|
| Status |
Public on Dec 31, 2014 |
| Title |
DAOY_H3 |
| Sample type |
RNA |
| |
|
| Source name |
DAOY cells transduced with lentivirus encoding anti-ZFX shRNA H3
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: DAOY
genotype: ZFX KD
|
| Treatment protocol |
DAOY cells were transduced for 16-24 hours with lentivirus encoding shRNA targeting ZFX (H2, H3, H4) or scrambled non-targeting shRNA (SCR). Cells were allowed to recover for 48 hours, and then were replated in 2 ug/mL puromycin selective media. Cells were collected in TriZol LS reagent for RNA for microarrays ~48 hours after start of puromycin selection.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from Trizol LS according to manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
We used the Ambion WT Labelling Kit as per manufacturer's instructions. We used 250 ng/sample of starting total RNA.
|
| |
|
| Hybridization protocol |
Biotinylated DNA probe was made according to the standard Affymetrix protocol.
|
| Scan protocol |
Arrays were scanned according to the Affymetrix protocol.
|
| Data processing |
Gene level RMA
|
| |
|
| Submission date |
Mar 18, 2013 |
| Last update date |
Dec 31, 2014 |
| Contact name |
Colin Palmer |
| E-mail(s) |
cjp2123@columbia.edu
|
| Organization name |
Columbia University
|
| Department |
Microbiology & Immunology
|
| Lab |
Reizis Lab
|
| Street address |
701 W. 168th Street
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
|
| Platform ID |
GPL6244 |
| Series (2) |
| GSE45265 |
Effect of lentiviral-based shRNA-mediated knockdown of ZFX on the human medulloblastoma (MB) cell-line DAOY |
| GSE45396 |
Transcription factor ZFX |
|
