|
| Status |
Public on Apr 01, 2015 |
| Title |
MEFE4F1_H03_KOE4F1_RepB_Cy5 |
| Sample type |
RNA |
| |
|
| Source name |
MEF, p53-/-, E4F1 -/-
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: mixed (C57BL/6; 129Sv/J)
genotype/variation: p53-/-, E4F1 -/-
tissue: 13.5-day embryo
cell type: mouse embryonic fibroblasts
|
| Treatment protocol |
E4F1 depletion is achieved three days after MEFs infection with a self-excising CRE-recombinase-encoding retrovirus.
|
| Growth protocol |
Cells were grown at 37°C in Dulbecco's modified medium supplemented with 10% Fetal Bovine Serum, glutamax, pyruvate and 4.5g/l D-glucose under 5% CO2, 100% saturated H2O incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA has been recovered with kits RNeasy® Mini from Qiagen.
|
| Label |
Cy5
|
| Label protocol |
For the preparation of the Cy3- and Cy5-labelled aRNA target, one microgram of total RNA samples were amplified and labelled using Amino Allyl Message Amp II aRNA amplification kit (Ambion, Austin, TX, USA), according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
The two labelled aRNA were mixed, fragmented and hybridized on one array of a NimbleGen 12-plex microarray according to the manufacturer's instructions.
|
| Scan protocol |
Scanned on an Innopsys Innoscan900 scanner.
|
| Description |
Sample 6
Replicate B
J3 post infection with a self-excising CRE-recombinase-encoding retrovirus.
|
| Data processing |
Images were quantified using NimbleScan V2.5. The raw data were normalized by Loess (Limma Package). Analyses of the differentially expressed genes have been performed with LIMMA packages (limma*.txt) and SAM packages (sam*.txt) with an FDR of 1% or 5%.
|
| |
|
| Submission date |
May 01, 2014 |
| Last update date |
Apr 01, 2015 |
| Contact name |
Claude Sardet |
| E-mail(s) |
claude.sardet@inserm.fr
|
| Organization name |
Institut de Recherche en Cancérologie de Montpellier (IRCM)
|
| Department |
Inserm U1194 - Université de Montpellier - Institut Régional du Cancer de Montpellier (ICM)
|
| Street address |
208 rue des Apothicaires
|
| City |
Montpellier |
| ZIP/Postal code |
34298 |
| Country |
France |
| |
|
| Platform ID |
GPL15902 |
| Series (2) |
| GSE57240 |
Expression analysis of p53-/- and p53-/-, Ha-RasV12-transformed MEFs upon E4F1 gene inactivation |
| GSE57242 |
The transcription factor E4F1 coordinates CHK1-dependent checkpoint and mitochondrial functions |
|
