基于生物信息学分析溃疡性结肠炎的差异表达基因和miRNA

Differentially expressed genes and miRNAs in ulcerative colitis based on bioinformatics

目的通过生物信息学分析方法寻找溃疡性结肠炎(UC)的差异表达基因(DEGs)及其相应的microRNA(miRNA),筛选参与UC发生发展相关的潜在致病靶点,为寻找UC诊断标志物以及新的治疗靶点提供理论依据。方法从基因表达数据库(GEO)获取数据集,通过GEO2R对数据集进行分组和筛选DEGs并取交集,再进行PPI、GO、KEGG分析和miRNA预测。结果GO分析显示其主要集中在中性粒细胞迁移、脂多糖应答、细胞外泌体、CXCR趋化因子受体结合等,KEGG分析显示其主要富集在补体途径凝血通路、IL-17信号通路、百日咳、类风湿性关节炎通路、肿瘤坏死因子信号通路等方面。通过Cytoscape筛选出MCC值前十的hub基因CXCL1、IL1B、TIMP1、CXCL8、IL6、MMP1、SERPINE1、PTGS2、SPP1、MMP2。通过NetworkAnalyst3.0在线网站进行可视化展示,可推断hsa-mir-204-5p、hsa-mir-146a-5p、hsa-mir-335-5p、hsa-mir-1-3p、hsa-mir-21-5p等5种miRNA在疾病发展中起关键作用。结论在UC发病机制相关研究中,DEGs与疾病的发生发展密切相关,可通过对基因的富集分析、以及hub基因、关键miRNA筛选为更深入研究UC的发病机制及寻找治疗新靶点提供研究思路和理论依据。

Objective To search for differentially expressed genes(DEGs)and their corresponding microRNAs(miRNAs)in ulcerative colitis(UC)by means of bioinformatics analysis,to screen for potential pathogenic targets involved in the development of UC, and to provide a theoretical basis for the search for diagnostic markers and new therapeutictargets for UC. Methods The dataset was obtained from the GEO database, grouped and screened for DEGs andintersections by GEO2R, and then subjected to PPI, GO, KEGG analysis and miRNA prediction. Results GO analysisshowed that they were mainly concentrated in neutrophil migration, lipopolysaccharide response, cellular exosomes, CXCRchemokine receptor binding, etc. KEGG analysis showed that they were mainly enriched in the complement pathwaycoagulation pathway, IL-17 signalling pathway, whooping cough, rheumatoid arthritis pathway, and tumor necrosis factorsignaling pathway. Cytoscape showed that the top ten hub genes for MCC values were CXCL1, IL1B, TIMP1, CXCL8,IL6, MMP1, SERPINE1, PTGS2, SPP1, and MMP2. Visualisation through the NetworkAnalyst 3.0 online website inferredthat five miRNAs, including hsa-mir-204-5p, hsa-mir-146a-5p, hsa-mir-335-5p, hsa-mir-1-3p, hsa-mir-21-5p, playedkey roles in the development of diseases. Conclusion In the research related to the pathogenesis of UC, DEGs areclosely related to the development of the disease, and the enrichment analysis of the genes, as well as the screening ofhub genes and key miRNAs can provide research ideas and theoretical basis for a more in-depth study of the pathogenicmechanism of UC and the search for new therapeutic targets.