|
| Status |
Public on Mar 01, 2014 |
| Title |
U2OS-wtProgerin-1 |
| Sample type |
RNA |
| |
|
| Source name |
U-2 OS_wt-progerin_4 dpi
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: U-2 OS
cell type: osteosarcoma cells
infected with: retroviral vector expressing wt-progerin
time point: 4 days post-infection
|
| Treatment protocol |
Cells were infected with a retrovirus expressing wt-progerin or S22A-progerin and selected during three days with 5 µg/ml puromycin before RNA extraction.
|
| Growth protocol |
Cells were cultured in Dulbecco’s modified Eagle medium (DMEM; Wisent, Montréal, QC) supplemented with 10% fetal bovine serum (FBS; Wisent) and 1% penicillin G/streptomycin sulfate (Wisent).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the protocol from the Ambion® WT Expression kit for Affymettrix® GeneChip®Whole Transcrpit (WT) Expression Arrays
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Gene 2.0 ST Chips. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the GeneChip® Scanner 3000 7G/4 Color Early Access
|
| Description |
U2OS_wt-progerin_1
Gene expression data from U-2 OS infected with a vector expressing wt-progerin
|
| Data processing |
The data were analyzed with the affymetrix Expression Console software using Affymetrix default analysis settings and RMA as normalization method. Transcripts with a fold change higher or equal to 2 and a p-value <0.05 according to the two-sample student's t-test were selected for final determination.
affymetrix-algorithm-name = rma-gene-full;
affymetrix-algorithm-version = 1.0;
program-name = Expression Console;
program-version = 1.3.1.187
|
| |
|
| Submission date |
Oct 17, 2013 |
| Last update date |
Mar 01, 2014 |
| Contact name |
Mathieu Vernier |
| E-mail(s) |
mathieu.vernier@gmail.com
|
| Organization name |
Université de Montréal
|
| Department |
Biochemistry
|
| Lab |
Dr Ferbeyre
|
| Street address |
2900 Edouard Montpetit
|
| City |
Montréal |
| State/province |
Quebec |
| ZIP/Postal code |
H3T1J4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL16686 |
| Series (1) |
| GSE51349 |
Expression data from U-2 OS osteosarcoma cell lines stably expressing an S22A-progerin mutant compared with U-2 OS expressing wt-progerin |
|
