基于TCGA数据库的肾嫌色细胞癌生物信息学分析

Bioinformatic analysis of genes related to chromophobe renal cell carcinoma based on TCGA database

目的基于TCGA数据库肾嫌色细胞癌基因表达谱数据,探讨肾嫌色细胞癌发生的关键基因。方法从癌症基因图谱(TCGA)数据库中提取及筛选肾嫌色细胞癌数据集,并利用R软件的edgeR算法对肾嫌色细胞癌的差异表达基因进行分析,随后对差异表达基因进行火山图绘制,并进一步结合DAVID和STRING在线生物信息学工具对差异表达基因进行调控网络分析并构建蛋白质-蛋白质相互作用(PPI)网络,采用Cytoscape软件进行Hub基因筛选,最终对挖掘到的关键基因进行生存分析。结果通过分析共挖掘肾嫌色细胞癌差异表达基因1850个,其中表达上调基因760个,表达下调基因1090个,对差异表达基因进行GO富集分析和KEGG通路富集分析,利用在线生物信息学工具构建PPI网络,使用Cytoscape软件获取PPI网络中前10位Hub基因,分别是KNG1、AGT、CASR、SST、AGTR2、PMCH、GNG4、DRD2、MCHR2、SSTR3。对上述Hub基因进行生存分析,发现仅有MCHR2与肾嫌色细胞癌的总生存率(OS)有显著相关性(P<0.05)。结论基于TCGA数据库挖掘肾嫌色细胞癌10个关键基因,将有助于深入了解肾嫌色细胞癌发生发展的过程,MCHR2有可能成为肾嫌色细胞癌潜在的治疗靶点及预后标志物。

Objective To explore the Hub genes related to renal chromophobe cell carcinoma(chRCC)based on TCGA database.Methods Dataset of chRCC was extracted and screened from TCGA database.The differentially expressed genes(DEGs)were analyzed with edgeR algorithm of R software.After that,the volcano map was drawn.The DAVID and STRING online bioinformatic tools were used to analyze and construct the protein-protein interaction(PPI)network.Hub genes were screened with Cytoscape software,and survival analysis was carried out.Results A total of 1850 DEGs were screened out,including 760 up-regulated genes and 1090 down-regulated genes.GO enrichment analysis,KEGG pathway enrichment analysis and PPI network analysis showed the top 10 Hub genes were KNG1,AGT,CASR,SST,AGTR2,PMCH,GNG4,DRD2,MCHR2 and SSTR3.Survival analysis revealed that only MCHR2 was significantly correlated with overall survival(OS)of chRCC(P<0.05).Conclusion Based on the TCGA database,mining of the 10 Hub genes of chRCC will help to understand the genesis and development.MCHR2 may become a potential therapeutic target and prognostic marker of chRCC.