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Sample GSM1215454 Query DataSets for GSM1215454
Status Public on Feb 26, 2014
Title Aorta_abdominal_SJ600-5
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 0.260379228
cg00000108 0.912997477
cg00000109 0.631086827
cg00000165 0.180629982
cg00000236 0.833994752
cg00000289 0.719832536
cg00000292 0.700511796
cg00000321 0.486436755
cg00000363 0.280026323
cg00000622 0
cg00000658 0.839435744
cg00000714 0.139921927
cg00000721 0.920226324
cg00000734 0.09757872
cg00000769 0.048536375
cg00000807 0.809499993
cg00000884 0.950356975
cg00000905 0.07014059
cg00000924 0.599417934
cg00000948 0.901487573

Total number of rows: 485577

Table truncated, full table size 10511 Kbytes.

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

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