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Series GSE142512 Query DataSets for GSE142512
Status Public on Mar 09, 2020
Title Longitudinal DNA methylation differences precede type 1 diabetes
Organism Homo sapiens
Experiment type Methylation profiling by genome tiling array
Summary DNA methylation may be involved in development of type 1 diabetes (T1D), but previous epigenome-wide association studies were conducted among cases with clinically diagnosed diabetes. Using multiple pre-disease peripheral blood samples on the Illumina 450K and EPIC platforms, we investigated longitudinal methylation differences between 87 T1D cases and 87 controls from the prospective Diabetes Autoimmunity Study in the Young (DAISY) cohort. Change in methylation with age differed between cases and controls in 10 regions. Average longitudinal methylation differed between cases and controls at two genomic positions and 28 regions. Some methylation differences were detectable and consistent as early as birth, including before and after the onset of preclinical islet autoimmunity. Results map to transcription factors, other protein coding genes, and non-coding regions of the genome with regulatory potential. The identification of methylation differences that predate islet autoimmunity and clinical diagnosis may suggest a role for epigenetics in T1D pathogenesis.
 
Overall design There are a total of 87 T1D cases and 87 T1D controls. Each subject has somewhere between 1 and 5 time points collected. There are no technical replicates included in the final analyzed dataset.
 
Contributor(s) Johnson RK, Vanderlinden LA, Dong F, Carry PM, Seifert J, Waugh K, Shorrosh H, Fingerlin T, Frohnert BI, Yang IV, Kechris K, Rewers M, Norris JM
Citation(s) 32111940, 34496950
Submission date Dec 22, 2019
Last update date Sep 15, 2021
Contact name Lauren Vanderlinden
E-mail(s) lauren.vanderlinden@cuanschutz.edu
Organization name Colorado School of Public Health
Department Department of Biostatistics and Informatics
Street address 13001 E. 17th Place, Mail Stop B119
City Aurora
State/province Colorado
ZIP/Postal code 80045
Country USA
 
Platforms (2)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
GPL21145 Infinium MethylationEPIC
Samples (395)
GSM4230711 subject ID 00397-0 at diease time point 4_Male, a T1D case and 0.8980151yrs old_450K array [3998909009_R05C01]
GSM4230712 subject ID 00947-0 at diease time point 4_Female, a T1D control and 1.2375086yrs old_450K array [3998909009_R02C02]
GSM4230713 subject ID 00770-0 at diease time point 2_Male, a T1D control and 0.9007529yrs old_450K array [3998909016_R01C01]
Relations
BioProject PRJNA597238

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
GSE142512_Mvalues.normalized.450K.txt.gz 530.0 Mb (ftp)(http) TXT
GSE142512_Mvalues.normalized.EPIC.txt.gz 1.0 Gb (ftp)(http) TXT
GSE142512_RAW.tar 4.8 Gb (http)(custom) TAR (of IDAT)
Raw data provided as supplementary file
Processed data are available on Series record

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