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Sample GSM1215432 Query DataSets for GSM1215432
Status Public on Feb 26, 2014
Title Lymph_node_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Lymph_node
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 0.466650541
cg00000108 0.938705824
cg00000109 0.90380037
cg00000165 0.218802529
cg00000236 0.83577204
cg00000289 0.682661663
cg00000292 0.70977361
cg00000321 0.394507542
cg00000363 0.32816208
cg00000622 0.008658537
cg00000658 0.807222276
cg00000714 0.197027015
cg00000721 0.924536279
cg00000734 0.080425485
cg00000769 0.054430248
cg00000807 0.764423467
cg00000884 0.887337812
cg00000905 0.080503613
cg00000924 0.527445807
cg00000948 0.89352511

Total number of rows: 485577

Table truncated, full table size 10724 Kbytes.

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

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