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Sample GSM1215415 Query DataSets for GSM1215415
Status Public on Feb 26, 2014
Title Tonsils_KA522_1
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Tonsils
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 0.580979042
cg00000108 0.944193574
cg00000109 0.823240158
cg00000165 0.28733669
cg00000236 0.885192241
cg00000289 0.610250834
cg00000292 0.766830314
cg00000321 0.414004915
cg00000363 0.387945353
cg00000622 0.009062171
cg00000658 0.814292241
cg00000714 0.171375069
cg00000721 0.890657241
cg00000734 0.074436549
cg00000769 0.053952206
cg00000807 0.717504957
cg00000884 0.886558589
cg00000905 0.075654907
cg00000924 0.511415292
cg00000948 0.864835669

Total number of rows: 485577

Table truncated, full table size 10763 Kbytes.

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

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