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Series GSE52074 Query DataSets for GSE52074
Status Public on Jul 28, 2014
Title Human rhinovirus infection causes different DNA methylation changes in nasal epithelial cells from healthy and asthmatic subjects
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary Background: Mechanisms underlying the development of virus-induced asthma exacerbations remain unclear. Objective: To investigate if epigenetic mechanisms could be involved in virus-induced asthma exacerbations, we undertook DNA methylation profiling in asthmatic and healthy nasal epithelial cells (NECs) during Human Rhinovirus (HRV) infection in vitro. Methods: Global and loci-specific methylation profiles were determined via Alu element and Infinium Human Methylation 450K microarray respectively. Principal components analysis identified the genomic loci influenced the most by disease-status and infection. Real-time PCR and pyrosequencing was used to confirm gene expression and DNA methylation respectively. Results: Global methylation was increased in Asthmatics during infection. Disease status and virus infection influenced the methylation of 389 loci. Healthy and asthmatic NECs were characterized predominately by methylation profiles and patterns in loci that were not influenced by virus infection. However, both groups also exhibited distinct DNA methylation profiles in response to infection. Despite these differences, we found that the methylation of small nucleolar RNA, H/ACA box 12 (SNORA12) was common during infection. Further analysis indicated a relationship existed between SNORA12 DNA methylation and gene expression in response to infection. Conclusions: Findings from our study indicate that in addition to the well described phenotypic and genomic differences, the airway epithelium of asthmatics is characterized by a distinct methylome and that epigenetic mechanism may contribute to the development of virus-induced asthma exacerbations.
Overall design Bisulphite converted DNA from matched mock and human rhinovirus-16 infected nasal epithelial cells from Healthy (n=3) and Asthmatics (n=6) adults were hybridized to the Illumina DNA methylation 450K Bead Array.
Contributor(s) McErlean P, Favoreto S Jr, Costa FF, Shen J, Quarishi J, Biyasheva A, Cooper JJ, Scholtens DM, Vanin EF, de Bonaldo MF, Xie H, Soares MB, Avila PC
Citation(s) 24947756
Submission date Nov 04, 2013
Last update date Mar 22, 2019
Contact name Peter McErlean
Organization name Northwestern University
Department Allergy Immunology
Lab Avila
Street address 240 E. Huron, McGaw M-530h
City Chicago
State/province Illinois
ZIP/Postal code 60613
Country USA
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (18)
GSM1258447 Asthma01-Mock
GSM1258448 Asthma01-HRV
GSM1258449 Asthma02-Mock
BioProject PRJNA226704

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE52074_RAW.tar 183.1 Mb (http)(custom) TAR
GSE52074_unmethylated_methylated.txt.gz 44.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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