Extended Data Fig. 2: Cellular heterogeneity in the extended snRNA-sequenced ETMR sample cohort.
a) Heatmap shows copy number profiles derived from snRNAseq of cells from the frozen-sorted tumor samples (n = 886 cells) and non-malignant reference cells. b) tSNE representations of high-quality ETMR cells (n = 886 cells) from frozen-sorted tumor samples highlighting sample distribution (top) and malignant clusters (bottom). Gene signatures derived from fresh-sorted tumor samples were used to score and classify cells into malignant clusters 1 or 2. c) Heatmap shows the relative expression of 100 genes specific to malignant clusters 1 (stem-like signature) and 2 (differentiated signature) in frozen-sorted ETMR cells (n = 886 cells). Percentages of cells belonging to malignant clusters 1 and 2 are indicated above. Genes of interest are indicated on the right. d) tSNE representations of fresh-sorted ETMR cells (n = 2,520 cells), colored according to marker genes specific to malignant clusters 1 (stem-like signature: PLTP, PAX3) and 2 (differentiated signature: ENO2, TUBB3). e) Representative multiplex immunofluorescence images of ETMR tissue stained for markers for malignant clusters 1 (stem-like signature: PLTP, PAX3, LIN28A shown in red) and 2 (differentiated signature: NSE, TUBB3, STMN2 shown in green). DAPI staining was used to highlight the nuclei. Scale bars = 300 µm. This experiment achieved reproducible results in three biological replicates. Related to Fig. 1.
