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. 2017 Nov;23(11):1648–1659. doi: 10.1261/rna.062224.117

FIGURE 5.

FIGURE 5.

Genome-wide prediction of mRNA half-life from sequence features and analysis of the contributions. (A,B) mRNA half-life predicted (x-axis) versus measured (y-axis) for S. cerevisiae (A) and S. pombe (B), respectively. (C) Contribution of each sequence feature individually (Individual), cumulatively when sequentially added into a combined model (Cumulative), and explained variance drop when each single feature is removed from the full model separately (Drop). Values reported are the mean of 100 times of cross-validated evaluation (Materials and Methods). (D) Expected half-life fold-change of single-nucleotide variations on sequence features. For length and GC, dots represent median half-life fold-change of one nucleotide shorter or one G/C to A/T transition, respectively. For codon usage, each dot represents median half-life fold-change of one type of synonymous mutation; all kinds of synonymous mutations are considered. For uAUG, each dot represents median half-life fold-change of mutating out one uAUG. For motifs, each dot represents median half-life fold-change of one type of nucleotide transition at one position on the motif (Materials and Methods). Medians are calculated across all mRNAs.