|
| Status |
Public on Jan 04, 2016 |
| Title |
Hepatocytes_WT_repl3 |
| Sample type |
RNA |
| |
|
| Source name |
Primary hepatocytes, Jnk1f/fJnk2+/+ (WT) mouse
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: C57BL/6
genotype/variation: Jnk1f/fJnk2+/+ (WT)
Sex: male
age: 7-8 wks
tissue: primary hepatocytes
mouseid: 927
|
| Treatment protocol |
Mice had free acces to standard laboratory chow and water. Mice were used at the age between 7 and 8 wks.
|
| Growth protocol |
Constitutive Jnk2 knockout mice (Jnk2-/-) were purchased from Harlan Laboratories (Bar Harbor, ME). Jnk1f/f (C57BL/6) mice were crossed with transgenic mice expressing cre-recombinase under control of albumin promoter and alpha-fetoprotein enhancer elements (Albf-Cre) to generate hepatocyte-specific Jnk1 knockout mice (Jnk1Δhepa), previously characterized in our lab (PMID: 24037431). JNKΔhepa double-knockout mice were obtained by crossing Jnk1Δhepa and Jnk2-/- mice. Matching male Jnk1f/fJnk2+/+ littermates were used as wildtype (WT) controls.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using RNeasy Micro Kit from Qiagen. RNA integrity was checked on chip analysis (Agilent 2100 Bioanalyzer, Agilent Technologies, Amsterdam, the Netherlands) according to the manufacturer's instructions. RNA was judged as suitable for array hybridization only if samples exhibited intact bands corresponding to the 18S and 28S ribosomal RNA subunits, and displayed no chromosomal peaks or RNA degradation products (RNA Integrity Number > 8.0).
|
| Label |
biotin
|
| Label protocol |
One hundred nanogram of RNA was used for whole transcript cDNA synthesis with the Ambion WT Expression Kit [catalog number 4411974] (Applied Biosystems/Life Technologies, Nieuwekerk a/d IJssel, The Netherlands).
|
| |
|
| Hybridization protocol |
Hybridization and washing of the Affymetrix GeneChip Mouse Gene 1.1 ST peg arrays were performed on a GeneTitan Instrument according to the manufacturer's recommendations.
|
| Scan protocol |
Arrays were scanned on an Affymetrix GeneTitan Instrument (Affymetrix, Santa Clara, CA) according to the manufacturer's recommendations.
|
| Description |
Hepa_WT_3
Replicate 3
|
| Data processing |
Expression estimates were calculated applying the RMA algorithm in the Bioconductor library 'Oligo' (v1.28.2).
|
| |
|
| Submission date |
Jul 18, 2014 |
| Last update date |
Jan 05, 2016 |
| Contact name |
Guido Hooiveld |
| E-mail(s) |
guido.hooiveld@wur.nl
|
| Organization name |
Wageningen University
|
| Department |
Div. Human Nutrition & Health
|
| Lab |
Nutrition, Metabolism & Genomics Group
|
| Street address |
HELIX, Stippeneng 4
|
| City |
Wageningen |
| ZIP/Postal code |
NL-6708WE |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL11533 |
| Series (1) |
| GSE59602 |
Dual function of Jnk1 and Jnk2 in hepatocytes is essential to protect against toxic liver injury |
|
