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Sample GSM1215435 Query DataSets for GSM1215435
Status Public on Feb 26, 2014
Title Gallbladder_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Gallbladder
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 0.274802791
cg00000108 0.903432172
cg00000109 0.810708549
cg00000165 0.146374744
cg00000236 0.811748202
cg00000289 0.682437273
cg00000292 0.609725439
cg00000321 0.355384434
cg00000363 0.253638015
cg00000622 0.013389341
cg00000658 0.818221453
cg00000714 0.154704419
cg00000721 0.864908767
cg00000734 0.082483767
cg00000769 0.056900128
cg00000807 0.752022037
cg00000884 0.876482849
cg00000905 0.066489316
cg00000924 0.524508625
cg00000948 0.886547157

Total number of rows: 485577

Table truncated, full table size 10770 Kbytes.

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

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