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. 2018 Feb 12;14(2):e8007. doi: 10.15252/msb.20178007

Figure EV1. Sense and antisense transcription have similar relationships in yeast and humans.

Figure EV1

  • A
    The average levels of sense transcription determined for both HeLa and Saccharomyces cerevisiae using NET‐seq. For each trio of panels, the left panel shows average levels around the sTSS, the right panel shows the average levels around the asTSS, and the middle panel shows the average level within thirty equal sized bins within the region bound by the sTSS and asTSS. The top panels compare sense transcription levels between two sets of genes—those with high levels of sense transcription (dark red), and those with low levels (pale red), determined by GRO‐seq in HeLa cells and PRO‐seq in yeast. The bottom panels show those genes with high levels of antisense transcription (dark blue), and those with low levels (pale blue).
  • B
    The average levels of antisense transcription determined for both HeLa and S. cerevisiae using NET‐seq, with panels arranged as in (A).
  • C, D
    The average levels of nucleosome occupancy determined for both (C) HeLa and (D) S. cerevisiae using MNase‐seq. For each trio of panels, the left panel shows average levels around the sTSS, the right panel shows the average levels around the asTSS, and the middle panel shows the average level within thirty equal sized bins within the region bound by the sTSS and asTSS. The top panels compare two sets of genes—those with high levels of sense transcription (dark red), and those with low levels (pale red), determined by GRO‐seq in HeLa cells and PRO‐seq in yeast. The bottom panels show those genes with high levels of antisense transcription (dark blue), and those with low levels (pale blue).
  • E
    Distributions of sense transcription reads for genes in HeLa cells and S. cerevisiae. Average values per base pair were calculated within the first exon of HeLa cells, and the whole gene of S. cerevisiae. Two gene groups were compared—those with an asTSS (dark blue) and those without (light blue). The P‐value was determined using the Wilcoxon rank sum test.
  • F, G
    Scatter plots comparing the number of GRO‐seq (HeLa) or PRO‐seq (S. cerevisiae) reads at two different windows and orientations, as shown in the gene diagrams. (F) Levels of antisense transcription were compared to downstream sense transcription in both HeLa cells and S. cerevisiae. (G) Levels of sense transcription were compared to upstream divergent transcription in both HeLa cells and S. cerevisiae. Shown for in all cases is the Spearman correlation coefficient, r s.