Manager Call 2017-08-02: Difference between revisions
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**[https://f1000research.com/articles/5-2422/v2 Identifying ELIXIR Core Data Resources F1000 paper] | **[https://f1000research.com/articles/5-2422/v2 Identifying ELIXIR Core Data Resources F1000 paper] | ||
=== Moni === | === Moni === | ||
*[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0157989 | *[http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0157989 In the list of top ten resources mentioned in the full corpus of PMC, GO was second (R was first)]. See Table 8 in the paper. | ||
*Working on documentation | *Working on documentation | ||
**Trying to figure out what happened with go-ontology editor's docs on readthedocs | **Trying to figure out what happened with go-ontology editor's docs on readthedocs |
Revision as of 14:24, 2 August 2017
Joining the Call on Zoom
https://stanford.zoom.us/j/754529609
Agenda
Notes
- On call: David H, Judy, Kimberly, Moni, Paul T., Suzi
Cambridge Meeting
- Helen sent out an email about registration
- We will review this on the next annotation call
Annotation Projects
- Focused work on specific areas of biology, e.g. autophagy, signaling pathways
- Will try to include GO-CAM model(s) in documentation/publications
Other Updates
Judy
- Working on dataset of genes for human diseases
- Will look into disease-specific funding opportunities
- ISMB/ECCB meeting in Prague was excellent
- Next year, meetings will be split
- Public policy and Elixir sub-meetings
- Discussion of global infrastructure, coordinated resources, usage metrics
- Identifying ELIXIR Core Data Resources F1000 paper
Moni
- In the list of top ten resources mentioned in the full corpus of PMC, GO was second (R was first). See Table 8 in the paper.
- Working on documentation
- Trying to figure out what happened with go-ontology editor's docs on readthedocs
Suzi
- Working on support for participants for Cambridge meeting
Kimberly
- Report on signaling pathway work, specifically Wnt
- Leading to more general discussion of annotation issues wrt ligands, etc.
- Will begin documentation migration to github/go-annotation
- WB grant renewal due next month
- Working on prioritizing GO-CAM curation
Paul
- Nearly ready with next revision of GO-CAM paper
- Putting together the Wnt example has been an informative review of the annotations of pathway members
- Discussion of missing annotations for key mechanistic insights for core areas of biology
- Would be good to re-visit the overview/consensus view of genes wrt GO and fill in missing annotations
- Identify key papers for mechanistic annotations
- Gene Wiki
David H
- Triaging ontology github tickets
- Working on MAPK signaling pathway
- Working with Peter D. to make github models of gpi-modification pathways
- Working on GO-CAM models with MGI curators
- David, Paul, Peter working on mapping Reactome models to GO-CAM models
- Challenges in representing gene product activity vs complex activity
- A complex is required to observe a function, but only one of the gene products actually has that activity, e.g. kinase activity
- When do we want to use contributes_to, when don't we