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Sample GSM1215453 Query DataSets for GSM1215453
Status Public on Feb 26, 2014
Title Gallbladder_SJ600-5
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 0.295035457
cg00000108 0.925773646
cg00000109 0.735979671
cg00000165 0.177618765
cg00000236 0.771917189
cg00000289 0.681041316
cg00000292 0.628240429
cg00000321 0.340559551
cg00000363 0.256148788
cg00000622 0.01229682
cg00000658 0.805895652
cg00000714 0.148847778
cg00000721 0.875164192
cg00000734 0.071384432
cg00000769 0.074539363
cg00000807 0.728096861
cg00000884 0.867518354
cg00000905 0.077728417
cg00000924 0.529399698
cg00000948 0.886118649

Total number of rows: 485577

Table truncated, full table size 10794 Kbytes.

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

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