Ontology Working Group March 6th 2015

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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.

- Background: Agronomist, with background in Information Technology - Roles: - 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.

- 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

- 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 on the GCP project with Elizabeth Arnaud. Worked with Jaiswal group to learnontology building with OBO-Edit- developed the wheat and Maize trait ontologies

- Role at CIMMYT: Germplasm Data Coordinator- 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

Introduction to the Wheat and Maize ontologies- Presentation from March 2014 Montpellier meeting

Link to Rosemary's Presentation: Maize and Wheat Data Management and Annotation Activities

  • Status- Under revision- currently cross-referencing to PO and TO
  • Harmonization with the reference ontologies

- Not currently being used in the IBP

- passport Info, multi-crop passport descriptors

- GeneBank- needs to be linked to terms

  • Maize trait Ontology: [1]

- Kate Dreher, data manager, CIMMYT

- Maize descriptors- Maize finder, central system

- Collaborating with Mary Scheaffer- MaizeGDB

-

- RS, being expanded to include the variables for environment and agronomy, etc - Needs to be harmonized with the EO and ENVO - How is it being used???

  • Question: How to best deal with units and scales?

- Unit Ontology:

Tuesday March 10th

Tuesday March 17th

Tuesday March 24th

Tuesday March 31st

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