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Sample GSM1215402 Query DataSets for GSM1215402
Status Public on Feb 26, 2014
Title Medulla_oblongata_BM419/4
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Medulla_oblongata
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 0.511199455
cg00000108 0.928897035
cg00000109 0.828788974
cg00000165 0.140719665
cg00000236 0.892586927
cg00000289 0.501376447
cg00000292 0.570339435
cg00000321 0.394478787
cg00000363 0.195431283
cg00000622 0.009399189
cg00000658 0.79965358
cg00000714 0.188791803
cg00000721 0.96102957
cg00000734 0.081013726
cg00000769 0.054649363
cg00000807 0.849689717
cg00000884 0.904391921
cg00000905 0.069138211
cg00000924 0.497137994
cg00000948 0.89970486

Total number of rows: 485577

Table truncated, full table size 10758 Kbytes.

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

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