R语言下食管鳞状细胞癌关键驱动基因富集分析的生物信息学研究

Bioinformatics Analysis of Key Driver Genes Enrichment in Esophageal Squamous Cell Carcinoma(ESCC)under R Language

目的本研究利用食管鳞状细胞癌(ESCC)相关微表达矩阵芯片数据,筛选出与ESCC发生、发展显著相关的关键通路及关键基因,并对关键基因所在的功能模块进行GO和KEGG富集分析、蛋白-蛋白相互作用分析以及关键基因在ESCC患者中的生存分析。方法从GEO数据库获得了GSE38129微表达矩阵芯片数据,利用R语言及其相关的软件包进行数据处理和差异表达分析,所有差异表达基因选取“FDR<0.05及logFC≥2或log2FC≤-2”为阈值。结果本研究筛选出51个上调基因和81个下调基因进行GO和KEGG富集分析,并将筛选出来的关键基因进行生存预后分析,表明PBK、VCAN、DLGAP5、ADAT2、TOP2A与ESCC生存期相关。结论利用生物信息学方法筛选出ESCC发生、发展过程中的关键基因和信号通路,为ESCC的诊疗提供潜在的候选靶点。

Objective ESCC microexpression matrix microarray data were used to screen the key pathways and key genes that are significantly related to the occurrence and development of ESCC,and the functional modules of key genes were analyzed by GO and KEGG enrichment analysis,protein-protein interaction analysis and survival analysis of key genes in patients with ESCC.Methods The data of GSE38129 micro-expression matrix were obtained from GEO database.The data processing and differential expression analysis are made by R language and its related software packages."FDR<0.05 and logFC≥2 or≤-2"for all differential expression were selected as the threshold.Results 51 up-regulated genes and 81 down-regulated genes were selected for GO and KEGG enrichment analysis.The survival prognosis of the selected key genes was analyzed,which showed that PBK,VCAN,DLGAP5,ADAT2,and TOP2A were related to the survival time of ESCC.Conclusion The key genes and signal pathways in the occurrence and development of esophageal squamous cell carcinoma could be screened by bioinformatics method,which provides a potential candidate target for the diagnosis and treatment of ESCC.