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Sample GSM1215391 Query DataSets for GSM1215391
Status Public on Feb 26, 2014
Title Bone_BM419/4
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Bone
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 0.384995827
cg00000108 0.894338483
cg00000109 0.659406443
cg00000165 0.198934796
cg00000236 0.824264804
cg00000289 0.624175451
cg00000292 0.528836481
cg00000321 0.314218582
cg00000363 0.228260681
cg00000622 0.007801418
cg00000658 0.791780592
cg00000714 0.141127921
cg00000721 0.949727877
cg00000734 0.091497982
cg00000769 0.060136157
cg00000807 0.794230838
cg00000884 0.911404177
cg00000905 0.070614588
cg00000924 0.543840131
cg00000948 0.875699295

Total number of rows: 485577

Table truncated, full table size 10753 Kbytes.

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

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