|
Status |
Public on Jul 16, 2014 |
Title |
Scrambled 2 (#T6) |
Sample type |
RNA |
|
|
Source name |
MDA-LM2 cells
|
Organism |
Homo sapiens |
Characteristics |
cell line: MDA-LM2 transfection: Scrambled control
|
Treatment protocol |
Cells were transfected with capped and poly-adenylated RNA molecules (either sRSE decoy or scrambled) using Lipofectamin 2000 per manufacturer guidelines.
|
Growth protocol |
Cells were grown in DMEM-based media supplemented with 10% FBS, 1% L-glutamine, 1% Sodium Pyruvate, and 1% Pen/Strep
|
Extracted molecule |
total RNA |
Extraction protocol |
48hr post-transfection, total RNA was extracted and on-column Dnase treated using Norgen Biotek total RNA extraction kit (per manufacturer instructions).
|
Label |
biotin
|
Label protocol |
Samples were biotin-labeled using the TargetAmp-Nano Labeling Kit for Ilumina Expression BeadChip
|
|
|
Hybridization protocol |
Per manufacturer's instruction
|
Scan protocol |
Per manufacturer's instruction
|
Description |
replicate 2
|
Data processing |
Data were quantile-normalized and processed using the Lumi package. Non-normalized values indicate the average probe hybrydization signal. Normalized values are quantile-normalized. Final processed values are logFC of decoy values relative to scrambled controls.
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|
|
Submission date |
Aug 07, 2013 |
Last update date |
Jul 16, 2014 |
Contact name |
Hani Goodarzi |
Organization name |
UCSF
|
Department |
Biochemistry and Biophysics
|
Street address |
600 16th St, GH S312D
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94158 |
Country |
USA |
|
|
Platform ID |
GPL10558 |
Series (2) |
GSE49609 |
In-culture titration experiment for sRSE |
GSE49649 |
Metastasis-suppressor transcript destabilization through TARBP2 binding of mRNA hairpins |
|