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SUMMARY:Statistical challenges posed by the analyses of the human microbio
 me - Susan Holmes (Stanford)
DTSTART:20170508T130000Z
DTEND:20170508T140000Z
UID:TALK71959@talks.cam.ac.uk
CONTACT:Quentin Berthet
DESCRIPTION:The human microbiome is a complex assembly of bacteria that ar
 e sensitive to many perturbations. We have developed specific tools for st
 udying the vaginal\, intestinal and oral microbiomes under different pertu
 rbations (pregnancy\, hypo-salivation inducing medications and antibiotics
  are some examples).\n\nA suite of statistical tools written in Bioconduct
 or packages (phyloseq and dada2) allows for easy denoising\,normalization\
 , visualization and statistical testing of the longitudinal multi-table da
 ta composed of 16s rRNA reads combined with clinical data\, transcriptomic
  and metabolomic profiles. Challenges we have had to address include infor
 mation leaks\, the integration of phylogenetic information\,\nlongitudinal
  dependencies and uncertainty quantification.\n\nThe multiplicity of norma
 lization and modeling choices during the analyses\nmake inference on these
  data particularly difficult.\n\nThis contains joint work with Joey McMurd
 ie\, Sergio Bacallado\, Ben Callahan\, Julia Fukuyama\, Kris Sankaran\, an
 d David Relman's Lab members from Stanford.
LOCATION:MR11\,  Centre for Mathematical Sciences\, Wilberforce Road\, Cam
 bridge
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