|
| Status |
Public on Aug 26, 2010 |
| Title |
The effect of stable scramble shRNA in VCAP cells, array 1 |
| Sample type |
RNA |
| |
|
| Source name |
VCAP with scramble lenti-shRNA
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: VCAP
transfection: control shRNA
|
| Treatment protocol |
VCAP cells were transfected with scramble shRNA and puromycin selection performed (2mg/ml). Thereafter, the total cellular RNAs were isolated by Trizol (Invitrogen).
|
| Growth protocol |
VCAP cells were grown in normal RPMI media.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol method from Invitrogen.
|
| Label |
biotin
|
| Label protocol |
cRNA was biotinylated during in vitro transcription reaction overnight (14h).
|
| |
|
| Hybridization protocol |
1.5 µg each cRNA sample was hybridized to Illumina’s Bead Chip arrays at 58 °C overnight (19 h) according to Illumina 11225598_WGGEX_IntelliHyb_Seal_SystemManual_RevA.pdf.
|
| Scan protocol |
Chips were scanned with Illumina Bead Array Reader (Factor=1, PMT=521, Filter=100%)
|
| Description |
Normal growth conditions. VCAP cells were transfected with scramble lenti-shRNA and puromycin selection performed (2mg/ml). Thereafter, the total cellular RNAs were isolated by Trizol (Invitrogen).
|
| Data processing |
The numerical results were extracted with Bead Studio v3.2.6 without any normalization or background subtraction. Data were VST quantile normalized. Annotation: Illumina HumanRef-8 V3
|
| |
|
| Submission date |
Jun 12, 2009 |
| Last update date |
Apr 07, 2011 |
| Contact name |
Santosh Kumar Gupta |
| E-mail(s) |
79santosh@gmail.com
|
| Organization name |
VTT medical biotechnology
|
| Department |
University of Turku
|
| Lab |
VTT Medical Biotechnology (Olli Kallioniemi)
|
| Street address |
4th floor pharma city
|
| City |
Turku |
| ZIP/Postal code |
20520 |
| Country |
Finland |
| |
|
| Platform ID |
GPL6883 |
| Series (1) |
| GSE16671 |
The effect of ERG overexpression and ERG knockdown by shRNA in RWPE1 and VCAP cells, respectively |
|
