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Fig. 1 | Breast Cancer Research

Fig. 1

From: BRCA1 mutations attenuate super-enhancer function and chromatin looping in haploinsufficient human breast epithelial cells

Fig. 1

BRCA1mut/+ HMECs are associated with reduced super-enhancer mark. a Experimental design for H3K27ac ChIP-seq. Cancer-free human breast tissues (BRCA1+/+, n = 3; BRCA1mut/+, n = 3) were digested into single cells. Epithelial cell-enriched fractions were obtained through differential centrifugation. Primary HMECs were immediately crosslinked, and ChIP-seq was performed using an antibody specific for H3K27ac. b Differential analysis for super-enhancers. All genomic regions containing a super-enhancer in BRCA1+/+ or BRCA1mut/+ primary HMECs were ranked by log2 fold change in H3K27ac signal (BRCA1+/+ vs BRCA1mut/+). The x-axis shows log2 fold change in H3K27ac signals. Super-enhancers with log2 fold change ≥ 0.5 were colored red or green. c Track view of H3K27ac ChIP-seq density profile centered at three BRCA1mut/+-attenuated super-enhancers. Each track represents an overlay of three individual biological samples indicated by different colors. Locations of the super-enhancers are shaded and marked by black bars. d Confirmation of H3K27ac ChIP-seq by qPCR. Each dot represents one biological sample with BRCA1+/+ marked blue and BRCA1mut/+ marked red. *P < 0.05 by two-tailed t test. Error bars represent s.e.m

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