Construction of Potential Gene Expression and Regulation Networks in Prostate Cancer Using Bioinformatics Tools.
Construction of Potential Gene Expression and Regulation Networks in Prostate Cancer Using Bioinformatics Tools.
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DOI：
10.1155/2021/8846951
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发表时间：
2021
影响因子：
--
通讯作者：
Xia W
中科院分区：
文献类型：
--
作者：
Liu H;Li L;Fan Y;Lu Y;Zhu C;Xia W
确定与前列腺癌有关的关键基因及其调控网络。从癌症基因组图谱/基因表达总览数据库下载用于分析的mRNA/miRNA转录组测序数据集。使用R环境中的“Edger”程序包对差异表达基因(Degs)和miRNAs(DEmiRNAs)进行归一化和分析。首先，使用Panther在线工具对DEGS的功能丰富进行分析。然后，使用字符串和细胞景观工具构建蛋白质-蛋白质相互作用(PPI)网络。最后，利用miRTarBase构建了miRNA基因调控网络。我们发现了4339个重要的基因，其中2145个上调(上调)，2194个下调(下调)。功能富集分析表明，上调与前列腺癌的免疫系统和细胞周期有关，下调与核酸代谢过程和代谢途径有关。在PPI网络中发现了12个核心蛋白质簇。此外，构建的miRNA-基因相互作用网络显示，11个下调的miRNAs上调了16个，22个上调的miRNAs调控了22个下调。我们确定了4339个基因和70个miRNAs，这些基因和miRNAs可能参与前列腺癌调控网络的免疫反应、细胞周期和其他关键途径。BUB1B、ANX1A1、F5、HTR4、MUC4等基因可作为前列腺癌的生物标志物，辅助前列腺癌的诊断和预后。
To identify the key genes involved in prostate cancer and their regulatory network. The dataset of mRNA/miRNA transcriptome sequencing was downloaded from The Cancer Genome Atlas/the Gene Expression Omnibus database for analysis. The “edgeR” package in the R environment was used to normalize and analyze differentially expressed genes (DEGs) and miRNAs (DEmiRNAs). First, the PANTHER online tool was used to analyze the function enrichment of DEGs. Next, a protein-protein interaction (PPI) network was constructed using STRING and Cytoscape tools. Finally, miRNA-gene regulatory networks were constructed using the miRTarBase. We identified 4339 important DEGs, of which 2145 were upregulated (Up-DEGs) and 2194 were downregulated (Down-DEGs). Functional enrichment analysis showed that the Up-DEGs were related to the immune system and the cell cycle in prostate cancer, whereas the Down-DEGs were related to the nucleic acid metabolic process and metabolism pathways. Twelve core protein clusters were found in the PPI network. Further, the constructed miRNA-gene interaction network showed that 11 downregulated miRNAs regulated 16 Up-DEGs and 22 upregulated miRNAs regulated 22 Down-DEGs. We identified 4339 genes and 70 miRNAs that may be involved in immune response, cell cycle, and other key pathways of the prostate cancer regulatory network. Genes such as BUB1B, ANX1A1, F5, HTR4, and MUC4 can be used as biomarkers to assist in the diagnosis and prognosis of prostate cancer.
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影响因子：
82.9
作者：
Chen, CD;Welsbie, DS;Sawyers, CL
通讯作者：
Sawyers, CL
影响因子：
--
作者：
Dai J;Lu Y;Roca H;Keller JM;Zhang J;McCauley LK;Keller ET
通讯作者：
Keller ET
影响因子：
14.9
作者：
Karagkouni D;Paraskevopoulou MD;Chatzopoulos S;Vlachos IS;Tastsoglou S;Kanellos I;Papadimitriou D;Kavakiotis I;Maniou S;Skoufos G;Vergoulis T;Dalamagas T;Hatzigeorgiou AG
通讯作者：
Hatzigeorgiou AG
影响因子：
6.4
作者：
Patton, KT;Chen, HM;Yang, XJ
通讯作者：
Yang, XJ
影响因子：
3.8
作者：
Rajan P;Stockley J;Sudbery IM;Fleming JT;Hedley A;Kalna G;Sims D;Ponting CP;Heger A;Robson CN;McMenemin RM;Pedley ID;Leung HY
通讯作者：
Leung HY