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Sample GSM1215419 Query DataSets for GSM1215419
Status Public on Feb 26, 2014
Title Aorta_abdominal_KA522
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Aorta_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 0.246176967
cg00000108 0.832154217
cg00000109 0.532117086
cg00000165 0.174166309
cg00000236 0.813172352
cg00000289 0.647555549
cg00000292 0.658657639
cg00000321 0.434696021
cg00000363 0.234483523
cg00000622 0.003482025
cg00000658 0.809732539
cg00000714 0.097950233
cg00000721 0.904388928
cg00000734 0.068274497
cg00000769 0.053400547
cg00000807 0.770328235
cg00000884 0.874763203
cg00000905 0.063493593
cg00000924 0.539836477
cg00000948 0.906682927

Total number of rows: 485577

Table truncated, full table size 10740 Kbytes.

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

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