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Sample GSM1215457 Query DataSets for GSM1215457
Status Public on Feb 26, 2014
Title Ischiatic_nerve_SJ600-5
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 0.356526039
cg00000108 0.881599301
cg00000109 0.815369847
cg00000165 0.145479026
cg00000236 0.782169079
cg00000289 0.731529023
cg00000292 0.579111886
cg00000321 0.404315881
cg00000363 0.21100963
cg00000622 0.008171989
cg00000658 0.804881294
cg00000714 0.126490013
cg00000721 0.906902576
cg00000734 0.068327372
cg00000769 0.061192469
cg00000807 0.629120511
cg00000884 0.886859045
cg00000905 0.061623648
cg00000924 0.559731243
cg00000948 0.891245516

Total number of rows: 485577

Table truncated, full table size 10723 Kbytes.

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

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