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Fig. 4 | Genome Biology

Fig. 4

From: Multilayered control of exon acquisition permits the emergence of novel forms of regulatory control

Fig. 4

UV irradiation increases the number of exonization within cell cycle genes promoting transcript retention in nucleus. a Line plot displaying the results of GRO-seq analysis following UV (ultraviolet) irradiation. The dotted line represents estimate based on data from the original paper [28]. See the original data in Additional file 1: Figure S4. The yellow shaded region represents UV application (n = 3,278). b Cumulative distribution plot of change in expression of genes within polysome fraction compared to whole cell fraction. A cumulative distribution plot describes the proportion of data (y-axis) less than or equal to a specified value (x-axis). Cumulative Distribution F(x), cumulative distribution function. p value calculated using Wilcoxon-rank sum test. c Boxplots showing normalized changes (change in TPM/max (TPM)) in the difference of expression between total RNA-seq and ribosomal-engaged RNA-seq after UV irradiation. Genes are binned by percent spliced in (PSI) increase of exonized novel exon after UV irradiation. Bin sample size from left to right: n = 427, 158, 355, 410, and 438. See Fig. 2d for the description of boxplots. P values calculated using Wilcoxon-rank sum test. TPM, transcripts per million. d Functional categories of genes that undergo exonization upon UV irradiation compared to control dataset (also see Additional file 1: Figure S4). FDR, false discovery rate

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