Difference between revisions of "2016 Advisory Board Meeting"
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* 0915-0930 - Introduction - Paul Sternberg | * 0915-0930 - Introduction - Paul Sternberg | ||
− | * 0930 : | + | * 0930 : Literature curation |
** 0930-0935 - Overview - status and priorities - Chris | ** 0930-0935 - Overview - status and priorities - Chris | ||
** 0935-0945 - Automation - doing more with less (SVMs and Automated gene descriptions) - Ranjana | ** 0935-0945 - Automation - doing more with less (SVMs and Automated gene descriptions) - Ranjana |
Revision as of 20:07, 7 January 2016
The 2016 edition of the WormBase Scientific Advisory Board meeting will take place at Caltech on 4/5 Feb 2016.
Contents
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
- Jason Stajich
- Mike Cherry
- Brian Oliver
- Oliver Hobert
- Monte Westerfield
- Robin Gasser (possible)
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?
- Parasitic worms
- Balancing (curation) effort into parasitic worms vs. C. elegans
- Integration between WormBase and WB ParaSite - to what extent is this required?
- 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)
- Infrastructure and interoperability
- How important is it that our infrastructure solution is reusable by other MODs (or genomics data management projects)
- Is use of non-open-source software for core data management an acceptable risk?
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 : Literature curation
- 0930-0935 - Overview - status and priorities - Chris
- 0935-0945 - Automation - doing more with less (SVMs and Automated gene descriptions) - Ranjana
- 0945-0955 - Community curation - overview, status, tracking - Mary Ann & Chris
- 0955-1005 - Micropublications - an incentive for community participation - Daniela
- 1005-1015 - LEGO - Kimberly
- 1015-1045 - Discussion (+ specific questions for SAB)
- 1045 - 1100 : BREAK
- 1100 : Genomics
- 1100-1125 - Integration and curation of hundreds of nematode genomes - Kevin
- 1125-1140 - WormBase ParaSite - Bruce
- 1140-1210 - Discussion (+ specific questions for SAB)
- 1210-1330 : LUNCH
- 1330 : User interface
- 1330-1350 - WormBase web-site - usage, outreach etc - Todd
- 1350-1400 - JBrowse - A new genome browser for WormBase
- 1400-1410 - Visualisation of Ontology annotations (incl WOBr, SObA etc) - Raymond
- 1410-1425 - Analysis and display of quantitative gene expression data - Gary
- 1425-1440 - WormMine - Paulo
- 1440-1510 - Discussion (+ specific questions for SAB)
- 1510-1530 : BREAK
- 1530: Infrastructure and interoperability
- 1530-1545 - Overview of current data management strategy and vision for future - Todd / Kevin
- 1545-1605 - Database migration - status and roadmap - Adam
- 1605-1615 - The InterMOD project and cross-MOD interoperability - Todd
- 1615-1645 - Discussion (+ specific questions for SAB)
1645-1700 : BREAK
- 1700: 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)