Fig. 1
From: Using protein-per-mRNA differences among human tissues in codon optimization
Protein-to-mRNA ratios detect differences in translational efficiency among tissues. A Proteomics and mRNA-seq data included in this study contains samples from the GTEx project [19] and Human Protein Atlas [20]. B Using these datasets, we compute the protein-to-mRNA ratios (PTR) and define tissue-enriched and tissue-depleted sets of proteins for each tissue. By comparing the codon usage of these two sets, we identify the codon optimality pattern of tissues. Using this information, we develop a gene design tool called CUSTOM and validate the method using an in vitro cellular model. C Spearman correlation between the median translational efficiency [21] (ratio between ribo-seq and mRNA-seq FPKMs) and PTR [20] across genes in the brain, liver, and testis. The color code depicts the density of points in the scatter plot