|
| Status |
Public on Dec 14, 2022 |
| Title |
NB01 (aCGH) |
| Sample type |
genomic |
| |
|
| Source name |
neuroblastoma
|
| Organism |
Homo sapiens |
| Characteristics |
age: 4
risk group: Low
tumor type: Primary
|
| Treatment protocol |
None
|
| Growth protocol |
None
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA extraction from neuroblastoma samples was performed using the DNeasy blood and tissue kit (Qiagen) according to the manufacturer’s protocol. DNA quality was assessed using the Tapestation platform (Agilent).
|
| Label |
biotin
|
| Label protocol |
Sample DNA was digested by restriction enzymes NspI, adaptors were ligated to the diagested DNA to perform a PCR amplification. Amplified DNA was labeled and further fragmented using Affymetrix Cytoscan HD array kit and reagent kit bundle, (Affymetrix, Santa Clara, CA,US) to obtain biotin labeled DNA, as per manufacturer’s instruction.
|
| |
|
| Hybridization protocol |
DNA extraction from neuroblastoma samples was performed using the DNeasy blood and tissue kit (Qiagen) according to the manufacturer’s protocol. DNA quality was assessed using the Tapestation platform (Agilent).
|
| Scan protocol |
The Arrays were washed using affymetrix fluidics stations FS450 and scanned using the Gene Chip Scanner 3000.
|
| Description |
Affymetrix CytoScan HD
|
| Data processing |
SNP microarray analysis was performed using the Cytoscan HD Array (Affymetrix) and data was processed using the Chromosome Analysis Suite version 3.3.0.139.
|
| |
|
| Submission date |
Mar 30, 2020 |
| Last update date |
Dec 14, 2022 |
| Contact name |
Shenglin Mei |
| E-mail(s) |
samleomei@gmail.com
|
| Organization name |
Harvard medical school (DMBI)
|
| Street address |
10 Shattuck Street
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL16131 |
| Series (2) |
| GSE147773 |
Malignant Schwann cell precursors mediate intratumoral plasticity in human neuroblastoma [Array] |
| GSE147777 |
Malignant Schwann cell precursors mediate intratumoral plasticity in human neuroblastoma |
|
