Metagene profiles and heatmap were largely generated with the Bioconductor package SeqPlots v1.8.1 (53) in command line. Mean, 95% confidence intervals, and SE are indicated on the profiles in the figures. Heatmaps for Figs. 2 and 3 and quantitative trend plots for Fig. 5 [1727 or all RefSeq (Reference Sequence) genes] were generated with deepTools v2.3.3 (54).

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