|
| Status |
Public on Nov 14, 2011 |
| Title |
Rat liver LE TCDD 4 days rep1 |
| Sample type |
RNA |
| |
|
| Source name |
liver, Long-Evans, TCDD treated, 4 day exposure
|
| Organism |
Rattus norvegicus |
| Characteristics |
Gender: Male,Tissue: liver,Strain: Long-Evans,Age: 10-12 weeks,Treatment: 100 ug/kg TCDD,Feed: ad libitum,Exposure: 4 days
|
| Treatment protocol |
TCDD treated animals were treated with 100 ug/kg TCDD by oral gavage.
|
| Growth protocol |
Animals were grown in a 12h/12h light/dark cycle housed in groups of 4 rats in suspended stainless-steel wire-mesh cages with pelleted R36 feed and tap water. The temperature was 21 +/- 1 degree Celcius and the relative humidity 50% +/- 10%.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Qiagen RNeasy kits according to the manufacturer’s instructions (Qiagen, Mississauga, Canada). Total RNA yield was quantified by UV spectrophotometry and RNA integrity was verified using an Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
|
| Label |
biotin
|
| Label protocol |
Manufacturer's recommended protocols as followed by the TCAG Facility at the Hospital for Sick Kid's in Toronto, Canada
|
| |
|
| Hybridization protocol |
Manufacturer's recommended protocols as followed by the TCAG Facility at the Hospital for Sick Kid's in Toronto, Canada
|
| Scan protocol |
Manufacturer's recommended protocols as followed by the TCAG Facility at the Hospital for Sick Kid's in Toronto, Canada
|
| Description |
NA
|
| Data processing |
Quantitated array data (CEL files) were loaded into the R statistical environment (v2.7.2) using the Affy package (v1.18.2) of the BioConductor library. Data was investigated for spatial and distributional homogeneity, then pre-processed with a sequence-specific version of the RMA algorithm termed GCRMA, as implemented in R (v2.12.1). We employed an updated and remapped mapping of Probes to Entrez Gene IDs as implemented in the R package rat2302rnentrezgcdf (v11.0.0).
|
| |
|
| Submission date |
Nov 07, 2008 |
| Last update date |
Nov 15, 2011 |
| Contact name |
Paul C Boutros |
| E-mail(s) |
Paul.Boutros@utoronto.ca
|
| Organization name |
Ontario Institute for Cancer Research
|
| Street address |
101 College Street, Suite 800
|
| City |
Toronto |
| State/province |
Ontario |
| ZIP/Postal code |
M5G 0A3 |
| Country |
Canada |
| |
|
| Platform ID |
GPL9199 |
| Series (1) |
| GSE13513 |
Patterns of dioxin-altered mRNA expression in livers of dioxin-sensitive versus dioxin-resistant rats |
|
