Extended Data Fig. 7: Identity of immune cell cluster in human MS scRNA-seq datasets and characterization of analyzed human MS lesions.
From: Microglia facilitate repair of demyelinated lesions via post-squalene sterol synthesis
a, Distribution of immune cells from control and MS patients (left) and k-means clustering (right) of cells (resolution 0.1) on UMAP plot of merged external scRNA-seq datasets. b, Frequency distribution of cells from control and MS patients in each cluster. c, Expression of selected marker genes in T cells (CD3) and non-microglia/macrophages (FSP1, Fibroblast-Specific Protein-1) in cluster 4 of sc-RNAseq datasets. d, Expression of selected marker genes in myeloid cells (AIF1, CX3CR1), oligodendrocytes (PLP1) and DHCR24 expressing cells in analyzed immune cells of sc-RNAseq datasets. e, Expression of genes related to cholesterol export in analyzed immune cells of sc-RNAseq datasets. f, Histological characterization of isolated lesions from individual patients. Dotted line indicates lesion rim defined by myelin staining (LFB/PAS).Center activity (square) was determined by presents of phagocytic cells (KiM1P) (Scale 500 µm). g, Tissue water (g/g dry tissue) of control white (n = 3 patients) matter and MS lesion material (n = 4 patients). R: Active lesion rim (n = 5 lesions); AC: Active lesion center (n = 3 lesions); IC: Inactive lesion center (n = 4 lesions). Asterisks mark significant changes (one-way ANOVA with Holm-Sidak post test). **p < 0.01,*p < 0.05. h, Relative abundance of cholesterol normalized to input tissue weight and standard (controls set to 1) of control white (n = 3 patients) matter and MS lesion material (n = 4 patients). R: Active lesion rim (n = 5 lesions); AC: Active lesion center (n = 3 lesions); IC: Inactive lesion center (n = 4 lesions). Asterisks mark significant changes (one-way ANOVA with Holm-Sidak post test). ***p < 0.001, **p < 0.01, *p < 0.05.
