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Sample GSM1215423 Query DataSets for GSM1215423
Status Public on Feb 26, 2014
Title Adipose_abdominal_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Adipose_abdominal
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 0.215722863
cg00000108 0.931807687
cg00000109 0.866462981
cg00000165 0.179886672
cg00000236 0.794930565
cg00000289 0.605204905
cg00000292 0.584468727
cg00000321 0.291264216
cg00000363 0.199781106
cg00000622 0.004452563
cg00000658 0.819488352
cg00000714 0.11653744
cg00000721 0.962856797
cg00000734 0.080895961
cg00000769 0.041431262
cg00000807 0.707318142
cg00000884 0.919718198
cg00000905 0.090570502
cg00000924 0.554077551
cg00000948 0.897568643

Total number of rows: 485577

Table truncated, full table size 10689 Kbytes.

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

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