Fig. 3

TADs respond differentially to NL disruption. a Hi-C map showing a total chromatin interaction profile (left half of the map), or subtraction map (Lam-KD - control) (right half of the map) at a 2.8-Mb region of chromosome 2 L. Chromatin annotation in S2 cells⁴⁰ and LADs annotation in Kc167 cells²⁸ are shown below. b, c Dependence of intra-TAD ACF changes upon Lam-KD on the LAD coverage (b), or on the proportion of “red” and “purple” chromatin types⁴⁰ (c) within these TADs. Trend line is in red. d Separation of TADs into four groups according to the Jaccard similarity coefficient. Box plots show the proportion of active chromatin (“red” (active TSS) plus “purple” (elongation) chromatin types⁴⁰) and LAD coverage²⁸ within each group. e Transcription level in the four groups of TADs according to RNA-seq in control S2 cells. f Changes of intra-TAD ACF between Lam-KD and control cells in the four groups of TADs. g Variances of log₂(FC) of the intra-TAD ACF upon Lam-KD compared to control cells in the four groups of TADs. ***P < 0.001, *P < 0.05 in a Levene’s test. h Changes of total transcription (left panel) and H3 pan-acetylation (right panel) levels between Lam-KD and control cells in the four groups of TADs. i Changes of ACF values, H3 pan-acetylation and total transcription in the inter-TAD regions between Lam-KD and control cells. See Fig. 1g legend for description of boxplot elements represented on panels (d–f), (h) and (i). In panels e, f, h, i, ****P < 0.0001, ***P < 0.001, **P < 0.01, *P < 0.05, NS non-significant difference (P > 0.05) in a Wilcoxon test