Difference between revisions of "2016 Advisory Board Meeting"

From WormBaseWiki
Jump to navigationJump to search
Line 9: Line 9:
 
** Paul Kersey, Matt Berriman, Kevin Howe, Bruce Bolt, Jane Lomax, Michael Paulini, Paul Davis, Gary Williams
 
** Paul Kersey, Matt Berriman, Kevin Howe, Bruce Bolt, Jane Lomax, Michael Paulini, Paul Davis, Gary Williams
 
* OICR
 
* OICR
 
== Accommodation ==
 
 
* Sarah Torres to arrange accommodation for non-locals
 
  
 
== Travel ==
 
== Travel ==
  
 
* Hinxton
 
* Hinxton
** Will fly out on the 2/3 of Feb, and return on Sun 7th Feb (cheap flights)
+
** Will fly out on the 2nd of Feb, and return on Sun 7th Feb (cheap flights)
 
* OICR
 
* OICR
 
* Remote workers
 
* Remote workers
 
** Mary Ann - arrive 2nd Feb (evening), leave 7th Feb (evening)
 
** Mary Ann - arrive 2nd Feb (evening), leave 7th Feb (evening)
  
=Advisors=
+
 
 +
= Advisors =
  
 
* [http://lab.stajich.org/home/people/jason-stajich Jason Stajich]
 
* [http://lab.stajich.org/home/people/jason-stajich Jason Stajich]
Line 28: Line 25:
 
* [http://irp.nih.gov/pi/brian-oliver Brian Oliver]
 
* [http://irp.nih.gov/pi/brian-oliver Brian Oliver]
 
* [http://hobertlab.org/ Oliver Hobert]
 
* [http://hobertlab.org/ Oliver Hobert]
* A C. elegans geneticist
+
* Monte Westerfield (possible)
* A parasitologist
+
* Robin Gasser (possible)
 +
 
 +
 
 +
= Discussion topics  =
 +
 
 +
== Organisation of SAB talks ==
 +
 
 +
Propose organising the agenda into the following cross-site themes:
  
= Project meeting =
+
* '''Curation'''
 +
** Current status
 +
*** "Genetic" curation (i.e. literature)
 +
*** "Genomic" curation (gene structures etc)
 +
** Scaling up literature curation
 +
*** Increased use of automation (text mining, automated concise descriptions)
 +
*** Community curation status
  
== Scheduling ==
+
* '''User experience'''
 +
** Overview of entry points to WormBase
 +
*** Documentation and outreach strategy
 +
** Visualisation of complex data
 +
*** WoBr, SoBr
 +
** Data mining
 +
*** WormMine, ParaSite BioMart
 +
** Plans for new tools
 +
*** e.g. enrichment tool, RNASeq querying
  
* All-hands project meeting, or smaller discussion groups?
+
* '''Infrastructure and interoperability'''
* Before the SAB meeting or after?
+
** Overview of data management infrastructure
** A pre-meeting would allow us to refine the agenda of the SAB (although perhaps too late for that)
+
*** WormBase and ParaSite
** A post-meeting would allow us to set some goals based on comments/advise from the advisors
+
** Database migration : progress and status
** Hinxton folks have more time after the meeting
+
*** Incl: what is the plan and timeline for incorporating the new database in the build? In curation workflows?
 +
** Interoperability with other MODs
 +
*** InterMod project
  
== Discussion topics ==
+
== Specific topics for project meeting / working groups ==
  
* Cross-site unification of documentation and code; what are our standards for documentation? For code?
+
* Cross-site communication
* Organisation, display and querying of RNASeq data (c.f. FlyBase)
+
** Unification of documentation and code; what are our standards for documentation? For code?
 
* Database migration
 
* Database migration
** What is the plan and timeline for incorporating the new database in the build? In curation workflows?
+
** Specific plans for the next 6-12 months
* WormBase / ParaSite integration + cross-resource tools (e.g. enrichment tool)
+
* WormBase + WBParaSite integration
* Efficiency improvements
+
 
* Community curation (allele-phenotype, concise descriptions, etc.)
 
** Working with other MODs
 
* Text mining
 
* SObA (Solr/Amigo/Cytoscape reuse)
 
* Automated concise descriptions
 
* Micropublications
 
* Human disease / pathways
 
* Genomics
 
  
 
= Agenda (preliminary) =
 
= Agenda (preliminary) =
 +
 +
== Wed 3rd Feb ==
 +
 +
* 1400 : Project meeting (part one)
  
 
== Thu 4th Feb ==
 
== Thu 4th Feb ==
  
*how we do on curation -beginning
+
(tentative)
*details on database migration
+
 
*plans for next year
+
* 0900-1200 : Curation : status and plans
*metrics
+
* 1300-1530  : User experience
 +
* 1600-1730  : Infrastructure (incl database migration)
  
 
== Fri 5th Feb ==
 
== Fri 5th Feb ==
 +
 +
* 0800-0900 : Advisors breakfast
 +
* 0900-1130 : Advisors report back to whole group
 +
* 1400-whenever : Project meeting (part two)

Revision as of 14:30, 21 December 2015

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

Travel

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


Advisors


Discussion topics

Organisation of SAB talks

Propose organising the agenda into the following cross-site themes:

  • Curation
    • Current status
      • "Genetic" curation (i.e. literature)
      • "Genomic" curation (gene structures etc)
    • Scaling up literature curation
      • Increased use of automation (text mining, automated concise descriptions)
      • Community curation status
  • User experience
    • Overview of entry points to WormBase
      • Documentation and outreach strategy
    • Visualisation of complex data
      • WoBr, SoBr
    • Data mining
      • WormMine, ParaSite BioMart
    • Plans for new tools
      • e.g. enrichment tool, RNASeq querying
  • Infrastructure and interoperability
    • Overview of data management infrastructure
      • WormBase and ParaSite
    • Database migration : progress and status
      • Incl: what is the plan and timeline for incorporating the new database in the build? In curation workflows?
    • Interoperability with other MODs
      • InterMod project

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


Agenda (preliminary)

Wed 3rd Feb

  • 1400 : Project meeting (part one)

Thu 4th Feb

(tentative)

  • 0900-1200 : Curation : status and plans
  • 1300-1530 : User experience
  • 1600-1730 : Infrastructure (incl database migration)

Fri 5th Feb

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