ArticleRespiratory research2022
Lung tissue shows divergent gene expression between chronic obstructive pulmonary disease and idiopathic pulmonary fibrosis.
Article in Respiratory research, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 27 citations in OpenAlex.
- PER1-related inflammatory signaling links night shift exposure to lower lung function in coal miners.iScience · 2026Article
- Overlap between COPD genetic association results and transcriptional quantitative trait loci.HGG advances · 2026Article
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- A statistical physics approach to integrating multi-omics data for disease-module detection.Cell reports methods · 2025Article
- Low TET1 Expression Levels in COPD Are Associated with Airway and Blood Neutrophilia.medRxiv : the preprint server for health sciences · 2025Article
- LungGENIE: the lung gene-expression and network imputation engine.BMC genomics · 2025Article
- Review
- Lung Transcriptomics Link Emphysema to Barrier Dysfunction and Macrophage Subpopulations.American journal of respiratory and critical care medicine · 2025Article
- Leukemia inhibitory factor (LIF) receptor amplifies pathogenic activation of fibroblasts in lung fibrosis.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Transcriptome-Wide Association Study of Idiopathic Pulmonary Fibrosis Survival IdentifiesAmerican journal of respiratory and critical care medicine · 2024Article
- Genetics and Genomics of Pulmonary Fibrosis: Charting the Molecular Landscape and Shaping Precision Medicine.American journal of respiratory and critical care medicine · 2024Review
- Transcriptomics using lung resection material to advance our understanding of COPD and idiopathic pulmonary fibrosis pathogenesis.ERJ open research · 2024Article
- Colocalization analysis of 3' UTR alternative polyadenylation quantitative trait loci reveals novel mechanisms underlying associations with lung function.Human molecular genetics · 2024Article
- A Means to an End(othelium): Using Peripheral Blood Mononuclear Cell 'Omics to Peer into the Pulmonary Vasculature.Annals of the American Thoracic Society · 2024Article
- Clonal Somatic Mutations in Chronic Lung Diseases Are Associated with Reduced Lung Function.American journal of respiratory and critical care medicine · 2023Article
- Activation of CD8American journal of respiratory and critical care medicine · 2023Article
- A Polygenic Risk Score for Idiopathic Pulmonary Fibrosis and Interstitial Lung Abnormalities.American journal of respiratory and critical care medicine · 2023Article
- Combined Pulmonary Fibrosis and Emphysema: Comparative Evidence on a Complex Condition.Biomedicines · 2023Review
- Variability inAmerican journal of respiratory and critical care medicine · 2023Article
Corrections and comments
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Authors and funding
24 authors at 11 institutions in 1 country.
Funding
Abstract
backgroundChronic obstructive pulmonary disease (COPD) and idiopathic pulmonary fibrosis (IPF) are characterized by shared exposures and clinical features, but distinct genetic and pathologic features exist. These features have not been well-studied using large-scale gene expression datasets. We hypothesized that there are divergent gene, pathway, and cellular signatures between COPD and IPF.
methodsWe performed RNA-sequencing on lung tissues from individuals with IPF (n = 231) and COPD (n = 377) compared to control (n = 267), defined as individuals with normal spirometry. We grouped the overlapping differential expression gene sets based on direction of expression and examined the resultant sets for genes of interest, pathway enrichment, and cell composition. Using gene set variation analysis, we validated the overlap group gene sets in independent COPD and IPF data sets.
resultsWe found 5010 genes differentially expressed between COPD and control, and 11,454 genes differentially expressed between IPF and control (1% false discovery rate). 3846 genes overlapped between IPF and COPD. Several pathways were enriched for genes upregulated in COPD and downregulated in IPF; however, no pathways were enriched for genes downregulated in COPD and upregulated in IPF. There were many myeloid cell genes with increased expression in COPD but decreased in IPF. We found that the genes upregulated in COPD but downregulated in IPF were associated with lower lung function in the independent validation cohorts.
conclusionsWe identified a divergent gene expression signature between COPD and IPF, with increased expression in COPD and decreased in IPF. This signature is associated with worse lung function in both COPD and IPF.
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