|
| Status |
Public on Mar 31, 2013 |
| Title |
WT_POST_PDE_042 |
| Sample type |
RNA |
| |
|
| Source name |
WT_embryonic brain_posterior
|
| Organism |
Mus musculus |
| Characteristics |
strain background: CD1
genotype/variation: wild type; Raldh2 +/+
tissue: embryonic brain
tissue region: posterior
developmental stage: 4 somite stage
|
| Growth protocol |
Pregnant female mice were euthanized at E8.0/8.5, embryos were collected and tissue samples were quickly dissected, by sectioning with fine tweezers and freezing in liquid nitrogen. Extra-embryonic membranes were used for genotyping of the embryos. The mice used for this study harbor the Raldh2 knockout allele.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with the RNAeasy micro Kit (Qiagen) from individual embryonic samples.
|
| Label |
biotin
|
| Label protocol |
Biotinylated single strand cDNA targets were prepared, starting from 150 ng of total RNA, using the Ambion WT Expression Kit (Cat # 4411974) and the Affymetrix GeneChip® WT Terminal Labeling Kit (Cat # 900671) according to Affymetrix recommendations.
|
| |
|
| Hybridization protocol |
1.9 μg of cDNAs were hybridized for 16 hours at 45oC on GeneChip® Mouse Gene 1.0 ST arrays (Affymetrix).
|
| Scan protocol |
The chips were washed and stained in the GeneChip® Fluidics Station 450 (Affymetrix) and scanned with the GeneChip® Scanner 3000 7G (Affymetrix) at a resolution of 0.7 µm.
|
| Description |
PDE_042
|
| Data processing |
Raw data (.CEL Intensity files) were extracted from the scanned images using the Affymetrix GeneChip® Command Console (AGCC) version 3.2.
CEL files were processed with Affymetrix Expression Console software version 1.1 to calculate probe set signal intensities using Robust Multi-array Average (RMA) algorithms with default settings.
|
| |
|
| Submission date |
Jan 17, 2013 |
| Last update date |
Mar 31, 2013 |
| Contact name |
Doulaye Dembele |
| E-mail(s) |
doulaye@igbmc.fr
|
| Phone |
+33 3 88 65 35 28
|
| Organization name |
IGBMC
|
| Department |
Biopuces
|
| Street address |
1 rue Laurent Fries
|
| City |
Illkirch |
| ZIP/Postal code |
67400 |
| Country |
France |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE43578 |
Transcriptomic analysis of murine embryos lacking endogenous retinoic acid signaling |
|
