Single cell bone marrow map of AML. (A) Uniform manifold approximation and projection (UMAP) embedding of single cell transcriptomic profiles of 64 AML bone marrow samples of 18 AML patients (2-5 samples per patient) (refer to supplemental Figure 2-3 for details). The annotated cell types are indicated by the color code. The inset UMAP embeddings show the subclustered myeloid cell compartment at screening colored by annotated cell types (top) and individual patients (bottom). (B-C) Distribution of cell types in screening samples of AML and healthy bone marrow. Differential abundance of myeloid cell types between AML and healthy donors (HD) (C). Statistical testing using Wilcoxon rank-sum test. (D) Genetic deconvolution of 145,595 donor (29% total) and recipient-derived (71%) single cells determines donor chimerism of individual cell types across baseline samples posttransplant (arm A). The bars above the heatmap indicate the total number of donor-derived cells across all myeloid subsets per study subject. ∗Sample at Lead-in. (E) Copy number changes across myeloid cell types identified through inferCNV in AML1012 and AML1016. (F) Comparison of distribution of T/NK cell subsets in AML (n = 18) vs healthy donor (n = 8) bone marrow. Statistical testing using Wilcoxon rank-sum test. (G) Comparison of distribution of T/NK cell subsets in AML posttransplant vs AML/MDS transplant-naïve bone marrow. (H) Clonal T-cell expansion (fraction of T cells sharing the same TCR) across CD4⁺ and CD8⁺ T cell subsets with most clonal expansion in effector and memory CD8⁺ T cells.