2018 Advisory Board Meeting

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The 2018 edition of the WormBase project meeting / Scientific Advisory Board meeting will take place at OICR on 12/13 July 2018.



  • Hinxton
    • Matt Berriman, Kevin Howe, Michael Paulini, Paul Davis, Gary Williams, Matt Russell, Faye Rodgers
  • Caltech
    • Chris Grove, Kimberly Van Auken, Raymond Lee, Karen Yook, Paul Sternberg, Wen Chen, April Jauhal, Ranjana Kishore, Juancarlos Chan
  • OICR
    • Lincoln Stein, Todd Harris, Adam Wright, Paulo Nuin, Sibyl Gao

Presentation slides, drafts, etc

Project meeting


Lightning talks

--5 minutes pe peson with 5 mintues discussion 10 x 24 = 4 hours

  • Paul Davis - CGC, Variants and Strains
  • Kevin Howe -
  • Michael Paulini - Parasitic core species or WormBase@UCSC
  • Faye Rodgers - Community annotation of gene structures
  • Matt Russell - Using Datomic for curation data capture (Name server project)
  • Gary Williams - Gene curation; evidence for gene structures; tools for curation
  • Chris Grove - Phenotype curation & community phenotype curation, interactions (genetic & physical)
  • Kimberly Van Auken - gene function annotation using GO
  • Raymond Lee
  • Karen Yook making more use of microPublication
  • Wen Chen
  • April Jauhal -- Gene regulation interactions
  • Ranjana Kishore - Automated gene descriptions and disease models
  • Juancarlos Chan

• Paul Sternberg Transcriptional Regulation, what we need to do

  • Todd Harris -- website status; use and users; associated costs and management; third party projects we support
  • Adam Wright
  • Paulo Nuin
  • Sibyl Gao -- Technology stack modernization for UI and search, Name server UI

Discussion session

  • Database migration project
    • Datomic migration status
    • How can we dove-talking with the Alliance infrastructure work?
    • Plans for using Datomic in curation(?)
  • What processes/tools should we centralise in the Alliance?
    • Curation tools?
    • WormMine?

Thursday dinner for staff and SAB member

Evening, Thursday July 12





  • Oliver Hobert
  • Julie Ahringer
  • Andrew Chisholm
  • Mike Cherry
  • John Calarco


0800 coffee???

0830 introduction and overview -Paul Sternberg

                Overview of Project, Funding, The Alliance, Big Picture, Issues, Outreach, 

0900 dataflow and backend: status and plans -Kevin Howe


0945 curation: status and plans -Chris Grove

                Prioritization of datatypes
                How this is impacted by Alliance

1030 break

1100 website: status and plans - Todd Harris

               Running on datomic

1130 tools and displays;status and plans

                WormMine -
                Ontology Browsing  -Raymond 
                ParaSite - Kevin Howe

1200 lunch

1300 SAB discussion

1430 Feedback, and Discussion

1630 conclude

Dinner for those who are not departing immediately

Evening, Friday, July 13