|
| Status |
Public on Nov 01, 2013 |
| Title |
IMR32 ctrl, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
IMR32 neuroblastoma cells
|
| Organism |
Homo sapiens |
| Characteristics |
inducible shrna: uninduced
|
| Treatment protocol |
To knock down CHAF1A, expression a TRIPZ lentiviral inducible shRNAmir with Tet-inducible promoter was used (Open Biosystems). To repress CHAF1A expression, doxycycline was added at a final concentration of 1ug ml-1.
|
| Growth protocol |
IMR32 cells were grown in RPMI 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using RNAeasy kit (Quiagen) from IMR32 cells
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared from 200 ng total RNA according to the standard Affymetrix RT-IVT protocol for the Affymetrix 3' IVT Express cDNA/cRNA Synthesis and Labeling Kit.
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GCS 300 7G.
|
| Description |
Gene expression data from uninduced cells, rep2
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 250.
|
| |
|
| Submission date |
Oct 31, 2013 |
| Last update date |
Nov 01, 2013 |
| Contact name |
Eveline Barbieri |
| E-mail(s) |
[email protected]
|
| Phone |
832-824-4747
|
| Organization name |
Baylor College of Medicine
|
| Department |
Department of Pediatrics
|
| Lab |
Texas Children's Cancer and Hematology Center
|
| Street address |
1102 Bates Street
|
| City |
Houston |
| State/province |
Texas |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE51978 |
Gene expression profiling in neuroblastoma cells upon CHAF1A silencing |
|
