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Fig. 1 | Journal of Hematology & Oncology

Fig. 1

From: Single-cell and spatially resolved analysis uncovers cell heterogeneity of breast cancer

Fig. 1

snRNA-seq analysis of tumor from sample BC-A. a Schematic of the single-nucleus RNA-seq and ST experiment and analysis. b UMAP visualization of 4,093 nuclei from BC-A tumor analyzed by snRNA-seq showing nine major cell types. c UMAP visualization of inferred epithelial cells from BC-A tumor analyzed by snRNA-seq. Clusters are colored and labeled according to their inferred cell subtypes. d Feature plot of subcluster-specific marker genes in epithelial cells. e Heatmap of differentially expressed genes in each epithelial subcluster. The color bars above the heatmap reflects the subcluster PAM50 subtype estimated by ‘pseudobulk.’ f Heatmap showing the pathway enrichment of each epithelial subcluster using MSigDB HALLMARK gene sets. Mean score of GSVA was z-score transformed. g Heatmap of the area under the curve (AUC) scores of TF motifs estimated per cell by SCENIC. h Differentiation trajectories of epithelial cells by Monocle 2. i Circos plot showing the interactions between ligands and receptors across cell types

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