A spatial dirichlet process mixture model for clustering population genetics data.

TitleA spatial dirichlet process mixture model for clustering population genetics data.
Publication TypeJournal Article
Year of Publication2011
AuthorsReich, Brian J., and Howard D. Bondell
JournalBiometrics
Volume67
Issue2
Pagination381-90
Date Published2011 Jun
ISSN1541-0420
KeywordsAlgorithms, Animals, Bayes Theorem, Cluster Analysis, Computer Simulation, Genetics, Population, Microsatellite Repeats, Montana, Mustelidae
Abstract

Identifying homogeneous groups of individuals is an important problem in population genetics. Recently, several methods have been proposed that exploit spatial information to improve clustering algorithms. In this article, we develop a Bayesian clustering algorithm based on the Dirichlet process prior that uses both genetic and spatial information to classify individuals into homogeneous clusters for further study. We study the performance of our method using a simulation study and use our model to cluster wolverines in Western Montana using microsatellite data.

DOI10.1111/j.1541-0420.2010.01484.x
Alternate JournalBiometrics
Original PublicationA spatial dirichlet process mixture model for clustering population genetics data.
PubMed ID20825394
PubMed Central IDPMC3043140
Grant ListR01 ES014843-01A2 / ES / NIEHS NIH HHS / United States
R01 MH084022 / MH / NIMH NIH HHS / United States
R01 MH084022-02 / MH / NIMH NIH HHS / United States
1 R01 MH084022-01A1 / MH / NIMH NIH HHS / United States
R01 ES014843 / ES / NIEHS NIH HHS / United States
R01 MH084022-03 / MH / NIMH NIH HHS / United States
P01 CA142538 / CA / NCI NIH HHS / United States
R01 MH084022-01A1 / MH / NIMH NIH HHS / United States
Project: