Exploring the key genes and pathways of ulcerative colitis in a mouse model using gene expression profiling

• 作者: Jia-Jun Wang Jian Wang Li-Ying Wang Xian-Juan Yang Yin Fu
• 来源期刊: 精准医学研究
• 学科: 医学
• 关键词: Bioinformatics analysis Ulcerative colitis Differentially expressed genes GENE
• 年，卷（期）: 2020,（4）
• 页码范围: 143-152
• 页数: 10页
• 分类号: R73

摘要

Background:To compare the differentially expressed genes between ulcerative colitis mouse colon tissue and normal mouse colon tissue,screen out hub genes,explore the biological meaning of these genes,and reveal ulcerative colitis's pathogenesis.Methods:Gene expression profiles(GSE22307)were downloaded from the Gene Expression Omnibus database.We conducted differential screens of the expression of genes(differentially expressed genes)between two groups using the online tool Gene Expression Omnibus 2R,then use the ClueGO plugin in Cytoscape software to perform gene ontology and Kyoto Encyclopedia of Genes and Genomes analysis on differentially expressed genes.Molecular Complex Detection plugin was used to visualize differentially expressed genes'gene-gene interaction network and screen for gene modules.The cytohubba plugin was used to screen the hub genes and then analyzed with the ClueGO plugin to further understand ulcerative colitis's specific biological mechanism.Result:A total of 1,151 differentially expressed genes were identified,among which 798 were upregulated,and the remaining 353 were down-regulated.The gene ontology results revealed that these differentially expressed genes were primarily enriched in inflammation,cytokine activity,protein binding,and several other biological processes.Kyoto Encyclopedia of Genes and Genomes analysis indicated the differentially expressed genes were mainly increased in the TNF and IL-17 signaling pathway.Using the gene-gene interaction network analysis,we found that IL1B,PTPRC,ITPKB,ITGAM,IL6,and TNF may be responsible for ulcerative colitis's occurrence and development.Those target genes were enriched mainly in the neutrophil apoptotic process and positive regulation of humoral immune response.Conclusion:The results of our study indicated that those differentially expressed genes,especially IL1B,PTPRC,ITPKB,ITGAM,IL6,and TNF,may be associated with the development and progression of ulcerative colitis.