|
| Status |
Public on Jul 21, 2016 |
| Title |
Untreated 2 (2) |
| Sample type |
RNA |
| |
|
| Source name |
232 breast cancer cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Breast cancer cell line
|
| Treatment protocol |
MDA-MB-231 cells were treated with scrambled SID control, 2.5µM SID peptide or untreated for 24h.
|
| Growth protocol |
MDA-MB-231 cell lines were maintained in DMEM supplemented with 10% FBS, 1% GlutaMAX (Invitrogen), 10mM HEPES, 1mM sodium pyruvate, non-essential amino acids and 1% antibiotic-antimycotic solution.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the ZR RNA MiniPrep Kit (Zymo Research). The concentration and quality of the total RNA was assessed on an Agilent 2100 BioAnalyzer (Agilent Technologies).
|
| Label |
biotin
|
| Label protocol |
All samples were normalized to 200ng and processed according to standard Affymetrix protocols using GeneChip WT Terminal Labeling and Controls Kit (Affymetrix) and WT Expression Kit (Ambion).
|
| |
|
| Hybridization protocol |
The quality and quantity of labeled cRNA was checked and 750 ng of labeled cRNA were hybridized to a GeneChip Human Gene 1.0 ST Arrays using GeneChip Hybridization, Wash, and Stain Kit (Affymetrix).
|
| Scan protocol |
The arrays were scanned on a GeneChip Scanner 3000 7G.
|
| Data processing |
Raw data were processed with the Expression Console (Affymetrix) for background correction and normalization using RMA algorithm. Secondary analysis of the data was performed by Transcriptome analysis console (Affymetrix).
|
| |
|
| Submission date |
Jul 20, 2016 |
| Last update date |
Jul 21, 2016 |
| Contact name |
Kevin Petrie |
| E-mail(s) |
kevin.petrie@stir.ac.uk
|
| Phone |
+44 1786 466840
|
| Organization name |
University of Stirling
|
| Department |
Biological and Environmental Sciences
|
| Street address |
Stirling
|
| City |
Stirling |
| State/province |
Stirling |
| ZIP/Postal code |
FK9 4LA |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE84648 |
Targeted interference of sin3a-tgif1 function by SID decoy treatment inhibits WNT signaling and invasion in triple negative breast cancer cells |
|
