|
| Status |
Public on Jan 22, 2018 |
| Title |
Primary_hepatocytes_DMSO |
| Sample type |
RNA |
| |
|
| Source name |
primary hepatocyte
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
treatment: DMSO
gender: male
|
| Treatment protocol |
The cultures were maintained for 24 h before treatment with vehicle (dimethyl sulfoxide) or 10 μmol/l pregnenolone 16α-carbonitrile (PCN) for 12 h, after which cells were collected and RNA isolated.
|
| Growth protocol |
Primary hepatocytes were isolated from a male 9-week-old C57BL/6 mouse and cultured as described in Arpiainen, S. et al. Toxicol. Appl. Pharmacol. 232, 135–141 (2008).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRI-Reagent (Sigma-Aldrich) according to the manufacturer’s protocol and treated with DNase.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA, pooled from 3 different samples.
|
| |
|
| Hybridization protocol |
Standard Affymetrix hybridization protocol
|
| Scan protocol |
Standard Affymetrix scanning protocol
|
| Description |
Gene expression data from DMSO treated mouse primary hepatocytes.
|
| Data processing |
Expression estimates were calculated using GCRMA (v2.2.0) in Bioconductor, applying the emperical Bayes (EB) model for background estimation.
Probe sets were redefined according to Dai et al. (Nucleic Acids Res. 33, e175, 2005) using remapped Chip Definition File v9, based on the Entrez Gene database (build 36, v2). Expression estimates were done as described previously Buler, M. et al. J. Biol. Chem. 287, 1847–1860 (2012).
|
| |
|
| Submission date |
Oct 27, 2017 |
| Last update date |
Jan 24, 2018 |
| Contact name |
Jaana Rysae |
| E-mail(s) |
jaana.rysa@gmail.com
|
| Organization name |
University of Eastern Finland
|
| Department |
School of Pharmacy
|
| Street address |
Yliopistonranta 1C
|
| City |
Kuopio |
| ZIP/Postal code |
70211 |
| Country |
Finland |
| |
|
| Platform ID |
GPL9746 |
| Series (1) |
| GSE106293 |
The effect of PCN on gene expression in mouse primary hepatocytes |
|
