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Sample GSM1215405 Query DataSets for GSM1215405
Status Public on Feb 26, 2014
Title Adipose_subcutaenous_KA522
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Adipose_subcutaenous
gender: male
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from 25 mg samples of the tissue specimens using the NucleoSpin® Tissue kit (Macherey-Nagel GmbH, Düren, Germany)
Label Cy5 and Cy3
Label protocol According to Illumina protocol
Hybridization protocol According to Illumina protocol
Scan protocol According to Illumina protocol
Data processing The raw data were subject to quality control and normalization using the standard protocols suggested for the bioconductor R package minfi. All probes containing single nucleotide polymorphisms and CpG sites from the X and Y chromosomes were removed from the analysis.
matrix processed value definition: Average Beta
matrix signal intensities value definition: Matrix signal intensities (non-normalized) contains unmethylated (signal A) and methylated (Signal B) signal intensities
Submission date Aug 26, 2013
Last update date Feb 26, 2014
Contact name Kaie Lokk
Organization name University of Tartu
Street address Riia 23
City Tartu
ZIP/Postal code 501010
Country Estonia
Platform ID GPL13534
Series (1)
GSE50192 DNA methylome profiling of human tissues identifies global and tissue-specific methylation patterns

Data table header descriptions
VALUE minfi normalized signal intensity

Data table
cg00000029 0.229795373
cg00000108 0.919012154
cg00000109 0.759156046
cg00000165 0.145569745
cg00000236 0.780599428
cg00000289 0.679389815
cg00000292 0.59641163
cg00000321 0.33390498
cg00000363 0.237259966
cg00000622 0.005418251
cg00000658 0.819866573
cg00000714 0.165215105
cg00000721 0.941378693
cg00000734 0.144729889
cg00000769 0.071891121
cg00000807 0.749510368
cg00000884 0.920037821
cg00000905 0.065277618
cg00000924 0.521907758
cg00000948 0.882598116

Total number of rows: 485577

Table truncated, full table size 10819 Kbytes.

Supplementary data files not provided
Processed data included within Sample table
Processed data are available on Series record

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