Fig. 3

CDK7 inhibitor suppresses the gene profiles of inflammation via RNA Pol II. a Heatmap of 701 DEGs in MDMs following 8-h LPS stimulation pretreated with 30 nM THZ1 or not. Heatmap displayed the Log2 fold change in gene expression versus vehicle control or LPS-stimulated cells. b The top 10 enriched GO biological processes of 701 LPS-stimulated DEGs and 361 THZ1-sensitive DEGs. Individual bars represent the P value after Benjamini-Hochberg correction for enrichment of GO biological processes. c There were 361 THZ1-sensitive DEGs enriched using gene set enrichment analysis. d Heatmaps of DEGs from the top 3 inhibited GO molecular functions and the TFs described in e. e Involvement network between upregulated TFs and biological processes. Only the relatively central TFs involved in more than 3 GO terms are shown. f Quantitative RT-PCR analysis of partial TFs described in e. g Peak plot and heatmap of the RNA Pol II ChIP-seq density around the transcription start sites (TSS) and transcription end sites (TES) based on 361 THZ1-sensitive DEGs in control mTHP-1 (gray) and LPS-stimulated mTHP-1 pretreated with THZ1 (blue) or not (red). h Gene tracks of RNA Pol II binding density at the representative gene loci after treatment as in g. Data are the mean ± SD, n = 3 in f