|
| Status |
Public on Oct 19, 2021 |
| Title |
PC3-EV, INFg, 24 h |
| Sample type |
RNA |
| |
|
| Source name |
prostate cancer cell line PC3
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: transfected with empty vector with IFN-gamma treatment for 24 h
cell line: PC3
|
| Treatment protocol |
The cells were plated in a 6-well plate, ncubated overnignt, and treated with 100 ng/ml IFN-gamma.
|
| Growth protocol |
Both empty vector transfected and BTN1A1 expression vector transfectted PC3 cells were grwon in DMEM/F12 medium supplemented with 10% FBS at 37ºC, 5% CO2 humidified incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cell lysates using a combination of Trizol and Rneasy mini kit.
|
| Label |
Biotin
|
| Label protocol |
Reporter probe; fluorescent barcode; capture biotin
|
| |
|
| Hybridization protocol |
All samples were run targeting 100 ng of total RNA prior to being processed on the nCounter FLEX Analysis System.
|
| Scan protocol |
Samples were run on the nCounter Prep Station with high sensitivity settings followed by imaging on the Digital Anlyzer with FOV (Field of view) data resolution set to 555.
|
| Description |
N/A
|
| Data processing |
Raw data files were uploaded (RCC files) to the NanoString nSolver Analysis 4.0 software. According to nSolver Advanced Analysis Module (version 2.0.115) specifications, the geNorm algorithm (pairwise variation statistics) was used to choose an ideal set of housekeeping genes (from a total set of 30) with minimal pairwise variation for normalization. Based on NanoString cancer pathway score analysis [indicating expression changes relevant to EMT (epithelial to mesenchymal transition)], a select number of genes (23 in total) displaying statistically significant expression changes was included in our manuscript, substantiating the specific role of NRAS-driven EMT changes in malignant melanoma.
|
| |
|
| Submission date |
Oct 18, 2021 |
| Last update date |
Oct 19, 2021 |
| Contact name |
Ezra Myung Chul Chung |
| E-mail(s) |
[email protected]
|
| Phone |
2407020366
|
| Organization name |
STCube Pharmaceuticals
|
| Department |
R&D
|
| Street address |
401 Professional Dr. Suite 250
|
| City |
Gaithersburg |
| State/province |
MD |
| ZIP/Postal code |
20879 |
| Country |
USA |
| |
|
| Platform ID |
GPL27956 |
| Series (1) |
| GSE186060 |
NanoString Human PC3 nCounter PanCancer IO 360 panel |
|
