中国免疫学杂志2024，Vol.40Issue(8)：1607-1614,8.DOI:10.3969/j.issn.1000-484X.2024.08.007
人工神经网络筛选类风湿关节炎的特征基因及免疫细胞浸润分析
Artificial neural network for screening characteristic genes of rheumatoid arthritis and analysis of immune cell infiltration
摘要
Abstract
Objective:To identify characteristic genes of rheumatoid arthritis(RA)by artificial neural network and to analyze role of immune cells in RA related microenvironment.Methods:GSE1919 and GSE77298 chips were from GEO database.Two chips were combined and batch corrected using R language to obtain a new data set,and difference was analyzed.Metascape enrichment analysis and GO and KEGG enrichment analysis were conducted for differential expressed genes(DEGs)."randomForest"package in R software was used to screen characteristic genes of RA under random forest(RF)algorithm,and artificial neural network model was constructed according to gene score.Top 4 genes(HubGene)were extracted for subsequent analysis.Single sample gene set enrich-ment analysis(ssGSEA)was used to calculate abundance of immune cells in samples and carry out a series of correlation analysis.Results:Top 15 genes were selected as characteristic genes of RA through artificial neural network model:STAT1,RUNX3,AR,CDH11,LMO4,TIMP1,PLXNC1,CAP2,PRKAA2,VDR,SPP1,HCK,EPHB2,KCNAB1,ITGB7.STAT1,RUNX3 and CDH11 were up-regulated in RA synovial tissue,while AR was down-regulated in RA synovial tissue.Immune cell infiltration results showed that RA had the most significant correlation with activated CD4 T cells.Number of immune cells significantly related to RUNX3 was the largest.RUNX3 was significant positive correlated with activated B cells,activated CD4 T cells,activated CD8 T cells,central memory CD4+T cells,effector memory CD8 T cells,regulatory T cells,γδT cells and macrophages,while significant negative correlated with NK cells.Conclusion:Fifteen characteristic genes related to RA are identified through artificial neural net-work,among which STAT1,RUNX3,AR and CDH11 are top 4 genes.It emphasizes activation of CD4 T cells,regulatory T cells,γδT cells,macrophages,NK cells,activated B cells and other immune cells are important in pathogenesis of RA,providing new in-sights for diagnosis of RA and study of molecular mechanism of immune cells.关键词
人工神经网络/类风湿关节炎/基因/免疫细胞Key words
Artificial neural network/Rheumatoid arthritis/Gene/Immune cells分类
医药卫生引用本文复制引用
李斌华,熊伟,程凌,陆华龙..人工神经网络筛选类风湿关节炎的特征基因及免疫细胞浸润分析[J].中国免疫学杂志,2024,40(8):1607-1614,8.基金项目
江西省重点研发计划项目(20202BBGL73004) （20202BBGL73004）
南昌市科技支撑计划项目[洪科字(2022)146号] （2022）
江西省中医药中青年骨干人才(第四批)培养计划(赣中医药科教字[2022]6号). （第四批）
