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. 2023 Dec 4;56(1):100–111. doi: 10.1038/s41588-023-01603-8

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 2 — a, b, d, e, Heatmaps (bottom) and average plots (top) comparing RNAPII-S5P (a, d) and BRG1 (b, e) occupancy by spike-in calibrated CUT&Tag relative to the primary peaks (summits) of RNAPII-S5P CUTAC in untreated cells (DMSO) versus cells treated with Triptolide (a, b), Flavopiridol, and Actinomycin D (d, e) at indicated time points post drug treatment. c, g, h, Comparison of fold changes in mean RNAPII-S5P and BRG1 occupancy (spike-in calibrated CUT&Tag) at gene promoters (TSS, squares) and promoter-distal regulatory regions (Distal, circles) at time points after drug treatments. f, Scatterplots comparing BRG1 and RNAPII-S5P CUT&Tag reads in 1000 bp genome-wide consecutive non-overlapping bins in cells treated with Flavopiridol and Actinomycin D. i, Violin plots of CUT&Tag signal distribution comparing histone PTM H3K27ac occupancy at S5P CUTAC peaks over time points after Actinomycin D treatment. Median value (solid line), upper and lower quartiles (broken lines) and outliers were calculated using the Tukey method. Numbers on top show mean values. All datasets are representative of at least two biological replicates.