|
| Status |
Public on Oct 11, 2011 |
| Title |
F9_ATRA_48h |
| Sample type |
RNA |
| |
|
| Source name |
F9 cells treated with ATRA (48h)
|
| Organism |
Mus musculus |
| Characteristics |
cell line: F9 embryonal carcinoma cells
agent: ATRA
time: 48h
|
| Growth protocol |
Embryonal carcinoma cells were cultured in Dubelcco’s modified Eagle’s medium supplemented with 10% foetal calf serum and 40ug/ml Gentamicin. Cells were seeded in gelatine-coated tissue culture plates (0.1%) and all-trans retinoic acid (ATRA), or the different RAR-specific agonists, were added to the plates in a final concentration of 1x10-6 M at different time points (for BMS961, the final concentration has been set to 1x10-7M).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cells using the GENEEluteTM RNA extraction kit (Sigma)
|
| Label |
biotin
|
| Label protocol |
biotin-labeled-cDNAs: “GeneChip® whole transcript sense target labeling assay manual” (P/N 701880 Rev.4).
|
| |
|
| Hybridization protocol |
biotin-labeled-cDNAs were hybridized on Affymetrix GeneChip Mouse Gene 1.0 ST Array (Affymetrix, Santa Clara, CA, USA). The arrays were further washed and stained with streptavidine-phycoerythrin in an Affymetrix GeneChip® Fluidics station 450 using the script protocol F450-0007.
|
| Scan protocol |
The arrays were scanned with an Affymetrix Gene Chip Scanner 3000 7G.
|
| Data processing |
Expression values were generated with Affymetrix software Expression Console version 1.1, using sketch quantile normalization and median polish summarization as in Robust Multiarray Analysis (RMA).
|
| |
|
| Submission date |
Jul 10, 2011 |
| Last update date |
Oct 11, 2011 |
| Contact name |
Marco Antonio Mendoza-Parra |
| E-mail(s) |
[email protected]
|
| Organization name |
IGBMC
|
| Street address |
1, rue Laurent Fries
|
| City |
Illkirch; Strasbourg |
| ZIP/Postal code |
67400 |
| Country |
France |
| |
|
| Platform ID |
GPL6246 |
| Series (2) |
| GSE30537 |
Dissecting the retinoid-induced differentiation of F9 embryonal stem cells by integrative genomics [mRNA profiling] |
| GSE30539 |
Dissecting the retinoid-induced differentiation of F9 embryonal stem cells by integrative genomics |
|
