|
| Status |
Public on Feb 26, 2014 |
| Title |
Gastric_mucosa_KA522 |
| Sample type |
genomic |
| |
|
| Source name |
Autopsy
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Gastric_mucosa
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 |
| E-mail(s) |
kaie.lokk@ut.ee
|
| 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 |
|
