|
| Status |
Public on Jul 01, 2012 |
| Title |
NBL 7 cell line treated |
| Sample type |
RNA |
| |
|
| Source name |
NBL cell line 7
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: MYCN amplified
|
| Treatment protocol |
untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
|
| Growth protocol |
cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
|
| Description |
Gene expression data of neuroblastoma cell line
Sample name: NBL7_t
KGK_IG_290307_NBL7_B.CHP
KGK_IG_290307_NBL7_B.CEL
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
|
| |
|
| Submission date |
Jan 19, 2012 |
| Last update date |
Jul 01, 2012 |
| Contact name |
Floor Duijkers |
| Organization name |
Erasmus MC
|
| Department |
Pediatric Oncology-Hematology
|
| Street address |
Dr. Molewaterplein 50-60 Ee15-02
|
| City |
Rotterdam |
| ZIP/Postal code |
3015 GE |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE35218 |
Nanomolar treatment with epigenetic drug combination induces genome-wide methylation and expression alterations in neuro-ectodermal cell lines [mRNA] |
| GSE35798 |
Nanomolar treatment with epigenetic drug combination induces genome-wide methylation and expression alterations in neuro-ectodermal cell lines |
|
