Figure 3

Chromatin state characterization of UC DMRs. (A) Frequency of H1ESC chromatin states for all UC DMRs (N = 5,453) calculated per base across 4 kb windows centered on each DMR midpoint. (B) Frequency of H1ESC chromatin states for all human RefSeq promoters calculated per base across 4 kb windows centered on each RefSeq TSS (N = 27,397). The corresponding frequency of UC DMR overlaps is also shown (solid black line). (C) Frequency of H1ESC chromatin states from RefSeqs having a UC DMR in the 4 kb window centered on its TSS (N = 5,290). (D) Chromatin states for H1ESC and eight additional cell lines (listed in panel E; Ernst et al. [17]). For UC DMRs in a H1ESC chromatin state, the frequencies of the typical chromatin state in the eight other cell types are shown. (E) For UC DMRs in the ‘Inactive/poised promoter’ state in H1ESC, the frequencies of other chromatin states are shown for the eight additional cell types. The 15 Chromatin states are color coded as in Figure 1 (chromatin states 13 to 15 are represented by a dashed line in panels A to C).