|
| Status |
Public on Dec 31, 2011 |
| Title |
young adult_24hr BTF mix exposure_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
mRNA isolated from wildtype young adult, BTF mix
|
| Organism |
Danio rerio |
| Characteristics |
line: AB
genotype: wildtype
gender: hemaphrodite
developmental stage: young adult
treatment: benzene, toluene, formaldehyde
treatment time: 24 hours
|
| Treatment protocol |
From stock solutions, experimental concentrations of benzene, toluene, formaldehyde and a BTF mix were prepared in DMSO. For toxicity tests, fish were incubated at 28°C for 24 hr without a food source and then subjected to each type of analysis.
|
| Growth protocol |
Wild-type zebrafish (Danio rerio) were maintained on a 14/10 h light-dark cycle at 28°C and fed twice daily.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA was prepared from the exposed and control zebrafish according to the standard protocol of the RNeasy Mini kit (Qiagen, Hilden, Germany).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 300 ng total RNA (GeneChip® 3’ IVT Express Kit User Manual Affymetrix, P/N 702646 Rev. 1).
|
| |
|
| Hybridization protocol |
Following fragmentation, 12.5 ug of cRNA were hybridized for 16 hr at 45C on a GeneChip Zebrafish Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix Genechip Array scanner 3000 7G.
|
| Description |
Gene expression data from Danio rerio young adults.
Zebrafish-BTF mix
|
| Data processing |
Affymetrix data were normalized, and summarized with the robust multi-average (RMA) method implemented in the Affymetrix Expression Console 1.1. To reduce noise for the significance analysis, the probesets called Absent by the MAS5 detection call on all arrays were filtered out.
|
| |
|
| Submission date |
Oct 20, 2010 |
| Last update date |
Dec 31, 2011 |
| Contact name |
jinhee choi |
| E-mail(s) |
jinhchoi@uos.ac.kr
|
| Phone |
82-2-2210-5622
|
| Organization name |
University of Seoul
|
| Department |
College of Urban Science
|
| Lab |
Faculty of Environmental Engineering
|
| Street address |
90 Jeonnong-dong, Dongdaemun-gu
|
| City |
seoul |
| ZIP/Postal code |
130-743 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL1319 |
| Series (2) |
| GSE24846 |
mRNA microarray analysis on young adult zebrafish exposed to benzene, toluene, formaldehyde and a BTF mix |
| GSE24923 |
mRNA microarray analysis on young adult Caenorhabditis elegans, Drosophila melanogaster, and Danio rerio exposed to benzene, toluene, and formaldehyde |
|
