GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1215433 Query DataSets for GSM1215433
Status Public on Feb 26, 2014
Title Tonsils_KT538
Sample type genomic
Source name Autopsy
Organism Homo sapiens
Characteristics tissue: Tonsils
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 0.490108691
cg00000108 0.989184068
cg00000109 0.939744924
cg00000165 0.33299362
cg00000236 0.93274066
cg00000289 0.699584724
cg00000292 0.734756282
cg00000321 0.418785079
cg00000363 0.333444638
cg00000622 0
cg00000658 0.927974007
cg00000714 0.167501862
cg00000721 1
cg00000734 0.098768174
cg00000769 0.025559105
cg00000807 0.822085328
cg00000884 1
cg00000905 0.086207399
cg00000924 0.628425788
cg00000948 0.943242394

Total number of rows: 485577

Table truncated, full table size 10067 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