GO-CAM Working Group Call 2018-06-26
Meeting URL
https://stanford.zoom.us/j/976175422
Agenda
Logistics
- User accounts
- Follow-up from last week: Sandy L
- https://github.com/geneontology/noctua/issues/563
- Closed - all okay
- Groups
- https://github.com/geneontology/noctua-models/issues/96
- Should this be discussed on Wednesday's technical call?
- https://github.com/geneontology/noctua-models/issues/96
Noctua
- Review of the Landing Page (current)
- Review of the Landing Page (under development)
- Browsing GO-CAMs
- User and Group Pages
- Review of the curation tool
- Form editor
- Graph editor
Documentation
Proposal for this group
- Focus on specific, commonly used curation modules
- For example, transcription, signaling pathways, metabolic pathways
- Groups will annotate papers of their own choosing
- We will discuss representation of the data in GO-CAMs, and any questions or issues that arise
- Choosing the appropriate relation
- Assigning evidence
- Give feedback to tool developers, ontology editors based on our discussions
- Github trackers
- Develop additional documentation
Minutes
- On call: Dustin, Giulia, Jim, Kimberly, Laurent-Philippe, Penelope, Rob, Sabrina, Sandy L, Stacia, Suzi A, Suzi L
Noctua
- Current landing page provides links to form and graph editors
- Landing page under development provides additional model search functionality, links to curator reports, information about GO terms in models
- Could be used to help identify related curation and experts who can review models on specific areas of biology
- Sabrina asked about what happens to group affiliation on older models if a curator is no longer with that group?
- Check with Seth, but the group affiliation at the time of model curation will likely remain unless the curator specifically requests that it be changed - use the noctua-models tracker to do this
- Removing an affiliation from a users.yaml entry should not affect affiliations in existing models
QA/QC
- Noctua does not yet have taxon restrictions for annotation
- Will be added in the future
- gp2term relations for legacy annotations
- High priority for this summer is to address existing BP annotations and develop as many rules-based approaches for applying new relations as possible
- Whatever annotations are left will need to be manually reviewed by curators
Curation Projects for this Group
- Will try creating models for papers that describe transcriptional regulation
- A caveat to this is that right now the MF branch for transcription factors is still under review, so we may have to make some changes to annotations in the future
- However, it would still be good to work out the relations between the MFs and the BPs wrt transcription and upstream and downstream activities and processes
- Google doc for entering papers and curation questions