Ontology Working Group Meeting, Tuesday June 9th, 2015

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Time: 8:15am PDT (GMT-7:00) Pacific Time (US and Canada) Connection details: Join from PC, Mac, iOS or Android: https://zoom.us/j/834566681

  • Who will attend: LC, MAL, DWS, PJ
  • Others?: BS, CM, GG
  • Regrets: JE, EA

Agenda

Summary from last meeting:

  • Report form UN meeting- BS- need links to publication
  • Updates underway to the Trait Template (Leo)
  • Discussion of the id space for Crop Ontologies
  • Discussion of the hierarchy of the CO Vocabs- not a problem if the terms have logical def'ns, just import as flat file.
  • Mapping to TO with Agreement Maker Light - see below
  • Progress on AmiGO2 browser development: http://dev.planteome.org/amigo

Report from Bioversity team

Introduce new Crop_Ontology_Pages on the wiki (MAL)

  • Marie-Angelique has created an informative page on the wiki with information about the structure and format of the CO vocabularies.
  • Current structure of the Trait template (v.4)
  • Future structure of the Trait Template (v.5)

Mappings from CO to TO: MAL

From last meeting:

  • Marie-Angelique is testing Mapping to TO using the program Agreement Maker Light (AML) (http://agreementmaker.org/) tool
  • Import as OWL or OBO, * Needs to make the product using owl files??
  • Add mapping to terms, structure or words
  • Starting with the wheat ontology file as it has manually created Xrefs to TO which can be used to double check the AML mappings

Note: Xref Links CO trait definitions which are mapped to Gramene right have been changed to the Planteome page- mainly in the wheat file?


Updates on work on Plant Disease Ontology and future plans for Plant Stress Ontology (Laurel)


Discussion of Timeline and Plan

Other Updates, etc

  • Hiring:
    • OSU: Offer has been made, waiting for confirmation, undergraduate student hired for summer, another one joining in August
    • Aberystwyth, UK- Position posted, any update?
    • NYBG- Any news?

Next Meeting Tuesday June 23rd

Back to the Planteome_Ontology_Development_and_Coordination_Working_Group page

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