Fig. 1: scRNA-seq analysis of bone endothelial cells.
From: Specialized post-arterial capillaries facilitate adult bone remodelling
a, Schematic overview of scRNA-seq work flow. b, Uniform Manifold Approximation and Projection (UMAP) visualization of total bone ECs, with colour-coded subclusters of bmECs (n = 12,002), mpECs (n = 6,307), aECs (n = 2,809), rECs (n = 1,768) and pECs (n = 329) with a total n = 23,215 cells. c, UMAP plot of total ECs separated by age group (juvenile = 7,973, adult = 10,721 and aged = 4,521). d, Bar plots showing the proportion of cells in each subcluster per age group. e, Feature plots show markers for subclusters of bone endothelial cells: bmECs/type L ECs expressing Rgs4, Gpr126, Vcam1, Adamts5 and Stab2; mpECs/type H ECs expressing Apln, Piezo2, Ramp3, Aplnr and Lamb1; aECs expressing Sema3g, Gja4, Fbln5, Vegfc and Bmx; rECs/type R expressing C1qtnf9, Cav1, Fmo2 and Aqp7; and proliferating pECs expressing Top2a, Neil3, Hist1h2ae and Mki67. f, Heatmap showing the expression of the top four markers for each cluster. g, Heatmap depicting expression of Cdh5 and the absence of BM stromal cell markers (Pdgfra and Pdgfrb) as well as absence of lymphatic EC markers (Prox1 and Lyve1) in bone EC subclusters. h, Heatmap showing selected markers distinguishing EC subclusters. Black box highlights combination of markers allowing the identification of rECs (Flt4−Emcn+Cav1+). Colour bars illustrate the expression level (e, g) and expression level (log2 fold change) (f, h). Data in b,d–h are derived from an integrated scRNA-seq dataset, whereas data in c show individual samples from different age groups.
