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Fig. 5 | Genome Biology

Fig. 5

From: Dissociation of solid tumor tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses

Fig. 5

Conserved stress response to the collagenase dissociation method in breast and ovarian patient tissues. a Histology of ovarian (top) and breast (bottom) cancer patient samples highlighting the architecture of the tumor microenvironment. b FACS analysis of ovarian tumor tissue dissociated at 37 °C with collagenase or 6 °C with cold active protease and stained with markers for tumor cells (EpCAM), endothelial cells (CD31), fibroblasts (FAP), lymphocytes (CD45), B cells (CD19), NK cells (CD56), and T cells (CD8, CD3). c UMAP of combined scRNA-seq experiments of ovarian cancer (n = 2) and breast cancer (n = 3) patient tissues with cell type assignments according to known gene markers for each cell type. d The top 40 genes from the gene set derived in Fig. 3 as expressed in each cell type in breast and ovarian patient samples. Black circles around points denote significance at 5% FDR. e Pathway analysis of the differential expression results with the MSigDB hallmark gene sets for each cell type

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Genome Biology

ISSN: 1474-760X

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