Knockdown of Brd4 or SEC affects the HMBA-induced global Pol II pausing release

To test whether Brd4 and SEC co-regulate the release of promoter-proximally paused Pol II, we performed Pol II ChIP-Seq to analyze the effect of depletion of Brd4 or SEC on HMBA-induced pause release in HCT116 cells. Overall design: Total 6 ChIP-seq samples were sequenced. Samples with indicated shRNA(s) infection in HCT116 cells were treated with solvent or 10 mM HMBA for 2hr. Signal from input sample was considered as the background signal to be substracted from all ChIP-seq samples.The number of ChIP-seq reads from each ChIP-seq sample were normalized by the concentration of input DNA and then calculated Pol II pause ratio (TR).