|
| Status |
Public on Jan 31, 2007 |
| Title |
egy wt sibling embryos at d3, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
earl grey embryos at day 3 post fertilization
|
| Organism |
Danio rerio |
| Characteristics |
strain background: AB/WIK, Genotype: egy, Allele: cz3, isolated mut sibling embryos.
Age: 3 days post fertilization
|
| Treatment protocol |
egy mutant embryos and wild-type siblings were collected in triplicates at the 72 and 120hpf stage and separately processed. After homogenization (Tekmar Tissumizer, Cincinnati, OH), total RNA was extracted by using TRIzol reagent (Invitrogen) and purified on RNeasy resins (Qiagen) according to the manufacturer’s recommendations.
|
| Growth protocol |
Embryos were obtained by pairwise matings of adult egy heterozygote fish, raised at 28 ºC
|
| 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 7 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Zebrafish Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner.
|
| Description |
Gene expression data from zebrafish wt embryos at day 3 post fertilization.
|
| 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 100.
|
| |
|
| Submission date |
Aug 24, 2006 |
| Last update date |
Mar 29, 2007 |
| Contact name |
Gerhard J Weber |
| E-mail(s) |
gweber@enders.tch.harvard.edu
|
| Organization name |
Children's Hospital Boston, Harvard Medical School
|
| Department |
Hematology / Oncology
|
| Street address |
1 Blackfan Circle
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL1319 |
| Series (1) |
| GSE5586 |
Expression data from egy wildtype and mutant embryo comparison |
|
