Fig. 1

Ganglioglioma single nucleus RNA-seq. A UMAP plot of SCTransformed data from 34,907 nuclei, colored by Seurat cluster. B Feature plots of log1p[RNA] of select cell typing markers, P2RY12 (microglia), CD3D (T lymphocyte), VWF (endothelial), RBFOX3 (pan-neuron), AQP4 (astrocyte), GPR17 (oligodendrocyte precursor cell, OPC), CNP (oligodendrocyte), and CD34 (endothelial and stem cell). Colored from 0 (grey), to maximum log1p for the transcript plotted (black), via yellow, then orange, then red. C Heatmap of Seurat label transfer prediction scores (from 0 to 1) for ganglioglioma nuclei queried against developing brain (Nowakowski et al.) reference atlas with query nuclei as columns and reference annotations as rows. Note cluster colors in legend should be the same as cluster colors throughout. EN-V1-1 = early born deep layer/subplate excitatory neuron V1; OPC = oligodendrocyte precursor cell; vRG = ventricular radial glia; RG-div2 = dividing radial glia (S-phase); oRG = outer radial glia; IN-CTX-CGE1 or 2 = CGE/LGE-derived inhibitory neurons; U1, U2, U3, and U4 = unknown 1, 2, 3, and 4; glyc = glycolysis; nEN-late = newborn excitatory neuron—late born; nEN-early1 or 2 = newborn excitatory neuron—early born; IPC-nEN1, 2, or 3 = intermediate progenitor cells excitatory neuron-like; EN-PFC1 = early born deep layer/subplate excitatory neuron prefrontal cortex; tRG = truncated radial glia; IPC-div1 = dividing intermediate progenitor cells radial glia-like; MGE-RG1 = medial ganglionic eminence radial glia 1; IN-STR = striatal neurons; RG-div1 = dividing radial glia (G2/M-phase); IPC-div2 = intermediate progenitor cells radial glia-like; MGE-IPC1, 2, or 3 = medial ganglionic eminence progenitors; nIN1, 2, 3, 4, or 5 = medial ganglionic eminence newborn neurons; EN-PFC2 or 3 = early and late born excitatory neuron prefrontal cortex; EN-V1-2 = early and late born excitatory neuron V1; MGE-div = dividing medial ganglionic eminence progenitors; IN-CTX-MGE2 = medial ganglionic eminence-derived Ctx inhibitory neuron, cortical plate-enriched; IN-CTX-MGE1 = medial ganglionic eminence-derived Ctx inhibitory neuron, germinal zone enriched; EN-V1-3 = excitatory neuron V1—late born; RG-early = early radial glia; MGE-RG2 = medial ganglionic eminence radial glia 2