|
| Status |
Public on Jun 01, 2012 |
| Title |
U373-EGFP, rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
glioma cell line U373, EGFP expressing
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: U373
cell type: glioma
vector: EGFP
|
| Treatment protocol |
Cells were transfected by CaCl2 precipitation, selected with Geniticin and maintained in low Geneticin concentrations.
|
| Growth protocol |
Cells were grown in DMEM supplemented with fetal calf serum and Glutamax in 5% CO2 in a humified incubator at 37°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA followed by a purification step using Qiagen RNeasy Mini Kit was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
RNA was processed according to the GeneChip Whole Transcript (WT) Double-Stranded Target Assay Manual from Affymetrix.
|
| |
|
| Hybridization protocol |
Arrays were hybridized following the GeneChip Whole Transcript (WT) Sense Target Labeling Assay Manual (Affymetrix) with a hybridization time of 16h. The Affymetrix Fluidics protocol FS450_0007 was used for washing.
|
| Scan protocol |
Scanning was performed with Affymetrix GCC Scan Control v. 3.0.0.1214 on a GeneChip(r) Scanner 3000 with autolaoader.
|
| Description |
Human glioma cell line U373 stably transfected with an EGFP expression vector.
|
| Data processing |
Probesets were summarized and probeset-level values normalized with the justRMA() function from the R (version 2.9.0)/Bioconductor package affy (version 2.5) using the CDF environment HuGene-1_0-st-v1.r3.cdf.
|
| |
|
| Submission date |
Jul 13, 2010 |
| Last update date |
Jun 01, 2012 |
| Contact name |
Roland Martin Huber |
| E-mail(s) |
roland.huber@unibas.ch
|
| Phone |
+41 61 265 9209
|
| Organization name |
University of Basel
|
| Department |
Biomedicine
|
| Lab |
Molecular Neuro-Oncology
|
| Street address |
Hebelstrasse 20
|
| City |
Basel |
| State/province |
BS |
| ZIP/Postal code |
4031 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE22772 |
Expression data from U373 cells expressing EGFP, MAML1-dn and DTX1-myc |
|
