Phenotype Ontology Development
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Phenotype Working Group --- Team Phene!
Contents
Logical Definitions
- Create cross-product logical definitions for all terms (see below)
- Which ontologies to use? Currently WPO / GO / PATO
- Monarch initiative
Updating Slim Terms
- Figure out terms to include
- Make sure cross-product logical definitions exist for these terms
Terms and branches to fix/revisit
- Keep list
Example ; Ionizing radiation terms : I want to change gamma to ionizing for a number of terms…in particular 1391…..then make old name with “gamma” a syn
OA changes necessary
- Not “piecemeal” – wait to we have a solid plan before asking JC
Website Display
- Immediate changes we want to implement (for 12/10/14)
- after 12/10/14
Community Annotation
- Branches to fix/revisit
- Ionizing radiation terms : I want to change gamma to ionizing for a number of terms…in particular 1391…..then make old name with “gamma” a syn
- Epigenetics terms
WPO: Logical definitions
- Find examples from Jolene and I of terms that can't be made into crossproducts:
**Just using PATO (quality) and GO
- Can be made*
egg laying defective intersection_of: PATO:0001511 ! non-functional intersection_of: inheres_in GO:0018991 ! oviposition hyperactive egg laying intersection_of: PATO:0000694 ! premature intersection_of: inheres_in GO:0046662 ! regulation of oviposition Roller intersection_of: PATO:0001227 ! variant intersection_of: inheres_in GO:0040002 ! collagen and cuticulin-based cuticle development
- Can't be made
bloated - egg retention inactive phase long egg laying phases variant dead eggs laid Kinker coiler
Agenda/minutes
11/20/14
- Who would like to tackle which branch for the next two weeks
- List of “commonly used” PATO terms
- How to track changes
I can CVS, but will affect WPO as well
- BROAD syn….3 and 4 letter names-> short name tag
- Website changes
action items for todd…in order of priority.