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Sample GSM1215439 Query DataSets for GSM1215439
Status Public on Feb 26, 2014
Title Ischiatic_nerve_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Ischiatic_nerve
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 0.312504377
cg00000108 0.864319808
cg00000109 0.811308566
cg00000165 0.142138263
cg00000236 0.796320325
cg00000289 0.681300651
cg00000292 0.513792368
cg00000321 0.464876136
cg00000363 0.179415951
cg00000622 0.007334216
cg00000658 0.796852488
cg00000714 0.132771914
cg00000721 0.943433935
cg00000734 0.063504512
cg00000769 0.065704918
cg00000807 0.64325766
cg00000884 0.889942011
cg00000905 0.068690127
cg00000924 0.51547129
cg00000948 0.901065708

Total number of rows: 485577

Table truncated, full table size 10764 Kbytes.

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

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