Fig. 1: Single nucleus transcriptional profiling of E14 forebrain in MYT1L animals.
From: MYT1L deficiency impairs excitatory neuron trajectory during cortical development
A Schematic showing dissection of forebrain tissue, isolation of nuclei, massively parallel barcoding, and generation of snRNAseq libraries. Created in BioRender. Dougherty, J. (2024) BioRender.com/k40k912. B General library statistics showing mean ± SD nuclei per genotype (n = 3 biological replicates per genotype: WT, Het, and KO), median ± SD genes per nucleus, and median ± SD UMIs per nucleus. Box plots show median (center line), interquartile range (box), and whiskers extending to 1.5 times the interquartile range. C Uniform manifold approximation and projection (UMAP) showing 216,830 nuclei from the forebrain of E14 MYT1L WT (n = 3), Het (n = 3), and KO (n = 3) animals colored by cell type. D Bar plot showing the total number of nuclei per genotype across biological replicates. E Histogram showing the local inverse Simpson’s index (LISI) score with a median of 2.7, indicating that the genotypes are well mixed and integrated. F UMAP of all nuclei color-coded by cell class. G Top cluster markers for progenitors, intermediate progenitor cells (IPCs), inhibitory neurons, and excitatory neurons. H UMAP of all nuclei color-coded by cell cycle score based on expression of cell cycle genes (G2M phase in orange, S phase in yellow, and G1/G0 in blue). I UMAP feature plot showing expression of MYT1L in postmitotic excitatory and inhibitory neurons. J From left to right, plots showing: the mean ± SEM relative proportions of nuclei in each annotated cell cluster for MYT1L WT, Het, and KO genotypes (n = 3 biological replicates per genotype); Het and KO mean ± SEM proportions normalized to WT; the proportions of nuclei in the phases of the cell cycle per replicate; mean ± SEM proportions of nuclei that are in the G0/G1 phase; mean ± SEM proportions of nuclei in the S phase; and mean ± SEM proportions of nuclei in the G2M phase. “#” indicates a significant difference between WT and Het, and “*” indicates a significant difference between WT and KO (FDR adjusted p < 0.05, moderated ANOVA).
