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Sample GSM1215389 Query DataSets for GSM1215389
Status Public on Feb 26, 2014
Title Adipose_subcutaenous_BM419/4
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Adipose_subcutaenous
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 0.219205647
cg00000108 0.910752882
cg00000109 0.705512858
cg00000165 0.185955916
cg00000236 0.799808897
cg00000289 0.676243619
cg00000292 0.594781174
cg00000321 0.273284902
cg00000363 0.200261233
cg00000622 0.004716307
cg00000658 0.827740633
cg00000714 0.12602318
cg00000721 0.932001612
cg00000734 0.065989879
cg00000769 0.041509923
cg00000807 0.760585207
cg00000884 0.909348365
cg00000905 0.065864347
cg00000924 0.511049519
cg00000948 0.888439518

Total number of rows: 485577

Table truncated, full table size 10761 Kbytes.

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

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