Towards profiling the gene expression of fibroblasts from atopic dermatitis patients: human 8K complementary DNA microarray

Park, Y.-D.; Lyou, You-Jeong; Lee, K.-J.; Lee, D.-Y.; Yang, Jun‐Mo

doi:10.1111/j.1365-2222.2006.02480.x

Cited by 26 publications

(29 citation statements)

References 28 publications

(30 reference statements)

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“…These included DNAH17, a forcegenerating dynein heavy chain motor protein in respiratory epithelium, and defensin b1 (DEFB1), an antimicrobial peptide. Both genes have been previously associated with asthma and primary ciliary dyskinesia, respectively (31)(32)(33). Gene set enrichment analysis of DEGs using GeneGO MetaCore for TEA cluster 1 and 3 shows that the strongest pathway enrichment was in TEA cluster 3 (see Table E2).…”

Section: Degs In the Airway Among Tea Clustersmentioning

confidence: 88%

Noninvasive Analysis of the Sputum Transcriptome Discriminates Clinical Phenotypes of Asthma

Yan

Chu

Gómez

et al. 2015

Am J Respir Crit Care Med

102

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Rationale: The airway transcriptome includes genes that contribute to the pathophysiologic heterogeneity seen in individuals with asthma.Objectives: We analyzed sputum gene expression for transcriptomic endotypes of asthma (TEA), gene signatures that discriminate phenotypes of disease.Methods: Gene expression in the sputum and blood of patients with asthma was measured using Affymetrix microarrays. Unsupervised clustering analysis based on pathways from the Kyoto Encyclopedia of Genes and Genomes was used to identify TEA clusters. Logistic regression analysis of matched blood samples defined an expression profile in the circulation to determine the TEA cluster assignment in a cohort of children with asthma to replicate clinical phenotypes.Measurements and Main Results: Three TEA clusters were identified. TEA cluster 1 had the most subjects with a history of intubation (P = 0.05), a lower prebronchodilator FEV 1 (P = 0.006), a higher bronchodilator response (P = 0.03), and higher exhaled nitric oxide levels (P = 0.04) compared with the other TEA clusters. TEA cluster 2, the smallest cluster, had the most subjects that were hospitalized for asthma (P = 0.04). TEA cluster 3, the largest cluster, had normal lung function, low exhaled nitric oxide levels, and lower inhaled steroid requirements. Evaluation of TEA clusters in children confirmed that TEA clusters 1 and 2 are associated with a history of intubation (P = 5.58 3 10 26) and hospitalization (P = 0.01), respectively.Conclusions: There are common patterns of gene expression in the sputum and blood of children and adults that are associated with near-fatal, severe, and milder asthma.

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Section: Degs In the Airway Among Tea Clustersmentioning

confidence: 88%

Noninvasive Analysis of the Sputum Transcriptome Discriminates Clinical Phenotypes of Asthma

Yan

Chu

Gómez

et al. 2015

Am J Respir Crit Care Med

102

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“…In previous studies, ALDH1 (EC 1.2.1.3) was detected as being significantly downregulated in AD, and this metabolic enzyme was thought to somehow deeply associate with AD disease [55,56]. Among the profiled genes/proteins, ALDH1 could be one of the most promising target enzymes for obtaining insight into AD.…”

Section: Further Pinpoint Speculation For Ad Studymentioning

confidence: 99%

OMICS Integration Studies for New Insights on Atopic Dermatitis

Park¹

2014

CDT

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The number of Atopic Dermatitis (AD) patients has increased with modernization and industrialization, and AD patients and their family members experience severe quality of life issues. It is generally recognized that a combination of environmental factors such as allergens and bacterial infections, as well as genetic factors, are the principal inducers of the multiple immunologic and inflammatory responses seen in AD patients. In the present review article, we focused on the following primary issues from the broad category of AD disease that have been reported in research articles, including those by the authors' own research groups: i) AD types: characteristics of extrinsic and intrinsic types; ii) current treatments of AD and clinical applications; iii) new insights from OMICS integration studies for detecting hub genes; iv) summary of AD pathogenesis and associated factors; and v) further speculation for AD studies. The topics in this review that we focused on are expected to contribute to the understanding of AD disease-related factors. Since the mechanism of AD disease has been shown to be complex, our results may provide new clues to aid understanding of AD from the aspect of laboratorial OMICS applications.

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“…It binds to collagen and fibulin, as well as a class of the cell surface adhesion receptors termed integrins, and has been shown to be involved in various biological activities, including cell attachment, cell migration, and wound healing [1]. Fn is readily degraded into fibronectin fragment (Fn-frs) through the action of many different types of proteases [2] containing cathepsin G [3]. The expression of MMP (matrix metalloproteinase) by Fn-frs (Fn-f29; N-terminal heparin binding fragment, 45 kDa; Fn-f45, collagen binding fragment, and 110 kDa; Fn-f110 cell binding fragment) has been studied in chondrocytes [4][5][6], however, little is known about the roles of Fn-frs, or cathepsin G-mediated fragmentation of Fn, in aged human skin and normal human fibroblasts (NHFs).…”

mentioning

confidence: 99%

“…The total RNA preparation, labeling, hybridization, and analysis were conducted based on previous reports [2]. The GenePlorer TM Human-34K chip (Digital Genomics, Seoul, Korea) was hybridized with a mixture of fluorescently labeled cDNAs from the control and ADe samples.…”

mentioning

confidence: 99%

Dysregulated genes of extrinsic type of atopic dermatitis: 34K microarray and interactomic analyses

Lu¹,

Park²,

Lee³

et al. 2009

Journal of Dermatological Science

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Towards profiling the gene expression of fibroblasts from atopic dermatitis patients: human 8K complementary DNA microarray

Abstract: These results suggest gene expression profiles that are associated with AD and this implied that fibroblasts may play important roles in the AD pathogenesis. We provided new insights into three candidate genes such as HAS2, TNFAIP6 and IL-8 with respect to their involvement in AD disease.

Cited by 26 publications

References 28 publications

Noninvasive Analysis of the Sputum Transcriptome Discriminates Clinical Phenotypes of Asthma

Noninvasive Analysis of the Sputum Transcriptome Discriminates Clinical Phenotypes of Asthma

OMICS Integration Studies for New Insights on Atopic Dermatitis

Dysregulated genes of extrinsic type of atopic dermatitis: 34K microarray and interactomic analyses

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