Airway transcriptomic profiling after bronchial thermoplasty

ERJ Open Research
Shu-Yi LiaoRichart W Harper

Abstract

Bronchial thermoplasty is a nonpharmacological, device-based treatment option for a specific population of severe asthmatic subjects, but the underlying mechanisms are largely unknown. The purpose of this study is to identify potential altered pathways by bronchial thermoplasty using a transcriptomic approach. Patients undergoing bronchial thermoplasty were recruited to the study, and a bronchial brushing sample was obtained before each bronchial thermoplasty session and sent for RNA sequencing. A variance component score test was performed to identify those genes whose expression varied after bronchial thermoplasty sessions. Differential gene expression meta-analysis of severe asthmatic subjects versus controls was performed using public repositories. Overlapping genes were included for downstream pathway and network analyses. 12 patients were enrolled in our study. A total of 133 severe asthma cases and 107 healthy controls from the public repositories were included in the meta-analysis. Comparison of differentially expressed genes from our study patients with the public repositories identified eight overlapping genes: AMIGO2, CBX7, NR3C2, SETBP1, SHANK2, SNTB1, STXBP1 and ZNF853. Network analysis of these overlapping genes i...Continue Reading

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Datasets Mentioned

BETA
GSE43696
GSE63142
GSE89809
GSE64913

Methods Mentioned

BETA
biopsy
RNA-Seq
GTPase
bronchoalveolar
lavage
GTPases

Software Mentioned

R package MetaIntegrator
Clarivate Analytics
MetaCore
LOESS
R package Time - Course Gene Set Analysis for RNA - Seq Data (...

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