Difference between revisions of "WBConfCall 2020.06.18-Agenda and Minutes"
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*All disease data files passed Caltech and Hinxton testing | *All disease data files passed Caltech and Hinxton testing | ||
*New genotype data file passed testing | *New genotype data file passed testing | ||
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+ | ===AFP entity extraction=== | ||
+ | *Strain to paper association. Does every strain mentioned in the paper need to be connected? e.g. N2, OP50.. | ||
+ | *Species association. For species we are using a threshold that is quite high (10 mentions) that gets rid of false positives (e.g. anti-mouse, anti-rabbit antibodies, etc..). We have some papers, though that mention other nematodes with a low count (especially for phylogenetic studies) but might be worth to record in WB. Would it be worth to set up a separate pipeline that identifies those papers and populates a reference widget in WB for a given species (e.g. brenneri, japonica, pacificus, ..)? | ||
=== Help Desk === | === Help Desk === |
Revision as of 14:25, 18 June 2020
Contents
Agenda
WS278
- Is it confirmed? July 10 Citaace upload to Hinxton.
Testing data for WS278 model changes
- All disease data files passed Caltech and Hinxton testing
- New genotype data file passed testing
AFP entity extraction
- Strain to paper association. Does every strain mentioned in the paper need to be connected? e.g. N2, OP50..
- Species association. For species we are using a threshold that is quite high (10 mentions) that gets rid of false positives (e.g. anti-mouse, anti-rabbit antibodies, etc..). We have some papers, though that mention other nematodes with a low count (especially for phylogenetic studies) but might be worth to record in WB. Would it be worth to set up a separate pipeline that identifies those papers and populates a reference widget in WB for a given species (e.g. brenneri, japonica, pacificus, ..)?
Help Desk
- Subject line: WormBase - Study on the Audience of Scientific Databases and Data Repositories
- Email came in Monday, June 8th
- Do we want to share WormBase "audience" data for research project?
- Question about Cre-oac-31 and Cre-oac-42; seem to have disappeared?
- Email came in on Tuesday, June 16th
- GitHub ticket: https://github.com/WormBase/website/issues/7747
- 2 bp intron in Cbr-hipr-1 (helpdesk email from Marie-Anne Felix)
- https://wormbase.org/species/c_briggsae/transcript/CBG15345a.1#06--10
- She retracted her question now but 2bp-intron is still weird.