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| = Kick Off Meeting: Monday January 5th, 2015 =
| | [[Kick Off Meeting: Monday January 5th, 2015]] |
| '''Goal: Discuss the coordination between the NSF Planteome Project and the Crop Ontology.'''
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| Who: EA, LC and PJ
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| '''1. Progress and Updates on the Crop Ontology (http://www.cropontology.org/)'''
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| * Annotation of phenotyping data through the IBP (https://www.integratedbreeding.net)
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| * Ontology manager on https://www.integratedbreeding.net/
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| * CO traits used to populate
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| * Agtrials (http://www.agtrials.org/) on CIAT another source
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| * Involvement of ICRISAT
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| * Genebank accessions- done at some centers e.g. CP
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| * Traits may be in common, but also there is variation between crops
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| * CO provides community-specific vocabularies for integration of data annotations
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| '''2. Ontology development and serving to users:'''
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| * With NSF's investment, they have certain requirements- need to minimize the duplication of efforts
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| * Centralized location for the ontology repositories- can be served to various portals as needed- such as the CO webpage the users are familiar with
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| * Need reliable system of versioning for the ontologies- Are the CO ones versioned currently?
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| * Reference ontologies need to be updated and expanded:
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| ** Core reference ontologies: PO, TO, GO, ENVO/EO, PATO, ChEBI
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| ** CO- species-specific vocabularies, ontologies
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| * CO has a tailored helpdesk for the users- needs to be maintained
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| * TO Development - could be opened to editing through Term Genie
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| '''3. Annotations and linking- vision of how the data is going to be shared'''
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| * SKOS format, OBO, move towards using OWL- at least in the reference ontologies
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| * Relations
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| * Need to be able to query across ontologies
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| * Need to create cross links between the crop-specific ontologies and the reference ones
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| * Design pilot project- pick a select group to focus on- will discuss further
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| '''4. Online resources web services, provide links to databases'''
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| * APIs can be set up as we move forward
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| 5. Upcoming:
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| [[Crop Ontology and Planteome Project Meeting Monday Jan 12th @ PAG 2015]] | | [[Crop Ontology and Planteome Project Meeting Monday Jan 12th @ PAG 2015]] |