REST occupancy patterns across ENCODE regions. (A) Proportions of sites in each category as determined by capturing VEGA gene features within a 2.5-kb window around each REST binding site. Numbers of sites in each category are shown. (B) Proportions and numbers of REST binding sites in neural and non-neural lineages. Sites common to both are also shown. (C) REST occupancy for each of seven cell lines using the two-state HMM algorithm NESSIE. Numbers of sites in each cell line are shown as those (1) present in only one cell line (“unique,” outside the circle), (2) two to six of the cell lines (“restricted,” middle section), or (3) common to all seven cell lines (“common,” inner spoke), some of which were seen at distinct sites in a given cell line, but clustered into 27 common sites when compared with sites from across all seven cell lines (central hub). (D) Relative proportions and numbers of unique, restricted, and common REST binding sites found in this study.
