|
| Status |
Public on Dec 13, 2016 |
| Title |
MCF-sh8-2 |
| Sample type |
RNA |
| |
|
| Source name |
Breast
|
| Organism |
Homo sapiens |
| Characteristics |
condition: Treatment
cell line: MCF7
|
| Treatment protocol |
lentiviral transduction with control shRNA (scrambled) or shRNAs to SSRP1. 72 hours after transduction.
|
| Growth protocol |
standard growth conditions in DMEM + 5% FBS + antibiotic solution
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol reagent
|
| Label |
biotin
|
| Label protocol |
500ng total RNA is converted to cDNA, followed by in vitro transcription to generate biotin labeled cRNA using the Ambion Illumina TotalPrep RNA Amplification Kit (Ambion, Inc.) as per manufacturer’s instructions.
|
| |
|
| Hybridization protocol |
750ng of the labeled probes are then mixed with hybridization reagents and hybridized overnight at 58°C to the HT-12v4 BeadChips.
|
| Scan protocol |
Following washing and staining with Cy3-streptavidin conjugate, the BeadChips are imaged using the Illumina iScan Reader to measure fluorescence intensity at each probe.
|
| Description |
MCF7 cells transduced with shRNA to SSRP1
SAMPLE 12
|
| Data processing |
Data was processed using quantile normalization and log2 transformed using lumi_2.26.3 and limma_3.30.6.
Normalization and data manipulation using R-3.3.1.
|
| |
|
| Submission date |
Dec 12, 2016 |
| Last update date |
Dec 13, 2016 |
| Contact name |
Eduardo Cortes |
| E-mail(s) |
eduardo.cortesgomez@roswellpark.org
|
| Organization name |
ROSWELL PARK CANCER INSTITUTE
|
| Department |
Biostatistics and Bioinformatics
|
| Street address |
ELM AND CARLTON STREETS
|
| City |
BUFFALO |
| State/province |
NY |
| ZIP/Postal code |
14263 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE92281 |
Level of FACT defines the transcriptional landscape and aggressive phenotype of breast cancer cells |
|
