Extended Data Fig. 2: Characterisation of vascular EC using multiplexed-smFISH (Molecular CartographyTM). | Nature Medicine

Extended Data Fig. 2: Characterisation of vascular EC using multiplexed-smFISH (Molecular CartographyTM).

From: An organotypic atlas of human vascular cells

Extended Data Fig. 2

a, Multiplexed-smFISH visualisation of major cell type gene markers, including ECs (CDH5, VWF, CCL21), VSMC and pericytes (MYH11 and KCNJ8, respectively), cardiomyocytes (TTN), fibroblasts (PDGFRA), myeloid cells (C1QA) and lymphoid cells (CD8A). b, WGA / DAPI staining for cell membranes and nuclei, respectively, on sections used for multiplexed-smFISH. Scale bars in (a) and (b) represent 200μm. c, Violin plot representation of n_genes/bin and n_counts/bin. d, Correlation heatmap with dendrogram of gene markers of vascular cells used for multiplexed- smFISH. Scale bar indicates correlation value calculated using Pearson correlation. Red = positive correlation. Blue = negative correlation. White = no correlation. e, Correlation of SULF1 scaled expression by arterial vessel size (#bins / vessel). f, Subsetting of individual venous clusters and spatially resolved expression of venous marker SELE. Colour bar represents scaled gene counts per bin. g, Spatially resolved expression of endocardial markers VWF, SMOC1, INHBA and PLVAP. Colour bar represents scaled gene counts per bin.

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