|
| Status |
Public on Jun 13, 2012 |
| Title |
Middle_age_13 |
| Sample type |
genomic |
| |
|
| Source name |
Whole blood
|
| Organism |
Homo sapiens |
| Characteristics |
gender: Female
age: Middle age
tissue: Whole blood
cell type: Peripheral blood mononuclear cells (PBMC)
disease state: Healthy donor
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Peripheral blood was obtained from female healthy donors from different ages. Peripheral blood mononuclear cells (PBMC) were extracted using a Ficoll gradient. To separate CD19 and CD4 positive cells CD19 MicroBeads and CD4+ T cell Isolation kit II (Miltenyi Biotec) was applied following the manufacturer’s instructions. DNA was Phenol:Chloroform:Isoamylalcohol (Sigma), respectively. CD19+ B-cells were immortalized by Epstein-Barr-Virus (EBV) applying previous published protocol (Miller, G. & Lipman, M. Release of infectious Epstein-Barr virus by transformed marmoset leukocytes. Proc. Natl. Acad. Sci. U.S.A 70, 190-194 (1973)). Bisulphite modification of genomic DNA was carried out with the EZ DNA Methylation Kit (Zymo) following the manufacturer's protocol.
|
| Label |
Cy3 and Cy5
|
| Label protocol |
Illumina Infinium Assay
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using High Scan SQ using standard recommended Illumina scanner setting
|
| Description |
healthy sample
|
| Data processing |
The intensities of the images are extracted using Genome Studio V2011.2. Methylation score of each CpG is represented as AVG_beta value.
Raw data file linked to Series record: Unmethylated (Signal_A) and methylated (Signal_B) signal intensities.
|
| |
|
| Submission date |
Oct 26, 2011 |
| Last update date |
Jun 13, 2012 |
| Contact name |
Manel Esteller |
| Organization name |
IDIBELL
|
| Department |
PEBC
|
| Lab |
Cancer Epigenetics
|
| Street address |
Hospital Duran i Reynals Av. Gran Via s/n km, 2.7
|
| City |
L'Hospitalet de Llobregat |
| State/province |
Barcelona |
| ZIP/Postal code |
08908 |
| Country |
Spain |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE33233 |
DNA methylation differences between Newborns and Nonagenarians [PBMNC] |
|
