|
| Status |
Public on Mar 22, 2020 |
| Title |
NFKBIA_IEC_WT_biol_rep_1 |
| Sample type |
RNA |
| |
|
| Source name |
NFKBIA_IEC_81_WT
|
| Organism |
Mus musculus |
| Characteristics |
genotype/variation: WT
gender: male
age: 8 weeks
tissue: small intestine
rin: 7.6
|
| Treatment protocol |
The mice were not treated
|
| Growth protocol |
All mouse protocols in this study followed the regulatory standards of the governmental review board (Landesamt Berlin, LaGeSo, Reg. G007/08, G 0082/13, G0358/13 and X9013/11). Mice were fed standard pellets and health was monitored according to LaGeSo regulations. Mice were sacrificed according to humane protocol and the small intestine was removed and washed with ice cold PBS and then snap frozen in liquid nitrogen.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
Biotin
|
| Label protocol |
250 ng RNA was amplified, fragmented and biotin-labelled using the GeneChipTM WT PLUS Reagent kit (ThermoFisher Scientific) according to the manufacturer’s instructions.
|
| |
|
| Hybridization protocol |
73 µl hybridization cocktail was added to 2.5 µg fragmented and labled ss-cDNA and 80 µl of this cocktail was applied to the Mouse Clariom S arrays (Affymetrix) and hybridized for 16 hours at 45°C in a Genechip Hybridization Oven 640 (Affymetrix). After hybridization the arrays were washed and stained with a Genechip Fluidics Station 450 (Affymetrix) using the genechip hybridization wash and stain kit according to protocol FS450_0007.
|
| Scan protocol |
Arrays were scanned using the Affymetrix Scanner 3000 7G.
|
| Description |
sibling_pair_1
|
| Data processing |
Affymetrix CEL files were normalized using RMA. Data analysis was performed with the Transcriptome Analysis Console 4.0 (ThermoFisher Scientific).
|
| |
|
| Submission date |
Oct 22, 2019 |
| Last update date |
Mar 22, 2020 |
| Contact name |
Marina Kolesnichenko |
| E-mail(s) |
marina.k@oxfordalumni.org
|
| Organization name |
Max-Delbrück-Center
|
| Lab |
Signal Transduction in Tumor Cells
|
| Street address |
Robert-Rössle-Str. 10
|
| City |
Berlin |
| ZIP/Postal code |
13125 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23038 |
| Series (1) |
| GSE139251 |
Expression data from small intestine of NFKBIA-KO mice versus wild type |
|
