Author: Xavier Hernandez-Alias; Martin Schaefer; Luis Serrano
Title: Translational adaptation of human viruses to the tissues they infect Document date: 2020_4_7
ID: 0rk2dw4e_49
Snippet: The definition of the SDA is based on similar previously published metrics 2,64,65 , which consists of a ratio between the anticodon supply and demand. On the one hand, the anticodon supply is defined as the relative tAI weights (see previous section). On the other, the anticodon demand is estimated from the codon usage at the transcriptome level. It is computed as the frequency of each codon in a transcript weighted by the corresponding transcri.....
Document: The definition of the SDA is based on similar previously published metrics 2,64,65 , which consists of a ratio between the anticodon supply and demand. On the one hand, the anticodon supply is defined as the relative tAI weights (see previous section). On the other, the anticodon demand is estimated from the codon usage at the transcriptome level. It is computed as the frequency of each codon in a transcript weighted by the corresponding transcript expression, and finally summing up over all transcripts. Let be a codon, then the codon usage is a weighted sum of the counts of codon in gene weighted by the mRNA-seq abundance for all genes in the genome :
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