|
| Status |
Public on Dec 01, 2013 |
| Title |
miR-17-5p rep 3 |
| Sample type |
RNA |
| |
|
| Source name |
HEK293T cell
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293Ts
transfection molecule: miR-17-5p
pull-down: pull-down
|
| Treatment protocol |
200pmols of synthetic biotin-labeled miRNA duplexes were transfected into HEK293T cells using HiPerFect Transfection Reagent (Qiagen).
|
| Growth protocol |
HEK293T cells were grown in DMEM according to ATCC recommendations.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were harvested 24 hours post transfection, and the miRNAs and their bound targets were isolated using streptavidin myOne C1 Dynabeads. Beads were washed before RNA extraction using an RNeasy Kit (Qiagen) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
replicate 3
|
| Data processing |
The data were preprocessed by Bioconductor lumi package (version 2.2.1). It was background adjusted, vst transformed and rsn normalized. Probes that did not have a detection p-value < 0.01 in all of the mock-transfected replicates were excluded from further analysis.
|
| |
|
| Submission date |
Aug 27, 2012 |
| Last update date |
Dec 01, 2013 |
| Contact name |
Nicole Cloonan |
| E-mail(s) |
[email protected]
|
| Organization name |
QIMR Berghofer Medical Research Institute
|
| Lab |
Genomic Biology
|
| Street address |
300 Herston Road
|
| City |
Herston |
| State/province |
Queensland |
| ZIP/Postal code |
4006 |
| Country |
Australia |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE40408 |
Imperfect centered miRNA binding sites are common and can mediate functional repression of target mRNAs [microarray] |
| GSE55059 |
Imperfect centered miRNA binding sites are common and can mediate functional repression of target mRNAs |
|
