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The tRNA-derived small RNAs (tsRNAs) expression profiles in human aortic vascular smooth muscle cells (HAVSMCs)

ABSTRACT: The tRNA-derived small RNAs (tsRNAs) expression profiles in human aortic vascular smooth muscle cells (HAVSMCs)

PROVIDER: PRJNA691152 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13401179.fastq.gz	Fastqsanger.gz
	SRR13401180.fastq.gz	Fastqsanger.gz
	SRR13401181.fastq.gz	Fastqsanger.gz
	SRR13401182.fastq.gz	Fastqsanger.gz
	SRR13401183.fastq.gz	Fastqsanger.gz

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The tRNA-derived small RNAs (tsRNAs) expression profiles in human aortic vascular smooth muscle cells (HAVSMCs)

Project description:Purpose: Next-generation sequencing (NGS) is the main way to mine ncRNA. The purpose of this study is to screen out tRNA-derived small RNAs (tsRNAs) that are differentially expressed in proliferative and quiescent HASMCs Methods: tsRNAs profiles of proliferative and quiescent HASMCs were generated by deep sequencing, in triplicate, using Illumina NextSeq 500. The sequence reads that passed Illumina chastity filter were used for the following analysis. Trimmed reads (with 5ʹ, 3ʹ-adaptor bases removed) were aligned to mature-tRNA and pre-tRNA reference sequences. The alignment statistical analysis was applied to retain the valid sequences for subsequent tsRNAs expression profiles and differential expression analysis. Results: Using an optimized data analysis workflow, we mapped about 8 million sequence reads per sample to mature-tRNA and pre-tRNA sequences from GtRNAdb and identified 3,891 tsRNAs in the proliferative and quiescent HASMCs. According to the standardized TPM, 887 up-regulated and 951 down-regulated tsRNAs were found in the proliferative HASMCs (fold change > 2, P < 0.05).

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The tRNA derived fragments (tRFs) expression profiles in human aortic smooth muscle cells (HASMCs)

Project description:To explore the potential involvement of tRNA derived fragments (tRFs) in the human aortic vascular smooth muscle cells (HASMCs), we conducted tRFs profiling in three pairs of differentiated HASMCs (treated with PBS) and dedifferentiated HASMCs (treated with PDGF-BB 50 ng/ml) by microarray. Our results showed that tRFs were aberrantly expressed in dedifferentiated HASMCs compared with differentiated HASMCs and provided potential targets for novel insights into VSMC differentiation or vascular remodeling diseases.

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single-cell ATAC-sequencing of human aortic media that was composed by vascular smooth muscle cells

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Microarray analysis reveals changes in tRNA-derived small RNAs (tsRNAs) expression in mice with septic cardiomyopathy

Project description:Our previous work has focused on the relationship between non-coding RNAs and sepsis, so we chose to use microarray analysis to investigate the relationship between septic cardiomyopathy and a novel class of small non-coding RNA - tRNA-derived small RNAs(tsRNAs). Meanwhile, tRNA-derived small RNA has been studied in many cardiovascular diseases, but the relationship between tsRNAs and septic cardiomyopathy has not been investigated. We sought to analyze changes of tsRNAs expression profile in septic cardiomyopathy and reveal an important role for tsRNAs.

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siRNA profiling of human aortic vascular smooth muscle cells knocked down for FoxM1

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