Abstract:Abstract: To screen and analyze key genes by bioinformatics techniques to investigate the pathological me-chanisms of acute asthma attack in children, the gene expression dataset (GSE103166) associated with acute asthma attack in children was downloaded from the GEO database. The differentially expressed genes (DEGs) between children with acute asthma attack and healthy children were screened using the R package tool, and GO analysis of DEG lists and annotation results from the KEGG were obtained using DAVID (version 6.8), which were analyzed by STRING (version 11.0). Cytoscape and its plug-in MCODE were used to construct protein interaction networks and identify key genes. The results showed that a total of 78 DEGs were identi-fied, including 49 up-regulated and 29 down-regulated genes, which were mainly enriched in biological processes such as nucleocytoplasmic transport and immune system process regulation, cellular components such as nuclear nucleosome and DNA packaging complex, and molecular functions such as Rho GTPase binding and ionotropic glutamate receptor binding. KEGG pathway was enriched in systemic lupus erythe-matosus and asthma signaling pathway. Among these DEGs, a gene module was screened out, which was mainly enriched in biological processes such as interferon-gamma-mediated signaling pathway, antigen pro-cessing and presentation of exogenous peptide antigen via MHC class Ⅱ, antigen processing and presenta-tion of peptide antigen via MHC class Ⅱ, cellular components such as MHC class Ⅱ protein complex, lumenal side of endoplasmic reticulum membrane, integral component of lumenal side of endoplasmic reticulum membrane, and molecular functions such as MHC class Ⅱ receptor activity, peptide antigen binding, trans-membrane signaling receptor activity. The KEGG pathway was mainly enriched in asthma, graft-versus-host disease, and allograft rejection pathways. The gene module contains five key genes, including HLA-DPB1, HLA-DQB1, HLA-DQB2, MT2A and KIF11. The above results showed that DEGs and key genes contribute to a better understanding of the pathological mechanisms of children with acute asthma attack. As the corre-lation of the three key genes HLA-DPB1, HLA-DQB1, and HLA-DQB2 with the disease has been validated by other studies, the two unconfirmed key genes MT2A and KIF11 may be used as new targets for studying acute asthma attack in children.
引用本文:
张 迪, 姜 凡, 刘璐佳, 景伟超, 王有鹏. 基于GEO数据库对儿童哮喘急性发作靶基因的生物信息学分析[J]. 生命科学研究, 2021, 25(1): 70-79.
ZHANG Di, JIANG Fan, LIU Lu-jia, JING Wei-chao, WANG You-peng. Bioinformatic Analysis of Target Genes in Children with Acute Asthma Attack Based on GEO Database. Life Science Research, 2021, 25(1): 70-79.