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Activity Number:
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7
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Type:
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Invited
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Date/Time:
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Sunday, August 11, 2002 : 2:00 PM to 3:50 PM
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Sponsor:
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WNAR
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| Abstract - #300385 |
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Title:
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Are You My Mother? Identification of Recombinant HIV Sequences Using a Bayesian Phylogenetic Multiple Break Point Model
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Author(s):
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Robert Weiss*+ and Marc Suchard and Karin Dorman and Sinsheimer Janet
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Affiliation(s):
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University of California, Los Angeles and University of California, Los Angeles and Iowa State University and University of California, Los Angeles
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Address:
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51-259 CHS, Los Angeles, California, 90095, USA
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Keywords:
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Phylogeny ; Change-Point Model ; Cross-Over Points ; Evolution ; MCMC ; Bayes Factors
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Abstract:
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Current methods to identify recombination between genetic variants of human immunodeficiency virus-1 (HIV-1) fall into a sequential testing trap, in which significance is assessed conditional on the parentals and crossover points (COPs) that maximize the same test statistic. We overcome this shortfall by testing for recombination while simultaneously inferring parentals and COPs using a Bayesian multiple change-point model. The model assumes that the sites along the data separate into an unknown number of contiguous segments, where segments may support alternative topologies, average rates of evolution, and nucleotide transition-transversion ratios. The model also returns measures of uncertainty in all model parameters, including COPs, whereas current methods yield at best-point estimates. We employ reversible jump Markov chain Monte Carlo to fit our model and test for recombination using Bayes factors.
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- The address information is for the authors that have a + after their name.
- Authors who are presenting talks have a * after their name.
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