ArticleCell journal2018
Chronic Obstructive Pulmonary Disease Molecular Subtyping and Pathway Deviation-Based Candidate Gene Identification.
Article in Cell journal, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Integrative multi-omics identifies CYP1B1 as a candidate molecular link between toxicant exposure and ferroptosis-related epithelial stress in COPD.Inflammation research : official journal of the European Histamine Research Society ... [et al.] · 2026Article
- Nrf2 Signaling Pathway: Focus on Oxidative Stress in Spinal Cord Injury.Molecular neurobiology · 2025Review
- Identification of factors directly linked to incident chronic obstructive pulmonary disease: A causal graph modeling study.PLoS medicine · 2024Article
- Chronic Obstructive Pulmonary Disease: Novel Genes Detection with Penalized Logistic Regression.Cell journal · 2023Article
- The roles of microRNAs in spinal cord ischemia-reperfusion injury.Neural regeneration research · 2022Review
- Identification of Small Airway Epithelium-Related Hub Genes in Chronic Obstructive Pulmonary Disease.International journal of chronic obstructive pulmonary disease · 2022Article
- Identification of the Key Immune-Related Genes in Chronic Obstructive Pulmonary Disease Based on Immune Infiltration Analysis.International journal of chronic obstructive pulmonary disease · 2022Article
- Plasma Extracellular Vesicle miRNA Profiles Distinguish Chronic Obstructive Pulmonary Disease Exacerbations and Disease Severity.International journal of chronic obstructive pulmonary disease · 2022Article
- Identification of Macrophage Polarization-Related Genes as Biomarkers of Chronic Obstructive Pulmonary Disease Based on Bioinformatics Analyses.BioMed research international · 2021Article
- Identification of Potential Key Genes in the Pathogenesis of Chronic Obstructive Pulmonary Disease Through Bioinformatics Analysis.Frontiers in genetics · 2021Article
- Identification of differentially expressed genes and signaling pathways in chronic obstructive pulmonary disease via bioinformatic analysis.FEBS open bio · 2019Article
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Authors and funding
9 authors.
Funding
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Abstract
objectiveThe aim of this study was to identify the molecular subtypes of chronic obstructive pulmonary disease (COPD) and to prioritize COPD candidate genes using bioinformatics methods. MATERIALS AND
methodsIn this bioinformatics study, the gene expression dataset GSE76705 (including 229 COPD samples) and known COPD-related genes (candidate genes) were downloaded from the Gene Expression Omnibus (GEO) and the Online Mendelian Inheritance in Man (OMIM) databases respectively. Based on the expression values of the candidate genes, COPD samples were divided into molecular subtypes through hierarchical clustering analysis. Candidate genes were accordingly allocated into the defined molecular subtypes and functional enrichment analysis was undertaken. Pathway deviation scores were then analyzed, followed by the analysis of clinical indicators (FEV1, FEV1/FVC, age and gender) of COPD patients in each subtype, and prediction models were constructed. Furthermore, the gene expression dataset GSE71220 was used to bioinformatically validate our results.
resultsA total of 213 COPD-related genes were identified, which divided samples into three subtypes based on the gene expression values. After intersection analysis, 160 common genes including transforming growth factor β1 (TGFB1), epidermal growth factor receptor (EGFR) and interleukin 13 (IL13) were obtained. Functional enrichment analysis identified 22 pathways such as 'hsa04060: cytokine-cytokine receptor interaction pathways, 'hsa04110: cell cycle' and 'hsa05222: small cell lung cancer'. Pathways in subtype 2 had higher deviation scores. Furthermore, three receiver operating characteristic (ROC) curves (accuracies >80%) were constructed. The three subtypes in COPD samples were also identified in the validation dataset GSE71220.
conclusionCOPD may be further subdivided into several molecular subtypes, which may be useful in improving COPD therapy based on the molecular subtype of a patient.
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