Difference between revisions of "LEGO May 4 2015"

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(Begin Discussion of April Consistency Exercise Paper)
(Continued Discussion of March Consistency Exercise Paper)
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*http://www.ncbi.nlm.nih.gov/pubmed/12048186
 
*http://www.ncbi.nlm.nih.gov/pubmed/12048186
 
===Specific Questions/Issues===
 
===Specific Questions/Issues===
 +
* Here are the links to the models built by David, Kimberley and Rama
 +
http://go-genkisugi.rhcloud.com/seed/model/gomodel:taxon_559292-5525a0fc0000001
 +
Kimberley- http://go-genkisugi.rhcloud.com/seed/model/gomodel:5525a0fc0000032
 +
Rama- http://go-genkisugi.rhcloud.com/seed/model/gomodel:taxon_559292-5525a0fc0000061#
 
*Use of in_absence_of and in_presence_of annotation extensions.
 
*Use of in_absence_of and in_presence_of annotation extensions.
 
*How to adequately capture the effects of protein binding on subsequent complex formation and resulting molecular functions.
 
*How to adequately capture the effects of protein binding on subsequent complex formation and resulting molecular functions.
 
  
 
==Begin Discussion of April Consistency Exercise Paper==
 
==Begin Discussion of April Consistency Exercise Paper==

Revision as of 11:25, 3 May 2015

Agenda

Continued Discussion of March Consistency Exercise Paper

Specific Questions/Issues

  • Here are the links to the models built by David, Kimberley and Rama

http://go-genkisugi.rhcloud.com/seed/model/gomodel:taxon_559292-5525a0fc0000001 Kimberley- http://go-genkisugi.rhcloud.com/seed/model/gomodel:5525a0fc0000032 Rama- http://go-genkisugi.rhcloud.com/seed/model/gomodel:taxon_559292-5525a0fc0000061#

  • Use of in_absence_of and in_presence_of annotation extensions.
  • How to adequately capture the effects of protein binding on subsequent complex formation and resulting molecular functions.

Begin Discussion of April Consistency Exercise Paper

Specific Questions/Issues

  • Use of occurs_in relation for molecular function annotations
    • What constitutes sufficient evidence for adding this extension, as CC annotations may be from a different experiment than the MF annotation?
    • For example, protein binding based on Y2H or whole cell lysates (IPI) with separate experiments describing localization (IDA).