Extended Data Fig. 4: Coding mutations influence the mRNA level of the mutated gene.
From: Synonymous mutations in representative yeast genes are mostly strongly non-neutral
a, Non-significant negative correlation between the mean fitness of synonymous mutants of a gene and the expression level of the gene. Each dot represents a gene. Spearman’s correlation ρ and associated P-value are presented. b–g, Correlation in mutant REL between replicates, which are indicated on the axes of each panel. Each dot is a mutant, and the dotted line indicates the diagonal. Pearson’s correlation r and its associated P-value are presented. Among-genotype sum of squares explains 89.7% of total sum of squares (one-factor ANOVA). h, Cumulative frequency distributions of REL of nonsynonymous and synonymous mutants. i, Relative expression level (REL) distributions of nonsynonymous (blue) and synonymous (yellow) mutants of 20 individual genes shown by box plots. The lower and upper edges of a box represent the first (qu1) and third (qu3) quartiles, respectively, the horizontal line inside the box indicates the median (md), the whiskers extend to the most extreme values inside inner fences, md ± 1.5(qu3-qu1), and the dots show outliers. Nonsynonymous and synonymous distributions of each gene are compared by a two-tailed Wilcoxon rank-sum test, with FDR-adjusted P-values indicated as follows: *, P < 0.05; ⁑, P < 0.01, ⁂, P < 0.001. j, Distribution of REL of nonsense mutants
