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. 2024 Sep 11;26(10):1700–1711. doi: 10.1038/s41556-024-01493-w

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© The Author(s) 2024

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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 7 — (a) ChIP-qPCR analysis of TAF1, TAF11, and MED14 chromatin occupancy at promoters of E2f6, Zic2, HoxD8, Bcor, Hoxb3os (Polycomb genes), as well as Brd2 (non-Polycomb genes) prior (UNT, blue) and after PRC1 depletion (IAA, orange). Ctrl represents ChIP signal at a gene desert region. RINGB ChIP-qPCR at the target sites demonstrates complete depletion after 4h IAA treatment. Error bars represent standard deviation from n = 3 biological replicates around average values. (b) Density plot representing Log2 fold change (4h IAA/UNT) in T7-TAF1 ChIP signal for all the genes (n = 20,633) within the TSSs (+/− 1kb). (c) Density plot representing Log2 fold change (4h IAA/UNT) in cnRNA-seq signal for all the genes (n = 20,633). Data from Dobrinic et al.²¹. (d) Genomic snapshots for Zic2, E2f6, Meis1, HoxA7, HoxD locus (Polycomb genes), as well as Hspg2 and Brd2 (non-Polycomb genes) shown RING1B and T7-TAF1 before and after 4h of RING1B depletion (IAA). (e) Correlation between changes in expression (Log2 fold change in cnRNA-seq) and changes in T7-TAF1 binding for non-Polycomb genes, Polycomb genes, and genes with no CpG islands (nonCGI genes). R represents two-sided Pearson correlation with exact p-values presented. Source numerical data are available in source data.

Source data