|
| Status |
Public on May 12, 2014 |
| Title |
zebrafish_SU5402 treated_Rep2 |
| Sample type |
RNA |
| |
|
| Source name |
wild-type SU5402-treated sibling_48 hpf
|
| Organism |
Danio rerio |
| Characteristics |
genotype/variation: wild type
Stage: 48 hpf
treated with: SU5402
tissue: heart
|
| Treatment protocol |
SU5402 incubation was performed as previously described (Marques et al., 2008). A 1 mM stock of SU5402 (Calbiochem) in DMSO was diluted to a working concentration of 10 μM in E3 medium. Up to 20 embryos were treated in glass vials in a final volume of 3 mL. Control embryos were treated with 1% DMSO in E3 medium.
|
| Growth protocol |
Embryos were collected, grown in blue water (60 mg/mL Instant Ocean and 0.025% methylene blue) at 28.5 degrees Celcius and dechorionated prior to heart dissection and RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Embryonic zebrafish hearts and surrounding tissues were collected at 48 hpf for microarray analysis using a previously described syringe-based extraction method (Burns and MacRae, 2006). Tissue was preserved in RNAlater solution (Ambion) and total RNA was isolated using a RNAqueous-Micro kit (Ambion).
|
| Label |
biotin
|
| Label protocol |
Label protocol was done using standard procedures in the Sloan-Kettering Institute Genomic Core.
|
| |
|
| Hybridization protocol |
Hybridization protocol followed standard procedures in the Sloan-Kettering Institute Genomic Core (Protocol EukGE-WS2v4_450).
|
| Scan protocol |
Scanning protocol followed standard procedures in the Sloan-Kettering Institute Genomic Core.
|
| Description |
XZ_SU2_zebrafish
|
| Data processing |
Initial data processing was done following standard procedures in the Sloan-Kettering Institute Genomic Core.
|
| |
|
| Submission date |
Mar 04, 2014 |
| Last update date |
May 12, 2014 |
| Contact name |
Xin-Xin I. Zeng |
| E-mail(s) |
xxzeng@ucsd.edu
|
| Phone |
(858) 534-3212
|
| Organization name |
UCSD
|
| Department |
Division OF Biological Sciences
|
| Lab |
Yelon
|
| Street address |
9500 Gilman Drive 0380
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093-0380 |
| Country |
USA |
| |
|
| Platform ID |
GPL1319 |
| Series (1) |
| GSE55540 |
Transcription profile of hearts extracted from zebrafish embryos treated with SU5402 at 48 hpf |
|
