LEGO May 4 2015
Agenda
Continued Discussion of March Consistency Exercise Paper
Specific Questions/Issues
- Here are the links to the models built by David, Kimberly and Rama
David- http://go-genkisugi.rhcloud.com/seed/model/gomodel:taxon_559292-5525a0fc0000001
Kimberly- 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).
- Links to models built by David, Kimberly and Rama
Discussion
March paper
- We all looked at the model Paul built.
- We want the ability to capture functions of complexes. Noctua should load complex IDs from IntAct. Make a github ticket for this request.