Moore Notes 4 14 10

PI Call

• No-cost extension
  • UCD burn-rate: still working on it
  • UCD financial department wants to put in the official extension request
  • They sent Kelly updated financials (through Dec)

• NIH study section for http://grants.nih.gov/grants/guide/rfa-files/RFA-RM-09-020.html
  • Could be useful to learn the NIH system

• Grants
  • Leda Proctor is joining NIH human microbiome project at NIH (from NSF)
  • NSF Tool Development: http://www.nsf.gov/publications/pub_summ.jsp?ods_key=nsf10028
    • Division of Integrative Organismal Systems http://www.nsf.gov/div/index.jsp?div=IOS
    • Talk to Joann Roskoski or Jane Silverthorne

• Bank Beszteri's SSU rRNA project (Steve Giovannoni's postdoc)

• Steve's paper: strategy
  • Contact editor about resubmitting
  • Not a software paper: but could compare to output from existing tools, even though it is different
  • How to emphasize the novelty of the manuscript?
    • marrying community phylogenetics approach and microbial genomics
    • broaden how it is written
    • ask editor if necessary to add GOS (but don't want to take too long)

• Josh's paper: discussion
  • Last version with updated references has Katie's reorganization changes
  • Ideas for discussion:
    • Foreshadow the range estimation and SAR work to come
    • Biogeography literature based on ranges (Rawbeck, Jets, others)
      • i.e. say that can turn around ranges -> distance decay to be distance decay -> ranges
      • JG can pull together references
      • JL should by Biogeography text book: range is the fundamental unit of biogeography, also Macroecology text
    • KP: what biological insight is gained over previous publications on the data sets?
      • Tom had an interpretation of the analyses (JL will check notes from lab meeting)
    • Emphasize two-phase distance-decay pattern,
      • especially with regard to small distances relative to sampling plot
      • Harte refers to "scale-breaks" in distance-decay
    • CS literature on overlapping polygons
    • Under general assumptions, with random sampling, will always get a quadratic distance-decay,
      • i.e. it results from the sampling
      • or strange underlying ranges

• Symposium at Stanford

• Kelly visiting UCSF on Monday 4/19

• Biotorrents paper coming out, and Morgan is getting