Our integration of the two segmentation methods (M.M. Hoffman et al., manuscript in preparation) established a consensus set of seven major classes of genome states, described in Table 3. The standard view of active promoters, with a distinct core promoter region (TSS and PF states), leading to active gene bodies (T, transcribed state) is rediscovered in this model (Figure 5A and B). There are three “active” distal states. We tentatively labelled two as enhancers (predicted enhancers, E, and predicted weak enhancers, WE) due to their occurrence in regions of open chromatin with high H3K4me1, although they differ in the levels of marks such as H3K27ac, currently thought to distinguish active from inactive enhancers. The other active state (CTCF) has high CTCF binding and includes sequences that function as insulators in a transfection assay. The remaining repressed state (R) summarises sequences split between different classes of actively repressed or inactive, quiescent chromatin. We found that the CTCF-binding associated state is relatively invariant across cell types, with individual regions frequently occupying the CTCF state across all six cell types (Figure 5C). Conversely,
