广州医药2024，Vol.55Issue(4)：350-359,10.DOI:10.3969/j.issn.1000-8535.2024.04.003
骨肉瘤和软组织肉瘤Hub基因的挖掘及其诊断和预后分析
Hub genes mining of osteosarcoma and soft tissue sarcoma and its diagnostic and prognostic analysis
摘要
Abstract
Objective To explore the Hub genes of osteosarcoma(OS)and soft tissue sarcoma(STS)and their potential roles,and to provide evidence for tumor diagnosis and prognosis.Methods The GSE16088 dataset and the GSE21122 dataset were screened in the Gene Expression Omnibus database of the National Center for Biotechnology Information in the United States.The online editing tool GEO2R was used to screen the DEGs of the GSE16088 dataset and the GSE21122 dataset and the Veen map was drawn to find the common DEGs of the GSE16088 dataset and the GSE21122 dataset.20 up-regulated and 20 down-regulated genes with the most significant differential expression were selected from 2 datasets,and heatmaps were drawn for each.The Database for Annotation,Visualization and Integrated Discovery was used to perform GO function enrichment analysis and KEGG pathway enrichment analysis on DEGs of GSE16088 dataset and GSE21122 dataset.PPI network of DEGs was constructed by STRING.PPI sub-modules and Hub genes with high connectivity were screened.Maximal clique centrality(MCC)score was used to select the Hub genes in the protein interaction network.The predictive value of 10 Hub genes in sarcoma patients was analyzed by receiver operating characteristic(ROC)curve.Survival analysis was performed by means of the Kaplan-Meier Plotter.The top five core genes were verified by real-time fluorescence quantitative PCR.Results A total of 5 210 genes were screened in GSE16088 dataset,including 1 028 and 4 182 genes with upregulated and downregulated expression.A total of 1 224 genes were selected from the GSE21122 dataset,including 451 and 773 genes with upregulated and downregulated expression.The cluster heatmap was used to show the top 20 DEGs with high and low expression in GSE16088 and GSE21122 datasets.By differential analysis of gene expression between the two datasets,498 co-DEGs were obtained.GO and KEGG enrichment showed that common DEGs were associated.Ten Hub genes were obtained by PPI and MCC algorithm,the ROC curve verification results were as expected.Survival analysis showed that 10 Hub genes were significantly associated with the prognosis of sarcoma(P＜0.05).The mRNA expression level of Hub genes was the same as the results of bioinformatics analysis(P＜0.05).Conclusions The 10 Hub genes can be used for the diagnosis and prognosis of osteosarcoma,and provide a new vision for subsequent immunotherapy.关键词
骨肉瘤/软组织肉瘤/差异表达基因Key words
osteosarcoma/soft-tissue sarcoma/differentially expressed genes引用本文复制引用
岳浩,刘飞飞,阮玉山,李绍波,任莉荣..骨肉瘤和软组织肉瘤Hub基因的挖掘及其诊断和预后分析[J].广州医药,2024,55(4):350-359,10.基金项目
大理大学第一附属医院博士科研启动项目(FY202001) （FY202001）
云南省地方本科高校基础研究联合专项面上项目(202101AO070314) （202101AO070314）
大理大学第一附属医院杰出中青年人才项目(DFYJC-202113) （DFYJC-202113）
云南省教育厅科学研究基金研究生项目(2023Y0981) （2023Y0981）
