Unraveling the molecular mechanism of hyperlipidemia using integrated lncRNA and mRNA microarray data
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ABSTRACT: Long non-coding RNAs (lncRNAs) play key roles in various diseases; however, their functions in hyperlipidemia (HLP) are unclear. In the present study, microarray technology was utilized to analyze the differential expression of lncRNAs and mRNAs in liver tissues of HLP ApoE-/- mice and control mice. We identified 104 and 96 differentially expressed lncRNAs and mRNAs, respectively. Differentially expressed genes were significantly enriched in biological processes such as nitric oxide biosynthesis, innate immune response, and inflammatory response. Two pairs of target genes and 38 transcription factors with regulatory functions in HLP were predicted based on the lncRNA and mRNA co-expression network. The lncRNA expression profile changes significantly in liver tissues of HLP mice model, and can provide new targets for research and treatment.
Project description:In the study, patients with type 2 diabetes with obesity and hyperlipidemia were treated by traditional Chinese medicine Jiangtang Tiaozhi Prescription of 24 weeks, we chosed 6 effective cases, 6 invalid cases and 6 health people as control to analysis the molecular mechanism of TCM treatment. According to the research of LncRNA microarray, GO analysis, Pathway analysis, we found out the target LncRNAs, as well as their associated mRNAs were contribute to the good outcome of Jiangtang Tiaozhi Formula. Then we expand to 12 cases in each group for qPCR validation.
Project description:Huatan Jiangzhuo Decoction, a traditional Chinese medicine composition, has been used to treat patients with hyperlipidemia (HLP). To investigate the therapeutic mechanism of Huatan Jiangzhuo decoction(HTJZD) and Poria cocos (PC) - Alismatis Rhizoma (AR) on gene expression in liver of rats with HLP, this study performed gene expression profiling analysis using data obtained from RNA-seq technology. It’s predicted that the potential role of regulating the expression of differentially expressed genes in the treatment of HLP by HTJZD and PC-AR separately.
Project description:We performed a systemic study of the poloxamer P-407-induced chronic hyperlipidemia in C57BL/6J mice. Mice were treated 96 days every third day.The poloxamer mostly elevates plasma triglycerides and cholesterol while change of the liver cholesterol is not significant. Keywords: Disease model state analysis
Project description:Long noncoding RNAs (lncRNAs) play important roles in various biological processes; however, few have been identified that regulate hepatic stellate cells (HSCs) activation and the progression of liver fibrosis. To identify the possible roles of lncRNAs in regulating liver fiboris and the potential of lncRNAs as molecular markers for liver fiboris, we systematically analyzed the regulation of lncRNAs and mRNAs in a mouse model of carbon tetrachloride (CCl4)-induced liver fibrogenesis by microarray analysis, which revealed a panel of lncRNAs and mRNAs that were specifically regulated in livers of mice undergoing hepatic fibrosis. To identify the possible roles of lncRNAs in regulating liver fiboris and the potential of lncRNAs as molecular markers for liver fiboris,we determined the lncRNA and mRNA expression profiles in the livers of fibrotic mice and normal mice by lncRNA and mRNA microarrays.
Project description:Hyperlipidemia is accompanied by increased systemic inflammation. However, how hyperlipidemia affects T cell biology is still unclear. We aimed to detail the effects of hyperlipidemia on the T cell’s transcriptome, metabolome and lipidome. Low-density lipoprotein receptor-deficient (LDLR-/-) mice were subjected to a 0.15% high cholesterol diet (HCD), a normal chow diet (NCD) and T cells were analyzed. Hyperlipidemia induced an increase in CXCR3 on and IFN in CD4+ T cells, which was accompanied by transcriptomic changes in interleukin-mediated JAK/STAT signaling, interferon-γ signaling and a general pro-inflammatory immune response, suggesting that hyperlipidemia induces a Th1-like response. In these T cells, hyperlipidemia did not affect levels of metabolites involved in glycolysis or fatty acid oxidation, but enhanced amino acids levels. CD4+ T-cells of mice fed a HCD exhibited increased cellular cholesterol accumulation and an increased arachidonic acid (AA) to Docosahexaenoic acid (DHA) ratio, which was associated with T cell activation and IFN signaling. In vitro, T cell exposure to VLDL, but not LDL phenocopied these results. The effect of hyperlipidemia on T cell activation is reversible as transcriptional- and lipid profiles in LDLr-/ mice normalized 6 weeks after switching the HCD to NCD. In conclusion, hyperlipidemia induces a Th1-like response in CD4+ T cells, which is associated with an AA/DHA ratio in these cells. VLDL, but not LDL is the main lipid component driving hyperlipidemia induced T cell activation.
Project description:To explore the effect of hyperlipidemia on macrophages' innate immune response to Porphyromonas gingivalis invasion 12 samples, 3 replicates in 4 groups, with cells from hyperlipidemic ApoE deficient mice and nonhyperlipidemic C57BL/6 mice stimulate with or without P.gingivalis(Pg)
Project description:We performed a genome-wide analysis of lncRNA expression to identify novel targets for the further study of liver metastasis in CRC. Samples obtained from CRC patients were analyzed using Arraystar human 8Ã?60K lncRNA/mRNA v3.0 microarrays chips to find differentially expressed lncRNAs and mRNAs; The results were confirmed by quantitative reverse transcription-polymerase chain reaction (qRT-PCR). The differentially expressed lncRNAs and mRNAs were identified through fold-change filtering. Gene ontology (GO) and pathway analyses were performed using standard enrichment computational methods. Twelve primary CRC samples were obtained from six patients with CRC and liver metastasis (Exp G) and six patients with CRC without metastasis (Ctrl G).
Project description:Genome-wide expression analysis revealed that 3653 mRNAs and 465 putative lncRNAs were differentially expressed compared to transcripts isolated from livers of control sham operated mice. Analysis was done using the NCode Mouse Non-coding RNA Microarray (Invitrogen), which contains 25,179 coding featues and 10,802 noncoding features. To identify lncRNAs that regulate cell proliferation during liver regeneration, we analysed lncRNA expression profiles in mouse liver tissue collected at 4, 12, 36, and 72 hours after PHx, using Sham operated mouse livers as control. -------------------------- submitter cannot locate original raw data files
Project description:Hyperlipidemia (HLP), an insidious threat to human health in modern society, can deteriorate and lead to various other metabolic diseases. This study focuses on transcriptomic analysis of liver samples from C57BL/6 mice, which were divided into the following groups: control group (C), hyperlipidemia model group (M), and three groups treated with flavonoids from Rosa roxburghii—quercetin at 200 mg/kg (QU), myricetin at 75 mg/kg (MY), and kaempferol at 100 mg/kg (KA). Except for the control group, all other groups were maintained on a high-fat diet for 6 weeks. To investigate the commonalities among the three flavonoid components from Rosa roxburghii, differentially expressed genes (DEGs) between each treatment group and the model group were screened to identify common expression genes.