Comparison of yeast STRIPE-seq to SLIC-CAGE and nanoCAGE. (A) Hierarchically clustered heatmap of Spearman's ρ values for pairwise comparisons of STRIPE-seq, SLIC-CAGE, and nanoCAGE signal within promoter regions (−250 to +100 bp relative to an annotated gene start). Before clustering, samples were thresholded such that each promoter had to have at least 3 raw counts in one sample, and then counts were TMM normalized. (B) Genome browser-style tracks showing CPM-normalized STRIPE-seq, SLIC-CAGE, nanoCAGE (replicate 1 for each input amount) and poly(A)+ RNA-seq (replicate 1) at two representative regions of the yeast genome. (C) Dinucleotide frequencies at TSSs detected in the indicated samples. Dinucleotide frequencies at TSSs in all replicates of all technologies are presented in Supplemental Figure S14. (D) Jitter plot of the number of genes with a promoter-proximal TSR in each sample. Error bars represent standard deviation.
