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        Analysis of the effect of Rhodopseudomonas palustris on the lead exposure rat model using 1H-NMR-based metabolomics of urine and plasma

        Chai Shutong,Zheng Ziyun,Liu Yani,Liang Yanhui,Yang Hong,Chen Jie,Bai Hongjuan,Yang Guan-e 대한독성 유전단백체 학회 2023 Molecular & cellular toxicology Vol.19 No.2

        Background Rhodopseudomonas palustris had the eff ect of adsorbing and removing lead ions. Metabolomics is a comprehensive analysis based on several metabolites or biomarkers. Objective The paper aimed to investigate the restorative eff ect and the potential mechanisms of R. palustris in rats with the lead exposure model using 1 H-NMR metabolomics. Results Nine endogenous metabolites from rat plasma and 13 endogenous metabolites from rat urine were identifi ed as potential biomarkers of the symptoms of lead poisoning. The changes of metabolites levels in the plasma included lower levels of valine, acetoacetate, and N-acetyl-glycoprotein and a higher concentration of lactate, acetate, creatine, threonine, glutamine, and asparagine in model group compared with control group. Furthermore, increased citrate, succinate, dimethylamine, pyruvate, acetoacetate, α -oxoglutarate and asparagine, accompanied by decreased LDL/VLDL, taurine, creatinine, glucose and hippurate levels were observed in the model group compared with the control group in the urine. Biochemical parameters and histopathology examination dovetailed well with the metabolomics data. Treatment with R. palustris at a certain degree returned the levels of these metabolites to normal levels. Plasma and urine metabolomic analysis showed changes associated with energy metabolism, amino acids and fatty acid metabolism of lead exposure rats. Conclusion The eff ects of removing lead ions of R. palustris in rats with lead exposure were confi rmed. This research demonstrated that 1 H-NMR-based metabolomics was a promising tool to identify potential biomarkers and unravel protective eff ect mechanisms of R. palustris in lead poisoning rats.

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        Identification of DNA methylation associated gene signatures in endometrial cancer via integrated analysis of DNA methylation and gene expression systematically

        Chuandi Men,Hongjuan Chai,Xumin Song,Yue Li,Huawen Du,Qing Ren 대한부인종양학회 2017 Journal of Gynecologic Oncology Vol.28 No.6

        Objective: Endometrial cancer (EC) is a common gynecologic cancer worldwide. However,the pathogenesis of EC has not been epigenetically elucidated. Here, this study aimsto describe the DNA methylation profile and identify favorable gene signatures highlyassociated with aberrant DNA methylation changes in EC. Methods: The data regarding DNA methylation and gene expression were downloaded fromThe Cancer Genome Atlas (TCGA) database. Differentially methylated CpG sites (DMCs),differentially methylated regions (DMRs), and differentially expressed genes (DEGs) wereidentified, and the relationship between the 2 omics was further analyzed. In addition,weighted CpG site co-methylation network (WCCN) was constructed followed by anintegrated analysis of DNA methylation and gene expression data. Results: Four hundred thirty-one tumor tissues and 46 tissues adjacent tumor of EC patientswere analyzed. One thousand one hundred thirty-five DMCs (merging to 10 DMRs), and1,488 DEGs were obtained between tumor and normal groups, respectively. One hundredforty-eight DMCs-DEGs correlated pairs and 13 regional DMCs-DEGs pairs were obtained. Interestingly, we found that some hub genes in 2 modules among 8 modules of WCCNanalysis were down-regulated in tumor samples. Furthermore, protocadherins (PCDHs)clusters, DDP6, TNXB, and ZNF154 were identified as novel deregulated genes with alteredmethylation in EC. Conclusion: Based on the analysis of DNA methylation in a systematic view, the potentiallong-range epigenetic silencing (LRES) composed of PCDHs was reported in ECs for the firsttime. PCDHs clusters, DDP6, and TNXB were firstly found to be associated with tumorigenesis,and may be novel candidate biomarkers for EC.

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