Case 1, AML characterization. (A) Presentation bone marrow aspirate, AML blasts with folded nuclei, prominent nucleoli, and fine chromatin, consistent with FAB subtype M4. The stain is Wright-Giemsa; original magnification is ×1000. (B) Variant allele frequencies (VAFs) of high-coverage-depth (>100×) somatic mutations from the patient's bone marrow plotted against tumor coverage. The kernel density plot (top; a.u., arbitrary units) is suggestive of at least 1 major subclonal population. AML-related mutations are labeled (bottom). The germline DNMT3A mutation is denoted in blue for context. (C) VAFs of the leukemia and remission samples, showing that all leukemic cells were cleared. Only 0.03% of remission sample reads at mutation locations had variant-supporting reads, well within the error rate of the sequencing process.