Identification of MicroRNAs and target genes involvement in hepatocellular carcinoma with microarray data.

Hepato-gastroenterology Pub Date : 2015-03-01
Dadong Wang, Jingwang Tan, Yong Xu, Xianglong Tan, Mingming Han, Yuliang Tu, Ziman Zhu, Jianping Zen, Chunqing Dou, Shouwang Cai
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引用次数: 0

Abstract

The aim of the study is to identify the differentially expressed microRNAs (miRNAs) between hepatocellular carcinoma (HCC) samples and controls and provide new diagnostic potential miRNAs for HCC. The miRNAs expression profile data GSE20077 included 7 HCC samples, 1 HeLa sample and 3 controls. Differentially expressed miRNAs (DE-miRNAs) were identified by t-test and wilcox test. The miRNA with significantly differential expression was chosen for further analysis. Target genes for this miRNA were selected using TargetScan and miRbase database. STRING software was applied to construct the target genes interaction network and topology analysis was carried out to identify the hub gene in the network. And we identified the mechanism for affecting miRNA function. A total of 54 differentially expressed miRNAs were identified, in which there were 13 miRNAs published to be related to HCC. The differentially expressed hsa-miR-106b was chosen for further analysis and PTPRT (Receptor-type tyrosine-protein phosphatase T) was its potential target gene. The target genes interaction network was constructed among 33 genes, in which PTPRT was the hub gene. We got the conclusion that the differentially expressed hsa-miR-106b may play an important role in the development of HCC by regulating the expression of its potential target gene PT-PRT.

用微阵列数据鉴定参与肝癌的microrna和靶基因。
本研究的目的是鉴定肝细胞癌(HCC)样本和对照组之间差异表达的microRNAs (miRNAs),并为HCC提供新的潜在诊断miRNAs。miRNAs表达谱数据GSE20077包括7个HCC样本,1个HeLa样本和3个对照组。差异表达miRNAs (DE-miRNAs)通过t检验和wilcox检验鉴定。选择表达差异显著的miRNA进行进一步分析。利用TargetScan和miRbase数据库选择该miRNA的靶基因。利用STRING软件构建目标基因互作网络,并进行拓扑分析,确定网络中的枢纽基因。我们确定了影响miRNA功能的机制。共鉴定出54个差异表达的mirna,其中有13个已发表的mirna与HCC相关。选择差异表达的hsa-miR-106b进行进一步分析,PTPRT(受体型酪氨酸蛋白磷酸酶T)是其潜在的靶基因。构建了以PTPRT为枢纽基因的33个靶基因互作网络。我们得出结论,差异表达的hsa-miR-106b可能通过调节其潜在靶基因PT-PRT的表达,在HCC的发生发展中发挥重要作用。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Hepato-gastroenterology
Hepato-gastroenterology 医学-外科
自引率
0.00%
发文量
1
审稿时长
1.9 months
期刊介绍: Hepato-Gastroenterology has been discontinued as of 2015. Extremely limited quantities of back issues in print available for sale.
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