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Activity Number:
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409
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Type:
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Topic Contributed
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Date/Time:
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Wednesday, August 9, 2006 : 10:30 AM to 12:20 PM
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Sponsor:
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IMS
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| Abstract - #305950 |
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Title:
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Spatially Smoothed Change-Point Processes for Phylogenetic Mapping of Recombination Hot Spots
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Author(s):
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Vladimir N. Minin*+ and Marc A. Suchard and Karin S. Dorman and Fang Fang
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Companies:
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University of California, Los Angeles and University of California, Los Angeles and Iowa State University and Iowa State University
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Address:
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David Geffen School of Medicine, Los Angeles, CA, 90095,
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Keywords:
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change-point model ; MCMC ; recombination ; HIV ; Gaussian Markov random fields ; phylogenetics
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Abstract:
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We will present a Bayesian framework for inferring spatial preferences of recombination from multiple putative recombinant nucleotide sequences. The dual multiple changepoint model for phylogenetic recombination detection resides at the lowest level of our hierarchy under the umbrella of a common prior on breakpoint locations. The hierarchical prior allows for information about spatial preferences of recombination to be shared among individual datasets. To overcome the sparseness of breakpoint data, dictated by the modest number of available recombinant sequences, we a priori impose a biologically relevant correlation structure on recombination location log-odds via a Gaussian Markov random field hyper-prior. We analyze 42 HIV gag recombinants and identify a recombination hot spot in the Capsid gene.
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