Fig. 2: Characteristics of chromatin accessibility in aged HSPCs.

a Heatmap showing the z-scores of ATAC count values (DESeq2 normalized counts) in all 102,992 peaks in young and aged HSPCs. Peaks were divided into 4 clusters using K-means clustering. Cluster 1 showed higher accessibility in HSCs and MPPs than the downstream progenitors. Clusters 2, 3, and 4 showed the highest accessibility in GMPs, MEPs, and CLPs, respectively. Right bar indicates the annotations of distribution on the genome. b Pie charts showing the percentage of each cluster subtype (left) and annotation (right) of all accessible peaks. c PCA plot based on the ATAC count values in log2 (DESeq2 normalized counts) in each fraction. Blue and red circles indicate young and aged cells (n = 2). d Homer motif analysis of accessible peaks in each cluster. Top 4 motifs and −log10 p values are depicted. The enrichment of each motif in the peaks in each cluster and the background peaks are indicated. All peaks, which includes 102,992 peaks from all fractions, were used as background. Hypergeometric tests were performed to calculate p values. No adjustments were made for multiple comparisons.