GO-CAM August 23, 2017: Difference between revisions
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**Adding more relations to CC could potentially generate another point for annotation inconsistency and noise | **Adding more relations to CC could potentially generate another point for annotation inconsistency and noise | ||
*One question: when would curators make an annotation to a CC and when not? | *One question: when would curators make an annotation to a CC and when not? | ||
**If you don't know anything about a protein | **If you don't know anything about a protein but its localization, curators would typically make that CC | ||
[[Category: Annotation Working Group]] | [[Category: Annotation Working Group]] |
Revision as of 11:33, 23 August 2017
Zoom URL
https://stanford.zoom.us/j/679970729
Agenda
github Trackers
- Clarification about which one(s) to use
- noctua - client and middleware code
- noctua-models - annotation (may be merged with go-annotation)
- minerva
Table Editor Workbench
- Chris and Seth will demo the new 'Simple annoton editor' workbench now available in Noctua
- The table editor allows curators to add, and edit, simple annotons in a table format
- Annotations entered in the table are automatically added to the Noctua graph editor
Annotation Provenance
- Review of how attribution is assigned for Noctua annotations
- de novo annotations
- imported annotations using function and component companions
Annotating with any UniProtID
- Use add individual functionality
Minutes
- On call: Chris, Harold, Karen, Kevin, Kimberly, Pascale, Paul T., Rob, Sabrina, Sage, Seth, Stacia, Suzi
New Noctua Features
- Curators can submit an issue to the github tracker from the Issues menu
- Model will be automatically referenced in the github ticket and the github ticket number will be listed in the models menu
- Simple annoton editor
- Curators are prompted to add an annoton, but can add distinct parts of the annoton, if needed
- Will be prompted to add evidence and a reference
- References are fairly neutral right now - can add PMIDs, GO_REFs - just need to have them be properly formatted (e.g., PMID:nnnnnnnn or GO_REF:nnnnnnnn)
- Save annoton button adds the annoton to the graphical view, but curators still need to add a title and save their models in the graph view
- ACTION: Curators need to test the editor and give feedback.
Modeling in Noctua
- We discussed what the current modeling statements in Noctua actually mean
- For example, the model currently requires that a molecular_function is associated with a cellular component
- Is it possible to make a different type of statement in Noctua, or GO in general?
- For example, a TF is observed in the cytoplasm, but it does not execute its MF there
- Curators should read Paul T.'s chapter about representation of function in the GO Handbook
- Can different localizations be annotated using different CC qualifiers?
- Counter-argument
- Shouldn't GO just be focused on capturing where activities occur?
- Adding more relations to CC could potentially generate another point for annotation inconsistency and noise
- One question: when would curators make an annotation to a CC and when not?
- If you don't know anything about a protein but its localization, curators would typically make that CC