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Sample GSM1215388 Query DataSets for GSM1215388
Status Public on Feb 26, 2014
Title Adipose_abdominal_BM419/4
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Adipose_abdominal
gender: female
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 0.26083268
cg00000108 0.939264055
cg00000109 0.771582093
cg00000165 0.167112789
cg00000236 0.829746088
cg00000289 0.595908445
cg00000292 0.585588173
cg00000321 0.432171345
cg00000363 0.244511464
cg00000622 0.01023285
cg00000658 0.795183111
cg00000714 0.114948484
cg00000721 0.935412656
cg00000734 0.089183656
cg00000769 0.070037619
cg00000807 0.731632089
cg00000884 0.875687017
cg00000905 0.065569999
cg00000924 0.516213208
cg00000948 0.90443918

Total number of rows: 485577

Table truncated, full table size 10815 Kbytes.

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

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