|
| Status |
Public on Nov 09, 2015 |
| Title |
SUM159 siCNTL Vehicle Treated Replicate3 |
| Sample type |
RNA |
| |
|
| Source name |
SUM159 cells transfected with CNTL siRNA
|
| Organism |
Homo sapiens |
| Characteristics |
tumor-derived cell line: SUM159
transfection: CNTL siRNA
treatment: vehicle
|
| Treatment protocol |
SUM159 and WHIM12 cells were reverse transfected with Dharmacon SMART siRNA pools in 6 well dishes. For SUM159 cells, 60 hours post transfection, cells were treated with either vehicle or 10ng/mL TGFB for 3 hours. Total RNA was collected from SUM159 cells sixty three hours post transfection. Total RNA was collected from WHIM12 cells forty eight hours post transfection.
|
| Growth protocol |
SUM159 and WHIM12 cells were grown in the F12, (Gibco) and MEM (Gibco), respectively, and split 1:3 every two days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Sigma GenElute RNA Isolation Kit
|
| Label |
Biotin
|
| Label protocol |
The WT Expression HT Kit for Robotics (Ambion) was used to generate sense-strand cDNA from total RNA. Following synthesis of sense-strand cDNA, the cDNA was fragmented and labeled with the Affymetrix GeneChip HT Terminal Labeling Kit.
|
| |
|
| Hybridization protocol |
Fragmented and labeled cDNA was used to prepare a hybridization cocktail with the Affymetrix GeneTitan Hybridization Wash and Stain Kit for WT Arrays.
|
| Scan protocol |
Hybridization, washing, staining and scanning of the Affymtrix peg plate arrays was carried out using the Affymetrin GeneTitan MC Instrument.
|
| Description |
Gene expression data from control transfected and vehicle treated SUM159 cells
|
| Data processing |
Affymetrix Expression Console Software was used for basic data analysis and quality control (RMA normalization).
|
| |
|
| Submission date |
Dec 09, 2014 |
| Last update date |
Nov 10, 2015 |
| Contact name |
Angelique Whitehurst |
| E-mail(s) |
angelique.whitehurst@utsouthwestern.edu
|
| Phone |
214-645-6066
|
| Organization name |
UT Southwestern
|
| Department |
Simmons Cancer Center
|
| Street address |
5323 Harry Hines Blvd.
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75390-8807 |
| Country |
USA |
| |
|
| Platform ID |
GPL11532 |
| Series (2) |
| GSE63984 |
Expression data to identify putative transcriptional targets of ZNF165 in Triple Negative Breast Cancer (TNBC) |
| GSE63986 |
Integrative Functional Characterization of Cancer-Testis Antigens Defines Obligate Participation in Multiple Hallmarks of Cancer |
|
