Microarray data analysis to identify differentially expressed genes and biological pathways associated with asthma

Qi,Shanshan; Liu,Guanghui; Dong,Xiang; Huang,Nan; Li,Wenjing; Chen,Hao

doi:10.3892/etm.2018.6366

Microarray data analysis to identify differentially expressed genes and biological pathways associated with asthma

Authors:
- Shanshan Qi
- Guanghui Liu
- Xiang Dong
- Nan Huang
- Wenjing Li
- Hao Chen
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Affiliations: Department of Allergy, Wuhan No. 1 Hospital, Wuhan, Hubei 430022, P.R. China, Department of Allergy, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei 430030, P.R. China
Published online on: June 28, 2018 https://doi.org/10.3892/etm.2018.6366
Pages: 1613-1620
Copyright: © Qi et al. This is an open access article distributed under the terms of Creative Commons Attribution License.

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Abstract

The present study aimed to identify differentially expressed genes (DEGs) and biological processes (BPs) associated with asthma. DEGs between allergic asthma and healthy controls were screened from GSE15823. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses were performed using Database for Annotation, Visualization and Integrated Discovery. A protein‑protein interaction network was constructed, followed by module mining and functional analysis. Additionally, GSE41649 was downloaded to validate the reliability of the results. In GSE41649, DEGs were identified and compared with key DEGs identified in GSE15823. A total of 43 upregulated and 275 downregulated DEGs were obtained from GSE15823. Upregulated DEGs, such as nitric oxide synthase 2 (NOS2), were enriched in BPs related to oxidation reduction. Downregulated DEGs, such as chemokine (C‑C motif) ligand 19 (CCL21) and Cys‑X‑Cys ligand (CXCL9), were enriched in immune response‑related BPs. Protein tyrosine phosphatase receptor type C (PTPRC), CCL21, and CXCL9 were identified as hub genes. The DEGs in module 1 were significantly involved in the chemokine signaling pathway (P<0.05). The expression of the key genes obtained in GSE15823 demonstrated the same variation directions in the two datasets. The immune response, oxidants and nitric oxide metabolic pathways may have important roles in the progression of asthma. DEGs of PTPRC, CCL21, CXCL9 and NOS2 may be the potential targets for asthma diagnosis and treatment.

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