WormBase-Caltech Weekly Calls

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Previous Years

2009 Meetings

2011 Meetings

2012 Meetings

2013 Meetings

2014 Meetings

2015 Meetings

2016 Meetings

2017 Meetings

2018 Meetings

2019 Meetings


GoToMeeting link: https://www.gotomeet.me/wormbase1

2020 Meetings

January

February


March 5, 2020

WormBase curation

  • Tim Schedl: WB needs to do more curation for phenotype and variation
  • Doing community curation, but not fast enough
  • Would like to work on more automation; e.g. having Textpresso return all sentences mentioning an allele in papers that are predicted to have phenotype data

Alaksa

  • Joesph may be able to meet with Raymond
  • How can the tool be maintained? If it can't it needs to be pulled

Single cell expression tool

  • Tool is here: http://de.wormcells.com/
  • What do we need to consider for pulling into WormBase?
  • Where does the data sit and how does the tool access it? Can we integrate the data more into WormBase (e.g. local curation databases)?
    • Would want it to be in sync with WormBase releases
    • May not need to reprocess with every release with current (small-ish) data set
  • Fully integrated tool versus an embedded tool?

Name service updates

  • For now we will stick to the CGIs that Juancarlos has built for variations and strains
  • Juancarlos can discuss with Matt R. and Sibyl the possibility of integrating API requests to the Name service into a CGI form for the OA


March 12, 2020

Storing invalid/avoided WBPersons and email addresses in Postgres

  • Currently Chris has been maintaining (on Google sheets) a list of papers, people, and email addresses to omit from future WormBase outreach requests
  • Valerio would like to add these to Postgres to keep a more central repository of them
  • Chris would still like to be able to readily update/edit the content of those lists