Bioinformatics analysis of combined pulmonary fibrosis and emphysema genome microarray based on GEO database

Abstract

Objective To investigate the possible pathogenesis of combined pulmonary fibrosis and emphysema (CPFE) on the molecular level by bioinformatics analysis of differential expression genes (DEGs) in normal subjects and patients with CPFE. Methods The microarray information of the normal subjects and CPFE patients was downloaded from the GEO database, and DEGs were obtained by GCBI online laboratory analysis.Analysis of DEGs by DAVID database was used to obtain gene ontology and KEGG pathway.STRING was used to obtain more than 10 interacting proteins as the hubs genes, and then the hubs gene information was imported into Cytoscape software to form the protein-protein interaction network of hubs gene. Results 1 303 DEGs were obtained, of which 828 genes were up-regulated and 475 genes were down-regulated.Gene ontology showed that the DEGs were mainly involved in the immune response, the composition of extracellular matrix, signal transduction biological processes, and KEGG pathway involved in cytokine-cytokine receptor interaction pathway, chemokine signaling pathway, cell adhesion molecule pathway.Sixteen hubs genes included CCR5, IGF1, CXCL12, APP, CCL5, GNB4, SDC1, APOE, GNAQ, FPR2, ISG15, CD2, VCAM1, CCND1, JAK1, CCNB1.Among them, thirteen genes were up-regulated and three genes were down-regulated. Conclusions DEGs, hubs genes, gene ontology and KEGG pathway of CPFE can be obtained through bioinformatics analysis, which provides the basis for exploring the pathogenesis of CPFE. Key words: Combined pulmonary fibrosis and emphysema; Differential expression genes; Bioinformatics