|
| Status |
Public on Jan 30, 2016 |
| Title |
HEK293T PUM1+2 siRNA pool rep_1 48h |
| Sample type |
RNA |
| |
|
| Source name |
HEK293T, PUM1+2 siRNA, 48h
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293T
sirna: PUM1+2 siRNA pool
|
| Treatment protocol |
siRNA pools for Pumilio 1 and Pumilio 2 (siRNAs from Dharmacon/GE) were mixed and diluted to a final concentration of 50nM and transfected overnight in a 24-wells culture plate.
|
| Growth protocol |
HEK293T cells were maintained at 37⁰C at 5% CO2 in Dulbecco's Modified Eagle's Medium (DMEM), high glucose (4500mg/L), supplemented with Penicillin (100units/ml), Streptomycin (100μg/ml), Glutamine (2mM) and 10% heat-inactivated fetal calf serum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
|
| Label |
Biotin
|
| Label protocol |
Standard labeling protocol.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol.
|
| Scan protocol |
Arrays were scanned using the iScan system (Illumina, Inc.), and the fluorescence intensities were analyzed and annotated using GenomeStudio software (Illumina, Inc.)
|
| Description |
Total cell lysate RNA.
Knockdown replicate 1.
3998355016_J
SAMPLE 1
|
| Data processing |
The data were normalised using quantile normalisation with IlluminaGUI in R.
|
| |
|
| Submission date |
Jan 29, 2016 |
| Last update date |
Jan 30, 2016 |
| Contact name |
Saber HafezQorani |
| E-mail(s) |
[email protected]
|
| Phone |
+905380728381
|
| Organization name |
Middle East Technical University
|
| Department |
Health Informatics
|
| Street address |
Bioinformatics Lab, Informatics Institute, Middle East Technical University, Üniversiteler Mah. Dumlupınar Blv. No:1, 06800 Çankaya Ankara/TURKEY
|
| City |
Ankara |
| State/province |
Ankara |
| ZIP/Postal code |
06540 |
| Country |
Turkey |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE77413 |
Modeling the combined effect of RNA-binding proteins and microRNAs in post-transcriptional regulation |
|
