GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1215412 Query DataSets for GSM1215412
Status Public on Feb 26, 2014
Title Joint_cartilage_KA522
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 0.484232222
cg00000108 0.941140315
cg00000109 0.749185343
cg00000165 0.216950515
cg00000236 0.822487797
cg00000289 0.60945062
cg00000292 0.637169209
cg00000321 0.317646159
cg00000363 0.261401624
cg00000622 0
cg00000658 0.846418772
cg00000714 0.132424295
cg00000721 0.953066991
cg00000734 0.096285621
cg00000769 0.051516446
cg00000807 0.787610001
cg00000884 0.907819986
cg00000905 0.065388088
cg00000924 0.582121843
cg00000948 0.85595279

Total number of rows: 485577

Table truncated, full table size 10485 Kbytes.

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap