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Sample GSM1215400 Query DataSets for GSM1215400
Status Public on Feb 26, 2014
Title Aorta_abdominal_BM419/4
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Aorta_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 0.303178604
cg00000108 0.833433887
cg00000109 0.548841217
cg00000165 0.159918503
cg00000236 0.801329027
cg00000289 0.770348399
cg00000292 0.643292528
cg00000321 0.443407209
cg00000363 0.229125921
cg00000622 0.008710348
cg00000658 0.813899574
cg00000714 0.116293614
cg00000721 0.939652366
cg00000734 0.078689843
cg00000769 0.062960347
cg00000807 0.831281879
cg00000884 0.897133915
cg00000905 0.073387549
cg00000924 0.52350513
cg00000948 0.899474687

Total number of rows: 485577

Table truncated, full table size 10712 Kbytes.

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

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