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- W2023778561 abstract "Frank Wright [Gene 87 (1990) 23] derived a formula for calculation of a quantity termed the ‘effective number of codons’ (N̂c) based on codon homozygosities. This quantity is a number between 20 and 61 and tells to what degree the codon usage in a gene is biased, i.e., it approaches 20 codons for the extremely biased genes, and approaches 61 for the genes where all possible codons are used with no preference. Among the different measures of codon bias N̂c is considered the most useful and has found widespread use in papers dealing with codon usage phenomena. In this paper, the mathematical behaviours of codon homozygosities and N̂c are evaluated, using Escherichia coli as the model organism. The results indicate that the classical formula for calculation of N̂c could appropriately be substituted under circumstances, where there is bias discrepancy, i.e., when one amino acid (or more) within a degeneracy group is associated with strong codon bias while at the same time others in the same degeneracy group have little bias. An alternative estimator, termed N̂c*, is proposed and tested against N̂c, and performs better when there is such bias discrepancy." @default.
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- W2023778561 date "2004-05-01" @default.
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- W2023778561 title "The ‘effective number of codons’ revisited" @default.
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- W2023778561 doi "https://doi.org/10.1016/j.bbrc.2004.03.138" @default.
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