Fig. 6: The 3D chromatin structural features found in TNBC cells are partially conserved in TNBC tissues.
From: Comparative characterization of 3D chromatin organization in triple-negative breast cancers
a Schematic diagram showing three types of tissues related to breast cancers. Red, blue, and gray circles represent TNBC tissues, histologically normal tissues adjacent to tumors (adjacent normal), and contralateral normal tissues (normal), respectively. b Relative contact probability (RCP) plots showing the log2 fold change (TNBC vs. normal) of the relative contact probability according to genomic distance. c Insulation plots showing the average insulation scores of TNBC tissues compared to normal tissues at normal contact domain boundaries (±500 kb in range). Horizontal dashed lines indicate the insulation scores of normal tissues (black) and three TNBC tissues at these borders. d ATA showing the differential interactions of three TNBC tissues compared to normal tissues in 5343 contact domains of normal tissues. e APA (left) showing the normalized contacts (top) and differential interactions (bottom) of three TNBC tissues compared to normal tissues in 13,963 chromatin loops (peaks) of normal tissues. Box plots (right) displaying the average normalized contact values quantified at the center regions (±1 bin) of 13,963 normal chromatin loops. P values were calculated using the Wilcoxon signed rank test (*P < 1 × 10−10). f, g Example of an Hi-C contact map showing the conserved ‘weakened TADs’ (f) and ‘strengthened TADs’ (g) in three TNBC tissues. TADs and contact domains are highlighted with green lines.
