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Sample GSM1215407 Query DataSets for GSM1215407
Status Public on Feb 26, 2014
Title Bone_KA522
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Bone
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 0.372775911
cg00000108 0.914246323
cg00000109 0.73128037
cg00000165 0.187526546
cg00000236 0.785326513
cg00000289 0.625699026
cg00000292 0.473522742
cg00000321 0.372712837
cg00000363 0.216489244
cg00000622 0.00727802
cg00000658 0.807273495
cg00000714 0.147141733
cg00000721 0.951425431
cg00000734 0.086011105
cg00000769 0.064340627
cg00000807 0.78302066
cg00000884 0.910266165
cg00000905 0.076844001
cg00000924 0.549939941
cg00000948 0.871969121

Total number of rows: 485577

Table truncated, full table size 10776 Kbytes.

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

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