|
| Status |
Public on Dec 20, 2012 |
| Title |
HCC_TEOPAC14 |
| Sample type |
RNA |
| |
|
| Source name |
Hepatocellular carcinoma induced by LV.ET.LTR insertional mutagenesis
|
| Organism |
Mus musculus |
| Characteristics |
tissue: hepatocellular carcinoma
strain: 50% C57BL/6 and 50% 129S4
genotype/variation: Pten flox/flox AlbCre
ccl4 administration: N
|
| Treatment protocol |
Newborn mice were administered LV.ET.LTR. Mice were euthanized if sick or at different time point according to the genetic model. Liver masses were sampled for nucleic acid analyses.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA including small RNAs from tumoral masses and normal liver was isolated with the miRNeasy Mini Kit (Qiagen)
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA probes were synthesized using the GeneChip Whole Transcript Sense Target Labeling Assay Kit (Affymetrix) following the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
Following fragmentation, biotinylated cRNA probe (25 ng/uL in 100 uL hybridizationconcktail) were hybridized for 17 hr at 45C on GeneChip mouse 1.0 ST array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (protocol FS450_0007).
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
cis retrieved: Rtl1
|
| Data processing |
The data were analyzed with Expression Console, R and Bioconductor (RMA normalization).
|
| |
|
| Submission date |
Aug 16, 2011 |
| Last update date |
Dec 20, 2012 |
| Contact name |
Marco Ranzani |
| E-mail(s) |
[email protected]
|
| Organization name |
HSR-TIGET
|
| Department |
TIGET
|
| Lab |
Montini
|
| Street address |
via olgettina 58
|
| City |
Milan |
| ZIP/Postal code |
20132 |
| Country |
Italy |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE31409 |
Lentiviral vector-based insertional mutagenesis identifies new clinically relevant cancer genes involved in the pathogenesis of hepatocellular carcinoma |
|
