Annotation Conf. Call 2017-07-11: Difference between revisions
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*TOR | *TOR | ||
*Wnt | *Wnt | ||
== Steps Forward == | |||
*Curators claim pathways (work together, if desired) | |||
*David and Kimberly will create tickets in github and link to project page in go-annotation | |||
= Minutes = | = Minutes = |
Revision as of 11:39, 10 July 2017
Meeting URL - NOTE CHANGE TO ZOOM
Agenda
Annotation of Signaling Pathways in GO
Logistics
Literature Reviews
Annotation Guidelines
- Existing Guidelines:
- New Guidelines:
- A primary goal of this workshop will be to add to, and improve upon, existing annotation guidelines.
Proposed Workflow
Pathway Overview
- Initially focus on what is in the pathway
- Identify a pathway
- Determine what gene products and molecular functions are in the pathway
Review Existing Annotations
- What gene products have been annotated for different organisms?
- Start with your own organism, if desired, but it is instructive to look at other organisms
- What are the existing annotations?
- What experiments support those annotations?
Review the Ontology
- Do term definitions clearly state the meaning/use of the term?
- Is there redundancy or deficiency in the ontology?
Construct a GO-CAM Model
- Can the existing annotations be used directly in a GO-CAM model?
- If not, why?
- Are annotations missing?
- Are annotations incorrect?
- If not, why?
- Are the expected annotations produced in the GPAD output?
- If not, why?
Suggested Pathways from Curators
- Apoptosis
- GPCR
- Gastrin
- Hippo
- Jak/STAT
- MAPK
- Erk
- Jnk
- p38
- HOG
- Nodal
- Notch
- Receptor Tyrosine Kinase
- VEGF
- Sonic Hedgehog
- TOR
- Wnt
Steps Forward
- Curators claim pathways (work together, if desired)
- David and Kimberly will create tickets in github and link to project page in go-annotation
Minutes
- On call: