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Sample GSM1215417 Query DataSets for GSM1215417
Status Public on Feb 26, 2014
Title Bladder_KA522
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 0.201509609
cg00000108 0.964230894
cg00000109 0.836484785
cg00000165 0.125134984
cg00000236 0.768331749
cg00000289 0.597773087
cg00000292 0.661877536
cg00000321 0.321299792
cg00000363 0.171537718
cg00000622 0.012112901
cg00000658 0.806129258
cg00000714 0.134230356
cg00000721 0.924926915
cg00000734 0.079970945
cg00000769 0.057659695
cg00000807 0.815653748
cg00000884 0.902506503
cg00000905 0.071623174
cg00000924 0.547863324
cg00000948 0.888289468

Total number of rows: 485577

Table truncated, full table size 10750 Kbytes.

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

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