|
| Status |
Public on Sep 01, 2009 |
| Title |
REF52neoTAg, bio rep 2 |
| Sample type |
RNA |
| |
|
| Source name |
REF52neoTAg3, 2 day post-confluence
|
| Organism |
Rattus norvegicus |
| Characteristics |
REF52neo cells stably expressing SV40 Large T antigen gene (Clone 3)
|
| Treatment protocol |
Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.
|
| Growth protocol |
MEM + 10% Fetal Bovine Serum + 400ug/ml G418 + Penn/Strep
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was isolated using the Ultraspec II RNA reagent (Biotex). Poly-A+ RNA was isolated from the total RNA using the Oligotex kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
Standard Affymetrix labeling protocol done by a Core Facility
|
| |
|
| Hybridization protocol |
Standard Affymetrix hybridization protocol done by a Core Facility
|
| Scan protocol |
Standard Affymetrix scan protocol done by a Core Facility
|
| Description |
Center for Applied Genomics (Newark, NJ)
|
| Data processing |
Microarray Suite Version 5.0 (MAS 5.0) generated .CEL files were converted into RMA expression values using the BRB-Array Tools software (an Excel plug-in developed by Richard Simon at NCI - http://linus.nci.nih.gov/BRB-ArrayTools.html). Affymetrix Present/Absent calls and intensity values were calculated with MAS 5.0 using Affymetrix default analysis settings and global scaling with target signal = 500 as the normalization method.
|
| |
|
| Submission date |
May 17, 2007 |
| Last update date |
May 29, 2009 |
| Contact name |
Daniel Clark |
| Organization name |
University of Pittsburgh
|
| Street address |
3501 Terrace St.
|
| City |
Pittsburgh |
| ZIP/Postal code |
15213 |
| Country |
USA |
| |
|
| Platform ID |
GPL85 |
| Series (2) |
| GSE7836 |
Global analysis of gene expression in REF52 cells expressing SV40 T antigens |
| GSE7906 |
Cell-type Specific Regulation of Gene Expression by Simian Virus 40 T antigens |
|
