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Sample GSM2122991 Query DataSets for GSM2122991
Status Public on Apr 13, 2017
Title K0034_FASD
Sample type genomic
 
Source name K0034
Organism Homo sapiens
Characteristics cell type: Buccal epithelial cells
date run: Jun-13
Sex: Female
disease status: FASD
disease subgroup: PAE
age: 11
self-reported ethnicity: caucasian
sentrix id: 9257625066
sentrix position: R06C02
sentrix row: R06
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated using the Isohelix DNA isolation kit and bisulfite converted with the Zymo EZ DNA Methylation Kit, as per manufacturer’s instructions.
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
 
Hybridization protocol Bisulfite converted DNA was amplified, fragmented and hybridized to Illumina Infinium HumanMethylation450k Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged with BeadArray Reader using standard recommended Illumina scanner setting
Data processing GenomeStudio software V2011.1 with GenomeStudio Methylation Analysis Module Version 1.9.1000 (background-subtraction, colour-correction). The file unmethylated_and_methylated_signal.txt contains the raw unmethylated (A) and methylated (B) signal intensities.
 
Submission date Apr 13, 2016
Last update date Apr 13, 2017
Contact name Michael S. Kobor
Organization name Centre for Molecular Medicine and Therapeutics / University of British Columbia
Department Medical Genetics
Lab Kobor
Street address 950 West 28th Avenue
City Vancouver
State/province BC
ZIP/Postal code V5Z 4H4
Country Canada
 
Platform ID GPL13534
Series (1)
GSE80261 DNA methylation signature of human fetal alcohol spectrum disorder

Data table header descriptions
ID_REF
VALUE Average Beta (after background-subtraction and colour-correction in GenomeStudio software according to standard Illumina protocol)
K0034.Detection Pval

Data table
ID_REF VALUE K0034.Detection Pval
cg00000029 0.07627489 0.00
cg00000108 0.9463601 0.00
cg00000109 0.8479152 0.00
cg00000165 0.2442648 0.00
cg00000236 0.8572853 0.00
cg00000289 0.6814408 0.00
cg00000292 0.5914954 0.00
cg00000321 0.429201 0.00
cg00000363 0.0974241 0.00
cg00000622 0.01704321 0.00
cg00000658 0.7888213 0.00
cg00000714 0.06045204 0.00
cg00000721 0.9536783 0.00
cg00000734 0.06401025 0.00
cg00000769 0.06812413 0.00
cg00000807 0.8917539 0.00
cg00000884 0.8399506 0.00
cg00000905 0.1209857 0.00
cg00000924 0.7121441 0.00
cg00000948 0.8883483 0.00

Total number of rows: 485577

Table truncated, full table size 12406 Kbytes.




Supplementary file Size Download File type/resource
GSM2122991_9257625066_R06C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM2122991_9257625066_R06C02_Red.idat.gz 4.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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