GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE50222 Query DataSets for GSE50222
Status Public on Dec 01, 2013
Title DNA Methylation Changes in Allergic Patients Correlate with Symptom Severity [methylation]
Organism Homo sapiens
Experiment type Methylation profiling by array
Summary Altered DNA methylation patterns in CD4+ T-cells indicate the importance of epigenetic mechanisms in inflammatory diseases. However, the identification of these alterations is complicated by the heterogeneity of most inflammatory diseases. Seasonal allergic rhinitis (SAR) is an optimal disease model for the study of DNA methylation because of its well-defined phenotype and etiology. We generated genome-wide DNA methylation (Npatients = 8, Ncontrols = 8) and gene expression (Npatients= 9, Ncontrols = 10) profiles of CD4+ T-cells from SAR patients and healthy controls using Illumina’s HumanMethylation450 and HT-12 microarrays, respectively. DNA methylation profiles clearly and robustly distinguished SAR patients from controls, during and outside the pollen season. Moreover, we found that this methylation signature correlated with symptom severity. In agreement with previously published studies, gene expression profiles of the same samples failed to separate patients and controls. Separation by methylation (Npatients = 12, Ncontrols = 12), but not by gene expression (Npatients = 21, Ncontrols = 21; GSE50223) was also observed in an in vitro model system in which purified PBMCs from patients and healthy controls were challenged with allergen. We observed changes in the proportions of memory T-cell populations between patients (Npatients = 35) and controls (Ncontrols= 9), which could explain the observed difference in DNA methylation. Our data highlight the potential of epigenomics in the stratification of immune disease and represents the first successful molecular classification of SAR using CD4+ T cells.
Overall design Genomic DNA was isolated from CD4+ T-cells of patients with seasonal allergic rhinitis and healthy controls both during and outside the pollen season. Genomic DNA was bisulfite converted and hybridized to Illumina HumanMethylation450 BeadChip (Illumina, San Diego, CA) and scanned using the Illumina iScan.
Contributor(s) Nestor CE, Benson M
Citation(s) 24391521
Submission date Aug 27, 2013
Last update date Mar 22, 2019
Contact name Colm Eamonn Nestor
Organization name Linkoping University
Street address KEF, Hälsuniversitetet
City Linkoping
ZIP/Postal code 581 85
Country Sweden
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (32)
GSM1215944 80_healthy_DNA_outside_season
GSM1215945 76_healthy_DNA_outside_season
GSM1215946 80_healthy_DNA_during_season
This SubSeries is part of SuperSeries:
GSE50387 DNA Methylation Changes in Allergic Patients Correlate with Symptom Severity
BioProject PRJNA217396

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
GSE50222_RAW.tar 183.1 Mb (http)(custom) TAR
GSE50222_SampleMethylationProfile.txt.gz 417.8 Mb (ftp)(http) TXT
GSE50222_signal_intensities.txt.gz 71.0 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap