|
| Status |
Public on Jun 03, 2016 |
| Title |
skin_noUv_KO_2_mRNA |
| Sample type |
RNA |
| |
|
| Source name |
dorsal skin, not irradiated, KO(Ppard-/-)
|
| Organism |
Mus musculus |
| Characteristics |
background strain: SKH1-C57/Bl6-SV129
tissue: skin
uv irradiation: no_UV
genotype: KO(Ppard-/-)
|
| Treatment protocol |
Irradiated mice: 70mJ/cm2 of UVB three times a week
|
| Growth protocol |
Mice in standard colony, with water and food ad libitum
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA containing the small RNA fraction was isolated using TRIzol reagent (Invitrogen).
|
| Label |
biotin
|
| Label protocol |
For each sample, 100ng of total RNA were amplified using the Affymetrix Whole-Transcript (WT) Sense Taget Labeling protocol. 5.5μg of the cDNA was fragmented and labeled with GeneChip® WT Terminal Labeling kit (901525, Affymetrix).
|
| |
|
| Hybridization protocol |
Affymetrix mouse gene 1.0ST arrays (Affymetrix, Santa Clara, CA, USA) were hybridized with 2.3μg of fragmented target, at 45°C for 16 hours washed and stained according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol FS450_0007).
|
| Scan protocol |
The arrays were scanned with the GeneChip® Scanner 3000 7G (Affymetrix).
|
| Description |
ko392
|
| Data processing |
Background subtraction, quantile normalization and probeset summarization were performed with the Affymetrix Power Tools command line tool, using the RMA method.
|
| |
|
| Submission date |
Apr 19, 2016 |
| Last update date |
Jun 03, 2016 |
| Contact name |
Mark Ibberson |
| Organization name |
SIB Swiss Institute of Bioinformatics
|
| Department |
Vital-IT
|
| Street address |
Genopode building
|
| City |
Lausanne |
| ZIP/Postal code |
CH-1015 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL6246 |
| Series (2) |
| GSE80427 |
Identification of a novel PPARβ/δ / miR-21-3p axis in UV-induced skin inflammation [mouse mRNA] |
| GSE80431 |
Identification of a novel PPARβ/δ / miR-21-3p axis in UV-induced skin inflammation |
|
