Codon Usage Bias Measured Through Entropy Approach

Michael G. Sadovsky; Julia A. Putintzeva

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arXiv · 0706.2077

Codon Usage Bias Measured Through Entropy Approach

Michael G. Sadovsky·Julia A. Putintzeva

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Abstract

Codon usage bias measure is defined through the mutual entropy calculation of real codon frequency distribution against the quasi-equilibrium one. This latter is defined in three manners: (1) the frequency of synonymous codons is supposed to be equal (i.e., the arithmetic mean of their frequencies); (2) it coincides to the frequency distribution of triplets; and, finally, (3) the quasi-equilibrium frequency distribution is defined as the expected frequency of codons derived from the dinucleotide frequency distribution. The measure of bias in codon usage is calculated for 125 bacterial genomes.

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Michael G. Sadovsky, Julia A. Putintzeva. 2007-06-14. Codon Usage Bias Measured Through Entropy Approach. https://arxiv.org/abs/0706.2077

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