WormBase-Caltech Weekly Calls
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Contents
Previous Years
2020 Meetings
September 3, 2020
WS279 Citace upload
- September 25
- Local CIT upload (to Wen) Tuesday September 22 by 10am Pacific
New AFP datatype for curation status form (CSF)?
- afp_othergenefunc (to capture gene function other than enzymatic activity)
- Can wait a bit before adding to CSF; if there will be dedicated curation for that data type we may add later
GO annotation for description
- Kimberly will look into 'male tail tip developement' terms for description
Migrate wobr1 server to AWS
- SOLR, WOBr, SObA, Enrichment analysis
- Working with Sibyl on the process
- Will try migrating wobr1 first, as a test case
- May eventually move, for example, Tazendra
- Will there be drawbacks to doing this?
- Can we regularly ssh into Tazendra on AWS without issue? Costs for transferring large files
- Don't yet know the details of the costs, but we can try and keep track
- We should move into WB or Alliance AWS instances (or Stanford)
WormBase talk at Boston Area Worm Meeting
- https://www.umassmed.edu/ambroslab/meetings/bawm/
- Meeting will be virtual on Zoom
- Chris will give a talk September 23rd, 6pm Eastern, 3pm Pacific (probably first speaker but not sure)
- Send topic requests to Chris for the talk
- Current topics:
- Micropublications
- Author First Pass
- Automated Gene Descriptions
- Community Curation
- WB Query Tools
- Chris will ask organizers if others can join: post on WormBase blog? May draw too large an audience for the zoom channel;
- If the organizers record the talk, we can post it on the blog and WB YouTube channel
September 10, 2020
GO GAF Files
- WS278 GO GAF is using the new 2.2 file format
- GO will not be emitting GAF 2.2 until the end of the year (will try to get a fixed date)
- Implications for gene descriptions, but what about other tools, applications at WB?
Disease files on FTP
- No changes for WS279, except an extra custom file that Hinxton is producing mostly for gene descriptions so that we don't get the wrong human diseases via poor orthology calls
- Will be some consolidation of disease files and data possibly for WS280, implications for downstream tools--gene descriptions, WOBR, ??