|
| Status |
Public on Oct 26, 2018 |
| Title |
Kidney at Colistin 25mg/kg for 7d, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Sprague–Dawley rat kidney from CMS-treated group (25 mg/kg)
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague-Dawley
tissue: kidney
treatment: Colistin
dose: 25mg/kg
treatment outcome: tubular basophilia and dilated tubules
|
| Treatment protocol |
Colistin methanesulfonate sodium was purchased from Samchundang Pharm (Seoul, Korea), diluted with 0.9% saline (Dai Han Pharm, Co., Ansan, Korea), and administered (0, 25, and 50 mg/kg body weight). Each Sprague–Dawley rat was injected with a vehicle control or CMS via intraperitoneal injection daily for 7 d.
|
| Growth protocol |
Sprague–Dawley rats (8 weeks old) were purchased from Orient Bio Co. (Seongnam, Korea) and acclimated for 1 week prior to the experiment. All rats were housed under standard laboratory conditions on a 12 h light/dark cycle, under controlled temperature (23°C ± 3°C) and humidity (50% ± 20%).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
At sacrifice, the whole right kidney was extracted and frozen immediately in liquid nitrogen. Frozen samples were homogenized with a TissueLyser (Qiagen, Hilden, Germany) and total RNA was purified using an RNeasy® Mini Kit (Qiagen) according to the manufacturer’s instructions. The concentration and quality of total RNA were determined using a NanoDrop™ spectrophotometer (NanoDrop Technologies, Wilmington, DE, USA) and the RNA integrity was measured using a 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA).
|
| Label |
biotin
|
| Label protocol |
cDNA synthesis, cRNA synthesis, biotin labeling, cRNA purification, and fragmentation were performed according to the manufacturer’s instructions (Affymetrix).
|
| |
|
| Hybridization protocol |
The microarrays were hybridized at 45°C at 60 rpm for 16 h. The microarrays were stained and washed using a Fluidics Station 450 system (Affymetrix).
|
| Scan protocol |
A GeneChip® Scanner 3000 (Affymetrix) was used to scan the microarrays. The reproducibility of the microarray experiments was confirmed using well-defined quality control criteria according to the manufacturer’s instructions.
|
| Description |
Gene expression data from kidney in CMS-treated rat (25 mg/kg)
|
| Data processing |
To perform preprocessing and statistical analysis of the microarray data, CHIP data was obtained using Expression Console. Normalization was performed using RMA quantile median normalization.
|
| |
|
| Submission date |
Oct 25, 2018 |
| Last update date |
Oct 26, 2018 |
| Contact name |
Jung-Hwa Oh |
| E-mail(s) |
jhoh@kitox.re.kr
|
| Phone |
+82-42-610-+8278
|
| Organization name |
Korea Institue of Toxicology
|
| Street address |
141 Gajeong-ro, Yuseong
|
| City |
Daejeon |
| ZIP/Postal code |
34114 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL1355 |
| Series (1) |
| GSE121792 |
Expression data from the kidney of Sprague-Dawley rats given colistin methanesulfonate sodium |
|
