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. 2019 Jan 21;10:348. doi: 10.1038/s41467-018-08255-x

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© The Author(s) 2019

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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Fig. 5 — Comparison of BAP1 and the CREBBP and SMARCB1 co-activator proteins. a RT-qPCR analysis of CYP26A1 and RARB expression following RA treatment at different time-points in wild-type or BAP1, CREBBP, and SMARCB1 KO cells. n = 2. b Violin plots showing log2 fold-change expression of RA-responsive genes (n = 114 genes, see text for details) in wild-type and BAP1 KO cells. P-value from the Mann–Whitney test is shown. c Violin plots showing log2TPM expression of BAP1- CREBBP-, and SMARCB1-regulated genes in wild-type (WT) or in the respective KO conditions. d Venn diagram showing overlap between genes that are downregulated in BAP1, CREBBP, and SMARCB1 KO cells. e Heatmaps showing ASXL1 and RNA PolII density around the TSS and termination end site (TES) (including 2-kb upstream and downstream) scaled to an equivalent 10 kb in human HEK-293 cells. Corresponding average profiles are plotted above each heatmap. f Scatterplot showing PolII versus ASXL1 enrichment around the TSS (including 2 kb upstream and downstream) at all annotated genes. Pearson correlation coefficient is displayed. g Snapshots of ASXL1 and RNA PolII enrichment at representative regions. The input is displayed below each corresponding ChIP-seq experiment