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. 2023 Oct 25;14:6792. doi: 10.1038/s41467-023-42565-z

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 2 — a The t-distributed stochastic neighbor embedding (t-SNE) plot showing the clustering of 75 B-ALL samples based on recurrent c-ACRs with top 10% highest variance. b Heatmap of Pearson correlation coefficients shows the inter-sample correlation of chromatin accessibility based on all recurrent ACRs. c Heatmaps of Pearson correlation coefficients based on ACRs in Enh regions (left) and ACRs in BivR regions (right) showing the inter-sample similarity of chromatin accessibility. d The accessibility of 17,981 subtype-specific ACRs in 64 B-ALL samples is shown in heatmap. The x axis presents 64 B-ALL samples and y axis displays subtype-specific ACRs. e Unsupervised clustering of 109 transcription factors (TF) based on their enrichment in each subtype, as labeled on the right of this plot. f Differential expression analysis of subtype enriched TFs in B-ALL. The TFs are colored according to the clusters in (e). For each TF, statistical analysis was performed to test the expression difference between B-ALLs of the enriched subgroup versus the others. Each dot represents an individual TF. Horizontal dashed line represents p = 0.05 and vertical dashed line represents fold change (FC) = 1.2. Gene symbols of TFs with p < 0.05 (one-sided Wilcoxon test) and FC > 1.2 are showed. g Expression analysis of target genes of subtype enriched TFs. Only TFs with binding motif in gene promoter region (TSS ± 1 kb) were included. Differential expression analysis was performed for each target gene between B-ALLs grouped upon the enriched subgroups of TF. The median fold change (FC) of all target genes regulated by the individual TF is showed on x axes. Each dot represents a group of target genes for an individual TF. Horizontal dashed line represents p = 0.05 and vertical dashed line represents fold change (FC) = 1.2. Gene symbols of TF with target genes satisfied geometric mean p < 0.05 (one-sided Wilcoxon test for each target gene) and FC > 1.2 are labeled.