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Sample GSM1215409 Query DataSets for GSM1215409
Status Public on Feb 26, 2014
Title Bone marrow_red_KA522
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Bone marrow_red
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 0.554788459
cg00000108 0.908763923
cg00000109 0.836589545
cg00000165 0.155427179
cg00000236 0.814385395
cg00000289 0.581572864
cg00000292 0.694162619
cg00000321 0.411665851
cg00000363 0.280810932
cg00000622 0.008610922
cg00000658 0.736191035
cg00000714 0.1529411
cg00000721 0.859553928
cg00000734 0.085237788
cg00000769 0.055815285
cg00000807 0.639179798
cg00000884 0.811408406
cg00000905 0.060791515
cg00000924 0.491577953
cg00000948 0.755034967

Total number of rows: 485577

Table truncated, full table size 10790 Kbytes.

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

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