|
| Status |
Public on Feb 01, 2016 |
| Title |
LM16R_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
melanoma cell line derived from nodal metastasis
|
| Organism |
Homo sapiens |
| Characteristics |
plx4032 sensitivity: Resistant
cell type: resistant cell line obtained after repeated exposure to PLX4032
|
| Treatment protocol |
The PLX4032-resistant cell line variant LM16-R was generated by repeated exposures to PLX4032 (3 µM) until the onset of resistance.
|
| Growth protocol |
The parental melanoma cell line LM16 and the resistant variant LM16-R were cultured in RPMI medium supplemented with 10% FCS, HEPES buffer, glutamine and antibiotics. Cells were grown for 72 hours before recovery for RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Trizol reagent, followed by clean-up with Ambion miRVANA kit according to the protocol provided by the manufacturer.
|
| Label |
Cy3
|
| Label protocol |
Total RNA from each sample was labeled according to the manufacturers recommendations.
|
| |
|
| Hybridization protocol |
Standard Agilent hybridization protocol
|
| Scan protocol |
Standard Agilent scanning protocol with Agilent SureScan microarray scanner (G2505C).
|
| Description |
resistant cell line obtained after repeated exposure to PLX4032
|
| Data processing |
Scanned images were processed with Agilent Feature Extraction v10.7 with default parameters to obtain raw data. Raw data were imported in R and processed using the AgiMicroRna package. microRNA-level processed signals were obtained using the RMA algorithm with quantile normalization.
|
| |
|
| Submission date |
May 13, 2015 |
| Last update date |
Feb 01, 2016 |
| Contact name |
Matteo Dugo |
| E-mail(s) |
[email protected]
|
| Organization name |
IRCCS Ospedale San Raffaele
|
| Department |
Department of Medical Oncology
|
| Street address |
via Olgettina 60
|
| City |
Milan |
| ZIP/Postal code |
20132 |
| Country |
Italy |
| |
|
| Platform ID |
GPL20194 |
| Series (2) |
| GSE68839 |
Gene and microRNA expression profiling of a melanoma cell line resistant to BRAF inhibitor PLX4032 compared to the parental sensitive counterpart (miRNA) |
| GSE68841 |
Gene and microRNA expression profiling of a melanoma cell line resistant to BRAF inhibitor PLX4032 compared to the parental sensitive counterpart |
|
