Fig. 8: PAF1C activates RNAPII pause release and transcription elongation after UV irradiation.

a Outline of the BrU-seq approach to measure nascent transcription across the genome. b Metaplots of nascent transcription in genes of >100 kb, between 50 and 100 kb, or between 25 and 50 kb in one replicate of either TIR1 cells (upper panels) or PAF1-AID cells (lower panels) that were either mock-treated, or UV-irradiated (7 J/m²) and analyzed at the indicated timepoints (3, 8, or 24 h). The relative distribution of nascent transcript read density (in reads per thousand base-pairs per million reads) was normalized to the absolute nascent transcript intensities measured in parallel to the BrU-seq experiments using the same cells and timepoints (see Fig. 4g, h). A replicate experiment is shown in Supplementary Fig. 7c. c Heatmaps of BrU-seq data from the first replicate of unirradiated (mock) or UV-irradiated (3 or 24 h after 7 J/m²) TIR1 control or PAF1-AID cells. Data was mapped and processed as for ChIP-seq and data is presented for the top 3000 genes with PAF1 binding at the TSS followed by ranking according to gene length. d UCSC genome browser track showing the nascent transcript read density across the ZFR gene in unirradiated and UV-irradiated TIR1 and PAF1-AID cells. Also shown are the PAF1, RNAPII, and Ub-H2B read densities for the same gene for comparison.