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Sample GSM1215452 Query DataSets for GSM1215452
Status Public on Feb 26, 2014
Title Bladder_SJ600-5
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 0.219676811
cg00000108 0.921250738
cg00000109 0.831260446
cg00000165 0.116968205
cg00000236 0.809136873
cg00000289 0.681036133
cg00000292 0.624706071
cg00000321 0.319953776
cg00000363 0.20567296
cg00000622 0.001424907
cg00000658 0.855888508
cg00000714 0.119354823
cg00000721 0.923859692
cg00000734 0.067944634
cg00000769 0.018834866
cg00000807 0.804703856
cg00000884 0.900964995
cg00000905 0.073736502
cg00000924 0.549164562
cg00000948 0.892213266

Total number of rows: 485577

Table truncated, full table size 10729 Kbytes.

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

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