Fig. 2 | Nature Communications

Fig. 2

From: Genome-scale identification of transcription factors that mediate an inflammatory network during breast cellular transformation

Fig. 2

Differential chromatin accessibility and histone modification during transformation. a Data for the indicated chromatin features before (blue) and after (red) transformation. Total peak numbers are shown. b Distribution of genomic locations of DNase I hypersensitive sites (DNase-seq peaks) classified by histone modifications as active promoters (H3K4me3), active enhancers (H3K27ac), primed enhancers (H3K4me1), and heterochromatin (H3K27me3/H3K9me3). Regions without any modification were grouped as “Others”. c Fold change of chromatin accessibility and histone modification levels, calculated as the log2 fold change of read density in cells after 24 h of tamoxifen treatment and non-transformed cells. d Fraction of DNase I hypersensitive sites differentially accessible (>2-fold change) during transformation. e Heat map showing differential chromatin accessibility and H3K27ac in 13,739 open acetylated regions during transformation. Pearson Correlation Coefficient of fold change values of accessibility vs. acetylation = 0.36 at 24 h after tamoxifen treatment; P < 10−100. f Super-enhancers are identified by the sorted rank order based on H3K27ac levels at 24 h upon tamoxifen treatment. The analyses were based on the ROSE software30,31,32

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