A microarray study of gene expression profiles in nasal polyps

Rostkowska-Nadolska, Beata; Kapral, Małgorzata; Frączek, Marcin; Kowalczyk, Małgorzata; Gawron, Wojciech; Mazurek, Urszula

doi:10.1016/j.anl.2010.05.002

Cited by 16 publications

(7 citation statements)

References 24 publications

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“…In vitro studies demonstrated that DMBT1 overexpression could inhibit the proliferation and metastasis of an esophageal cancer cell line (EC9706) and gallbladder cancer cell line (GBC‐SD), and induce apoptosis in a serum‐free medium (Kang et al., ; Shen et al., ). Our preliminary study also showed that DMBT1 expression was decreased in nasal polyps compared with normal nasal mucosa, which was consistent with prior studies (Benson et al., ; Fritz et al., ; Rostkowska‐Nadolska et al., ). To explore the molecular mechanism of DMBT1 in the pathogenesis of nasal polyps, we first constructed stable HNEpCs with a low expression of DMBT1 .…”

Section: Discussionsupporting

confidence: 92%

Silenced DMBT1 promotes nasal mucosa epithelial cell growth

Zhao

et al. 2017

Annals of Human Genetics

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Section: Discussionsupporting

confidence: 92%

Silenced DMBT1 promotes nasal mucosa epithelial cell growth

Zhao

et al. 2017

Annals of Human Genetics

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“…Overall, based on DEGs, 32 pathways (38%) overlap between the upper and lower airways, and 27 pathways were common to all three phenotypes (OM, CRS, and Lower; Supplementary Figure 5; Supplementary Table 5). Notably about half of these 27 pathways that were common in OM, CRS, and Lower also overlap with DEGs identified in previous microarray and RNA-Seq studies (Liu et al, 2004;Kwon et al, 2006;Lee et al, 2006;Payne et al, 2008;Raju et al, 2008;Stankovic et al, 2008;Rostkowska-Nadolska et al, 2011;Klenke et al, 2012;Macias et al, 2013;Wang et al, 2016;Ramakrishnan et al, 2017;Wang et al, 2017;Gao et al, 2018a;Gao et al, 2018b;Kato et al, 2018;Langelier et al, 2018;Ninomiya et al, 2018;Okada et al, 2018;Jovanovic et al, 2019;Walter et al, 2019;Yao et al, 2019). The common pathways from Part 2 RNA-Seq data that were identified in the transcriptome literature are apoptosis, cell adhesion, cell cycle, cell proliferation, chromatin organization/remodeling, Table 6).…”

Section: Genes and Pathways Identified By Rna-seq (Part 2)mentioning

confidence: 73%

Identification of Novel Genes and Biological Pathways That Overlap in Infectious and Nonallergic Diseases of the Upper and Lower Airways Using Network Analyses

et al. 2020

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Previous genetic studies on susceptibility to otitis media and airway infections have focused on immune pathways acting within the local mucosal epithelium, and outside of allergic rhinitis and asthma, limited studies exist on the overlaps at the gene, pathway or network level between the upper and lower airways. In this report, we compared [1] pathways identified from network analysis using genes derived from published genomewide family-based and association studies for otitis media, sinusitis, and lung phenotypes, to [2] pathways identified using differentially expressed genes from RNA-sequence data from lower airway, sinus, and middle ear tissues, in particular cholesteatoma tissue compared to middle ear mucosa. For otitis media, a large number of genes (n = 1,806) were identified as differentially expressed between cholesteatoma and middle ear mucosa, which in turn led to the identification of 68 pathways that are enriched in cholesteatoma. Two differentially expressed genes CR1 and SAA1 overlap in middle ear, sinus, and lower airway samples and are potentially novel genes for otitis media susceptibility. In addition, 56 genes were differentially expressed in both tissues from the middle ear and either sinus or lower airways. Pathways that are common in upper and lower airway diseases, whether from published DNA studies or from our RNA-sequencing analyses, include chromatin organization/remodeling, endocytosis, immune system process, protein folding, and viral process. Taken together, our findings from genetic susceptibility and differential tissue expression studies support the hypothesis that the unified airway theory wherein the upper and lower respiratory tracts act as an integrated unit also applies to infectious and nonallergic airway epithelial disease. Our results may be

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“…The pathogenesis of this disease remains largely unknown. In recent years, many published studies have revealed that the development and persistence of nasal polyps are associated with numerous genes, the products of which determine various pathological processes, such as cytokine synthesis; immuno-pathogenesis; immune cell (e.g., lymphocyte, eosinophil, and neutrophil) development, activation, migration, and life span; adhesion molecule expression; and processes governing fibrosis and epithelial remodeling [2], [3], [4], [5]. With advances in microarray techniques, gene expression profiling of nasal polyp tissue has been performed, and novel genes related to nasal polyp formation have been identified.…”

Section: Introductionmentioning

confidence: 99%

A Global Analysis of Tandem 3′UTRs in Eosinophilic Chronic Rhinosinusitis with Nasal Polyps

Tian

Sun

et al. 2012

PLoS ONE

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BackgroundAlternative polyadenylation (APA) is emerging as a widespread mechanism of gene regulation. The usage of APA sites allows a single gene to encode multiple mRNA transcripts with different 3′-untranslated region (3′UTR) lengths. Many disease processes reflect the importance of the regulation of APA site switching. The objective of this study was to explore the profiling of tandem APA sites in nasal polyps compared with nasal uncinate process mucosa.MethodsSequencing of APA sites (SAPAS) based on second-generation sequencing technology was undertaken to investigate the use of tandem APA sites and identify gene expression patterns in samples from the nasal polyps and nasal uncinate process mucosa of two patients with chronic rhinosinusitis with nasal polyps. The findings of the SAPAS analysis were validated via quantitative reverse-transcription polymerase chain reaction (qRT-PCR).ResultsFirst, the results showed a switching of 3′UTR lengths in nasal polyps compared with nasal uncinate process mucosa. From the two patients, 105 genes that were detected in both patients in the nasal polyps were switched to distal poly(A) sites, and 90 such genes were switched to proximal poly(A) sites. Several Gene Ontology terms were enriched in the list of genes with switched APA sites, including transcription regulation, cell cycle, apoptosis, and metabolism. Second, we detected genes that showed differential expression with at least a 3-fold difference between nasal polyp tissue and nasal uncinate process mucosa. Between the two sample types, 627 genes exhibited differential expression. The qRT-PCR results confirmed our SAPAS results.ConclusionAPA site-switching events of 3′UTRs are prevalent in nasal polyp tissue, and the regulation of gene expression mediated by APA may play an important role in the formation and persistence of nasal polyps. Our results may provide new insights into the possible pathophysiologic processes involved in nasal polyps.

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A microarray study of gene expression profiles in nasal polyps

Cited by 16 publications

References 24 publications

Silenced DMBT1 promotes nasal mucosa epithelial cell growth

Silenced DMBT1 promotes nasal mucosa epithelial cell growth

Identification of Novel Genes and Biological Pathways That Overlap in Infectious and Nonallergic Diseases of the Upper and Lower Airways Using Network Analyses

A Global Analysis of Tandem 3′UTRs in Eosinophilic Chronic Rhinosinusitis with Nasal Polyps

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