Jun14 Annual

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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