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. 2020 Jul 9;11:3419. doi: 10.1038/s41467-020-17065-z

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© The Author(s) 2020

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. 3 — a (Top) Hi-C contact matrix of a loop domain on chromosome 10 and the flanking region, with a loop domain boundary loop highlighted by a white box. (Bottom) Genome-browser snapshot of the region corresponding to the Hi-C contact matrix displaying the ChIP-seq profiles of H3K27ac, Smc1, and Ctcf as well as DNaseI-seq from the control and Chd4 cKO cerebellum. Blue denotes the the loop anchors and regions of the insets. Numbers indicate the Log2 change in signal in the Chd4 cKO cerebellum. b Change in Hi-C contacts at loop domain boundary loops among domains with increased (n = 613), unchanged (n = 2299), or decreased (n = 105) accessibility in the Chd4 cKO. c Change in Smc1 occupancy at non-promoter DHS underlying loop domain boundary loops among domains with increased (n = 1343), unchanged (n = 5336), or decreased (n = 241) accessibility. P-values for all comparisons in this figure were calculated by the two-sided Kruskal–Wallis H-test for independent samples with Dunn’s post hoc T-test and corrected for multiple comparisons by the Bonferroni–Hochberg procedure. ***p < 0.001.