JSM 2013 Home
Online Program Home
My Program

Abstract Details

Activity Number: 521
Type: Topic Contributed
Date/Time: Wednesday, August 7, 2013 : 10:30 AM to 12:20 PM
Sponsor: Biometrics Section
Abstract - #308070
Title: A Composite Likelihood Method for Estimating Phylogenetic Tree from Dependent Loci
Author(s): Arindam RoyChoudhury*+
Companies: Department of Biostatistics, Columbia University
Keywords: phylogeny ; population tree ; coalescent ; composite likelihood ; dependent data

We present a composite likelihood method for estimating phylogenetic trees from dependent loci based on a structured coalescent model. The allele counts in the same set of individual at nearby genetic loci are usually associated with each other due to shared coalescent events and linkage disequilibrium. However, the phylogenetic parameters could be estimated from the marginal distributions of these loci. As the allele counts in the loci are associated, it is often difficult to derive their joint likelihood. To simplify the derivation we treat the loci as if they have independent allele counts, computing a composite likelihood. We establish that the inferences based on the composite likelihood are consistent. Our method is exact and does not use MCMC algorithms. We also modify our methods to account for unsampled loci.

Authors who are presenting talks have a * after their name.

Back to the full JSM 2013 program

2013 JSM Online Program Home

For information, contact jsm@amstat.org or phone (888) 231-3473.

If you have questions about the Continuing Education program, please contact the Education Department.

The views expressed here are those of the individual authors and not necessarily those of the JSM sponsors, their officers, or their staff.

ASA Meetings Department  •  732 North Washington Street, Alexandria, VA 22314  •  (703) 684-1221  •  meetings@amstat.org
Copyright © American Statistical Association.