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Microbial Community Networks in the Human Microbiome

Presented by: 
Susan Holmes Stanford University, Stanford University
Date: 
Thursday 1st September 2016 - 14:00 to 15:00
Venue: 
INI Seminar Room 2
Abstract: 
The study of the human microbiome involves the integration and estimation of trees and networks from 16S rRNA read counts. I will show several examples of double embedding where we use trees and networks and covariates of interest to establish associations between microbial communities and preterm birth, resilience to antibiotic treatment and batch effects. We enrich the standard ecological toolbox of ordination methods using generalized singular value decomposition with weights built from graphs and test the effect of covariates using generalizations of the Friedman-Rafsky tests.   This talk contains joint work with Elizabeth Purdom, Joey McMurdie, Julia Fukuyama, Kris Sankaran and Lan Nguyen.
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University of Cambridge Research Councils UK
    Clay Mathematics Institute London Mathematical Society NM Rothschild and Sons