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Sample GSM190157 Query DataSets for GSM190157
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 - 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

Data table header descriptions
VALUE RMA expression value

Data table
A01157cds_s_at 7.108 53.2 A 0.218983
A03913cds_s_at 7.467 43.9 A 0.32083
A04674cds_s_at 7.629 71.7 A 0.397994
A07543cds_s_at 7.796 153.8 A 0.204022
A09811cds_s_at 8.140 10.4 A 0.993468
A16585cds_s_at 7.565 29.4 A 0.397994
A17753cds_s_at 7.442 8 A 0.765443
A30543cds_s_at 7.144 34.6 A 0.458816
A44407cds_at 7.043 14.8 A 0.660442
AA108277_at 6.028 16 A 0.581931
AA108308_i_at 6.402 2.3 A 0.987079
AA108308_s_at 9.925 365.8 A 0.204022
AA684537_at 9.948 575.5 P 0.035163
AA684929_f_at 8.932 262.9 A 0.098054
AA684960_f_at 8.858 141.7 A 0.458816
AA684963_at 9.951 686.3 P 0.001602
AA685112_at 9.510 526.7 P 0.002228
AA685152_r_at 8.222 84.6 A 0.246094
AA685376_f_at 8.129 36.3 A 0.52062
AA685876_at 9.989 368.6 A 0.107301

Total number of rows: 8799

Table truncated, full table size 306 Kbytes.

Supplementary file Size Download File type/resource
GSM190157.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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