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Status |
Public on Mar 09, 2020 |
Title |
subject ID 12245-0 at diease time point 3_Male, a T1D control and 5.0540726yrs old_EPIC array [201502800045_R07C01] |
Sample type |
genomic |
|
|
Source name |
T1D control_Male_time point 3
|
Organism |
Homo sapiens |
Characteristics |
subject id: 12245-0 disease time point: 3 age: 5.054072553 Sex: Male t1d status: T1D control tissue: peripheral blood sample
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Standard Illumina Protocol
|
Label |
cy3, cy5
|
Label protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human450K or EPIC Beadchip using standard Illumina protocol
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|
|
Hybridization protocol |
Standard Illumina Protocol
|
Scan protocol |
Standard Illumina Protocol
|
Data processing |
SeSAMe (v1.0.0) pipeline was used to normalize data (via Noob), perform dye bias correction and perform probe specific QC (via pOOBAH). ComBat was used to adjust for batch effects were batch was considered to be plate and row position combination Filtered probes with a small Beta range (range < 0.05), those with known SNPs in the CpG site, and those located on the sex chromosomes Mvalues.normalized.*.txt contains methylation M-value
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|
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Submission date |
Dec 22, 2019 |
Last update date |
Mar 09, 2020 |
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 |
|
|
Platform ID |
GPL21145 |
Series (1) |
GSE142512 |
Longitudinal DNA methylation differences precede type 1 diabetes |
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