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Series GSE137594 Query DataSets for GSE137594
Status Public on Dec 17, 2019
Title Early arthritis B cell DNA methylation profiling
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary With a focus on rheumatoid arthritis (RA), we sought new insight into genetic mechanisms of adaptive immune dysregulation to help prioritise molecular pathways for targeting in this and related immune pathologies. Whole genome methylation data from isolated B cells of >100 genotyped and phenotyped inflammatory arthritis patients, all of whom were naïve to immunomodulatory treatments, were obtained. Analysis integrated these comprehensive data with GWAS findings across IMDs and other publically available resources.
 
Overall design DNA material was extracted from CD19+ B cells isolated from fresh peripheral blood of suspected inflammatory arthritis patients of Northern European ancestry prior to treatment with immunomodulatory drugs. RA patients were classified with reference to the 2010 ACR/EULAR criteria, and matched with disease controls in respect of demographic and clinical characteristics. 400ng of DNA was bisulphite-converted and DNAm quantified using the Infinium MethylationEPIC BeadChip (Illumina).
 
Contributor(s) Clark AD, Nair N, Anderson AE, Thalayasingam N, Naamane N, Skelton AJ, Diboll J, Barton A, Eyre S, Isaacs JD, Pratt AG, Reynard LN
Citation(s) 31945409
Submission date Sep 17, 2019
Last update date Mar 17, 2020
Contact name Arthur Pratt
E-mail(s) arthur.pratt@newcastle.ac.uk
Organization name Newcastle University
Department Faculty of Medical Sciences
Lab Musculoskeletal Research Group
Street address Framlington Place
City Newcastle upon Tyne
ZIP/Postal code NE2 4HH
Country United Kingdom
 
Platforms (1)
GPL21145 Infinium MethylationEPIC
Samples (119)
GSM4082266 EA0826: Newcastle Early Arthritis Clinic patient 826
GSM4082267 EA0827: Newcastle Early Arthritis Clinic patient 827
GSM4082268 EA0835: Newcastle Early Arthritis Clinic patient 835
This SubSeries is part of SuperSeries:
GSE137634 Lymphocyte DNA methylation mediates genetic risk at shared immune mediated disease loci
Relations
BioProject PRJNA565982

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
GSE137594_RAW.tar 1.8 Gb (http)(custom) TAR (of IDAT)
GSE137594_norm_avg_beta_pval.txt.gz 438.6 Mb (ftp)(http) TXT
Processed data are available on Series record

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