2016 Advisory Board Meeting

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The 2016 edition of the WormBase Scientific Advisory Board meeting will take place at Caltech on 4/5 Feb 2016.

Logistics

Attending

  • Hinxton
    • Paul Kersey, Matt Berriman, Kevin Howe, Bruce Bolt, Jane Lomax, Michael Paulini, Paul Davis, Gary Williams
  • OICR
    • Lincoln Stein, Todd Harris, Sibyl Gao, Adam Wright, Paulo Nuin

Travel

  • Hinxton
    • Will fly out on the 2nd of Feb, and return on Sun 7th Feb (cheap flights)
  • OICR
    • Arrive 3rd Feb, depart 6th Feb
  • Remote workers
    • Mary Ann - arrive 2nd Feb (evening), leave 7th Feb (evening)

Advisors


Discussion topics

Organisation of SAB talks

Agenda for the SAB itself will be organised into 4 main sections. Each section will have a short overview/scene-setting talk, followed by selected specfic talks. Each section will end with a time-tabled open discussion, which we should use to discuss strategy in that area, and put any specfic questions we have to the advisory board. Please add suggested questions/discussion topics for each section below.

  • Curation
    • How can we work with other MODs on curation strategy?
  • User interface
    • How best to measure the utility of WormBase (and similar resources)?
    • What new tools / views should we have (e.g. enrichment tool, RNASeq querying)
  • Parasitic worms
    • Balancing (curation) effort into parasitic worms vs. C. elegans
    • Integration between WormBase and WB ParaSite - to what extent is this required?
  • Infrastructure and interoperability



Other potential talks (if we want/need to fill time)

  • Genome annotation curation - status and plans - Paul Davis
  • Documentation and outreach strategy - Todd
  • Integration and curation of the new B. malayi genome assembly v4 - Michael

Specific topics for project meeting / working groups

  • Cross-site communication
    • Unification of documentation and code; what are our standards for documentation? For code?
  • Database migration
    • Specific plans for the next 6-12 months
  • WormBase + WBParaSite integration
  • Textpresso
    • extending use to non-Caenorhabiditis sp
  • Enrichment tool
    • how to implement for both WormBase central and ParaSite

Agenda (preliminary)

Wed 3rd Feb

  • 1400 : Project meeting (part one)

Thu 4th Feb

  • 0915-0930 - Introduction - Paul Sternberg
  • 0930 : Curation
    • 0930-0935 - Overview - status and priorities - Chris
    • 0935-0945 - Automating curation - doing more with less: SVMs and Automated gene descriptions - Ranjana
    • 0945-0955 - Community curation - overview, status, tracking - Mary Ann & Chris
    • 0955-1005 - LEGO
    • 1005-1015 - Incentivising contributions - micropublications - Daniela
    • 1015-1045 - Discussion (+ specific questions for SAB)
  • 1045 - 1100 : BREAK
  • 1100 : Parasitic worms
    • 1100-1120 - Scaling up integration/curation of worm genomics data to parasites - Kevin
    • 1120-1145 - WormBase ParaSite - Bruce
    • 1145-1215 - Discussion (+ specific questions for SAB)
  • 1200-1330 : LUNCH
  • 1330 : User interface
    • 1330-1350 - WormBase web-site - usage, outreach etc
    • 1350-1405 - Visualising Ontology annotations (incl WOBr, SObA etc) - Raymond
    • 1400-1415 - Analysis and visualisation of quantitative gene expression data - Gary
    • 1415-1435 - WormMine - Paulo
    • 1435-1505 - Discussion (+ specific questions for SAB)
  • 1505-1520 : BREAK
  • 1520: Infrastructure and interoperability
    • 1520-1535 - Overview of current data management strategy and vision for future - Todd / Kevin
    • 1535-1555 - Database migration : status and roadmap - Adam
    • 1555-1610 - InterMod project and cross-MOD interoperability - Todd
    • 1610-1640 - Discussion (+ specific questions for SAB)

1640-1655 : BREAK

  • 1655: General discussion
    • Threat to NIH funding and alternative funding strategies
    • Working more closely with other MODs

Fri 5th Feb

  • 0800-0900 : Advisors breakfast
  • 0900-1130 : Advisors report back to whole group
  • 1400-whenever : Project meeting (part two)