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Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling [ChIP]

ABSTRACT: Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling [ChIP]

PROVIDER: PRJNA898254 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22188682_1.fastq.gz	Fastqsanger.gz
	SRR22188682_2.fastq.gz	Fastqsanger.gz
	SRR22188683_1.fastq.gz	Fastqsanger.gz
	SRR22188683_2.fastq.gz	Fastqsanger.gz
	SRR22188684_1.fastq.gz	Fastqsanger.gz

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Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling [RNA]

Project description:Rationale: Reperfusion therapy is critical to myocardial salvage in the event of a myocardial infarction, but is complicated by ischemia-reperfusion injury (IRI). Limited understanding of the spatial organization of cardiac cells, which governs cellular interaction and function, has hindered the search for targeted intervention minimizing the deleterious effects of IRI. Methods: We used imaging mass cytometry (IMC) to characterize the spatial distribution and dynamics of cell phenotypes and communities in the mouse left ventricle following IRI. Heart sections were collected from 12 cardiac segments (basal, mid-cavity, apical and apex of the anterior, lateral and inferior wall) and 8 time points (prior to ischemia (I-0h, and post reperfusion (R-0h, -2h, -6h, -12h, -1d, -3d, -7d)), and stained with 29 metal-isotope-tagged antibodies. Cell community analysis was performed on reconstructed images, and the most disease-relevant cell type and target protein was selected for intervention of IRI. Results: We obtained a total of 251 multiplexed images, and identified 197,063 single cells, which were grouped into 23 distinct cell communities based on the structure of cellular neighborhoods. The cellular architecture was heterogeneous throughout the ventricular wall, and exhibited swift changes following IRI. Analysis of proteins with post-translational modifications (PTMs) in single cells unveiled 13 PTM intensity clusters, and highlighted increased H3K9me3 as a key regulatory response in endothelial cells during the middle stage of IRI. Erasing H3K9 methylation, by silencing its methyltransferase Suv39h1 or overexpressing its demethylase Kdm4d, in isolated endothelial cells (EC) attenuated cardiac dysfunction and pathological remodeling, compared to PBS and unmodified EC control, when injected into the infarcted area of the myocardium.

2023-11-30 | GSE217241 | GEO

Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling [ChIP]

2023-11-30 | GSE217240 | GEO

Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling

Project description:Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling

| PRJNA898251 | ENA

Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling [RNA]

Project description:Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling [RNA]

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Vitamin B12 alleviates myocardial ischemia/reperfusion injury

Project description:To examine the protective effect of B12 on myocardial ischemia/reperfusion injury and figure out the mechanism of B12.

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LncRNA and mRNA profiling of the ischemia zone, the border zone and the remote non-ischemia zone of murine myocardial ischemia/reperfusion (MI/R) hearts

Project description:Purpose：Detection of differentially expressed lncRNA in the infarct zone and the control group in myocardial ischemia-reperfusion injury model tissue. Method: Use 8 weeks of C57BL/6 mice to establish a myocardial ischemia-reperfusion injury model, 45 minutes of ischemia, and 24 hours after reperfusion, the mice were sacrificed to obtain materials. Result: The expression of lncRNAs in the infarct area of myocardial ischemia-reperfusion injury model mice was detected, and it was found that a total of 43 lncRNAs related to myocardial ischemia-reperfusion injury changed in expression, of which 17 were up-regulated (fold change >1.5). 26 expressions are down-regulated (fold change <0.8)

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Single-cell reconstruction of molecular architecture in myocardial ischemia-reperfusion injury by multiplexed in situ protein profiling

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

2023-11-30 | GSE217242 | GEO

RNA sequencing of miRNA in plasma from myocardial ischemia and reperfusion mice and sham mice

Project description:Purpose: The aim of this study is to compare the plasma miRNA profile between mice subject to myocardial ischemia and reperfusion and mice subject to sham operation. Methods: 8 to 10-week old C57BL/6 mice underwent myocardial ischemia and reperfusion (MIR) or Sham operation. Plasma RNA was isolated using Trizol LS reagent 4h post-surgery. NGS cDNA libraries were prepared using Norgen Biotek Small RNA Library Prep Kit. Library quality was validated prior to sequencing on an Illumina NextSeq 500 platform.

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Differential expression of mRNAs in the heart of ischemia-reperfusion mice

Project description:To identify the role of mRNA during myocardial ischemia-reperfusion in mice, we have employed high-throughput sequencing to detect mRNA expression. Samples were collected from the control group and the ischemia reperfusion groups , with 5 samples per group. The candidate mRNA that may affect the process of myocardial ischemia-reperfusion was screened by comparing the ischemia-reperfusion group and the control group.

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