Screening and Identification of Hub Genes in the Corticosteroid Resistance Network in Human Airway Epithelial Cells via Microarray Analysis

Pei, Guangsheng; Chen, Fugang; Guo, Liyan; Bai, Jing; Deng, Jingmin; Zhou, He

doi:10.3389/fphar.2021.672065

Cited by 5 publications

(3 citation statements)

References 49 publications

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“…In patients with smoking-related COPD, the expression of CAT in the bronchiolar epithelium decreases dramatically (13). FN1 is an ECM glycoprotein (14), and in this study its expression was decreased by CSE treatment, which might promote hormone resistance in COPD (15). CAPZA2 is one of the components of the cytoskeleton ( 16), but the association between CAPZA2 and COPD is poorly understood.…”

Section: Discussionmentioning

confidence: 64%

Identification of the key genes in chronic obstructive pulmonary disease by weighted gene co-expression network analysis

Xie¹,

Xia²,

Wu³

et al. 2022

Ann Transl Med

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Background: Chronic obstructive pulmonary disease (COPD) is prevalent mainly in older adults, especially those who are smokers. It appears to be regulated by multiple genes, but there is some degree of familial clustering. The evidence to date suggests that COPD-associated biomarkers are largely inadequate for disease diagnosis, so we conducted a comprehensive search for more specific genetic markers. Methods:We used 3 datasets from the Gene Expression Omnibus (GEO) database. By investigating the biological information [i.e., Gene Ontology, Kyoto Encyclopedia of Genes and Genomes and weighted gene co-expression network analysis (WGCNA)], we filtered out 8 differentially expressed genes (DEGs) and validated the transcript levels of those hub genes in 16HBE cell lines, THP-1 cell lines and lung tissue of COPD patients. Results:The 8 hub genes comprised amyloid precursor protein (APP), fibronectin 1, insulin-like growth factor 1 (IGF1), β-actin, capping actin protein of muscle Z-line subunit alpha 2, secreted phosphoprotein 1 (SPP1), catalase (CAT), and colony stimulating factor 2 (CSF2) were selected from among the DEGs.Cigarette smoke extract-stimulated 16HBE cells were found to highly express SPP1, CSF2, and IGF1. In addition, IGF1 levels were increased and IGF1 and APP levels were decreased in CSE-stimulated THP-1 cells. SPP1 and FN1 showed increased expression levels in lung tissue of COPD patients, but the opposite held for APP and CAT.Conclusions: We identified 8 hub genes of COPD based on GO, KEGG and WGCNA, which have provided insights into the pathophysiological mechanisms of COPD.

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Section: Discussionmentioning

confidence: 64%

Identification of the key genes in chronic obstructive pulmonary disease by weighted gene co-expression network analysis

Xie¹,

Xia²,

Wu³

et al. 2022

Ann Transl Med

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“…Reports using Weighted Gene Co-expression Network Analysis (WGCNA) [ 53 , 54 ] detected co-expression of highly correlated genes in pathway modules associated with clinical traits [ 55 ]. Some of these included BMP4, FOS, FN1, EGFR, and SPP1 related to corticosteroid resistance in epithelial cells [ 56 ]. A study by Li et al [ 57 ] identified 12 hub genes comprised of CTSS, NOTCH4, IL8, CREB1, TCF3, SERPINA1, PTGER3, RGS4, OPRM1, MPP6, FGFR1, and NSUN3.…”

Section: Discussionmentioning

confidence: 99%

Comparative Analysis of Gene Expression Patterns for Oral Epithelial Cell Functions in Periodontitis

González

Kirakodu

Linh-Trung

et al. 2022

Front. Oral. Health

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The structure and function of epithelial cells are critical for the construction and maintenance of intact epithelial surfaces throughout the body. Beyond the mechanical barrier functions, epithelial cells have been identified as active participants in providing warning signals to the host immune and inflammatory cells and in communicating various detailed information on the noxious challenge to help drive specificity in the characteristics of the host response related to health or pathologic inflammation. Rhesus monkeys were used in these studies to evaluate the gingival transcriptome for naturally occurring disease samples (GeneChip® Rhesus Macaque Genome Array) or for ligature-induced disease (GeneChip® Rhesus Gene 1.0 ST Array) to explore up to 452 annotated genes related to epithelial cell structure and functions. Animals were distributed by age into four groups: ≤ 3 years (young), 3–7 years (adolescent), 12–16 years (adult), and 18–23 years (aged). For naturally occurring disease, adult and aged periodontitis animals were used, which comprised 34 animals (14 females and 20 males). Groups of nine animals in similar age groups were included in a ligature-induced periodontitis experiment. A buccal gingival sample from either healthy or periodontitis-affected tissues were collected, and microarray analysis performed. The overall results of this investigation suggested a substantial alteration in epithelial cell functions that occurs rapidly with disease initiation. Many of these changes were prolonged throughout disease progression and generally reflect a disruption of normal cellular functions that would presage the resulting tissue destruction and clinical disease measures. Finally, clinical resolution may not signify biological resolution and represent a continued risk for disease that may require considerations for additional biologically specific interventions to best manage further disease.

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“…Therefore, new targets for treating corticosteroid-resistant COPD phenotypes are needed. Pei et al [44] by CMap database analysis, found that scopoletin might mitigate steroid resistance based on results…”

Section: Corticosteroidsmentioning

confidence: 99%

Prospects of DNA microarray application in management of chronic obstructive pulmonary disease: A systematic review

Anastasiia

Ilia

2023

Frigid Zone Medicine

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Chronic obstructive pulmonary disease (COPD) is incurable chronic disease which kills 3.3 million each year worldwide. Number of global cases of COPD is steadily rising alongside with life expectancy, disproportionally hitting middle-income countries like Russia and China, in such conditions, new approaches to the COPD management are desperately needed. DNA microarray technology is a powerful genomic tool that has the potential to uncover underlying COPD biological alteration and brings up revolutionized treatment option to clinicians. We executed systematic review studies of studies published in last 10 years regarding DNA microarray application in COPD management, with complacence to PRISMA criteria and using PubMed and Medline data bases as data source. Out of 920 identified papers, 39 were included in the final analysis. We concluded that Genome-wide expression profiling using DNA microarray technology has great potential in enhancing COPD management. Current studied proofed this method is reliable and possesses many potential applications such as individual at risk of COPD development recognition, early diagnosis of disease, COPD phenotype identification, exacerbation prediction, personalized treatment optioning and prospect of oncogenesis evaluation in patients with COPD. Despite all the proofed benefits of this technology, researchers are still in the early stage of exploring it's potential. Therefore, large clinical trials are still needed to set up standard for DNA microarray techniques usage implementation in COPD management guidelines, subsequently giving opportunity to clinicians for controlling or even eliminating COPD entirely.

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Screening and Identification of Hub Genes in the Corticosteroid Resistance Network in Human Airway Epithelial Cells via Microarray Analysis

Cited by 5 publications

References 49 publications

Identification of the key genes in chronic obstructive pulmonary disease by weighted gene co-expression network analysis

Identification of the key genes in chronic obstructive pulmonary disease by weighted gene co-expression network analysis

Comparative Analysis of Gene Expression Patterns for Oral Epithelial Cell Functions in Periodontitis

Prospects of DNA microarray application in management of chronic obstructive pulmonary disease: A systematic review

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