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Sample GSM1215404 Query DataSets for GSM1215404
Status Public on Feb 26, 2014
Title Adipose_abdominal_KA522
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 0.278424654
cg00000108 0.946082928
cg00000109 0.795043188
cg00000165 0.185299001
cg00000236 0.826438816
cg00000289 0.69534544
cg00000292 0.579499472
cg00000321 0.429644674
cg00000363 0.260302986
cg00000622 0.001190193
cg00000658 0.836169025
cg00000714 0.129636161
cg00000721 0.950907758
cg00000734 0.065565318
cg00000769 0.067519477
cg00000807 0.744256521
cg00000884 0.913939297
cg00000905 0.065390831
cg00000924 0.500984925
cg00000948 0.897551257

Total number of rows: 485577

Table truncated, full table size 10705 Kbytes.

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

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