Chromatin accessibility and footprint changes at early time points in erythroid regeneration. (A) Experimental layout. (B) Volcano plot depicts the significantly gained and lost ATAC-seq peaks 24 h post-PHZ. (C) Motif analysis (HOMER) at regions where ATAC-seq peaks were gained 24 h post-PHZ. (D) Volcano plot of transcription factor motif differential binding scores between 0 and 24 h post-PHZ on the x-axis (calculated using TOBIAS) and −log10 (P value) on the y-axis. Each dot represents one transcription factor. Circled areas correspond to consensus AP-1 or STAT family motifs with similar sequences. (E) ATAC-seq and TOBIAS Footprint scores at the Osm locus. Blue line demarcates a region with changing footprint score and underlying sequence. Candidate cis-regulatory elements (cCREs) were classified by ENCODE (The ENCODE Project Consortium 2012). Red = promoter, orange = proximal enhancer-like signature. (F) ATAC-seq and TOBIAS Footprint scores at the Kif3b locus. Blue line demarcates region with changing footprint score and underlying sequence. cCREs were classified by ENCODE (The ENCODE Project Consortium 2012). Red = promoter, orange = proximal enhancer-like signature.
