Hematopathologist-annotated mass cytometry dataset of acute myeloid leukemia diagnostic specimens

This dataset comprises hematopathologist-annotated single-cell data from patients with Acute Myeloid Leukemia (AML), sourced from FlowRepository (ID: FR-FCMZ2E7). The dataset includes normalized, singlet-gated events with annotations provided by the authorship team of Tsai et al., excluding one patient diagnosed with Myelodysplastic Syndrome (MDS) due to diagnostic ambiguity. To align with blast enumeration standards and pathology laboratory procedures, only CD45+ hematopoietic lineage cells were included in the analysis.

Data preprocessing followed standard mass cytometry protocols, including hyperbolic arcsine transformation with a cofactor of 5, scaling markers to their 99.9th percentile, and exclusion of cells with marker values exceeding this threshold to remove artifacts and outliers. This dataset, processed using the R package tidytof, offers a high-quality resource for researchers investigating AML through single-cell analysis.