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MicroRNA expression in bronchoalveolar lavage fluid from mechanically ventilated patients with cardiogenic shock

ABSTRACT: microRNA expression in bronchoalveolar lavage fluid from mechanically ventilated patients with cardiogenic shock

PROVIDER: PRJNA811979 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18191673.fastq.gz	Fastqsanger.gz
	SRR18191674.fastq.gz	Fastqsanger.gz
	SRR18191675.fastq.gz	Fastqsanger.gz
	SRR18191676.fastq.gz	Fastqsanger.gz
	SRR18191677.fastq.gz	Fastqsanger.gz

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microRNA expression in bronchoalveolar lavage fluid from mechanically ventilated patients with cardiogenic shock

Project description:Rationale: Overstretching of lung parenchyma may lead to tissue injury, especially during mechanical ventilation. There are no specific biomarkers of lung stretch. Objectives: To identify transcriptomic signatures of micro-RNAs and genes specifically related to lung stretch and validate them in preclinical models. Methods: Data on micro-RNA expression in response to stretch in experimental models were systematically pooled. Signatures were identified as those micro-RNAs or genes with differential expression in samples from stretched cells, and optimized using a greedy algorithm. Transcriptomic scores were calculated as the difference of geometric means in expression of up- and down-regulated features, and compared among different magnitudes of stretch. The accuracy of these scores was validated in animal models of lung injury, ex vivo mechanically ventilated human lungs and in bronchoalveolar lavage fluid (BALF) from patients under different ventilatory conditions. Measurements and main results: Eight micro-RNAs were differentially expressed in stretched cell cultures (n=24). Amongst the genes regulated by these micro-RNAs, a 180-gene signature was identified in ex vivo models (n=106) and refined using data from animal models (n=143) to obtain a 4-gene signature. The corresponding scores were significantly higher in samples submitted to stretch or injurious mechanical ventilation. The microRNA signatures were validated in human tissue and BALF, with areas under the ROC curve between 0.89 and 1 respectively to identify lung overdistention. Conclusions: Lung cell stretch induces the expression of specific micro-RNA and genes. These signatures may be used to obtain an index of lung overstretching that can be measured at the bedside.

2025-05-01 | GSE197752 | GEO

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3d734370-7e08-44c9-b8ca-ba0c29c086e7 - samples

Project description:Single-cell RNA sequencing of 43 bronchoalveolar lavage fluid (BALF) samples from 15 CAPA and 22 COVID-19 mechanically ventilated patients.

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Project description:Establish a pipeline for identifying bacterial peptides from human bronchoalveolar lavage fluid samples.

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Transcription profiling of bronchoalveolar lavage cells from AJ mice treated with urethane vs. controls

Project description:AJ mouse is susceptible to lung carcinogenesis from urethane treatment and is a good model for human adenocarcinoma. We completed a study using microarray analysis of bronchoalveolar lavage cells from control or urethane treated mice. A unique macrophage expression signature in the lung tumor microenvironment was able to correctly classify the lavage samples. Experiment Overall Design: RNA from bronchoalveolar lavage cells of age matched untreated AJ mice controls (C) or from urethane treated (T) AJ mice was prepared. Datasets were accurately classified using a unique macrophage gene expression signature derived from the tumor microenvironment.

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