基于GEO芯片数据的肝癌关键生物标志物的筛选与鉴定及生物信息学分析  

Screening,Identification and Bioinformatics Analysis of Key Biomarkers for Hepatocellular Carcinoma Based on GEO Chip Data

作　　者：张鑫浩 张涛元 李俏 祝撷英[2] 曹三成 吴爽[2] ZHANG Xin-hao;ZHANG Tao-yuan;LI Qiao;ZHU Xie-ying;CAO San-cheng;WU Shuang(Rizhao International Heart Hospital,Shandong Rizhao 276800,China;the Affiliated Children Hospital of Xi’an Jiaotong University,Xi’an 710003,China)

机构地区：[1]日照心脏病医院,山东日照276800 [2]西安交通大学附属儿童医院,西安710003

出　　处：《现代检验医学杂志》2020年第4期26-31,共6页Journal of Modern Laboratory Medicine

基　　金：陕西省社会发展科技攻关项目(NO.2016SF-036);西安交通大学基本科研业务费自由探索与创新-教师类项目(NO.XZY012019129)。

摘　　要：目的基于生物信息学分析方法,获取与正常肝组织具有表达差异、且与肝癌患者生存、病理参数密切相关的肝癌基因。方法通过GEO数据库获取三组肝癌芯片表达谱,利用GEO2R鉴定肝癌组织与正常肝组织具有表达差异的基因;应用DAVID数据库,富集差异表达基因;使用STRING数据库及Scytoscape软件,构建核心差异基因的蛋白质互作网络(protein-protein interaction,PPI),并通过UCSC Cancer Genomics Browser网站在TCGA数据库中验证关键差异基因在肝癌中的表达情况;基于Kaplan Meier-Plotter及UALCAN在线分析工具,挖掘关键基因在肝癌组织中的mRNA表达与临床病理参数的关系。结果从三个芯片数据集中鉴定出74个共同差异表达基因;这些基因显著富集在细胞外小体、细胞外间隙、氧化还原等生物过程;PPI网络分析共聚焦到15个基因,其中8个基因与肝癌患者的总生存率相关,5个基因与肝癌的分级、分期相关。结论ANLN,ECT2,HMMR,KIF20A,NCAPG,PBK,RACGAP1和ZWINT等基因可作为肝癌诊断和治疗的候选靶点,为临床诊治提供新的思路。Objective To screen and identify key biomarkers of Hepatocellular carcinoma(HCC)using bioinformatics technology and GEO chip data.Methods The expression profiles of three sets of liver cancer chips were obtained through GEO database,and the genes with different expression between liver cancer tissues and normal liver tissues were identified by GEO2R.The DAVID database was used for enrichment analysis of differential genes.STRING database and Scytoscape software were used to construct protein-protein interaction(PPI)to obtain core differential genes,and the expression of key differential genes in liver cancer was verified in TCGA database through UCSC Cancer Genomics Browser website.Based on kaplan-meyplotter and UALCAN online analysis tools,the relationship between mRNA expression of key genes in liver cancer tissues and clinicopathological parameters was explored.Results 74 common differentially expressed genes were identified from the three microarray data sets.These genes were significantly enriched in extracellular bodies,extracellular interstitium,REDOX and other biological processes.The PPI network analysis focused on 15 genes,among which 8 genes were related to the overall survival rate of liver cancer patients and 5 genes were related to the grade and stage of liver cancer.Conclusion ANLN,ECT2,HMMR,KIF20A,NCAPG,PBK,RACGAP1,ZWINT and other genes can be used as candidate targets for the diagnosis and treatment of hepatocellular carcinoma,providing new ideas for clinical diagnosis and treatment.

关 键 词：肝癌 差异表达基因 生物信息学分析 

分 类 号：R735.7[医药卫生—肿瘤] R730.43[医药卫生—临床医学]