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Article

Markov-modulated Markov chains and the covarion process of molecular evolution.

Journal of computational biology : a journal of computational molecular cell biology - 1 Jan 2004

Galtier N, Jean-Marie A

Abstract excerpt

The covarion (or site specific rate variation, SSRV) process of biological sequence evolution is a process by which the evolutionary rate of a nucleotide/amino acid/codon position can change in time. In this paper, we introduce time-continuous, space-discrete, Markov-modulated Markov chains as a model for representing SSRV processes, generalizing existing theory to any model of rate change. We propose a fast...

Topics

Algorithms
Computational Biology
Evolution, Molecular
Genetic Variation
Likelihood Functions
Markov Chains
Models, Genetic
Phylogeny
Time Factors

Source

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Identifiers

PMID: 15579241
DOI: 10.1089/cmb.2004.11.727

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