Difference between revisions of "Anatomy Ontology Conf calls"

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(Minutes)
(Minutes)
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** e.g. 'naris' in mouse is 'part of nose'
 
** e.g. 'naris' in mouse is 'part of nose'
 
** e.g. 'naris' in uberon with lots of xrefs but missing relationship 'part of' olfactory apparatus  
 
** e.g. 'naris' in uberon with lots of xrefs but missing relationship 'part of' olfactory apparatus  
* not sure how often Chris updates Uberon
+
** not sure how often Chris updates Uberon
 +
*Terry - developed adult Mouse Anatomy; working with Edinburgh group to update their ontology
 +
** 'unified mouse anatomy' not an official term, just a descriptor
 +
** Ed. developmental mouse anatomy developed 15 years ago in an effort to code mouse expressiondata.  Built along lines of an atlas by kauffman and baird; partonomy; Used for expression annotation by ... for years now.  Two parts: abstract mouse which is a time -inedpent collection of terms in a hierarhy not a dag; and from that extracted stage-dependent hierarchies.  stage 28 is postnatal -- this is not developed at all.  8-10 years ago, a postnatal developed by jax.  jax added is-a and expanded on stages.  Examined all relevant ontologies in updating.  Two entities (MA vs. developmental) not connected currently -- working to make it an anatomy ontology encompassing the whole of mouse development. 
 +
** Q: re: timeline?  Terry:  within next two weeks could give clearer answer.
 +
 
  
  

Revision as of 20:22, 13 June 2011


June 13, 2011

Participating: Monte Westerfield, Paula Mabee, Judy Blake, Aaron Zorn, Jeff Bowes, Wasila Dahdul, Jim Balhoff

Agenda

  • Judy:
    • Discussion on how to initiate the Amniote Anatomy Ontology for terms outside skeletal system
    • Report on status of unified anatomy [emap + MA]
    • What exactly is abstract mouse?
    • Clone MA, UBERON, unified mouse [emap + MA], or abstract mouse?
  • Monte:
    • Discussion on moving ZFA to GO like model; possibility of implementing VAO import (so that XAO can just clone this VAO chunk when they also clone the rest of ZFA)
  • Aaron and Jeff:
    • Discussion on setting up modular ontology model and specifics of importing model species-specific information (like devo stage)

Minutes

  • Wasila will demonstrate diffs between Uberon and MA usingnon-skeletal terms
    • e.g. 'naris' in mouse is 'part of nose'
    • e.g. 'naris' in uberon with lots of xrefs but missing relationship 'part of' olfactory apparatus
    • not sure how often Chris updates Uberon
  • Terry - developed adult Mouse Anatomy; working with Edinburgh group to update their ontology
    • 'unified mouse anatomy' not an official term, just a descriptor
    • Ed. developmental mouse anatomy developed 15 years ago in an effort to code mouse expressiondata. Built along lines of an atlas by kauffman and baird; partonomy; Used for expression annotation by ... for years now. Two parts: abstract mouse which is a time -inedpent collection of terms in a hierarhy not a dag; and from that extracted stage-dependent hierarchies. stage 28 is postnatal -- this is not developed at all. 8-10 years ago, a postnatal developed by jax. jax added is-a and expanded on stages. Examined all relevant ontologies in updating. Two entities (MA vs. developmental) not connected currently -- working to make it an anatomy ontology encompassing the whole of mouse development.
    • Q: re: timeline? Terry: within next two weeks could give clearer answer.


  • Judy:
    • Discussion on how to initiate the Amniote Anatomy Ontology for terms outside skeletal system
    • Report on status of unified anatomy [emap + MA]
    • What exactly is abstract mouse?
    • Clone MA, UBERON, unified mouse [emap + MA], or abstract mouse?
  • Monte:
    • Discussion on moving ZFA to GO like model; possibility of implementing VAO import (so that XAO can just clone this VAO chunk when they also clone the rest of ZFA)
  • Aaron and Jeff:
    • Discussion on setting up modular ontology model and specifics of importing model species-specific information (like devo stage)