WBConfCall 2022.08.18-Agenda and Minutes

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Agenda and Minutes

  • Helpdesk
  • Clone, fosmid and cosmid availability [MZ]

  • WB grant -> due Thursday September 22nd. Full draft by September 1st.
    • PO still thinking about the LOI
    • Same study section as FB
    • Focus on new things we are going to do - include details, numbers and deliverables and milestones
    • Figure out what type of curation we want to do, prioritize, and put down numbers on how long is going to take. Document on why a certain datatype is important (e.g. expression pattern, phenotype).
    • https://docs.google.com/document/d/1gl2NNsb1I4bBwPHP6Z8xs5cff5FrtnFuWJRedR8Uwo0/edit
  • SAB
    • We will have one later on, after the grant will be in
    • Parasite has an expert group (people familiar with the resource), who give more detailed feedback on missing data, how things can be improved on a practical level. Should we consider something like this for WormBase? Paul S.: We can do it
      • Make a doc with a list of focus groups? Tight for the grant, can do for later on.
        • e.g. 6 people (experts in the field) for datatype
        • focus on new data types, neural connectivity, single cell RNAseq
    • What to do with data such as FPKM displays. Todd: more of a generic question. What are we generally keeping for the transition to Alliance and what are we getting rid of (or display as a per se component).
      • Need a list of all widget.

List of widgets & functions https://docs.google.com/spreadsheets/d/12lchr7BIgIPWCfVunhdYKlUSyACqRAMxlnmvXhvRQD4/edit?usp=sharing

    • Need vision on what we are going to do in the next couple of years.
      • Paul S: need to detail as much as possible how we are dealing with the transition, evaluate our 20 years history and how to move on. Then we need to detail on new things that we want to focus on. Innovation on worm specific data can happen later on.
      • Can we do more with cell lineages and single cell genomics? Cell deconvolution network.
      • Regulatory networks? Ensembl is working on it now.
      • Is the cell lineage browser gone? Yes, lost in the Datomic transition. Raymond: info is in the ontology browser (relationship between nuclei and cells).
    • Phenotype vs GO-CAM modeling. We should generate a more useful and connected set of genes and gene products. Get more useful annotations from people.
    • What about other nematode genes that are not characterized. When people do enrichment analysis.
    • Coexpression
    • Mark Blaxter is going to generate much more genome sequences
    • Do more work on noncoding RNAs. The field is growing and we have good relationship with these users.
    • Focus on genes that have no functional information
      • out out a list for the community and alert them we need data on those?
  • Paper corpora for all species [MM & MZ]