ChIP-exo signal associated with DNA-binding motifs provides insight into the genomic binding of the glucocorticoid receptor and cooperating transcription factors

ChIP-exo footprint profiles for different numbers of bases matching the GBS consensus sequence. (A) Cumulative footprint profile for sequences with the number of constrained bases matching the GBS consensus (nGnACAnnnTGTnCn) as indicated. Gray area marks the position of the “outer peaks.” (B) Footprint profile on a random subsampling of 505 GBS with eight constrained bases. The heatmap below indicates the difference between this subsampled profile and the full profile on its left. (C–F) Footprint profiles on a random subsampling of 505 matches of four “mutated” GBS consensuses, all with seven constrained bases. The strike-through base is fixed to be any base except the one matching the consensus preference at that position. The heatmap below indicates the difference between this subsampled profile and the full 8-bp constrained profile.