Extended Data Fig. 2: Enrichment of domain-wide epigenetic profile across different cell types.
From: Somatic mutation distributions in cancer genomes vary with three-dimensional chromatin structure
a, b, Heatmaps represent domain-length normalized coverage of cell-type specific ChromHMM chromatin states within domain for representative Roadmap Epigenome cell types. Cell type’s name and the Roadmap Epigenome IDs are denoted on top of each heatmap. Domain-state matrices are not clustered but sorted based on our five domain annotations. These annotations are denoted as colored bars beneath the heatmap. Box plots below represent the domain-length normalized coverage of chromatin states for the corresponding cell type. In these and all other boxplots, the center line is the median; box limits are the upper and lower quantiles; whiskers represent 1.5x the interquartile range. In these and following plots domain numbers are Heterochromatin:180, Inactive:1219:, Repressed:969, Active:1086, Active-2:593. c, Dot plots show the normalized log2 ATAC-Seq signal in each domain type. Median ATAC-Seq signal was calculated across the samples of each histology-type. Name of the cancer type is denoted on top of the plot. Error bar limits are 25th and 75th percentiles; the center line is the median. d, Dot plots show the average beta value from Illumina 450 K DNA methylation array in each domain type. Average beta values were calculated across the samples of each histology-type. Name of the cancer type is denoted on top of the plot. Error bar limits are 25th and 75th percentiles; the center line is the median.
