|
| Status |
Public on Jun 19, 2015 |
| Title |
Neuroblastoma_12_Tumour_methylation |
| Sample type |
genomic |
| |
|
| Source name |
Tumour
|
| Organism |
Homo sapiens |
| Characteristics |
diagnosis: neuroblastoma
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated using standard methods (Qiagen) and bisulfite converted using the EZ DNA Methylation Gold Kit (Zymo Research)
|
| Label |
Cy3, Cy5
|
| Label protocol |
Bisulfite-converted DNA was used in a whole-genome amplification reaction and BeadArray protocols followed the manusfaturers instructions (Illumina)
|
| |
|
| Hybridization protocol |
DNA was fragmented, precipitated and resuspended in hybridisation buffer and subsequent steps performed according to the standard protocol supplied by the manufacturer
|
| Scan protocol |
BeadChips were coated and images on an Illumina BeadArray Reader.
|
| Description |
Differential methylation
|
| Data processing |
Images were processed with BeadStudio software
Data were normalized by the Beta Mixture Quantile (BMIQ) method using the RnBeads analysis software package (Assenov et al., available at rnbeads.mpi-inf.mpg.de)
Unmethylated and methylated signal intensities are available on the series record.
|
| |
|
| Submission date |
Jan 26, 2015 |
| Last update date |
Jun 20, 2015 |
| Contact name |
Alexander Schramm |
| E-mail(s) |
alexander.schramm@uk-essen.de
|
| Organization name |
University Hospital Essen
|
| Department |
Childrens Hospital
|
| Lab |
Hematology/Oncology Lab
|
| Street address |
Hufelandstr. 55
|
| City |
Essen |
| ZIP/Postal code |
45122 |
| Country |
Germany |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE65306 |
Comprehensive genomic analysis of relapse neuroblastoma [methylation] |
| GSE65307 |
Comprehensive genomic analysis of relapse neuroblastoma |
|
