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Whole body Knockout of PC-TP (Pctp-/-), Hepatic whole RNAseq comparing Wild Type (WT) and knock out mic (KO) as well as Chow Fed and Methionine and choline depleted (MCD) fed mice.

ABSTRACT: Whole body Knockout of PC-TP (Pctp-/-), Hepatic whole RNAseq comparing Wild Type (WT) and knock out mic (KO) as well as Chow Fed and Methionine and choline depleted (MCD) fed mice.

PROVIDER: PRJNA932836 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23374858_1.fastq.gz	Fastqsanger.gz
	SRR23374858_2.fastq.gz	Fastqsanger.gz
	SRR23374859_1.fastq.gz	Fastqsanger.gz
	SRR23374859_2.fastq.gz	Fastqsanger.gz
	SRR23374860_1.fastq.gz	Fastqsanger.gz

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Whole body Knockout of PC-TP (Pctp-/-), Hepatic whole RNAseq comparing Wild Type (WT) and knock out mic (KO) as well as Chow Fed and Methionine and choline depleted (MCD) fed mice.

Project description:Previous studies have used this model to show that PC-TP has a protective effect when challenged with a methionine and choline depleted diet, known to induce NAFLD. We performed transcription factor binding experiments and show that PPARs are dysregulated in the contect of PC-TP depletion We then performed gene expression profiling analysis using data obtained from RNA-seq of 3 Mice for WT and KO fed either normal chow or methionine and choline depleted chow.

2023-02-12 | GSE224877 | GEO

Effect of methionine-chorine-deficient diet (MCD) on whole gene expression in murine liver [mRNA]

Project description:It is known that administration of MCD induces a severe state of hepatic fibrosis in mice. To attempt to elucidate molecular mechanism of hepatic fibrosis, we performed whole transcriptome analysis by microarray using RNAs prepared from liver of wild-type mice fed with normal diet (ND) or MCD.

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Regulatory Role for PC-TP/StarD2 in the Metabolic Response to Peroxisome Proliferator Activated Receptor Alpha (PPARα)

Project description:Phosphatidylcholine transfer protein (PC-TP, a.k.a StarD2) is abundantly expressed in liver and is regulated by PPARα. When fed the synthetic PPARα ligand fenofibrate, Pctp-/- mice exhibited altered lipid and glucose homeostasis. Microarray profiling of liver from fenofibrate fed wild type and Pctp-/- mice revealed differential expression of a broad array of metabolic genes, as well as their regulatory transcription factors. Because its expression controlled the transcriptional activities of both PPARα and HNF4α in cell culture, the broader impact of PC-TP on nutrient metabolism is most likely secondary to its role in fatty acid metabolism. 6 livers collected from PC-TP knockout mice fed a fenobrate-supplemented diet were used as the experimental group. 6 livers collected from wild type mice fed a fenofibrate-supplemented diet were used as the control group. RNA prepared from one liver was used to hybridize one GeneChip, so that there were 6 experimental GeneChips and 6 control GeneChips.

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Effect of methionine-chorine-deficient diet (MCD) on microRNA expression in murine liver [miRNA]

Project description:It is known that administration of MCD induces a severe state of hepatic fibrosis in mice. Recently, many microRNAs (miRNAs) with pro- or anti-fibrotic properties have been identified during hepatic fibrosis. To attempt to elucidate molecular mechanism of hepatic fibrosis involved in miRNA fnction, we performed comprehensive analysis of miRNA expression by microarray using RNAs prepared from liver of wild-type mice fed with normal diet (ND) or MCD.

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Project description:The genomic analysis of liver from mice fed with standard or methyl and choline deficient (MCD) diet and treated with dual agonist of GLP1R/GCGR during two weeks before 70% partial hepatectomy (PH) and after 2 weeks PH resulted in a set of genes regulated by diet and other set regulated differentially by treatment in MCD treated animals. These genes are apparently responsible for the reversion and prevention of NAS and improvement in hepatic regeneration induced by drug treatment All microarray analyses were performed with RNA samples obtained from four independent liver from animals with different diet and drug treatmens.

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Effect of sarsasapogenin (SAR) on non-alcoholic fatty liver disease in mice fed with methionine choline deficiency (MCD) diet

Project description:Effect of sarsasapogenin (SAR) on non-alcoholic fatty liver disease in mice fed with methionine choline deficiency (MCD) diet

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Title: RNA-seq analysis of mRNA profiles in the livers of HuR flox/flox and hepatocyte-specific HuR knockout (HKO) mice fed with an MCD for 3 weeks.

Project description:ionPurpose: The goal of this study is to investigate how HuR regulates NASH progression. Methods: The hepatic mRNA profiles of HuR flox/flox and hepatocyte-specific HuR knockout (HKO) mice (n=3 for each group) fed with an MCD for 3 weeks were generated by deep sequencing using an Illumina Novaseq platform. Paired-end clean reads were aligned to the mouse reference genome(Ensemble_GRCm38.p6) with TopHat (version 2.0.12), and the aligned reads were used to quantify mRNA expression by using HTSeq-count (version 0.6.1). Conclusion: Our study represents the first detailed analysis of hepatic mRNA profiles in HuR flox/flox and hepatocyte-specific HuR knockout (HKO) mice fed with an MCD for 3 weeks, generated by RNA-seq technology. Our results show that 353 genes were upregulated and 422 genes were downregulated. Gene Ontology (GO) analysis showed that genes related to leukocyte migration, leukocyte chemotaxis, cell chemotaxis, neutrophil migration and Fc receptor signaling pathway were significantly decreased, which contributes to the protective effects of NASH progression in HKO mice.

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