Fig. 1: ATRX binding sites associated with unmethylated CpG clusters and open chromatin regions.

a Examples of the variability in pattern and shape of the ATRX binding sites. (i) Example of a broad ATRX binding site enriched in H3K9me3 at a fully methylated CpG island with a background signal in the Bio-CAP experiment (designed to detect unmethylated CpG clusters)¹⁷, (ii) Example of a sharp ATRX binding site depleted in H3K9me3 at a non-methylated CpG island with an enrichment in the Bio-CAP-seq signal. The signals represent an average of the independent replicates (n = 3) b Distribution of the ATRX binding sites. c Genome-wide analysis of ATRX enrichment across genes. The ATRX enrichment represents an average of the independent replicates (n = 3). d Overlap between ATRX peaks annotated CpG islands and non-methylated CpG clusters (Bio-CAP-seq) in LCLs. e Heatmap showing the enrichment in ATRX (n = 3), Bio-CAP (n = 3), H3K4me3 (n = 3), ATAC-seq (n = 4), Runx3 (n = 2) and H3K9me3 (n = 3) signals at all ATRX binding sites subdivided on their genomic location. The read densities represent an average of the independent replicates. f Correlation between Bio-CAP signal (n = 3 independent replicates) and H3K9me3 signal (n = 3 independent replicates) at all annotated CpG islands (n = 27711) in grey and at annotated CpG islands enriched in ATRX (n = 2580) in blue (data are presented as mean values +/− SEM). g Venn diagram illustrating the overlap between all ATRX binding sites and ATAC-seq peaks.