Extended Data Fig. 3: Single-cell RNA-seq analysis of immune cells from B-ALL patients.
(a) UMAP of single cells isolated from the bone marrow of human B-ALL patients, colored by cell phenotype. (b) Dot plot showing the scaled expression and fraction of cells expressing marker genes for each cell phenotype. (c) UMAP of myeloid cells, colored by cell phenotype. (d) Dot plot showing the scaled expression and fraction of cells expressing marker genes associated with each myeloid cell phenotype. (e) UMAP of B cells, with likely-healthy and likely-malignant cells distinguished. (f) Frequency of likely-healthy and likely-malignant B cells in samples with each diagnosis (n = 4 for healthy; n = 7 for diagnosis; n = 6 for remission; n = 7 for relapse). The boxplots show median, 25th percentile, and 75th percentiles. The whiskers extend from each hinge to the most extreme value within 1.5 IQR. Data beyond this range is plotted individually. (g) Dot plot showing the scaled expression and fraction of cells expressing each co-stimulatory receptor. (h) Volcano plot of genes differentially expressed between DCs and B cells. P-values are calculated with a two-sided Wilcoxon rank-sum test and are adjusted using Bonferroni correction.
