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Series GSE6344 Query DataSets for GSE6344
Status Public on Nov 23, 2006
Title Gene expression in Stage 1,2 Normal and Tumor kidney cancer
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Although renal cell carcinoma (RCC) is the sixth-leading cause of cancer death, the molecular events leading to disease onset and progression are not well understood. Genomic profiling of clear cell RCC (cRCC) patients indicated that loss of a negative regulator of the Wnt pathway, secreted frizzled-related protein 1 (sFRP1), occurred in the majority of more than 100 patients tested. To our knowledge, this is the first report of loss of sFRP1 expression in patients diagnosed with cRCC; this loss occurs in early stage cRCC, suggesting that it may be an important early event in renal carcinogenesis. Genomic profiling of patient matched normal and cRCC tissues identified Wnt regulated genes to be aberrantly increased in cRCC tissues suggesting sFRP1 suppresses Wnt signaling in cRCC. In order to test the hypothesis that sFRP1 acts as a tumor suppressor in cRCC, we have stably expressed sFRP1 in cRCC cells. sFRP1 expression in cRCC cells resulted in decreased growth in cell culture, inhibition of anchorage-independent growth, and decreased tumor volume in a nude mouse model. Together these data suggest an important role for sFRP1 as a tumor suppressor in cRCC.
Keywords: Disease state analysis
Overall design 5pts on Stg1 Normal and Tumor and 5pts on Stg2 normal and tumor each

Additional information may be found in the following supplementary files:

1) - contains all text files for combination tables.
2) GSE6344_Dataframe.TXT - contains the Dataframe after filters and normalizations for differential testing.
3) GSE6344_MethodsDetails.PDF - describes the steps for creating the combination tables from HG-U133 A, B set and also the method for normalizations and filters.
4) GSE6344_a1way_StageTumor_@95(@99).txt - contain results from Anova 1 way at p-values<=0.05 and 0.01.
Contributor(s) Copland JA
Citation(s) 17699851, 20502531
Submission date Nov 21, 2006
Last update date Aug 10, 2018
Contact name John A Copland
Organization name Mayo Clinic College of Medicine
Department Biochemistry & Molecular Biology
Street address 4500 San Pablo Road
City Jacksonville
State/province FL
ZIP/Postal code 32224
Country USA
Platforms (2)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
GPL97 [HG-U133B] Affymetrix Human Genome U133B Array
Samples (40)
GSM146778 Stage 1, PT#2, Normal (HG-U133A)
GSM146779 Stage 1, PT#2, Tumor (HG-U133A)
GSM146780 Stage 1, PT#3, Normal (HG-U133A)
BioProject PRJNA99609

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 4.8 Mb (ftp)(http) ZIP
GSE6344_Dataframe.TXT 3.8 Mb (ftp)(http) TXT
GSE6344_MethodsDetails.PDF 12.4 Kb (ftp)(http) PDF
GSE6344_RAW.tar 130.6 Mb (http)(custom) TAR (of CEL)
GSE6344_a1way_StageTumor_@95.txt 2.4 Mb (ftp)(http) TXT
GSE6344_a1way_StageTumor_@99.txt 1.6 Mb (ftp)(http) TXT

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