Figure 3

Chromatin accessibility of GR and AP-1 motifs in 3134 cell line in vivo. (A-B) Density of sequenced tags for GR, c-Jun ChIP-seq and DNase I-seq were counted in 3-Kb up and downstream of the center of (A) the GR ChIP-seq peaks and (B) the c-Jun ChIP-seq peaks. GR peaks are placed in three groups, pre-programmed DHS peaks, re-programmed DHS peaks, and GR peaks that are not in a DHS peak termed as un-programmed. The bin size is 300-bps and slide window is 150-bps. Sequence reads for GR, DHS, and c-Jun are normalized w.r.t the total tag-density. Re-programmed and un-programmed c-Jun peaks are enlarged to better present the tag-density pattern. (C) Overlapping crystal structures for the nucleosome (PDB ID: 1AOI), GR (1R4O) and c-Jun|Fos (1FOS) showing GR can bind the nucleosome-occluded DNA while c-Jun|Fos has steric hindrances.