WBConfCall 2022.03.03-Agenda and Minutes

Agenda

• New Hinxton WormBase GTL: Sarah Dyer

• Follow-up to BioCyc presentation
  • From Peter K: "we would be open to discussing further with you the idea of inserting WormCyc pathway diagrams in Wormbase pages."
  • Next steps?

WormBase can add an embedded image (we need an API endpoint). PS. We should discuss/consider about doing that for AGR as well.

• Helpdesk
  • All clear

There were some power issues with Caltech causing some services to be down. Currently trying to make them more persistent (AWS). SimpleMine discussion: Wen will send some AGR-related SimpleMine tickets to Magz.

• CGC data exchange revamp [Paul D]
  • Issues/Fixes
    • Long time since it was run and had support
    • Sanger MySQL NS retired - decoupled as lots of false +ves generates tmp_Ids for manual review.
    • Transgene IDs - The data retrieval and processing broken : Caltech-side Curation write-up here
    • Sanger->EBI - Infrastructure dependencies
    • CGC_data format - subtle changes over time broke the parser
  • EBI->CalTech
    • Start sending Transgene report (to Karen)
    • Author info report.....what should we do with this?

• WS285 schema
  • 2 changes:
    • Wen - Expression_cluster tag for Single_Cell_RNASeq //Wen WS285 for CenGen data
    • Daniela - Expression model tag removals
  • Schedule:
    • Models release Friday/Monday March 04/07
    • Data freeze Monday March 28)
  • Baer lab data ingest, possibly coming for WS285, ~1000 C. elegans spontaneous mutation accumulation (some interim data will be sent from Charlie. We'll investigate how we can add it to WB).
  • Any other new data for WS285?

• WS284 news [Magz]
  • 90 miRNA gene clusters from MirGeneDB - see issue #8466 for web-display
  • AlphaFold links

A web-ticket will be created for AlphaFold from PD.