肾纤维化关键基因的生信筛选及分析  

Screening and analysis of key genes in renal fibrosis by bioinformatics technology

作　　者：杨书彬[1] 苏虹婵 练晓梅 南洋[1] YANG Shu-bin;SU Hong-chan;LIAN Xiao-mei;NAN Yang(College of Pharmacy,Heilongjiang University of Traditional Chinese Medicine,Harbin 150040,China)

机构地区：[1]黑龙江中医药大学药学院,黑龙江哈尔滨150040

出　　处：《生物技术》2023年第2期169-175,186,共8页Biotechnology

基　　金：黑龙江省科技厅面上项目(LC2008C26);黑龙江省教育厅海外学人科研资助项目(1153h18)。

摘　　要：[目的]利用生物信息学技术筛选与肾纤维化相关基因,并预测与基因相关通路,疾病、细胞类型和有关药物。[方法]在公共基因芯片数据库(GEO)中获取与肾纤维化相关三个基因数据集,利用Venn图鉴定出共表达的差异基因,Metascape工具对差异基因进行功能(GO)和通路富集(KEGG)分析,还利用STRING构建蛋白相互作用网络(PPI)网络以及可视化工具Cytoscape筛选关键基因,最后用及Enrichr和Comparative Toxicogenomics Database(CTD)数据分析有关疾病、细胞类型和药物。[结果]与肾纤维化相关的数据集GSE148420、GSE38117、GSE54441经Venn图共得到83个DEGs。经Cytoscape对STRING工具得到的PPI网络可视化后,筛选出10个与肾纤维化相关的关键基因,分别是F13B、ALDH8A1、A1CF、PAH、KMO、ALDH6A1、SPP2、ACAT1、ABAT、CAT。GO和KEGG富集显示这些基因与氧化还原酶活性,血小板致密颗粒,色氨酸、结氨酸、亮氨酸和异亮氨酸等氨基酸代谢通路有关。利用Enrichr和CTD对关键基因预测,显示与肾脏疾病和药物黄曲霉素B1存在一定关联。[结论]通过生物信息学分析筛选出10个与肾纤维化有关的关键基因,揭示与肾纤维化紧密联系的基因、通路、疾病、细胞类型和药物,从而为肾纤维化的早期诊断和治疗提供了相对可靠的生物标志物。[Objective] To search for genes related to renal fibrosis by bioinformatics technology,and to predict gene-related pathways,diseases,cell types,and related drugs.[Method] Three gene datasets related to renal fibrosis were obtained from the public Gene chip database(GEO),and the co-expressed differential genes were identified by the Venn map.The functional(GO) and pathway enrichment(KEGG) analyses of the differential genes were performed by the Metascape tool.STRING was also used to construct protein interaction network(PPI) networks and the visualization tool Cytoscape to screen key genes,and finally,Enrichr and Comparative Toxicogenomics Database(CTD) data were used to analyze relevant diseases and drugs.[Result] A total of 83 common DEGs were obtained from the data sets GSE148420,GSE38117,and GSE54441 related to renal fibrosis.Cytoscape visualized the PPI network obtained by the STRING tool and screened out 10 key genes related to renal fibrosis,which were F13B,ALDH8A1,A1CF,PAH,KMO,ALDH6A1,SPP2,ACAT1,ABAT,CAT.GO and KEGG enrichment showed that these genes were related to oxidoreductase activity,platelet-dense granules,tryptophan,serine,leucine,isoleucine,and other amino acid metabolic pathways.Enrichr and CTD were used to target key genes for disease and gene-drug prediction,showing that key genes are associated with kidney disease and the drug aflatoxin B1.[Conclusion]Ten key genes related to renal fibrosis were screened by bioinformatics analysis,and the genes,pathways,diseases,cell types,and drugs closely related to renal fibrosis were revealed,to provide relatively reliable biomarkers for early diagnosis and treatment of renal fibrosis.

关 键 词：肾纤维化 关键基因 生物信息学 疾病 细胞类型 药物 

分 类 号：R692.9[医药卫生—泌尿科学]