|
| Status |
Public on May 01, 2007 |
| Title |
Mel18 shRNA, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Human medulloblastoma DAOY cell line
|
| Organism |
Homo sapiens |
| Characteristics |
Stable lentiviral shRNA
|
| Treatment protocol |
DAOY cells were transduced with the indicated lentiviral shRNA and stable cell lines were generated by selection in puromycin (1 µg/ml). 2 x 105 cells of each stable cell line were plated onto 60 mm dishes in triplicates and harvested 4 days later.
|
| Growth protocol |
Cells were grown in DMEM/10% fetal bovine serum in the presence of antibiotics and 1 µg/ml puromycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using affinity resin (Qiagen RNEasy Mini Kit, Qiagen AG). RNA integrity and purity were assessed wit the RNA 6000 Nano LabCHip system on the Bionalyzer 2100 (Agilent Technologies)
|
| Label |
biotin
|
| Label protocol |
cDNA was transcribed in vitro in the presence of biotinylated ribonucleotides (Bioarray High Yield T7 DNA transcription kit, ENZO Life Sciences)
|
| |
|
| Hybridization protocol |
The labeled cRNA was purified on an affinity resin (RNeasy, Qiagen AG), quantified and fragmented into strands of approximately 50-200 nucleotides in length. Hybridization was carried out at 45ºC for approximately 18 hours.
|
| Scan protocol |
Following hybridization, arrays were stained on GeneChip Fluidics Workstation 450 and scanned on GeneArray Scanner 3000 according to manufacturer’s technical manual (Affymetrix).
|
| Description |
Gene expression data from DAOY cells stably expressing Mel18 shRNA
|
| Data processing |
Affymetrix Microarray Suite version 5.12
|
| |
|
| Submission date |
Apr 12, 2007 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Dmitri Wiederschain |
| E-mail(s) |
[email protected]
|
| Phone |
617 871-7449
|
| Organization name |
Novartis
|
| Department |
Oncolology
|
| Street address |
250 Massachusetts Avenue
|
| City |
Cambdridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE7578 |
shRNA-mediated knock down of Bmi-1 and Mel-18 in medulloblastoma cells |
|
| Relations |
| Reanalyzed by |
GSE119087 |
