Supplementary Figure 1: The effects of BET inhibitor JQ1 on serum-induced nascent transcripts of protein-coding genes and flanking intergenic regions.
From: BRD4 assists elongation of both coding and enhancer RNAs by interacting with acetylated histones
a, Metagene profiles of 66 genes larger than 2 kb, serum induction of which was inhibited by JQ1. (1) 0.5% + vehicle: cells were serum-starved, preincubated with vehicle, and left unstimulated. (2) 0.5% + JQ1: cells were serum-starved, preincubated with JQ1, and left unstimulated. (3) Serum + vehicle: cells were serum-starved, preincubated with vehicle, and then serum-stimulated. (4) 0.5% + JQ1: cells were serum-starved, preincubated with JQ1, and then serum-stimulated. For each gene, the sum of chromatin RNA-seq read-counts from 200 nt upstream of TSS to TES in cells treated with 0.5%+vehicle was calculated, and used to normalize read-counts in cells under all four experimental conditions. b, Genome browser views of the 3' enhancer regions of the Trib1 gene, characterized by chromatin RNA-seq, and the chromatin association of Pol II, BRD4, P-TEFb (CDK9), H3K27Ac, and H4Ac. For RNA-seq, sense- and antisense-strand signals are shown in upward and downward directions, respectively. Two regions exhibiting a prominent accumulation of ChIP signals as well as RNA-seq signals after serum stimulation are magnified in the lower part. JQ1 treatment mostly inhibited elongation of the non-coding transcripts without affecting acetylation of H3K27 and H4. Progression of Pol II and BRD4 were reduced by JQ1, but that of CDK9 was less affected. c, Genome browser views along the Dot1l gene and the upstream flanking region.
