|
| Status |
Public on Jan 25, 2016 |
| Title |
Olfactory_Chlorpyrifos_Medium_2 |
| Sample type |
RNA |
| |
|
| Source name |
Chlorpyrifos Medium
|
| Organism |
Oncorhynchus kisutch |
| Characteristics |
tissue: olfactory rosettes
developmental stage: juvenile
body weight: 15 +/- 5.7g
age: 1 year
|
| Biomaterial provider |
The University of Washington (Seattle, WA).
|
| Treatment protocol |
Pesticide stock solutions or carrier solutions containing no pesticide were added to 70L hatchery water in 90L glass aquaria containing eight individual fish. The aquaria were contained within a large chilled recirculating water bath (11C) and received aeration. Fish were exposed for 24h.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The olfactory rosettes were dissected for subsequent RNA isolation. Total RNA was isolated using the RNeasy Mini Kit (Qiagen Inc, Valencia, CA) according to the vendor's protocol and stored at -80C.
|
| Label |
Cy5 fluorescent label
|
| Label protocol |
For microarray hybridization, RNA was processed for hybridization to the Agilent-025055 Koop Lab Salmonid 44K Array through a core facility in the Functional Genomics Laboratory in the Center for Ecogenetics and Environmental Health at the University of Washington according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
The standard hybridization protocol was used as recommended by Agilent
|
| Scan protocol |
Arrays were scanned using an Agilent DNA microarray scanner through the University of Washington Functional Genomics Laboratory in the Center for Ecogenetics and Environmental Health (http://depts.washington.edu/ceeh/ServiceCores/FC1/FC1.html).
|
| Data processing |
Expression values were first background-corrected by subtracting the median background intensity, and then normalized using variance stabilization normalization (VSN, Huber et al, doi 10.1093/bioinformatics/18.suppl_1.S96).
|
| |
|
| Submission date |
Jun 14, 2013 |
| Last update date |
Jan 25, 2016 |
| Contact name |
James William MacDonald |
| E-mail(s) |
jmacdon@uw.edu
|
| Organization name |
University of Washington
|
| Department |
Environmental and Occupational Health Sciences
|
| Street address |
4225 Roosevelt Way NE
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98105-6099 |
| Country |
USA |
| |
|
| Platform ID |
GPL11299 |
| Series (1) |
| GSE47984 |
Transcriptional impact of organophosphate pesticides chlorpyrifos and malathion and their mixture on the juvenile coho salmon olfactory system. |
|
