Extended Data Fig. 5: Additional data related to key findings in Fig. 3.
From: Convergent evolution of scavenger cell development at brain borders
a, UMAP visualization of meningeal scavenging cells (Level 01, SCT_snn_res.0.2, n = 16,262 cells) coloured by Seurat cluster. VSMC, vascular smooth muscle cell; BAM, barrier associated macrophage. b, Stacked bar plot showing sample composition for cell phenotypes for Level 01 dataset from (a). c, Dot plot showing the gene expression for key marker genes used to annotate clusters at Level 01. d, UMAP visualisation of immune and vascular cells from the Allen Brain Cell Atlas (n = ~230,000 cells) coloured by class as provided by the original authors (top left), and by selected lymphatic and/or scavenging markers. OPC, oligodendrocyte precursor cell; BAM, barrier associated macrophage; ABC, arachnoid barrier cell; VLMC, vascular leptomeningeal cell; SMC, smooth muscle cell; Peri., pericyte; Endo., endothelial cell. Images were captured using the export function on the Brain Knowledge Platform. e, Workflow of single-cell RNA-sequencing on human leptomeningeal layers from previously published study PRJNA82626931 (left). UMAP visualisation of re-clustered selection (endothelial cells, Mesenchymal cells, antigen presenting, monocytes, macrophages, DC and B cells) of cell types (Level 02, SCT_snn_res.0.4, n = 8,478 cells) coloured by cell phenotype. MG, microglia; BAM, barrier associated macrophage. f, UMAP visualization of cells captured (Level 01, SCT_snn_res.0.4, n = 23,782 cells) in Wang et al.31 coloured by cell phenotype. DC, dendritic cells; NK cells, natural killer cells. g, Dot plot showing gene expression for marker genes used to annotate clusters at Level 01 from f. h, Stacked bar plot showing sample composition for each cell phenotype for Level 02 from e. I, Dot plot showing the gene expression for key marker genes used to annotate clusters at Level 02 dataset from e. j, Dot plot showing the gene expression of lymphatic and/or hematopoietic markers in all cell clusters of Level 02 GSE245311 (human developmental dataset from Fig. 3b) dataset. k, Dot plot showing the gene expression of lymphatic and/or hematopoietic markers in all cell clusters of Level 01 PRJNA826269 (human meningioma dataset from f dataset. l, Dot plot showing the gene expression of lymphatic and/or hematopoietic markers in all cell clusters of Level 02 PRJNA826269 (human meningioma dataset from e dataset. For all dot-plots; size of dots represents proportion of expressing cells and colour represents average log-normalised expression.
