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Sample GSM1215445 Query DataSets for GSM1215445
Status Public on Feb 26, 2014
Title Bone marrow_red_SJ600-5
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 0.492832535
cg00000108 0.9279879
cg00000109 0.811485623
cg00000165 0.174153307
cg00000236 0.784157352
cg00000289 0.543577332
cg00000292 0.7454328
cg00000321 0.289351268
cg00000363 0.32801338
cg00000622 0.007677122
cg00000658 0.779867444
cg00000714 0.155761201
cg00000721 0.898811358
cg00000734 0.0707795
cg00000769 0.055222317
cg00000807 0.690783026
cg00000884 0.880980593
cg00000905 0.07875129
cg00000924 0.500275504
cg00000948 0.762924318

Total number of rows: 485577

Table truncated, full table size 10806 Kbytes.

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

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