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Sample GSM1215441 Query DataSets for GSM1215441
Status Public on Feb 26, 2014
Title Adipose_subcutaenous_SJ600-5
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Adipose_subcutaenous
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 0.244339221
cg00000108 0.952036723
cg00000109 0.784508058
cg00000165 0.146417801
cg00000236 0.767680514
cg00000289 0.608775655
cg00000292 0.60547108
cg00000321 0.365594988
cg00000363 0.202416599
cg00000622 0.009513853
cg00000658 0.803092273
cg00000714 0.134941026
cg00000721 0.925625095
cg00000734 0.067654417
cg00000769 0.070529417
cg00000807 0.750656739
cg00000884 0.885908529
cg00000905 0.060291833
cg00000924 0.52995094
cg00000948 0.876015386

Total number of rows: 485577

Table truncated, full table size 10737 Kbytes.

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

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