Extended Data Fig. 1: Experimental approach to pairing scRNA-seq analyses with scTCR-seq profiling and blood leukocyte maps of WT and Apoe−/− mice. | Nature Cardiovascular Research

Extended Data Fig. 1: Experimental approach to pairing scRNA-seq analyses with scTCR-seq profiling and blood leukocyte maps of WT and Apoe−/− mice.

From: Pairing of single-cell RNA analysis and T cell antigen receptor profiling indicates breakdown of T cell tolerance checkpoints in atherosclerosis

Extended Data Fig. 1

a, Leukocytes from blood, lymph nodes, ATLOs, and plaques from aged Apoe-/- and WT mice were purified by FACS sorting and barcoded using the Chromium platform (10x Genomics) for scRNA-seq and scTCR-seq as described in methods. b, 7131 blood leukocytes from WT and Apoe-/- mice were FACS-purified and analyzed by scRNA-seq. 5 major blood immune cell subgroups were defined as T cells, B-cells, monocytes/DCs, NK-cells and granulocytes based on their top 2000 highly expressed genes and graphed as tSNE plots; gray dots represent doublets. c, Blood leukocyte subgroup distribution in tSNE plots of WT vs Apoe-/- mice. The percentage of cells in each subgroup is indicated. Chi-square test followed by Benjamini-Hochberg correction was used to analyze differences.

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