|
| Status |
Public on Mar 24, 2009 |
| Title |
control shRNA, biological replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
NIH 3T3 cells
|
| Organism |
Mus musculus |
| Characteristics |
NIH 3T3 transduced with control retroviral shRNA vector
|
| Treatment protocol |
Cells were transduced with an shRNA retroviral vector and harvested 5 days later for RNA isolation.
|
| Growth protocol |
NIH 3T3 cells expressing Ube2f were grown (37C, %% CO2) in Dulbecco's modified Eagle's medium supplemented with 10% fetal calf serum (Hyclone), 4mM glutamine, and 100 units each of penicillin and streptomycin (Life Technologies).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions (Invitrogen).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on mouse GeneChip 430v2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Description |
Gene expression data from NIH 3T3 cells transduced with vector containing control shRNA.
|
| Data processing |
The data were analyzed with GeneChip Operating Software version 1.4 using the default MAS 5.0 algorithm settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
|
| |
|
| Submission date |
Dec 22, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Geoffrey Neale |
| E-mail(s) |
geoffrey.neale@stjude.org
|
| Organization name |
St Jude Childrens Research Hospital
|
| Department |
Hartwell Center
|
| Street address |
262 Danny Thomas Place
|
| City |
Memphis |
| State/province |
TN |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE14088 |
E2-RING expansion of the NEDD8 cascade confers specificity to cullin modification |
|
| Relations |
| Reanalyzed by |
GSE119085 |
