|
| Status |
Public on Oct 09, 2008 |
| Title |
S0525_Hind240 |
| Sample type |
genomic |
| |
|
| Source name |
primary tumour
|
| Organism |
Homo sapiens |
| Characteristics |
Gender: female
Age: 1 year
Stage: 4
MYCN amp.:no
1p del: yes
11q del: no
17q gain: yes
|
| Treatment protocol |
All samples were snap frozen and stored at -80oC prior to extraction
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted using a phenol/chloroform/isoamyl alcohol extraction after proteinase K treatment. DNAs were digested with HindIII and ligated to appropriate adapters prior to PCR amplification. Where DNA quantity was limited, a whole genome amplification step (Multiple Displacement Amplification) was performed prior to digestion according to manufacturer’s instructions (Quiagen Inc., Valencia, CA).
|
| Label |
biotin
|
| Label protocol |
The amplified products were fragmented and end labelled with a fluorescent tag according to manufacturers recommendations (Affymetrix UK Ltd., High Wycome, UK).
|
| |
|
| Hybridization protocol |
All samples were hybridised using the Affymetrix Mapping 100K v1_450 protocol according to manufacturers recommendations (Affymetrix UK Ltd., High Wycome, UK).
|
| Scan protocol |
All samples were scanned using an Affymetrix GeneChip Scanner 3000
|
| Description |
none
|
| Data processing |
Data was processed with GDAS 3.0 software using default settings.
|
| |
|
| Submission date |
Oct 09, 2008 |
| Last update date |
Oct 09, 2008 |
| Contact name |
Michael Stewart Jackson |
| E-mail(s) |
[email protected]
|
| Phone |
+44 191 241 8677
|
| Organization name |
Newcastle University
|
| Department |
Institute of Genetic Medicine
|
| Street address |
Central Parkway
|
| City |
Newcastle upon Tyne |
| ZIP/Postal code |
NE1 3BZ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL2004 |
| Series (2) |
| GSE13137 |
Identification of candidate neuroblastoma genes by combining genomic and expression microarrays: SNP data |
| GSE13141 |
Identification of candidate neuroblastoma genes by combining genomic and expression microarrays |
|
