|
| Status |
Public on Dec 31, 2013 |
| Title |
BRAF(V600K)-NEG-rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Lgr5-EGFP-negative crypt cells, BRAF(V600K) transgene negative
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Lgr5-EGFP-negative crypt cells
transgene: BRAF(V600K) transgene negative
genetic background: B6/129S6 mixed
organ: duodenum
|
| Treatment protocol |
Cells were gated into different fractions, by high versus low green fluorescence (Lgr5-EGFP stem cell specific reporter) and high versus low red fluorescence (inducible TdTomato-BRAF(V600K) or TdTomato-luciferase control transgene). Resulting cell populations are labelled RG, R, G and NEG.
|
| Growth protocol |
Mice were housed at a 12h/12h light/dark cycle and fed ad libitum. Transgenes were induced by doxycycline (4mg/ml) treatment provided in a 1% sucrose solution in the drinking water of transgenic mice. Single cell suspensions were isolated from intestinal crypts of mice aged 8-12weeks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were sorted into Qiagen buffer RLT+1%beta-Mercaptoethanol, and RNA was extracted using RNeasy Micro columns
|
| Label |
Biotin-Cy3
|
| Label protocol |
Probes were labelled using the NuGen Procedure (at Company AROS, Aarhus, DK)
|
| |
|
| Hybridization protocol |
Arrays were hybridized using the NuGen Procedure (at Company AROS, Aarhus, DK)
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
BRAF Mouse 1
|
| Data processing |
Illumina Genome Studio GX 1.9.0, Quantile Normalisation
|
| |
|
| Submission date |
Sep 06, 2013 |
| Last update date |
Aug 20, 2014 |
| Contact name |
Markus Morkel |
| E-mail(s) |
markus.morkel@charite.de
|
| Organization name |
Charité - Universitätsmedizin Berlin
|
| Department |
Dept. of Pathology
|
| Lab |
Laboratory of Molecular Tumour Pathology
|
| Street address |
Charitéplatz 1
|
| City |
Berlin |
| ZIP/Postal code |
10117 |
| Country |
Germany |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE50678 |
Transcriptional Response to transgenic BRAF(V600K) in the intestinal epithelium |
|
