|
| Status |
Public on Dec 31, 2013 |
| Title |
Rat_liver_LE_Corn_oil_96_hours_rep_9 [NanoString] |
| Sample type |
RNA |
| |
|
| Source name |
liver, Long-Evans, Corn oil treated, 96 hour exposure
|
| Organism |
Rattus norvegicus |
| Characteristics |
gender: Male
tissue: Liver
strain: Long-Evans
age: 10-12 weeks
treatment: Corn Oil vehicle
exposure: 96 hours
|
| Treatment protocol |
Animals were treated with either TCDD or corn oil vehicle alone by oral gavage.
|
| Growth protocol |
Animals were housed in suspended, stainless-steel wire-mesh cages in groups of 4 rats with a 12h/12h light/dark cycle and with pelleted R36 feed and tap water. The temperature was maintained at 21 +/- 1 degree Celcius with relative humidity 50% +/- 10%.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Qiagen RNeasy Mini kits according to the manufacturer’s instructions (Qiagen, Mississauga, Canada). RNA was quantified using a NanoDrop UV spectrophotometer (Thermo Scientific, Mississauga, ON) and RNA integrity was verified using an Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
|
| Label |
FAM
|
| Label protocol |
n/a
|
| |
|
| Hybridization protocol |
n/a
|
| Scan protocol |
n/a
|
| Description |
Control
|
| Data processing |
Raw NanoString data (absolute molecule counts) were loaded into the R statistical environment (v2.12.2). Data was normalized for hybridization efficiency using the positive, spike-in controls, negative controls and reference genes Eef1a1, Gapdh, Hprt1, Ppia and Sdha and log2 transformed. Fold-changes calculated using the mean of the biological replicates (Treated - Control).
|
| |
|
| Submission date |
Jan 02, 2013 |
| Last update date |
Dec 31, 2013 |
| Contact name |
Stephenie Prokopec |
| E-mail(s) |
stephenie.prokopec@oicr.on.ca
|
| Organization name |
Ontario Institute for Cancer Research
|
| Street address |
661 University Avenue, Suite 510
|
| City |
Toronto |
| State/province |
Ontario |
| ZIP/Postal code |
M5G 0A3 |
| Country |
Canada |
| |
|
| Platform ID |
GPL16444 |
| Series (1) |
| GSE43251 |
NanoString analysis of a rat liver mRNA panel following TCDD treatment |
|
