RNAseq analysis of bronchial epithelial cells to identify COPD-associated genes and SNPs

RNAseq analysis of bronchial epithelial cells to identify COPD-associated genes and SNPs

There is a need for more powerful methods to identify low-effect SNPs that contribute to hereditary COPD pathogenesis. We hypothesized that SNPs contributing to COPD risk through cis-regulatory effects are enriched in genes comprised by bronchial epithelial cell (BEC) expression patterns associated...

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Veröffentlicht in:BMC pulmonary medicine 2018-03, Vol.18 (1), p.42-42, Article 42
Hauptverfasser: Yeo, Jiyoun, Morales, Diego A, Chen, Tian, Crawford, Erin L, Zhang, Xiaolu, Blomquist, Thomas M, Levin, Albert M, Massion, Pierre P, Arenberg, Douglas A, Midthun, David E, Mazzone, Peter J, Nathan, Steven D, Wainz, Ronald J, Nana-Sinkam, Patrick, Willey, Paige F S, Arend, Taylor J, Padda, Karanbir, Qiu, Shuhao, Federov, Alexei, Hernandez, Dawn-Alita R, Hammersley, Jeffrey R, Yoon, Youngsook, Safi, Fadi, Khuder, Sadik A, Willey, James C
Format: Artikel
Sprache:eng
Schlagworte:
Analysis
Bronchitis
CAT
cis-regulation
COPD
eQTL
ERCC5
Gene expression
Genetic aspects
GWAS
Risk factors
RNA sequencing
Single nucleotide polymorphisms
Transcription (Genetics)
Tumor proteins
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Zusammenfassung:There is a need for more powerful methods to identify low-effect SNPs that contribute to hereditary COPD pathogenesis. We hypothesized that SNPs contributing to COPD risk through cis-regulatory effects are enriched in genes comprised by bronchial epithelial cell (BEC) expression patterns associated with COPD. To test this hypothesis, normal BEC specimens were obtained by bronchoscopy from 60 subjects: 30 subjects with COPD defined by spirometry (FEV1/FVC
ISSN:1471-2466
1471-2466
DOI:10.1186/s12890-018-0603-y