Figure 5

DHS and RF occupancy at UC DMRs. Aggregation plots of DHS and RF occupancy are shown for five ENCODE cell types across UC subgroup-specific DMRs stratified into patterns 1 to 3 (left to right for each DHS/RF and cell type combination). Plots are based on 10 kb for each DMR centered on the DMR midpoint. DHS/occupancy across each DMR (rows) is pseudo-colored (red) and DMRs are sorted (vertically, for each DMR pattern separately) according to the number of DHS bases within the 10 kb region. Patterns of DNaseI hypersensitive sites (A), EZH2 (B), POLR2A (C), as well as binding patterns of selected RFs (D) pseudo-colored (red) with aggregation plots on top across the different cell lines are shown across the three UC DMR methylation patterns (1 to 3). (E, F) Aggregation plots of CGI positions (E) and CGI-shore positions (F) in UC DMRs stratified into patterns 1 to 3. For aggregation plots, tic marks indicate 5%, 10%, 20%, 40%, and 60% basewise occupancy, respectively.