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Sample GSM1215420 Query DataSets for GSM1215420
Status Public on Feb 26, 2014
Title Aorta_thoracic_KA522
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Aorta_thoracic
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 0.24539682
cg00000108 0.890564607
cg00000109 0.389512551
cg00000165 0.183586437
cg00000236 0.744745895
cg00000289 0.738689851
cg00000292 0.654539455
cg00000321 0.473698576
cg00000363 0.167995802
cg00000622 0.010985955
cg00000658 0.821650397
cg00000714 0.102901384
cg00000721 0.894412051
cg00000734 0.091634889
cg00000769 0.066175583
cg00000807 0.768176659
cg00000884 0.902638758
cg00000905 0.077671902
cg00000924 0.547454997
cg00000948 0.888024912

Total number of rows: 485577

Table truncated, full table size 10741 Kbytes.

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

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