2016 Advisory Board Meeting

From WormBaseWiki
Revision as of 16:55, 7 January 2016 by Khowe (talk | contribs)
Jump to navigationJump to search

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

Proposal: Prepare a short report for the advisors containing project status. For the SAB talks, restrict to a small(er) number on specific topics that are new, or where we want advice.

  • Curation
    • Overview - status and priorities - Chris
    • Automating curation (Text mining, automated concise descriptions etc) - ? + Ranjana
    • Community curation
      • Overview and status - Mary Ann
      • Community phenotype curation and tracking - Chris
      • Incentivising contributions - micropublications - Daniela
    • Discussion (+ specific questions for SAB)
      • How can we work with other MODs on curation strategy?
  • User interface
    • Visualisation of complex data
      • Ontology annotations (incl WOBr, SObA etc) - Raymond
      • Quantitative gene expression data - Gary/Sibyl
    • WormMine - Paolo
    • Discussion (+ specific questions for SAB)
      • What new tools / views should we have (e.g. enrichment tool, RNASeq querying)
  • Parasitic worms
    • Scaling up integration/curation of worm genomics data to parasites - Kevin
    • WormBase ParaSite - Bruce
    • Discussion (+ specific questions for SAB)
  • Infrastructure and interoperability
    • Overview of current data management infrastructure and vision for future - Todd / Kevin
    • Database migration : progress and status - Adam
    • Interoperability with other MODs (incl InterMod project) - Todd
  • General discussion
    • How best to measure the utility of WormBase
    • Threat to NIH funding and alternative funding models


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
    • 0930-0945 - Overview - status and priorities - Chris
    • 0945-0955 - Automating curation - doing more with less: SVMs and Automated gene descriptions - Ranjana
    • 0955-1005 - Community curation - overview and status - Mary Ann
    • 1005-1015 - Community phenotype curation and tracking - Chris
    • 1015-1025 - Incentivising contributions - micropublications - Daniela
    • 1025-1045 - 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
    • 1330-1340 - Visualising Ontology annotations (incl WOBr, SObA etc) - Raymond
    • 1345-1405 - Analysis and visualisation of quantitative gene expression data - Gary
    • 1405-1430 - WormMine - Paolo
    • 1430-1500 - Discussion (+ specific questions for SAB)
      • What new tools / views should we have (e.g. enrichment tool, RNASeq querying)
  • 1500-1515 : BREAK
  • 1515: Infrastructure and interoperability
    • 1515-1530 - Overview of current data management strategy and vision for future - Todd / Kevin
    • 1530-1550 - Database migration : status and roadmap - Adam
    • 1550-1605 - InterMod project and cross-MOD interoperability - Todd
    • 1605-1630 - Discussion (+ specific questions for SAB)

1630-1645 : BREAK

  • 1645: General discussion
    • 1645-1715 : What are the best ways to measure how important/useful WormBase is?
    • 1715-1745 : Threat to NIH funding and alternative funding models

Fri 5th Feb

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