Fig. 1

Identification and characterization of candidate SE associated genes in breast cancer. A Venn diagram showing the distribution of DNA regions identified as SEs across the 4 breast PDX samples examined. 26 SE regions were found to be common to all samples. B Pie charts for SEs enrichment based on chromosome location for the 4 breast PDX samples analyzed reveal that most SE regions (including those that are common to all the breast cancer samples analyzed) are enriched in chromosome 8 after normalization. B.I Shows enrichment of all DNA regions identified as SEs. B.II Shows enrichment of all DNA regions identified as SEs normalized by chromosome gene number. B.III Shows enrichment of SE-associated genes common to all samples. B.IV Shows enrichment of SE-associated genes common to all samples normalized by chromosome gene number. C Heatmap showing gene expression correlations for the SE-associated genes found common to the 4 breast cancers analyzed, reveals 4 clusters of highly associated genes. This analysis was generated by using RNA-Seq expression data from TCGA breast primary tumors (n = 1097)