Abstract
Vitamin D is a nutrient and a hormone with multiple effects on immune regulation and respiratory viral infections, which can worsen asthma and lead to severe asthma exacerbations. We set up a complete experimental and analytical pipeline for ATAC-Seq and RNA-Seq to study genome-wide epigenetic changes in human bronchial epithelial cells of asthmatic subjects, following treatment of these cells with calcitriol (vitamin D3) and Poly (I:C)(a viral analogue). This approach led to the identification of biologically plausible candidate genes for viral infections and asthma, such as DUSP10 and SLC44A1.
Keywords:
ATAC-Seq; RNA-Seq; Vitamin D; asthma.
Publication types
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Research Support, N.I.H., Extramural
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Research Support, Non-U.S. Gov't
MeSH terms
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Antigens, CD / genetics*
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Asthma / drug therapy
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Asthma / genetics*
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Bronchi / chemistry
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Bronchi / cytology*
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Bronchi / drug effects
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Cells, Cultured
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Dual-Specificity Phosphatases / genetics*
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Epigenesis, Genetic
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Epigenomics / methods*
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Epithelial Cells / chemistry
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Epithelial Cells / cytology
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Epithelial Cells / drug effects
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Gene Expression Regulation / drug effects
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Humans
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Mitogen-Activated Protein Kinase Phosphatases / genetics*
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Organic Cation Transport Proteins / genetics*
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Poly I-C / adverse effects
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Sequence Analysis, RNA
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Vitamin D / pharmacology*
Substances
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Antigens, CD
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Organic Cation Transport Proteins
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SLC44A1 protein, human
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Vitamin D
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DUSP10 protein, human
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Mitogen-Activated Protein Kinase Phosphatases
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Dual-Specificity Phosphatases
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Poly I-C