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Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune cells in human

ABSTRACT: Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune cells in human

PROVIDER: PRJNA515497 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8448140_1.fastq.gz	Fastqsanger.gz
	SRR8448140_2.fastq.gz	Fastqsanger.gz
	SRR8448141_1.fastq.gz	Fastqsanger.gz
	SRR8448141_2.fastq.gz	Fastqsanger.gz
	SRR8448142_1.fastq.gz	Fastqsanger.gz

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Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune cells in human

Project description:The liver plays a critical role in both immune defense and tolerance in the body. The liver-resident immune cells (LrICs) determine the immune properties, but the unique composition and heterogeneity of these cells are incompletely understood. Here, we dissect the diversity of LrICs by a comprehensive transcriptomic profiling using the unbiased single-cell RNA-sequencing (scRNA-seq). A total of 70, 706 of CD45+ immune cells from the paired liver perfusion, spleen and peripheral blood as references were profiled. We identified 33 discrete cell populations comprising 14 of T and NK cell, 7 of B cell, 4 of antibody-secreting cell (ASC) and 8 of myeloid cell subsets in human liver and donor-paired spleen and blood, and characterized their tissue distribution, gene expression and functional modules. Especially, four of CXCR6+ T and NK cell subsets were found to be present preferentially in the liver, where they manifested heterogeneity, distinct function and prominent homeostatic proliferation. We propose a universal category system of T and NK cells based on distinct chemokine receptors, confirmed subsequently by phenotype, transcriptional factors and functionality. We also identified adaptive changes by the spleen and liver-resident monocyte and macrophage populations. Finally, we give a global glimpse on B cell and ASC subsets in human spleen and liver. We, therefore, reveal the heterogeneity and functional diversity of LrICs in human. This study presents comprehensively the landscape of LrICs and will enable further study on their roles in various human diseases.

2020-04-01 | GSE125188 | GEO

Tongue immune compartment analysis reveals spatial macrophage heterogeneity

Project description:Tongue immune compartment analysis reveals spatial macrophage heterogeneity

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A Rat Liver Cell Atlas Reveals Intrahepatic Myeloid Heterogeneity.

Project description:A Rat Liver Cell Atlas Reveals Intrahepatic Myeloid Heterogeneity.

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Cx3cr1 controls kidney resident macrophage heterogeneity

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A Human Liver Cell Atlas reveals Heterogeneity and Epithelial Progenitors

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Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune cells in human.

Project description:The liver plays a critical role in both immune defense and tolerance in the body. The liver-resident immune cells (LrICs) determine the immune properties, but the unique composition and heterogeneity of these cells are incompletely understood. Here, we dissect the diversity of LrICs by a comprehensive transcriptomic profiling using the unbiased single-cell RNA-sequencing (scRNA-seq). A total of 70, 706 of CD45+ immune cells from the paired liver perfusion, spleen and peripheral blood as references were profiled. We identified more than 30 discrete cell populations comprising 13 of T and NK cell, 7 of B cell, 4 of plasma cell, and 8 of myeloid cell subsets in human liver and donor-paired spleen and blood, and characterized their tissue distribution, gene expression and functional modules. Especially, four of CXCR6+ T and NK cell subsets were found to be present preferentially in the liver, where they manifested heterogeneity, distinct function and prominent homeostatic proliferation. We propose a universal category system of T and NK cells based on distinct chemokine receptors, confirmed subsequently by phenotype, transcriptional factors and functionality. We also identified adaptive changes by the spleen and liver-derived monocyte and macrophage populations. Finally, we give a global glimpse on B cell and plasma cell subsets in human spleen and liver. We, therefore, reveal the heterogeneity and functional diversity of LrICs in human. This study presents comprehensively the landscape of LrICs and will enable further study on their roles in various human diseases.

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A healthy human liver cell atlas reveals hepatic stellate cell heterogeneity

Project description:A healthy human liver cell atlas reveals hepatic stellate cell heterogeneity

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Tongue immune compartment analysis reveals spatial macrophage heterogeneity [bulk RNA-Seq]

Project description:Tongue immune compartment analysis reveals spatial macrophage heterogeneity [bulk RNA-Seq]

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Tongue immune compartment analysis reveals spatial macrophage heterogeneity [bulk RNA-Seq]

Project description:Tongue immune compartment analysis reveals spatial macrophage heterogeneity [bulk RNA-Seq]

| PRJNA844023 | ENA

Cx3cr1 controls kidney resident macrophage heterogeneity

Project description:Kidney macrophages are comprised of both monocyte-derived and tissue resident populations; however, the heterogeneity of kidney macrophages and factors that regulate their heterogeneity are poorly understood. Herein, we performed single cell RNA sequencing (scRNAseq), fate mapping, and parabiosis to define the cellular heterogeneity of kidney macrophages in healthy mice. Our data indicate that healthy mouse kidneys contain four major subsets of monocytes and two major subsets of kidney resident macrophages (KRM) including a population with enriched Ccr2 expression, suggesting monocyte origin. Surprisingly, fate mapping data using the newly developed Ms4a3Cre Rosa Stopf/f TdT model indicate that less than 50% of Ccr2+ KRM are derived from Ly6chi monocytes. Instead, we find that Ccr2 expression in KRM reflects their spatial distribution as this cell population is almost exclusively found in the kidney cortex. We also identified Cx3cr1 as a gene that governs cortex specific accumulation of Ccr2+ KRM and show that loss of Ccr2+ KRM reduces the severity of cystic kidney disease in a mouse model where cysts are mainly localized to the kidney cortex. Collectively, our data indicate that Cx3cr1 regulates KRM heterogeneity and niche-specific disease progression.

2023-05-01 | GSE193892 | GEO

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