摘要
目的利用生物信息学方法筛选乳腺癌脑转移瘤差异表达的核心基因。方法从GEO数据库下载GSE125989数据集,运用GEO在线分析工具GEO2R分析数据集的差异基因。利用在线工具DAVID对差异表达基因进行GO功能注释和KEGG通路富集分析,将获得的差异表达基因数据输入STRING数据库并通过Rstudio进行可视化。利用Rstudio的CytoHubba插件筛选核心基因。利用Kaplan-Meier Plotter在线工具验证核心基因与总生存期的关系。结果经GEO2R工具筛选出22277个基因,进一步筛选集中获得差异表达基因74个,GO功能注释发现,差异表达基因主要在细胞外基质组织等方面显著富集;KEGG通路主要在蛋白质消化吸收等通路富集。通过CytoHubba插件以度筛选出PPI网络中排名前10位的差异表达基因为核心基因。生存分析显示DCN、ELN与患者总生存期具有显著的相关性。结论本研究共筛选出2个与乳腺癌脑转移预后相关的核心基因,分别为DCN、ELN。
Objective To screen the differentially expressed core genes in breast cancer brain metastases by bioinformatics.Methods The GSE125989 dataset was downloaded from Gene Expression Omnibus(GEO)database,and the differential genes of the dataset were analyzed by GEO2R,an online analysis tool of GEO.The online tool DAVID was used to perform GO functional annotation and KEGG pathway enrichment analysis for differentially expressed genes.The obtained differentially expressed gene data were input into Search Tool for Recurring Instances of Neighbouring Genes(STRING)database and visualized by Rstudio.The core genes were screened using CytoHubba plugin of Rstudio.Kaplan-Meier Plotter online tool was used to verify the relationship between core genes and overall survival.Results A total of 22277 genes were screened by GEO2R,and 74 differentially expressed genes were further selected.GO functional annotation showed that differentially expressed genes were significantly enriched in extracellular matrix tissues.The KEGG pathway was mainly enriched in protein digestion and absorption pathways.The top 10 differentially expressed genes in PPI network were selected as the core genes by CytoHubba plugin.Survival analysis showed that DCN and ELN were significantly correlated with overall survival.Conclusion In this study,two core genes related to the prognosis of breast cancer brain metastasis have been screened,namely DCN and ELN.
作者
吴双丽
徐敬宣
邢龙
WU Shuangli;XU Jingxuan;XING Long(Department of Neurology,Affiliated Hospital of Qingdao Binhai University,Qingdao,Shandong 266500,China;Department of Oncology,Affiliated Hospital of Qingdao Binhai University,Qingdao,Shandong 266500,China)
出处
《现代医药卫生》
2023年第18期3065-3069,共5页
Journal of Modern Medicine & Health
基金
山东省医药卫生科技发展计划项目(202203100054)
青岛西海岸新区2020年度科技惠民项目(2020-44)。
关键词
乳腺癌脑转移
差异表达基因
预后
生物信息学方法
Breast cancer brain metastases
Differential expressed gene
Prognosis
Bioinformatics method
作者简介
吴双丽(1988-),本科,主治医师,主要从事神经系统疾病的基础与临床研究;通信作者:邢龙,E-mail:xinglong0307@163.com。
