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Sample GSM1215421 Query DataSets for GSM1215421
Status Public on Feb 26, 2014
Title Medulla_oblongata_KA522
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 0.530193397
cg00000108 0.93862228
cg00000109 0.774497777
cg00000165 0.221986978
cg00000236 0.917543118
cg00000289 0.628231796
cg00000292 0.693101606
cg00000321 0.372120571
cg00000363 0.1473315
cg00000622 0.004506128
cg00000658 0.837589399
cg00000714 0.17271953
cg00000721 0.949987248
cg00000734 0.069916989
cg00000769 0.043540075
cg00000807 0.823504326
cg00000884 0.886826521
cg00000905 0.066974181
cg00000924 0.568348561
cg00000948 0.905625853

Total number of rows: 485577

Table truncated, full table size 10719 Kbytes.

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

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