Jun14 Annual

iSEEM2 Annual In-Person Meeting

• Date: Thursday, May 8th, 2014
• Location: Conference Room A/B, First Floor, Gladstone Institutes, 1650 Owens Street, San Francisco, CA 94158
• Food: Lunch and coffee breaks will be provided
• Attending:
  • Eisen lab: Jonathan, Dongying, Guillaume, Ladan, Sarah
  • Pollard lab: Katie, Josh, Patrick, Stacia, Stephen
  • Sharpton lab: Tom
• Schedule:
  • 10:00am - Arrival and meeting overview (Katie)
  • 10:30am - Introductions and progress reports from each team member (5 minutes each)
  • 11:30am - Overall goals and challenges in achieving these
    • Katie: Outline of goals and deliverables as stated in the grant, summary of overall progress
    • Jonathan: Summary of challenges, primarily data availability (Guillaume)
    • Group: How can we overcome these challenges? What can we do with the data that is available? Areas in need of more genomes?
    • Group: What organisms should we analyze? Eukaryotes, viruses?
  • 12:30am - Lunch
  • 1:00pm - New directions: Emerging bioinformatics and statistics challenges in metagenomics
    • Longitudinal analysis (Katie)
    • Data Integration (metagenomes, transcriptomes, proteomes, metabolomes) (Tom)
    • Informatics challenges for eukaryotes and viruses (Jonathan)
    • Methodology for identifying closely related strains (Stephen)
    • Long read sequencing & assembly-based analyses (Stephen)
    • Co-occurrence assessment, esp. metabolic networks (Patrick?)
  • 2:00pm - New Directions: Emerging biological questions in marine metagenomics (Josh)
    • Functional biodiversity hotspots
    • Predicting extirpations and extinctions of genes and metabolic pathways
    • What can terrestrial and aquatic samples tell us about marine microbiology and its interface with land?
  • 2:30pm - Phylogeography (Sarah)
  • 3:00pm - Simulations (Stephen)
  • 3:30pm - New metabolic pathways
    • Identification (Patrick, Josh)
    • Characterization (Tom)
    • Network analysis (Ladan)
  • 4:30pm - Concrete plan of action