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. 2020 Mar 9;16(3):e9275. doi: 10.15252/msb.20199275

Figure 3. tRNA repertoires determine tissue‐specific translational efficiency.

Figure 3

  1. Three metrics of translational efficiency (the classical tAI, a relative tAI with normalized weights within each amino acid family, and the Supply‐to‐Demand Adaptation described in this article) are Spearman correlated against two proxies of translation (protein abundance and protein‐to‐mRNA ratio) for all samples for which proteomics data are available (BRCA, COAD and READ). Center values represent the median. Statistical differences are determined by sample‐paired two‐tailed Wilcoxon rank‐sum test (n = 219).
  2. Principal component analysis (PCA) of the SDAw of TCGA, where the color scale corresponds to the mean tissue expression of Ki67. The Spearman correlations of Ki67 with the components are shown, as well as the samples of most extreme tissues. On the right, the top and bottom proliferation‐ and differentiation‐related codons, as defined by Gingold et al (2014), ordered by their contribution to the first PCA component. Refer to Table EV4 for full cancer type names and number of samples.
  3. GSEA of the differential SDA between extreme tissues (ΔSDA = SDAColorectal ‐ SDABrain), showing the top five GO terms with high (left) and low (right) SDA in colorectal versus glial tissues.