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• W4300485762 abstract "Based on the circular code theory, we define a new function f that quantifies the property of reading frame retrieval (RFR) of genes from their codon usage. This RFR function f is computed on a massive scale in genes of genomes of bacteria, eukaryotes and archaea. By expressing f as a function of the mean number [Formula: see text] of codons per gene, a universal property is identified, whatever the kingdom: the reading frame retrieval is enhanced in large genes. By investigating this property according to the theory developed, a Spearman's rank correlation with a strong negative coefficient is observed between the codon usage dispersion d (from the uniform codon distribution [Formula: see text]) and the RFR function f, whatever the kingdom (p-values [Formula: see text] in bacteria, [Formula: see text] in eukaryotes and [Formula: see text] in archaea). Thus, the reading frame retrieval is enhanced with the codon usage dispersion. Furthermore, this approach identifies a genome centre from which emerge two distinct genome arms: an upper arm and a lower arm, respectively, above and below the linear regression. The RFR function by itself or combined with classical methods (alignment, phylogeny) could also be a new approach to classify the genomes in the future." @default.
• W4300485762 created "2022-10-03" @default.
• W4300485762 creator A5014744746 @default.
• W4300485762 creator A5036832777 @default.
• W4300485762 date "2023-02-24" @default.
• W4300485762 modified "2023-10-12" @default.
• W4300485762 title "Reading Frame Retrieval of Genes: A New Parameter of Codon Usage Based on the Circular Code Theory" @default.
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• W4300485762 doi "https://doi.org/10.1007/s11538-023-01129-4" @default.
• W4300485762 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/36826719" @default.
• W4300485762 hasPublicationYear "2023" @default.
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