摘要
目的利用生物信息学方法综合分析癫痫相关基因,从网络和通路的角度探讨其主要功能,并提取疾病关键基因。方法通过OMIM、DisGeNET、GeneCards数据库以及文献检索收集癫痫相关基因,利用“ClusterProfiler”R包进行基因本体论(GO)和通路富集分析,通过通路串话分析识别通路之间的关联;将癫痫相关基因映射到人类蛋白质互作网络(PPIN),获得癫痫特异性蛋白互作网络,基于网络拓扑学提取疾病关键基因和潜在基因。结果收集获得572个癫痫相关基因,富集分析获得642条显著GO生物学过程条目和80条京都基因和基因组数据库(KEGG)通路,涉及学习、记忆和认知等过程;通过PPIN,提取获得10个疾病关键基因,大部分为γ–氨基丁酸(GABA)受体基因;整合PPIN和加权基因共表达网络分析(WGCNA),提取获得17个疾病潜在基因,涉及热休克蛋白、生长因子受体结合蛋白等。结论癫痫的发生是一个复杂的过程,涉及多个功能基因的异常,基因间通过紧密联系调控多个生物学过程及通路,通路间彼此交叉,共同导致疾病的发生。
Objective Comprehensively analyzing the epilepsy-related genes by bioinformatics methods,and to explore their functions based on network and pathway analysis.Methods I Collected epilepsy-related genes through OMIM,DisGeNET,GeneCards databases and literatures deposited in PUBMED.Performed gene ontology(GO)and pathway enrichment analysis using"ClusterProfiler"R package,and the correlation between pathways was identified through pathway crosstalk analysis.Epilepsy-related genes were then mapped to human protein-protein interaction network(PPIN)to obtain epilepsy-specific PPIN,and extracted the hub and potential genes based on network topology.Results A total of 572 epilepsy-related genes were collected,642 significant GO biological process items and 80 Kyoto Encyclopedia of Genes and Genomes(KEGG)pathways,including learning,memory and cognition,were obtained by enrichment analysis.Based on PPIN analysis,10 hub genes of the epilepsy were extracted and most of them are gamma-aminobutyric acid(GABA)receptor genes.By integrating PPIN and WGCNA analysis,17 potential genes were extracted,involving heat shock protein,growth factor receptor binding protein,etc.Conclusion Epilepsy is a complex process,involving the abnormality of multiple functional genes,multiple biological processes and pathways are closely contact through multiple functional genes,and collectively lead to the occurrence of epilepsy.
作者
郭盼
张殊悦
王学韬
蔡春泉
Guo Pan;Zhang Shuyue;Wang Xuetao;Cai Chunquan(Tianjin Pediatric Research Institute,Tianjin Key Laboratory of Birth Defects for Prevention and Treatment,Tianjin Children’s Hospital(Children’s Hospital of Tianjin University),Tianjin 300134,China)
出处
《航天医学与医学工程》
CAS
2024年第2期91-98,共8页
Space Medicine & Medical Engineering
关键词
癫痫
功能富集
生化通路
蛋白质互作网络
epilepsy
functional enrichment analysis
biochemical pathways
protein-protein interaction network
