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Series GSE41137 Query DataSets for GSE41137
Status Public on Sep 27, 2012
Title Impact of Ischemia and Procurement Conditions on Gene Expression in Renal Cell Carcinoma
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Previous studies have shown that ischemia alters gene expression in normal and malignant tissues. There are no studies that evaluated effects of ischemia in renal tumors. This study examines the impact of ischemia and tissue procurement conditions on RNA integrity and gene expression in renal cell carcinoma.
We used microarray analysis to evaulate the effect of ischemia and tissue procurement conditions on the gene expression changes in renal cell carcinoma
Overall design Ten renal tumors were resected without renal hilar clamping from 10 patients with renal clear cell carcinoma. Immediately after tumor resection, a piece of tumor was snap frozen. Remaining tumor samples were stored at 4C, 22C and 37C and frozen at 5, 30, 60, 120, and 240 minutes. Histopathologic evaluation was performed on all tissue samples, and only those with greater than 80% tumor were selected for further analysis. RNA integrity was confirmed by electropherograms and quantitated using RIN index. Gene expression study was done on Affymetrix HG 133 Plus 2.0 Platform. Altered gene expression was assessed by paired, two-sample t-test between the zero time point and aliquots from various conditions obtained from the same tumor.
Contributor(s) Liu N, Bratslavsky G
Citation(s) 23136194
Submission date Sep 25, 2012
Last update date Mar 25, 2019
Contact name Nick Liu
Organization name Indiana University Hospital
Department Department of Urology
Street address 535 Barnhill Drive Suite 420
State/province Indiana
ZIP/Postal code 46202
Country USA
Platforms (1)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
Samples (140)
GSM1009062 Tumor 1_Snap Frozen
GSM1009063 Tumor 1_4C @ 5mins
GSM1009064 Tumor 1_4C @ 30mins
BioProject PRJNA175967

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE41137_RAW.tar 657.4 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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