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Sample GSM1215401 Query DataSets for GSM1215401
Status Public on Feb 26, 2014
Title Aorta_thoracic_BM419/4
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Aorta_thoracic
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 0.333120545
cg00000108 0.910854389
cg00000109 0.448796276
cg00000165 0.155515252
cg00000236 0.779647636
cg00000289 0.681134243
cg00000292 0.640708845
cg00000321 0.543909787
cg00000363 0.231171673
cg00000622 0.005225115
cg00000658 0.806053549
cg00000714 0.115368814
cg00000721 0.919150557
cg00000734 0.061659123
cg00000769 0.053480928
cg00000807 0.786473302
cg00000884 0.915756578
cg00000905 0.061999517
cg00000924 0.533949074
cg00000948 0.889593641

Total number of rows: 485577

Table truncated, full table size 10749 Kbytes.

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

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