|
| Status |
Public on Feb 01, 2019 |
| Title |
tumor5 |
| Sample type |
RNA |
| |
|
| Source name |
Bladder, adeno-cre inoculated
|
| Organism |
Mus musculus |
| Characteristics |
background strain: FVB/N
genotype: Rbf/f, Ptenf/f, Tp53f/f, p107-/-
tissue: bladder tumor
|
| Treatment protocol |
To induce tumor formation, mice were inoculated in the bladder with an adenovirus coding for Cre recombinase. To study the potential activity of CM272+CDDP treatment in BC management, mice were treated daily with CM272(5mg/kg/day) intraperitoneally for 30 days plus a once per week 6 mg/kg dose of CDDP.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction of total RNA was performed using miRNeasy FFPE kit (Qiagen) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
cRNA is converted to biotinylated sense-strand DNA prepared according to the standard Affymetrix protocol from 12 ngs total RNA (GeneChip Whole Trasncript WT Expression Arrays, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 5,5 ug of fragmented and labeled ss-DNA were hybridized for 16 hr at 45ºC at 60 rpm on Hybridization Oven 640 de Affymetrix. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the GeneArray Scanner 7G de Affymetrix
|
| Data processing |
Expression data were normalized, background-and batch corrected using the Guanine Cytosine Count Normalization (GCCN) and Signal Space Transformation (SST), and prior to summarizing using the Robust Multi-Array Average (RMA) algorithm implemented in the Affymetrix Expression Console software. In order to combine the different microarray data sets, possible batch effects were corrected by using the Bioconductor Combat package in R environment (Johnson et al., 2007)
|
| |
|
| Submission date |
Jun 07, 2018 |
| Last update date |
Feb 01, 2019 |
| Contact name |
Monica Martinez-Fernandez |
| E-mail(s) |
[email protected]
|
| Organization name |
CIEMAT
|
| Street address |
Avda Complutense 40
|
| City |
Madrid |
| ZIP/Postal code |
28040 |
| Country |
Spain |
| |
|
| Platform ID |
GPL20258 |
| Series (1) |
| GSE115485 |
Inhibition of a G9a/DNMT network triggers an immune-mediated bladder cancer regression |
|
