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Sample GSM1215448 Query DataSets for GSM1215448
Status Public on Feb 26, 2014
Title Joint_cartilage_SJ600-5
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Joint_cartilage
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 0.36588142
cg00000108 0.916594416
cg00000109 0.660616628
cg00000165 0.169744393
cg00000236 0.74206932
cg00000289 0.69449126
cg00000292 0.619189999
cg00000321 0.292450289
cg00000363 0.253296297
cg00000622 0.004882977
cg00000658 0.73731967
cg00000714 0.120542186
cg00000721 0.9116621
cg00000734 0.093757013
cg00000769 0.056866406
cg00000807 0.829101747
cg00000884 0.870182039
cg00000905 0.064973783
cg00000924 0.662250049
cg00000948 0.866917041

Total number of rows: 485577

Table truncated, full table size 10778 Kbytes.

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

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