|
| Status |
Public on Feb 02, 2022 |
| Title |
Cancer cells_control_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Transfected MDA-MB-231 breast cancer cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-231
cell type: triple negative breast cancer cells
genotype/treatment: stably transfected with pUNO1-empty vector (MDA-MB-231-hC)
|
| Treatment protocol |
MDA-MB-231 breast cancer cells were stably transfected with 2 μg of pUNO1-empty and pUNO1-hOSM vectors with turbofect and selected by 10 μg/ml blasticidin.
|
| Growth protocol |
MDA-MB-231 cells were cultured in DMEM supplemented with 10% FBS, 1% glutamine and 1% penicillin/streptomycin. Transfected MDA-MB-231 cells were cultured in the presence of 10 μg/ml blasticidin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cDNAs were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix)
|
| |
|
| Hybridization protocol |
cDNAs were hybridized to the human Clariom S array on the GeneChip Hybridization Oven 640, and staining and washings were performed on the Affymetrix GeneChip Fluidics Station 450 following standard protocols
|
| Scan protocol |
GeneChips were scanned using the Scanner 3000 7G (Affymetrix)
|
| Description |
Total RNA extracted from MDA-MB-231 cells transfected with pUNO1-empty vector, set1
MDA-MB-231-hC1
|
| Data processing |
The data were analyzed using Transcriptome Analysis Console version 4.0 (TAC 4.0) using Affymetrix default analysis settings and global scaling as normalization method. Summarization method was gene level SST-RMA, and a probeset (Gene/Exon) was considered expressed if ≥ 50% samples had DABG<0.05.
|
| |
|
| Submission date |
Jan 31, 2022 |
| Last update date |
Feb 02, 2022 |
| Contact name |
Andrea Abaurrea |
| E-mail(s) |
andrea.abaurrea@biodonostia.org
|
| Organization name |
Biodonostia HRI
|
| Department |
Oncology
|
| Lab |
Breast Cancer
|
| Street address |
Paseo Doctor Begiristain, s/n, 20014 San Sebastián
|
| City |
San Sebastian |
| State/province |
Gipuzkoa |
| ZIP/Postal code |
20014 |
| Country |
Spain |
| |
|
| Platform ID |
GPL23159 |
| Series (2) |
| GSE195774 |
Expression data from OSM-overexpressing and control MDA-MB-231 triple negative breast cancer cells |
| GSE195787 |
Effect of Oncostatin M (OSM) in breast cancer cells and cancer associated fibroblasts |
|
