FIGURE 3.

Codon usage regulates mRNA stability through common mRNA decay pathways. (A) Predicted mRNA half-life using only codons as features (linear regression) versus measured mRNA half-life. (B) mRNA half-life explained variance (y-axis, Materials and Methods) in wild-type (WT) and across all 34 knockout strains (grouped according to their functions). Each blue dot represents one replicate; bar heights indicate means across replicates. Bars with a red star are significantly different from the wild-type level (FDR < 0.1, Wilcoxon rank-sum test, followed by Benjamini–Hochberg correction).