Ontology Working Group Meeting, Tuesday April 28th, 2015
Planteome Ontology Working Group Meeting
- Time: Apr 28, 2015 8:30 AM (GMT-7:00) Pacific Time (US and Canada)
- Connection: Join from PC, Mac, iOS or Android: https://zoom.us/j/666739728
Agenda:
Who: LC, PJ, EA, LV, CM, DWS
Updates from CO team
- LV has been progressing on several crop trait dictionaries, working with the plant breeders:
- cowpea TD - discussing with the users, waiting for feedback
- pigeon pea TD- Training was done with the breeders at the BMS, requested more traits, added 12 new, submitted revisions to Preasad, then it will be uploaded. Done offline, via email and dropbox
- rice- no news from RH
Note: Discussion of the workflow: Working with Julian Pietragalla, Technical Support Officer of the BMS ([1]). Julian is at CIMMYT, deals with the data standards for the BMS.
- EA and LV are going to CIMMYT for all next week (May 3-8th?) to meet with the BMS folks and make revisions to the Trait Dictionaries. All the crops are on the list, wheat, maize, the legumes, etc
- Also will be working on better guidelines to fill in the TDs
PJ Question: Are there already vocabularies in place to annotate the germplasm/GWAS datasets, etc? Is there a list of traits that we can get to match with the TDs and the ref TO?. CIMMYT researchers are part of TCAP/maizeCAP projects? How can we address the needs for the top priority traits that are needed.
- Link to Crop Information & Genomics page
- Genebank staff will be gone, will be meeting with Rosemanry and Kate: their role is the harmonization of the metadata
- BMS is being tested for use at CIMMYT, new initiative
- Also, CIMMYT is implementing the GRIN Global system: [2]
- Meeting with Cheryl Porter (AgMIP) variables
Updates from OSU
- Curator position: Interviews starting this week
Progress on transition to Github
- See: https://github.com/Planteome
- created repos for CGIAR rice, maize, wheat and cassava
- Will remove from SVN
- Questions from CM:
- Where to link the CO trait definitions to? - mapped to Gramene right now. Need annotations
Updates on Amigo 2.0
See link: dev.planteome.org