Ontology Working Group March 6th 2015: Difference between revisions

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Who: EA, LC, BS, CM, along with new folks: Rosemary Shrestha, Léo Valette, (both from the CGIAR)
Who: EA, LC, BS, CM, along with new folks: Rosemary Shrestha, Léo Valette, (both from the CGIAR)


* Introductions to the working group:
==Introductions to the working group:==
** ''Léo Valette'''- New Crop Ontology curator at the Crop Ontology team in Montpellier, thanks to the allocation of an [https://www.integratedbreeding.net/ 2015 IBP] grant.  Role: Léo will collaborate with each crop curator and with Julian Pietragalla (IBP) to '''maintain quality Trait Dictionaries''' for the [https://www.integratedbreeding.net/15/breeding-management-system Breeding Management System] and expend the Crop Ontology to new crops. Léo will provide '''help desk for the use of the TD Template''', '''trait alignment''' and the use of the '''web site.'''
* ''Léo Valette'''- New Crop Ontology curator at the Crop Ontology team in Montpellier, thanks to the allocation of an [https://www.integratedbreeding.net/ 2015 IBP] grant.  Role: Léo will collaborate with each crop curator and with Julian Pietragalla (IBP) to '''maintain quality Trait Dictionaries''' for the [https://www.integratedbreeding.net/15/breeding-management-system Breeding Management System] and expend the Crop Ontology to new crops. Léo will provide '''help desk for the use of the TD Template''', '''trait alignment''' and the use of the '''web site.'''
- improve content of trait dictionaries
- improve content of trait dictionaries


Revision as of 20:42, 9 March 2015

Friday March 6th

Agenda Items: Who: EA, LC, BS, CM, along with new folks: Rosemary Shrestha, Léo Valette, (both from the CGIAR)

Introductions to the working group:

  • Léo Valette'- New Crop Ontology curator at the Crop Ontology team in Montpellier, thanks to the allocation of an 2015 IBP grant. Role: Léo will collaborate with each crop curator and with Julian Pietragalla (IBP) to maintain quality Trait Dictionaries for the Breeding Management System and expend the Crop Ontology to new crops. Léo will provide help desk for the use of the TD Template, trait alignment and the use of the web site.

- improve content of trait dictionaries

- Curation, redefining the guidelines, improving the template

- Agronomist, with background in Information

- Addition of new crops- e.g. Sunflower

    • Rosemary Shrestha- Germplasm Data Coordinator, CIMMYT:

- Background: Plant Pathology, molecular biology, joined CIMMYT in 2008 to develop ontologies, GCP project with Elizabeth and worked with Jaiswal group to learn to use OBO-Edit

- Role at CIMMYT: to bring the maize and wheat data into the CIMMYT databases, rolling out to the IBP

- Field and nurseries data is stored in the crop research ontology

- Mapping to PO, TO terms in the maize and wheat ontologies

  • Presentation from Montpellier meeting


  • Introduction to the wheat and maize ontologies- status?
  • * Under revision- currently cross-referencing to PO and TO
  • * Collaborating with Mary Scheaffer
  • Harmonization with the reference ontologies
  • Question: How to best deal with units and scales?
    • Unit Ontology
  • Crop Research Ontology- RS, being expanded to include the variables for environment and agronomy,
    • Needs to be harmonized with the EO and ENVO
    • How is it being used???
  • planning a Protege/BFO online webinar-workshop?

Tuesday March 10th

Tuesday March 17th

Tuesday March 24th

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