Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila.

doi:10.1093/molbev/msl146

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Article

Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila.

Molecular biology and evolution - 1 Jan 2007

Nielsen Rasmus, Bauer DuMont Vanessa L, Hubisz Melissa J, Aquadro Charles F

Abstract excerpt

We present a likelihood method for estimating codon usage bias parameters along the lineages of a phylogeny. The method is an extension of the classical codon-based models used for estimating dN/dS ratios along the lineages of a phylogeny. However, we add one extra parameter for each lineage: the selection coefficient for optimal codon usage (S), allowing joint maximum likelihood estimation of S and the dN/dS...

Topics

Animals
Codon
Drosophila
Drosophila melanogaster
Genes, Insect
Genetics, Population
Likelihood Functions
Mutation

Source

Open in PubMed

Identifiers

PMID: 17041152
DOI: 10.1093/molbev/msl146

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