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Single-cell and bulk RNA sequencing of mouse atherosclerosis disease stage course [aorta_scRNA-Seq]

ABSTRACT: Single-cell and bulk RNA sequencing of mouse atherosclerosis disease stage course [aorta_scRNA-Seq]

PROVIDER: PRJNA848382 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19632447.fastq.gz	Fastqsanger.gz
	SRR19632448.fastq.gz	Fastqsanger.gz
	SRR19632449.fastq.gz	Fastqsanger.gz
	SRR19632450.fastq.gz	Fastqsanger.gz
	SRR19632451.fastq.gz	Fastqsanger.gz

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Single-cell and bulk RNA sequencing of mouse atherosclerosis disease stage course [aorta_scRNA-Seq]

Project description:Atherosclerotic coronary artery disease (CAD) development encompasses endothelial dysfunction, vascular infiltration of immune cells and smooth muscle cell dedifferentiation. However, the specific disease-associated transcriptional changes occurring within each of the major lesional cell types remain incompletely characterized. Here, we identify disease-associated cell states within the major aortic cell types and investigate the similarities and differences in their gene signatures compared to each other and to healthy (non-diseased) cells. By integrating human genetic association data and generating polygenic risk scores, we further use the atherosclerosis-associated cell state gene signatures to interrogate how the perturbed states of different lesional cell types contribute to the genetic risk for CAD.

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Single-cell and bulk RNA sequencing of mouse atherosclerosis disease stage course [TRAP-seq]

Project description:Atherosclerotic coronary artery disease (CAD) development encompasses changes in immune cell activation across different tissues, including vascular and metabolic tissues. However, the specific disease-associated transcriptional changes occurring within each of the tissue cell types remain incompletely characterized. Here, we combine an atherosclerosis mouse model with a mouse strain designed for translating ribosome affinity purification followed by RNA sequencing (TRAP-Seq). The mice express a fusion protein of EGFP and ribosomal protein L10a (EGFP-L10a) under the control of the macrophage-specific Csf1r (Cfms) promoter. Using EGFP as an affinity tag, this enables the enrichment of macrophage-specific ribosome-associated RNA from whole tissue lysates. Here, we profile the macrophage-enriched RNA fraction from aorta, liver and adipose tissue.

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Project description:Atherosclerotic coronary artery disease (CAD) development encompasses changes in immune cell activation across different tissues, including white adipose tissue (WAT). However, the specific disease-associated transcriptional changes occurring within each of the tissue cell types remain incompletely characterized. Here, we provide a scRNA-seq dataset allowing the characterization of disease-associated cell states within the major WAT cell types. For the myeloid cells, we further analyzed sub-populations and characterized their protein-coding and miRNA gene markers. By comparing to naive monocytes isolated from blood, we further used the tissue profiles to interrogate how the tissue infiltration changes the monocyte and dendritic cell transcriptome profiles.

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2025-07-18 | GSE254395 | GEO

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