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Sample GSM1215428 Query DataSets for GSM1215428
Status Public on Feb 26, 2014
Title Bone marrow_red_KT538
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 0.468144614
cg00000108 0.92685462
cg00000109 0.880196965
cg00000165 0.176084288
cg00000236 0.769867226
cg00000289 0.675094541
cg00000292 0.767164524
cg00000321 0.312261754
cg00000363 0.344361364
cg00000622 0.004836976
cg00000658 0.783771942
cg00000714 0.168471001
cg00000721 0.922069956
cg00000734 0.073895117
cg00000769 0.042253521
cg00000807 0.734023218
cg00000884 0.891835643
cg00000905 0.064601024
cg00000924 0.58587308
cg00000948 0.771623621

Total number of rows: 485577

Table truncated, full table size 10803 Kbytes.

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

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