Additional file 1: of A new class of constitutively active super-enhancers is associated with fast recovery of 3D chromatin loops

Figure S1. Ubiquitous activity of super-enhancers defined in one cell/tissue type. 196 super-enhancer domains are called for only one cell/tissue type but showed constitutive H3K27ac signals across cell/tissue types and also located at less than 20% percentile of tau score. The heatmap of background subtracted log2 transformed H3K27ac signals of the domains across cell/tissue types is shown. Figure S2. Hierarchical clustering of samples using H3K27ac signal on super-enhancer domains. Complete-link hierarchical clustering of distance between samples with respect to log2 transformed H3K27ac RPM of SE domains. H1 human embryonic cell line and its derived cell lines are shown in brown and immortalized cell lines are shown in blue. Cancer cell lines are shown in bold text. Figure S3. Functional characterization of super-enhancer domain classes with alternative putative target genes. a, Heatmaps showing log2(RPKM+ 1) value of putative target gene of unique super-enhancer domains (top), non-unique super-enhancer domains (middle), and common super-enhancer domains (bottom). b, Histogram of tau score for putative target gene expression in each class of super-enhancer domains. Low tau score indicates universal expression pattern. Table S1. GO analysis of alternative putative target genes of unique super-enhancer domains. Table S2. GO analysis of alternative putative target genes of common super-enhancer domains. Table S3. Source of H3K27ac and input ChIP-seq reads. (PDF 574 kb)