基于GEO芯片数据的肝癌特征基因生物信息学及预后分析  

Bioinformatics and Prognosis Analysis of Hepatocellular Carcinoma Based on GEO Chip Data

作　　者：武静桥 吴玉姝 范真玮 姚景丽 何敬文 陈婷[1] 赵微 骆紫冰 张东超[1] 金天明[1] WU Jing-qiao;WU Yu-shu;FAN Zhen-wei;YAO Jing-li;HE Jing-wen;CHEN Ting;ZHAO Wei;LUO Zi-bing;ZHANG Dong-chao;JIN Tian-ming(Tianjin Agricultural University,Tianjin Engineering Center of Pathogen Detection and Gene Vaccine Technology of Livestock and Poultry,Xiqing District,Tianjin 300380,China)

机构地区：[1]天津农学院天津市畜禽病原检测与基因疫苗技术工程中心,天津市西青区300380

出　　处：《动物医学进展》2022年第4期38-42,共5页Progress In Veterinary Medicine

基　　金：国家自然科学基金项目(31572492);天津市科技计划项目(高端兽药先进制造科技重大专项)(17ZXGSNC00030);天津市“兽医生物技术创新团队”资助项目(TD13-5091);天津市研究生科研创新重点项目(2019YJSS093)。

摘　　要：通过生物学信息方法筛选和分析肝癌组织与癌旁组织中的差异表达基因(DEGs),为肝癌早期预防、诊断以及治疗的靶点筛选提供参考。利用Rstudio中Limma包筛选出肝细胞癌(HCC)肝癌组织与癌旁组织的DEGs;Metascpape对DEGs进行GO功能富集和KEGG通路富集分析;STRING数据库构建PPI网络后,利用Cytoscape软件进行可视化并筛选关键基因,将筛选的关键基因利用GEPIA分析癌旁组织与肝癌组织中的基因表达及随肿瘤分期变化情况;Kalpan Meier-Plotter对关键基因的生存曲线进行分析;两芯片筛选出453个共有的DEGs,其中,上调基因149个,下调基因304个。上调DEGs主要富集在细胞分裂、细胞周期G1/S相变、细胞周期的正调控、DNA复制等生物过程;下调DEGs主要富集在一元羧酸代谢过程、有机酸分解过程、环氧酶P450途径、辅酶代谢过程等生物过程。通过对肝癌相关芯片数据的生物学信息分析发现,BUB1、AURKB、CDC20、CCNB1、CDCA8、CDK1、CCNB2、BUB1B、KIF2C等9个上调关键基因均与HCC预后不良相关,可能是肝癌发生发展的潜在靶点。Differentially expressed genes(DEGs) in hepatocellular carcinoma(HCC) tissues and adjacent tissues were screened and analyzed by biologicalinformatics method to provide references for the screening of targets for early prevention, diagnosis and treatment of HCC.The DEGs in HCC tissues and normal adjacent HCC tissues were screened by Limma package in Rstudio.The DEGs were enriched by GO function and KEGG pathway by metascpape.PPI network was constructed by STRING database, the key genes were visualized and screened by Cytoscape software.The gene expression and tumor staging of the selected key genes were analyzed by GEPIA,the survival curves of key genes were analyzed by Kalpan Meier-Plotter.A total of 453 common DEGs were screened by two chips, including 149 up regulated genes and 304 down regulated genes.The up-regulated DEGs are mainly concentrated in the process of DNA repair, cell cycle G1/S phase transition, positive regulation of cell cycle process, DNA replication.The down regulated DEGs are mainly concentrated in the process of monocarboxylic acid metabolic process, organic acid catabolic process, epoxygenase P450 pathway, coenzyme metabolic process.Through the analysis of biologicalinformatics of HCC related chip data, we found that the up-regulated key genes, such as BUB1,AURKB,CDC20,CCNB1,CDCA8,CDK1,CCNB2,BUB1 B,KIF2 C were associated with poor prognosis of HCC,and may be potential targets for the occurrence and development of HCC.

关 键 词：肝癌 生物信息学分析 基因本体论功能富集 京都基因与基因组百科全书通路富集 蛋白相互作用 

分 类 号：Q754[生物学—分子生物学]