DMCA
IDENTIFIABILITY OF A MARKOVIAN MODEL OF MOLECULAR EVOLUTION WITH GAMMA-DISTRIBUTED RATES (2008)
| Citations: | 17 - 4 self |
BibTeX
@MISC{Allman08identifiabilityof,
author = {Elizabeth S. Allman and CÉCILE ANÉ and JOHN A. RHODES},
title = {IDENTIFIABILITY OF A MARKOVIAN MODEL OF MOLECULAR EVOLUTION WITH GAMMA-DISTRIBUTED RATES},
year = {2008}
}
Share
 |
 |
 |
 |
||
OpenURL
Abstract
Inference of evolutionary trees and rates from biological sequences is commonly performed using continuous-time Markov models of character change. The Markov process evolves along an unknown tree while observations arise only from the tips of the tree. Rate heterogeneity is present in most real data sets and is accounted for by the use of flexible mixture models where each site is allowed its own rate. Very little has been rigorously established concerning the identifiability of the models currently in common use in data analysis, although non-identifiability was proven for a semi-parametric model and an incorrect proof of identifiability was published for a general parametric model (GTR+Γ+I). Here we prove that one of the most widely used models (GTR+Γ) is identifiable for generic parameters, and for all parameter choices in the case of 4-state (DNA) models. This is the first proof of identifiability of a phylogenetic model with a continuous distribution of rates.
Keyphrases
evolutionary tree data analysis markov process rate heterogeneity semi-parametric model continuous-time markov model unknown tree character change phylogenetic model biological sequence flexible mixture model general parametric model continuous distribution generic parameter common use first proof incorrect proof real data set parameter choice
