Fig. 2: Deconvolution of ATAC-seq data using TME-specific CREs previously identified by scATAC-seq for breast tumours. | British Journal of Cancer

Fig. 2: Deconvolution of ATAC-seq data using TME-specific CREs previously identified by scATAC-seq for breast tumours.

From: Chromatin profile-based identification of a novel ER-positive breast cancer subgroup with reduced ER-responsive element accessibility

Fig. 2

a Venn diagram showing the overlaps between JFCR–BRCA ATAC-seq peaks (n = 195,221) and previously identified TME-specific CREs (n = 30,791). b Heatmap showing the chromatin accessibility of overlapping regions with each set of TME-specific CREs (endothelial, fibroblast, T cell, B cell, plasma cell and myeloid cells). The annotation above the heatmap represents patient information. Representative enrichments from GREAT GO analysis (black) and the motifs of TF families (red) are shown on the right. c Boxplot showing the mean ATAC-seq signal of each set of TME-specific CREs between BC subtypes. P-values, calculated using Wilcoxon rank sum tests, are shown.

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