Relative Codon Adaptation: A Generic Codon Bias Index for Prediction of Gene Expression
نویسندگان
چکیده
منابع مشابه
Relative Codon Adaptation: A Generic Codon Bias Index for Prediction of Gene Expression
The development of codon bias indices (CBIs) remains an active field of research due to their myriad applications in computational biology. Recently, the relative codon usage bias (RCBS) was introduced as a novel CBI able to estimate codon bias without using a reference set. The results of this new index when applied to Escherichia coli and Saccharomyces cerevisiae led the authors of the origin...
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We propose a simple, sensitive measure of synonymous codon usage bias, the Relative Codon Adaptation Index (rCAI), as a way to discriminate better between highly biased and unbiased regions, compared with the widely used Codon Adaptation Index (CAI). CAI is a geometric mean of the relative usage of codons in a gene, and is calculated using the codon usage table trained with a set of highly expr...
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A simple, effective measure of synonymous codon usage bias, the Codon Adaptation Index, is detailed. The index uses a reference set of highly expressed genes from a species to assess the relative merits of each codon, and a score for a gene is calculated from the frequency of use of all codons in that gene. The index assesses the extent to which selection has been effective in moulding the patt...
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ژورنال
عنوان ژورنال: DNA Research
سال: 2010
ISSN: 1340-2838,1756-1663
DOI: 10.1093/dnares/dsq012