应用生物信息学筛选肾透明细胞癌差异表达基因

摘要

Objective To analyze the microarray data to identify and validate target genes related to clear cell renal cell carcinoma(ccRCC).Methods A total of 23 normal renal samples and 32 ccRCC samples were obtained by the microarray data of GSE15641 from GEO.Then the original data and the differentially expressed genes (DEGs) were preprocessed and identified with R software,and analyzed with cluster analysis and functional enrichment analysis.After that,a protein-protein interaction (PPI) network was constructed to screen hub genes.Finally,the results were validated from the transcription level and survival analysis.Results A total of 1 203 DEGs including 660 up-regulated and 543 down-regulated genes could distinguish ccRCC from normal renal tissues.Bioinformatics analysis showed that small molecule metabolic processes and metabolic pathways were significantly enriched and PPI network identified 6 hub genes including PLG,ALB,MMP9,VEGFA,EGF and EGFR.The subsequent database validation indicated that transcriptional level of the 6 hub genes was significantly different,and PLG and MMP9 were associated with the prognosis of ccRCC.Conclusion Our study suggests that these hub genes may be helpful in revealing the molecular mechanisms of the development of ccRCC and may serve as new therapeutic targets and diagnostic targets of ccRCC.%目的 通过生物信息学分析方法对基因芯片数据进行分析,筛选肾透明细胞癌相关的靶基因并进行验证.方法 从GEO中下载编号为GSE15641的基因芯片,获得23例正常肾组织样本和32例肾透明细胞癌组织样本,使用R软件读取原始数据并预处理,分析差异表达基因(DEGs),然后对这些DEGs进行聚类分析和功能富集分析,构建了蛋白质相互作用网络,进一步从网络中筛选核心基因,最后从转录水平和预后来验证分析结果.结果 肾透明细胞癌组织和正常肾组织差异表达基因共1 203个,其中上调基因660个,下调基因543个,DEGs可以将肾癌和正常肾组织明显区分,随后的生物信息学分析表明,小分子代谢过程和代谢途径显著丰富.通过蛋白互作(PPI)网络筛选出PLG、ALB、MMP9、VEGFA、EGF、EGFR等6个核心基因,进一步数据库验证表明,这6个基因在肾透明细胞癌中的表达均有明显差异,且其中PLG和MMP9与患者预后相关.结论 筛选出的核心基因可能对肾透明细胞癌进展的分子机制的解释有一定帮助,并且可能用作肾透明细胞癌的治疗靶点和诊断靶标.