摘要
目的采用生物信息学方法分析脑胶质瘤组织与正常脑组织间的差异表达基因,并筛选脑胶质瘤发生发展的关键调控基因。方法选取GEO数据库中编号为GSE2223的脑胶质瘤表达谱芯片,利用R语言limma包筛选出芯片中脑胶质瘤与正常脑组织的差异表达基因。使用R语言的org.Hs.eg.db包对差异表达基因进行GO功能富集,利用DAVID 6.8(https://david.ncifcrf.gov/)在线分析网站对差异表达基因进行KEGG信号通路分析。为筛选肿瘤发生发展关键调控基因,将差异表达基因导入STRING(https://string-db.org/)网站,构建差异表达基因编码的蛋白间相互作用(PPI)网络图,根据蛋白间临近相互作用对计数,选取前20个差异表达基因,即为可能参与脑胶质瘤发生发展的关键调控基因。结果共筛选出107个差异表达基因,其中上调的基因48个、下调的基因59个。对差异表达基因的GO功能富集结果显示,差异表达基因在细胞组分上的改变主要表现在运输囊泡膜、神经远端轴突、神经轴突等结构上,分子功能变化主要集中在突触融合蛋白、钙调蛋白、磷脂酶结合蛋白等功能上;生物学过程体现在神经递质分泌、运输及释放、突触囊泡周期的调节等生物学过程上。KEGG信号通路分析结果显示,差异表达基因与肿瘤蛋白聚糖通路、催产素信号通路、胰岛素分泌通路等有关。PPI网络图中蛋白间相互作用对数前20的差异表达基因分别为CAMK2A、CPLX2、SYP、RAB3A、GABRA1、TYROBP、CAMK2B、NEFL、STXBP1、VSIG4、GAD2、RBFOX1、HPCAL4、NRGN、PNMAL2、CDK5R2、LGI3、ABCA1、COL4A2、ITPR1。结论与正常脑组织相比,脑胶质瘤组织中有107个差异表达基因;差异表达基因与神经元活动相关,参与介导肿瘤蛋白聚糖、催产素信号等通路;CAMK2A、CPLX2、SYP、RAB3A等20个差异表达基因可能为脑胶质瘤发生发展的关键调控基因。
Objective To analyze the differentially expressed genes in the brain glioma tissues and normal brain tissues by bioinformatics method,and to screen out the key regulatory genes in the occurrence and development of glioma.Methods The expression profile chip of glioma numbered GSE2223 in GEO database was selected,and the differentially expressed genes between glioma and normal brain tissues in the chip were screened out by the R-language LIMMA packet.Using R language org.Hs.Eg.Db package for GO function enrichment of differentially expressed genes,using DAVID6.8 web site(https://david.ncifcrf.gov/)online analysis for KEGG pathway analysis of differentially expressed genes.For screening the key regulatory genes in the occurrence and development of tumor,we imported the differentially expressed genes into STRING(https://string-db.org/)website,built the differentially expressed genes-encoded protein-protein interaction(PPI)network,and selected the first 20 differentially expressed genes according to the count of close interaction between proteins,which might be the key regulatory genes participating in the occurrence and development of glioma.Results A total of 107 differentially expressed genes were screened out,including 48 up-regulated genes and 59 down-regulated genes.The GO function enrichment results of differentially expressed genes showed that the changes in cell components of glioma were mainly manifested in transport vesicles,distal axons,axons and other structures,while the molecular function changes were mainly concentrated in the functions of synaptic fusion protein,calmodulin,phospholipase binding protein and so on,and the biological processes referred to the secretion,transport and release of neurotransmitter,and the regulation of synaptic vesicle cycle.KEGG signaling pathway analysis showed that the differentially expressed genes were related to tumor proteoglycan pathway,oxytocin signaling pathway and insulin secretion pathway.The first 20 differentially expressed genes in the PPI network were CAMK2 A
作者
郑诗豪
陈忠仪
黄绍崧
刘宇清
黄绳跃
ZHENG Shihao;CHEN Zhongyi;HUANG Shaosong;LIU Yuqing;HUANG Shengyue(Fujian Provincial Hospital,Fuzhou 350001,China)
出处
《山东医药》
CAS
2020年第21期6-9,共4页
Shandong Medical Journal
基金
福建省卫生健康委中青年骨干人才培养项目(2019-ZQN-8)
福建医科医科大学启航基金(2018QH1111)。
