The codon information index: a quantitative measure of the information provided by the codon bias

DOI10.1088/1742-5468/2013/04/P04031MaRDI QIDQ3301595zbMATH OpenOpenAlexFDO

Authors Luca Caniparoli, Michele Vendruscolo, Matteo Marsili

Publication date 11 August 2020

Published in Journal of Statistical Mechanics: Theory and Experiment (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1088/1742-5468/2013/04/p04031

Mathematics Subject Classification ID

Phase transitions (general) in equilibrium statistical mechanics (82B26) Genetics and epigenetics (92D10) Measures of information, entropy (94A17)

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Cites work

• Optimization by simulated annealing

Cited in

(6)

• Shannon information entropy in the canonical genetic code
• The impact of codon choice on translation process in \textit{Saccharomyces cerevisiae}: folding class, protein function and secondary structure
• Exploring synonymous codon usage preferences of disulfide-bonded and non-disulfide bonded cysteines in the \textit{E. coli} genome
• CodonO: a new informatics method for measuring synonymous codon usage bias within and across genomes
• Mathematical relations between codon bias indexes and their applications
• Visualizing codon usage within and across genomes: concepts and tools

Describes a project that uses

Uses Software

• KEGG
• miRBase
• GOLD

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