|
| Status |
Public on Nov 04, 2015 |
| Title |
CEM_WT Replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
CCRF-CEM-WT
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: CCRF-CEM
cell type: T Lymphoblast
|
| Treatment protocol |
Cultured in presence of indicated concentration of BTZ for several weeks. 24 hour before RNA extraction, medium was refreshed and the corrensponding concentration bortezomib was added. RNA of was extracet from untreated cells and WT cells treated with 7nM of bortezomib for 24hours.
|
| Growth protocol |
RPMI +10%fcs, in presence of indicated concentration of BTZ for several weeks
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using RNAbee (AMSBiotechnology), according to the protocol provided by AMSBiotechnology.
|
| Label |
Cy5
|
| Label protocol |
labeling performed with Agilent Low RNA Input Fluorescent Linear Amplification Kit, Agilent Technologies
|
| |
|
| Hybridization protocol |
Equal amounts of Cy3-CTP and Cy5-CTP labeled samples were hybridized to Agilent 4 × 44K Whole Human Genome arrays (Agilent Technologies) according to the manufacturer's instructions. Hybridization was carried out for 17 h with rotation at 65 °C in a hybridization oven.
|
| Scan protocol |
Microarrays were scanned using the Agilent DNA Microarray Scanner (Agilent Technologies)
|
| Data processing |
Raw expression data generated by the Feature Extraction software were imported into the R statistical environment using the LIMMA package in bioconductor (http://www.bioconductor.org). After background correction, the intensity distributions within and between arrays were normalized using the Loess [92] and quantile [93] algorithm, respectively.
|
| |
|
| Submission date |
Nov 03, 2015 |
| Last update date |
Nov 04, 2015 |
| Contact name |
Daoud Sie |
| E-mail(s) |
d.sie@vumc.nl
|
| Phone |
+31 20 4442428
|
| Organization name |
Vrije Universiteit Medical Center
|
| Department |
Pathology
|
| Lab |
Microarray Core Facility
|
| Street address |
De Boelelaan 1117
|
| City |
Amsterdam |
| ZIP/Postal code |
1081 HV |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL4133 |
| Series (2) |
| GSE74634 |
Bortezomib resistance in CCRF-CEM cell line [GEP] |
| GSE74635 |
Bortezomib resistance in CCRF-CEM cell line |
|
