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Activity Number:
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141
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Type:
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Topic Contributed
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Date/Time:
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Monday, July 30, 2007 : 10:30 AM to 12:30 PM
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Sponsor:
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IMS
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| Abstract - #309396 |
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Title:
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Joint Bayesian Estimation of Phylogeny and Sequence Alignment
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Author(s):
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Heejung Shim*+
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Companies:
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University of Wisconsin-Madison
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Address:
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Statistics, 402 Grand Ave 5, Madison, 53705,
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Keywords:
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phylogeny ; sequence alignment ; MCMC
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Abstract:
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Phylogeny and sequence alignment are estimated separately in the traditional techniques : first estimate a multiple sequence alignment, and then infer a phylogeny based on the sequence alignment estimated in the previous step. We develop a joint model for co-estimating phylogeny and sequence alignment. The phylogeny estimate from the joint model avoids bias due to conditioning on a single alignment and properly accounts for alignment uncertainty. We model the insertion/deletion process directly without artificial restrictions against overlapping events. Since our method does not use dynamic programming, we expect improvement in time complexity in comparison to other methods for joint phylogeny and sequence alignment estimation. We use a Bayesian approach using MCMC to estimate the posterior distribution of phylogenetic tree and a multiple sequence alignment.
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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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