Difference between revisions of "WormBase-Caltech Weekly Calls"
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* Also, 3 worksheets submitted, for 4 papers | * Also, 3 worksheets submitted, for 4 papers | ||
* 35 papers flagged as not having phenotypes | * 35 papers flagged as not having phenotypes | ||
+ | * 86 papers with responses (3% response; still early) |
Revision as of 18:02, 22 August 2019
Contents
Previous Years
GoToMeeting link: https://www.gotomeet.me/wormbase1
2019 Meetings
August 1, 2019
Life stage public names missing in WS271
- Did we ever get a patch in for this?
- WormMine only has WBls IDs (no public name) for almost all life stages
- Wen will resend the patch file
2020 WB NAR paper
- Who's contributing?
- Raymond, Chris, Ranjana, Valerio, Daniela, Kimberly
- Topics
- Automated descriptions
- Ontology tools (SObA)
- Community curation
- Author first pass
2019 IWM Workshop videos
- On YouTube, but not public yet
- Chris will make them public and send links to Ranjana for the blog post
August 15, 2019
GO Alliance slim terms
- We need to update our GO slim terms for WB GO ribbons to be in sync with Alliance
- May need to watch out for terms that don't apply to worms
- Raymond gets slim terms into Solr from OBO release file; Sibyl collecting from different source; should make the same (pull from WB FTP site?)
Phenotype ontology patternization
- Now have 676 terms patternized (27% of 2,506 terms total)
- Have reviewed the class hierarchy, collecting list of unexpected class subsumptions
- Issues to address collected here: https://docs.google.com/document/d/1IWtQbEQ-elM-U5SQyU4VfIH3vdJp6taVMGViIjGyVks/edit?usp=sharing
August 22, 2019
Obsolete ontology terms in Postgres
- There are currently 172 GO annotations in the GO OA, 94 in Expr OA, and 54 in Pic OA referring to obsolete GO terms
- We would like a mechanism for detecting and alerting curators to obsolete ontology terms in the OA/Postgres
Community phenotype requests
- Sent out new round of phenotype requests on August 20, 21, and 22 (today) 2019
- 2,627 emails/papers requested
- 112 emails bounced; 4 resent to new addresses
- 205 Phenotype OA community annotations; 55 RNAi OA annotations, from 47 papers, by 42 distinct community curators (so far)
- Also, 3 worksheets submitted, for 4 papers
- 35 papers flagged as not having phenotypes
- 86 papers with responses (3% response; still early)