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Sample GSM1215456 Query DataSets for GSM1215456
Status Public on Feb 26, 2014
Title Medulla_oblongata_SJ600-5
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Medulla_oblongata
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 0.497012723
cg00000108 0.911150467
cg00000109 0.706609497
cg00000165 0.220605773
cg00000236 0.895889213
cg00000289 0.68101774
cg00000292 0.69465637
cg00000321 0.410258219
cg00000363 0.197927309
cg00000622 0.001162115
cg00000658 0.80104225
cg00000714 0.187606627
cg00000721 0.941933464
cg00000734 0.082917042
cg00000769 0.066469719
cg00000807 0.859837574
cg00000884 0.910211151
cg00000905 0.075764221
cg00000924 0.574604119
cg00000948 0.886930346

Total number of rows: 485577

Table truncated, full table size 10693 Kbytes.

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

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