Fig. 3: KAP1 regulates Pol II occupancy during serum stimulation.

a, b Pol II ChIP-Seq metagene at 16-fold IEGs showing occupancy of Pol II at: a 15 min (with zoomed-in profile to show differences) and b 30 min serum stimulation time points. See legend for sample identification. c-e Pol II ChIP-Seq quantitation of Pol II density at 4-fold IEGs (n = 69) and 16-fold IEGs (n = 16) at: c PP regions, d GB regions, and e 3′ ends. Data represents the Log₂FC value for dTAG versus DMSO at the respective serum time point (see X-axis) using ChIP-Seq signal from 2 biological replicates. The n number represents the number of genes in each cluster plotted. The Tukey plots indicate the median (black center line), the first and third quartiles (edges of the box), and the 1.5× interquartile range below and above the box as whiskers. Dots are presented as genes with normalized signals beyond these defined ranges. Statistics were calculated between the Log₂FC values between the early (15 min) and late (30 min) time points shown on the Tukey plot. Two-sided Wilcoxon signed-rank test. P-values are indicated in the figure. f, g Pol II and HA ChIP-Seq browser track in multiple conditions. See legend for sample identification at the: f NR4A1 locus and g ATF3 locus. The arrow indicates the polyadenylation (pA) site. Source data are provided as a Source Data file.