|
| Status |
Public on Feb 01, 2011 |
| Title |
3 hour RA treatment, biological rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Zebrafish embryos paraxial mesoderm
|
| Organism |
Danio rerio |
| Characteristics |
protocol: 3 hour RA treatment
tissue: posterior PSM
genotype: wild-type AB
age: 12-somite stage
|
| Treatment protocol |
Embryos are either incubated in drugs (RA, DMSO, DAPT) at room temperature (24C°) or heat-shocked at 37C° then transfered to 24C°. Embryos were manually dechorionated at 24C°. Selected embryos were transferred to a basket in L15 media. Embryos were manually dissected and the tissue sections were placed in the Trizol solution (Invitrogen) and frozen immediately on dry ice and stored at -80C°.
|
| Growth protocol |
Embryos from AB line were grown at 24C° untill 12-somite stage.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared by using Affymetrix GeneChip Expression 3'-Amplification Reagents for IVT Labeling kit.
|
| |
|
| Hybridization protocol |
Each chip was hybridized to 13 μg fragmented cRNA. Arrays were hybridized according to the manufacturer’s instructions.
|
| Scan protocol |
GeneChips were scanned with a Affymetrix GeneChip Scanner 3000 7G at the Microarray Core Facility of the Stowers Institute for Medical Research
|
| Description |
Gene expression data from 3 hour RA treated embryos
3 hour RA treatment, biological rep3
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
|
| |
|
| Submission date |
Sep 03, 2009 |
| Last update date |
Feb 01, 2011 |
| Contact name |
Olivier Pourquie |
| E-mail(s) |
olp@stowers.org
|
| Phone |
816-926-4442
|
| Fax |
816-926-2095
|
| Organization name |
Stowers Institute for Medical Research
|
| Lab |
Pourquie
|
| Street address |
1000 E. 50th Street
|
| City |
Kansas City |
| State/province |
MO |
| ZIP/Postal code |
64110 |
| Country |
USA |
| |
|
| Platform ID |
GPL1319 |
| Series (1) |
| GSE17949 |
Integrated cell-to-cell signaling networks regulate vertebrate axis formation and left-right asymmetry |
|
