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Figure 1 | BMC Genomics

Figure 1

From: Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding

Figure 1

Intrinsic nucleosome occupancy scores for regulatory sites. (A) Average intrinsic nucleosome occupancy score (INOS) for 96,709 DNase I hypersensitive sites, 20,391 c-Jun peaks, and 8,236 GR peaks within ±750-bps from the center of the peak. (B) Average INOS near (±750-bps) canonical AP-1 motifs (TGAC/GTCA); 11,926 bound and 260,047 unbound AP-1 motifs are shown. 100,000 randomly selected sequences are shown as control. (C) The blue histogram shows the distribution of INOS for all 271,973 AP-1 motifs in the mouse genome and the red histogram shows the percent bound by c-Jun indicating preference for binding to the motifs with higher INOSs. 4.4% of all AP-1 sites are bound by c-Jun (black dashed line). (D) Average INOS near (±750-bps) canonical GR motifs (G-ACA---TGT-C); 1,393 bound and 25,783 unbound GR motifs are shown. (E) GR binds preferentially to GR motifs with higher INOSs. 5.1% of all GR sites are bound by GR (black dashed line).

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