Extended Data Fig. 1. Chromium 10x data summary.

a) Summary of Chromium 10x data (pIpC = polyinosinic-polycytadylic acid). b) Number of genes detected as a function of the number of unique molecular identifiers (UMIs) per cell barcode. Red dots = cell barcodes with mitochondrial content > 20%; blue dots = cell barcode with lower than expected complexity (lower than two standard deviations from linear fit); dashed red line = linear fit. c) Percentage of cell barcodes removed per sample after filtering low complexity barcodes and barcodes with mitochondrial UMIs > 20%. d) Quality control of scRNA-seq (n = 13 biological independent animals) after filtering. e) PCR validation of Tet2 exon 3 deletion 4 weeks after pIpC administration. Genomic DNA was isolated from Lin⁻ bone marrow cells and amplified using the primers Tet2-F1, Tet2-R1 or Tet2-R-Lox, (Supplementary Table 5). One representative example of n = 3 independent experiments is shown. f) PCR validation of Dnmt3a exon 17 and 18 deletion 4 weeks after pIpC administration. Genomic DNA was isolated from Lin⁻ bone marrow cells and amplified using the primers Dnmt3a-F1, Dnmt3a-R1 or Dnmt3a-R-Lox, shown in Supplementary Table 5. One representative example of n = 3 independent experiments is shown. g) Uniform Manifold Approximation and Projection (UMAP) dimensionality reduction showing joint embedding of WT (17,702 cells; n = 7 mice), Tet2 KO (18,651 cells; n = 7 mice), Dnmt3a KO (13,858 cells, n = 4 mice) and Idh2-R140Q (9,883 cells, n = 3 mice).