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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [bulk_RNA-seq]

ABSTRACT: Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [bulk_RNA-seq]

PROVIDER: PRJNA1030367 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR26453948_1.fastq.gz	Fastqsanger.gz
	SRR26453948_2.fastq.gz	Fastqsanger.gz
	SRR26453949_1.fastq.gz	Fastqsanger.gz
	SRR26453949_2.fastq.gz	Fastqsanger.gz
	SRR26453950_1.fastq.gz	Fastqsanger.gz

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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [bulk_RNA-seq]

Project description:Hepatocellular carcinoma (HCC) is an inflammation-associated cancer arising from viral and non-viral etiologies. Expansion of suppressive myeloid cells is a hallmark of chronic inflammation and cancer, but their heterogeneity in HCC is not fully resolved and might underlie immunotherapy resistance in the steatohepatitis setting. Here, we present a high resolution atlas of hepatic innate immune cells from patients with HCC that unravels a steatohepatitis contexture characterized by influx of inflammatory and immunosuppressive myeloid cells. A discrete myeloid cell population identified by selective expression of TREM1 and CD163 expands in steatohepatitis-HCC. We refer to this population as TREM1+ regulatory myeloid cells (Mreg), as it potently suppresses T cell effector functions, highly expresses TGFB1 and IL13RA1 and localizes to HCC fibrotic lesions.

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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC

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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [Spatial Transcriptomics]

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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [scRNA-seq]

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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [scRNA-seq]

Project description:Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [scRNA-seq]

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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [Spatial Transcriptomics]

Project description:Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC [Spatial Transcriptomics]

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Identification of TREM1+CD163+ myeloid cells as a deleterious immune subset in HCC

Project description:This SuperSeries is composed of the SubSeries listed below.

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CD16+ CD163+ monocytes traffic to sites of inflammation in NEC

Project description:Using suspension (CyTOF) and imaging (IMC) mass cytometry coupled with single cell RNA sequencing (scRNAseq) on intestinal mucosa, we demonstrated severe inflammation in patients with NEC. scRNAseq revealed that the CD163+CD16+ monocytes/Mf transcribe a large number of inflammatory genes including TREM1, IL1a and IL1b, IL8 and calprotectin. Gene set enrichment analysis identified pathways involved in chemotaxis and migration to be enriched in the clusters containing CD163+CD16+ monocytes/Mf, confirming our observations that they traffic from the periphery.

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Project description:To comprehensively characterize the impact of TREM1 deficiency specifically within the tumor myeloid populations, we selectively enriched the CD45+CD11b+ tumor-infiltrating myeloid cells from tumor-bearing Trem1+/+ and Trem1-/- mice for scRNA-seq analysis.

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