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Activity Number: 311
Type: Topic Contributed
Date/Time: Tuesday, August 4, 2009 : 10:30 AM to 12:20 PM
Sponsor: Section on Bayesian Statistical Science
Abstract - #304840
Title: The Lineage Model for Metagenomic Clonal Population Structure
Author(s): John D. O'Brien*+
Companies: University of Bristol
Address: Department of Mathematics, Bristol, International, BS1 , United Kingdom
Keywords: Bayesian ; phylogenetics ; SNP ; bacterial
Abstract:

We present the lineage model, a method for inferring the clonal structure of metagenomic samples. Due to the ease of real-time PCR, researchers focus increasing efforts on understanding genomic samples that do not respect species boundaries. Starting with a set of shared single nucleotide polymorphisms (SNPs) across, we show how we can jointly capture the clonal structure of these populations, the mixture of genetic information across samples and the cosegregation of SNPs in this process. Employing a MCMC-based Bayesian approach, the crux of the model is the lineage structure, capturing the mapping between pools of samples and SNP evolution. We provide simulations and real data examples.

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