|
| Status |
Public on Oct 25, 2007 |
| Title |
MO control zebrafish embryo 21hpf-1 |
| Sample type |
RNA |
| |
|
| Source name |
Control MO injected Danio rerio embryo, 21 hours post-fertilization
|
| Organism |
Danio rerio |
| Characteristics |
strain: TL;
age: 21 hours post-fertilization;
|
| Biomaterial provider |
Tokyo Institue of Technology
|
| Treatment protocol |
Embryos were injected at the one-cell or two-cell stages with approximately 2.5 pmol of commercially available standard control morpholino oligo with a 3’ carboxyfluorescein (Gene Tools, LLC).
|
| Growth protocol |
Embryos were maintained in E3 medium (5 mM NaCl, 0.17 mM KCl, 0.33 mM CaCl2, and 0.33 mM MgSO4) at 28.5 centigrade for 21 hours post-fertilization.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from embryos using Sepasol-RNA I super (Nacalai tesque), followed by further purification using an RNeasy mini protocol for RNA cleanup (Qiagen).
|
| Label |
biotin
|
| Label protocol |
In vitro synthesis of cDNA and target cRNA preparations were carried out with 5 µg of total RNA according to a One-Cycle Target Labeling protocol (Affymetrix). Label reaction was performed using the GeneChip IVT Labeling Kit.
|
| |
|
| Hybridization protocol |
Aliquots of cRNA (20 µg) of each sample were fragmented, hybridized to the Genechip Zebrafish Genome Array, and processed according to the manufacturer’s instructions.
|
| Scan protocol |
Fluidics Station 400 is used to wash and stain the probe arrays, and controlled by Affymetrix® Microarray Suite. The scanner is also controlled by Affymetrix® Microarray Suite. All the procedure was according to the manufacturer’s instructions.
|
| Description |
A High-Resolution Transcriptome Map of the Control Morpholino Oligo Injected Zebrafish Embryo
|
| Data processing |
Scanned data were analyzed with the GC-RMA algorithm (REF) to estimate gene expression levels.
|
| |
|
| Submission date |
Oct 25, 2006 |
| Last update date |
Oct 25, 2006 |
| Contact name |
Tadashi Wada |
| E-mail(s) |
wada.t.ac@m.titech.ac.jp
|
| Phone |
+81-45-924-5798
|
| Fax |
+81-45-924-5834
|
| URL |
http://www.handa.bio.titech.ac.jp/
|
| Organization name |
Tokyo Institute of Technology
|
| Department |
Bioscience and Biotechnology
|
| Lab |
The lab of Dr. HANDA Hiroshi and Dr. WADA Tadashi
|
| Street address |
4259 Nagatsuta-cho, Midori-ku
|
| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
226-8503 |
| Country |
Japan |
| |
|
| Platform ID |
GPL1319 |
| Series (1) |
| GSE6127 |
The expression of Spt5 targeted genes |
|
