrU26QY/edit?usp=sharing
* First day- Plenary sessions, tool demos
** GG will give an ontology 101 session
* Following days hands-on sessions
== ICBO 2016 Call for Papers is open==
* ICBO call for papers is open- http://icbo.cgrb.oregonstate.edu/ICBO_submission
http://icbo.cgrb.oregonstate.edu/ICBO_submission
'''Deadline is May 5th'''
Proposed Topics, with suggested lead:
* Planteome paper- LC
* Mappings- MAL
* Annotations project on rice, cassava and lentil, etc - AM
Formats:
* Extended Abstract- up to 2 pages
* Short Papers- up to 4 pages
* Full Papers- up to 6 pages
https://easychair.org/conferences/?conf=icbo2016
Papers will be published in a book of proceedings, not in a journal





Revision as of 15:51, 22 April 2016

Planteome Ontology WG Zoom Meeting

  • Date: Tuesday Apr. 26th, 2016
  • Time: 8:15am PDT (GMT-7)
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Agenda

Update on the plans for the PhenoHarmonIS Meeting in Montpellier, 9-13 May 2016

  • First day- Plenary sessions, tool demos
    • GG will give an ontology 101 session
  • Following days hands-on sessions

ICBO 2016 Call for Papers is open

http://icbo.cgrb.oregonstate.edu/ICBO_submission

Deadline is May 5th

Proposed Topics, with suggested lead:

  • Planteome paper- LC
  • Mappings- MAL
  • Annotations project on rice, cassava and lentil, etc - AM

Formats:

  • Extended Abstract- up to 2 pages
  • Short Papers- up to 4 pages
  • Full Papers- up to 6 pages

https://easychair.org/conferences/?conf=icbo2016

Papers will be published in a book of proceedings, not in a journal


OBA development- Chris Mungall

  • CM: If there is time I would like to walk through the procedure we use to develop OBA.
  • Part of this was covered in the tutorial on template-based ontology development, but we had to rush this part due to lack of time:

https://github.com/Planteome/protege-tutorial/tree/master/template-examples

  • For OBA, the source of the ontology is primarily in TSVs, found here:

https://github.com/obophenotype/bio-attribute-ontology/tree/master/src/ontology/modules

  • The design patterns are specified here:

https://github.com/obophenotype/bio-attribute-ontology/tree/master/src/ontology/patterns

  • Together these are used to build the ontology with equivalence axioms, with the entire ontology hierarchy being inferred automatically, e.g:

http://www.ebi.ac.uk/ols/beta/ontologies/oba/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBA_VT0000017