Author: Maddalena Dilucca; Athanasia Pavlopoulou; Sergio Forcelloni; ANDREA GIANSANTI; Alexandros G Georgakilas
Title: Codon usage and evolutionary rates of the 2019-nCoV genes Document date: 2020_3_27
ID: l9vtsj3e_15
Snippet: In the RSCU i , X i is the number of occurrences of codon i in the genome, and the sum in the denominator runs over the n i synonyms of i; RSCUs thus measure codon usage bias within a family of synonymous codons. w i is then defined as the usage frequency of codon i compared to that of the optimal codon for the same amino acid encoded by i-i.e., the one which is mostly used in a reference set of highly expressed genes. The CAI for a given gene g .....
Document: In the RSCU i , X i is the number of occurrences of codon i in the genome, and the sum in the denominator runs over the n i synonyms of i; RSCUs thus measure codon usage bias within a family of synonymous codons. w i is then defined as the usage frequency of codon i compared to that of the optimal codon for the same amino acid encoded by i-i.e., the one which is mostly used in a reference set of highly expressed genes. The CAI for a given gene g is calculated as the geometric mean of the usage frequencies of codons in that gene, normalized to the maximum CAI value possible for a gene with the same amino acid composition:
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