Fig. 1: The homeostatic peritoneal immune system is dominated by peritoneal-resident cavity macrophages. | Nature Communications

Fig. 1: The homeostatic peritoneal immune system is dominated by peritoneal-resident cavity macrophages.

From: Peritoneal resident macrophages constitute an immunosuppressive environment in peritoneal metastasized colorectal cancer

Fig. 1

A Gene expression Uniform Manifold Approximation and Projection (UMAP) overlay of color coded PBMC (red) derived immune cells (n = 13,242 cells) and PF (blue) derived immune cells (n = 14,441 cells) using Harmony for batch correction95. B Gene and protein weighted nearest neighbor (GP-WNN) UMAP color coded PF derived immune cells (n = 14,441 cells) identifying 27 subsets. C GP-WNN UMAP feature plots of reclustered MNPs in PF of HCs showing log transformed expression of scRNA markers used for myeloid subset identification DCs: CLEC4C, XCR1, and CD1C and CITE-seq CD1C; mononocytes + macrophages: ITGAM, MARCO, CD14, CCR2, and CD163 and CITE-Seq (CD14, CD192 and CD163). D GP-WNN UMAP color coded PF derived monocytes + macrophages (n = 3,937 cells) identifying 4 clusters. E GP-WNN UMAP feature plot of reclustered monocytes + macrophages PF of HCs showing log transformed expression of VSIG4. F GP-WNN UMAP feature plots of reclustered monocytes + macrophages in PF of HCs showing log transformed expression of scRNA markers CD163, VCAN, CCR2, C1QA, SPP1, and CD163 (CITE-Seq). G Boxplot showing the annotation and subsequent proportion of monocytes + macrophages subsets relative to total MNPs in PF of HCs (n = 5 donors) (does not add to 100% as DC subsets are not included in the graph). Box: 25th to 75th percentiles; line: median; whiskers: minimum and maximum values. UMAP Uniform Manifold Approximation and Projection, scRNA-seq single cell RNA sequencing, CITE-seq cellular indexing of transcriptomes and epitopes sequencing, HC healthy controls, PBMC peripheral blood mononuclear cell, PF peritoneal fluid, Mono-macs monocytes + macrophages, MNPs mononuclear phagocytes, T T cells, NK/ILC natural killer cells/innate lymphoid cells, B B cells, TCM T central memory, Treg regulatory T, CTL cytotoxic T lymphocyte, TEM T effector memory, MAIT mucosal-associated invariant T, GDT gamma delta T cells, NKT natural killer T, CDC1s conventional dendritic cells type 1, CDC2s conventional dendritic cells type 2, PDCs plasmacytoid dendritic cells, DCs dendritic cells, Class classical, mono-CM monocyte-like cavity macrophage, CM cavity macrophage. Source data are provided as a Source Data file.

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