A method for measuring the non-random bias of a codon usage table
نویسندگان
چکیده
منابع مشابه
Accounting for background nucleotide composition when measuring codon usage bias.
The phenomenon of codon usage bias has been important in the study of evolution because it provides examples of weak selection working at the molecular level. During the last two decades, evidence has accumulated that some examples of codon usage bias are driven by selection, particularly for species of fungi (e.g., Bennetzen and Hall 1982; Ikemura 1985), bacteria (e.g., Ikemura 1981; Sharp and...
متن کاملA Model of Codon Usage Bias
Submitted for the MAR07 Meeting of The American Physical Society A Model of Codon Usage Bias MORTEN KLOSTER, CHAO TANG, UCSF — The genetic code is degenerate; most amino acids can be encoded by from two to as many as six different codons. While one might expect these codons to be used with equal frequency, this turns out not to be the case—not only are some codons favored over others, but their...
متن کاملMore Codon Usage Bias
χ measure. In statistics, the χ statstic computes how different the distribution of values is from a uniform distribution. Let d = c1 . . . cN be a DNA string in nucleotide alphabet, and let L be the total number of codons in d that are not Methinine or Tryptophan (the number does include the stop codons though). Let a be a k-degenerate amino acid, and let La be the total number of codons codin...
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Background: Little knowledge of synonymous codon usage pattern of pseudorabies virus (PRV) genome, especially the UL31 gene in the process for its evolution is available. Objectives: In the present study, the codon usage bias between PRV UL31 sequence and the UL31-like sequences was identified. Materials and Methods: We used a comprehensive analysi...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 1984
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/12.24.9567