WormBase SAB Meeting

WormBase_Consortium Scientific Advisory Board Meeting

California Institute of Technology, January 27-29, 2013

Sunday 27th Jan – Pre-Meeting (WormBase central)

(Advisory Board not required to attend this session)

• WormBase ParaSite
• Revive GFF3 production/testing
• Representation of multiple assemblies for a single species (on web-site and FTP site)
• Mechanism to stage/review changes to static content without immediately publishing it to live site
• Future web-site features
  • Incremental updates
  • Data that we produce that cannot currently be viewed on web-site
    • Comparative genomics (multiple alignments, gene trees)

Monday 28th Jan

9:00 - 9:15 Overview

• Introduction: Where we are, grant status, etc - (Paul Sternberg; 15 min)

9:15 - 10:30 Website / User interface

• Site introduction; usage; web team accomplishments; objectives and milestones. (Todd; 20 minutes)
• Tour of the new website (Abby; 20 minutes)
• Intermine introduction, status, and goals (JD; 15 minutes)

10:45 - 12:15 Sequence analysis and curation

• Coping with the deluge of nematode sequence data (Kevin; 20 mins)
• Sequence curation - current status and future plans (Paul; 15 mins)
• Transcriptomics data in WormBase
  • RNASeq alignment and annotation pipeline (Gary W; 10 mins)
  • SPELL (Wen; 10 mins)
• Annotation of Brugia malayi - a pilot study for future parasitologist community collaborations (Michael; 15-20 mins)

=== 12:15 - 13:30 LUNCH === Morgan Library (second floor of Kerckhoff)

13:30 - 16:15 Literature curation

• Literature curation workflow and tools (50)
• Towards Integrated Phenotype Curation (alleles, RNAi, transgenes, interactions, GO (30)
• Gene expression and regulation: Transcriptional Networks (Xioadong, Daniela)
• Interactions (20)
• GO (20)
• Cell Function (10)
• Processes and pathways (20)
• Transcriptional Networks
• Human Relevance - Orthologies, Disease and Drugs

16:30 - 17:30 Other topics

• Revisiting tools with respect to Community Annotation (40)
  • Pathways [Karen]
  • Concise descriptions [Kimberly, Ranjana]
  • Gene models (Kevin; 5 mins)
• Plans for retirement of the Acedb (Kevin/Todd; 15 mins)

Prior Meetings

2011 SAB Meeting