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Sample GSM1215422 Query DataSets for GSM1215422
Status Public on Feb 26, 2014
Title Ischiatic_nerve_KA522
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 0.439822689
cg00000108 0.915794042
cg00000109 0.840166519
cg00000165 0.179427378
cg00000236 0.845781661
cg00000289 0.713903918
cg00000292 0.576897493
cg00000321 0.468086493
cg00000363 0.229174124
cg00000622 0
cg00000658 0.879683719
cg00000714 0.135427309
cg00000721 0.969006988
cg00000734 0.094599668
cg00000769 0.049984974
cg00000807 0.64592687
cg00000884 0.944925781
cg00000905 0.106921427
cg00000924 0.600028866
cg00000948 0.93225386

Total number of rows: 485577

Table truncated, full table size 10328 Kbytes.

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

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