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RNA-seq analysis of the gene expression profile of Huh7 cells upon incubation with different TGF-β-treated hepatic stellate cells (HSCs)-derived ectosomes

ABSTRACT: RNA-seq analysis of the gene expression profile of Huh7 cells upon incubation with different TGF-β-treated hepatic stellate cells (HSCs)-derived ectosomes

PROVIDER: PRJNA726435 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14368919_1.fastq.gz	Fastqsanger.gz
	SRR14368919_2.fastq.gz	Fastqsanger.gz
	SRR14368920_1.fastq.gz	Fastqsanger.gz
	SRR14368920_2.fastq.gz	Fastqsanger.gz
	SRR14368921_1.fastq.gz	Fastqsanger.gz

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RNA-seq analysis of the gene expression profile of Huh7 cells upon incubation with different TGF-β-treated hepatic stellate cells (HSCs)-derived ectosomes

Project description:Purpose: The goals of this study are to compare the gene expression profile of Huh7 cells treated with different ectosomes or not and to evaluate the function of ectosomal Hexokianse 1 (HK1) derived from HSCs. Methods: Firstly, we treated different LX-2 HSCs with TGF-β (2 ng/mL) for 36 hours to activate HSCs, then ectosomes from LX-2 or HK1-KD LX-2 culture medium were isolated respectively by differential centrifugation processes. Secendly, Huh7 cells were preincubated with different ectosomes or not for 12 hours and then fresh medium for another 12 hours. Lastly, different groups of Huh7 cells were prepared for RNA-seq. Results: By Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis of the differentially expressed genes, a total of 124 pathways were found to be enriched in the ectosome-incubated Huh7 cells compared with the control Huh7 cells, while a total of 36 pathways were enriched in the ectosome-incubated Huh7 cells compared with the HK1-KD ectosome-incubated Huh7 cells.Gene set enrichment analysis (GSEA) also revealed enrichment of the N-glycosylation pathway in the ectosome-incubated Huh7 cells compared with the control Huh7 cells. Conversely, this pathway was negatively regulated in Huh7 cells incubated with HK1-KD HSC-derived ectosomes Conclusion: the transferal of HSC-derived ectosomal HK1 into HCC cells regulates the N-glycosylation level of Huh7.

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Transcriptome profiling of L02 cells upon Huh7-cell-derived large extracellular vesicles incubation

Project description:Analysis of the transcriptome of L02 cells upon Huh7-cell-derived large extracellular vesicles (lEVs) incubation. L02 cells were incubated with or without lEVs (10 μg/ml) derived from control or ACSL4 knocking down (ACSL4 KD) Huh7 cells for 3 days, and the gene expression profiling analysis were then performed. The result provides a new perspective on the crosstalk between Huh7 cells and L02 cells via lEV-mediated ACSL4 transmission.

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Transcriptome profiling data of THP-1 cells upon Huh7 cell-derived ectosomes incubation

Project description:Analysis of the transcriptome of THP-1 cells upon Huh7 cell-derived ectosomes incubation. Monocytic THP-1 cells were incubated with or without ectosomes (10 mg/ml) derived from scramble sequence transfection (Scramble Ecto) or PKM2 knocking down (PKM2 KD Ecto) Huh7 cells for 24 h. Results provide a novel insight into monocyte differentiation.

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Transcriptional profiling of hepatic stellate cells (HSCs) isolated from Western diet/high fructose-fed C57BL6/J mice, carbon tretrachloride (CCl4)-treated C57BL6/J mice, and of murine HSCs differentiated in vitro

Project description:Hepatic stellate cells are involved in the development of hepatic fibrosis. We here perform transcriptional profiling of hepatic stellate cells (HSCs) isolated from Western diet/high fructose-fed C57BL6/J mice, carbon tretrachloride (CCl4)-treated C57BL6/J mice, and of murine HSCs differentiated in vitro. Specifically, gene expression profiles are obtained from hepatic stellate cells isolated from C57BL6 mice fed a Western Diet supplemented with high fructose for 12, 16 or 24 weeks or normal chow. From hepatic stellate cells isolated from C57BL6 mice treated CCl4 for 1, 4 or 8 weeks or treated with vehicle. From hepatic stellate cells isolated from healthy C57BL6 mice and seeded on normal plastic cell culture dishes for 1, 4, 8, or 12 days. And from hepatic stellate cells isolated from healthy C57BL6 mice and seeded on normal plastic cell culture dishes for 6 days in the presence of 10uM U0126 or DMSO.

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Project description:Hepatic stellate cells (HSCs) experience phenotypic transformation, from the quiescent phenotype to the activated one, after different etiologies of liver injury. Liver fibrosis is then occurred upon the activation of HSCs. miR-16 deficiency is identified to be an important characteristic of HSCs activation. We used Affymetrix rat 230 2.0 arrays (Affymetrix, Santa Clara, U.S.A.) to uncover the global alternations of transcriptome under miR-16 restoration. We isolated quiescent hepatic stellate cells (HSCs) from adult male SD rats (normal control group) by in situ perfusion and density-gradient centrifugation. Activated HSCs were separated from rats of fibrosis model group, which were treated by 40% carbon tetrachloride (CCl4) for 8 weeks, by means of liver section, digestion and sequential centrifugation. Quiescent and activated HSCs were then divided into 4 groups at random, namely quiescent HSCs, activated HSCs, pLV-miR-16-treated HSCs and pLV-GFP-treated HSCs. The pLV-miR-16-treated group, pLV-GFP-treated group were infected with pLV-miR-16 and pLV-GFP, respectively.

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Transcriptome profiling data of THP-1 cells upon Huh7 cell-derived ectosomes incubation

Project description:Transcriptome profiling data of THP-1 cells upon Huh7 cell-derived ectosomes incubation

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Transcriptome profiling of L02 cells upon Huh7-cell-derived large extracellular vesicles incubation

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