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Sample GSM1215434 Query DataSets for GSM1215434
Status Public on Feb 26, 2014
Title Bladder_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Bladder
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 0.185723483
cg00000108 0.944694741
cg00000109 0.846387276
cg00000165 0.135279133
cg00000236 0.795655384
cg00000289 0.638981011
cg00000292 0.651474969
cg00000321 0.306307815
cg00000363 0.148731933
cg00000622 0.01827341
cg00000658 0.795963354
cg00000714 0.102375961
cg00000721 0.917356206
cg00000734 0.071382132
cg00000769 0.046614559
cg00000807 0.804200429
cg00000884 0.900989355
cg00000905 0.076543907
cg00000924 0.541173468
cg00000948 0.89443859

Total number of rows: 485577

Table truncated, full table size 10762 Kbytes.

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

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