Wei Liang, Wang Qi, Zhang Yanfei, Yang Cheng, Guan Hongxin, Jiang Jianxin, Sun Zhiyang
Department of Neurosurgery, East Hospital, Tongji University School of Medicine, Shanghai 200120, P.R. China.
Oncol Lett. 2018 Apr;15(4):4951-4957. doi: 10.3892/ol.2018.7935. Epub 2018 Feb 2.
Intracranial aneurysm (IA) is a localized dilation of the blood vessel. The present study was designed to explore the mechanisms of rupture of IA. GSE13353 (including 11 ruptured and 8 unruptured IA samples) and GSE15629 (including 8 ruptured and 6 unruptured IA samples) were downloaded from the Gene Expression Omnibus database. The differentially expressed genes (DEGs) identified using limma and MetaDE packages were merged, and a protein-protein interaction (PPI) network analysis was performed using Cytoscape software. Pathway enrichment analysis was performed for the nodes of the PPI network using the fisher algorithm. The 100 most prominent genes in the network were designated candidate genes and a hierarchical clustering analysis was performed. The tune.svm function of e1071 package was used to construct a support vector machine (SVM) classifier, and the Candidate Cancer Gene Database was applied to analyze the characterization of gene-associated cancer. Furthermore, the genes involved in the SVM classifier were assessed via principal component analysis (PCA). In the ruptured samples, 1,292 DEGs and 1,029 DEGs separately were identified by limma and MetaDE packages. The 100 most prominent genes in the network included fibronectin 1 (FN1), amyloid β (A4) precursor protein (APP), nuclear RNA export factor 1 (NXF1) and signal transducer and activator of transcription 3 (STAT3). Pathway enrichment analysis identified that toll-like receptor 3 (TLR3) was enriched in the Toll-like receptor signaling pathway. A total of 15 genes (including FN1) were used to construct the SVM classifier. NXF1 was identified to be associated with Nervous System Cancer. PCA revealed that APP, NXF1 and STAT3 were the 3 principal components. TLR3, FN1, APP, NXF1 and STAT3 may affect the rupture of IA.
颅内动脉瘤（IA）是血管的局限性扩张。本研究旨在探讨IA破裂的机制。从基因表达综合数据库下载了GSE13353（包括11个破裂的和8个未破裂的IA样本）和GSE15629（包括8个破裂的和6个未破裂的IA样本）。使用limma和MetaDE软件包鉴定出的差异表达基因（DEG）进行合并，并使用Cytoscape软件进行蛋白质-蛋白质相互作用（PPI）网络分析。使用fisher算法对PPI网络的节点进行通路富集分析。将网络中最突出的100个基因指定为候选基因，并进行层次聚类分析。使用e1071软件包的tune.svm函数构建支持向量机（SVM）分类器，并应用候选癌症基因数据库分析基因相关癌症的特征。此外，通过主成分分析（PCA）评估SVM分类器中涉及的基因。在破裂样本中，limma和MetaDE软件包分别鉴定出1292个和1029个DEG。网络中最突出的100个基因包括纤连蛋白1（FN1）、淀粉样β（A4）前体蛋白（APP）、核RNA输出因子1（NXF1）和信号转导子和转录激活子3（STAT3）。通路富集分析确定Toll样受体3（TLR3）在Toll样受体信号通路中富集。总共15个基因（包括FN1）用于构建SVM分类器。NXF1被确定与神经系统癌症相关。PCA显示APP、NXF1和STAT3是3个主要成分。TLR3、FN1、APP、NXF1和STAT3可能影响IA的破裂。
