摘要
从GEO芯片数据集中挖掘与正常结肠组织具有表达差异且与肿瘤病理特征相关的结肠癌关键基因。在GEO数据库中获取并处理GSE41258和GSE39582芯片数据集,筛选差异表达基因,利用DAVID、STRING等数据分析工具对差异表达基因进行KEGG分析、GO分析以及蛋白质相互作用(PPI)网络构建。利用Cytoscape 3.9.1软件与UALCAN数据库筛选枢纽(Hub)基因,并分析其与结肠癌临床病理的相关性。从两个GEO数据集中共筛选出108个差异表达基因,其中上调基因36个、下调基因72个。KEGG分析和GO分析显示差异表达基因主要富集于类固醇激素生物合成、视黄醇代谢、胆汁分泌、IL-17信号通路、PPAR信号通路并参与细胞葡萄糖醛酸化、类固醇代谢、胶原分解代谢、视黄醇代谢等生物过程。最终筛选出排名前五的Hub基因,分别是SPP1、COL1A1、CXCL8、MMP1和FABP1,其中SPP1和COL1A1表达与结肠癌肿瘤分期呈正相关,FABP1、MMP1和CXCL8在结肠癌早期就表现出显著差异性。通过生物信息学分析发现,在5个结肠癌关键基因中,SPP1和COL1A1与结肠癌进展相关,FABP1、MMP1和CXCL8可成为潜在的结肠癌早期生物标志物。
Key genes in colon cancer that show differential expression compared to normal colon tissue and are associated with tumor pathological features are identified from GEO chip datasets.The chip datasets GSE41258 and GSE39582 obtained from the GEO database are processed to screen for differentially expressed genes.KEGG analysis,GO analysis,and protein-protein interaction(PPI)network construction on the differentially expressed genes are performed using the DAVID and STRING online websites.This paper uses Cytoscape 3.9.1 software and UALCAN database to screen hub genes and analyze their correlation with clinical pathology of colon cancer.108 differentially expressed genes were identified from two GEO datasets,including 36 up-regulated genes and 72 down-regulated genes.KEGG and GO analysis showed that differentially expressed genes were mainly enriched in steroid hormone biosynthesis,retinol metabolism,bile secretion,IL-17 signaling pathway,PPAR signaling pathway,and involved in cellular glycation,steroid metabolism,collagen degradation metabolism,retinol metabolism and other biological processes.The final selection of the top five Hub genes are SPP1,COL1A1,CXCL8,MMP1 and FABP1.Among them,the expression of SPP1 and COL1A1 is positively correlated with the tumor stage of colon cancer.FABP1,MMP1,and CXCL8 show significant difference in the early stage of colon cancer.Through bioinformatics analysis,it was found that SPP1 and COL1A1 are associated with the progression of colon cancer among 5 key genes,while FABP1,MMP1,and CXCL8 may become potential early biomarkers for colon cancer.
作者
景磊
胡晨曦
张思瑾
肖添源
肖晓雪
宋巍
JING Lei;HU Chen-xi;ZHANG Si-jin;XIAO Tian-yuan;XIAO Xiao-xue;SONG Wei(School of Life Science&Bioengineering,Henan University of Urban Construction,Pingdingshan 467036,China)
出处
《河南城建学院学报》
CAS
2023年第2期125-132,共8页
Journal of Henan University of Urban Construction
