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Series GSE13029 Query DataSets for GSE13029
Status Public on Oct 15, 2008
Title Predicting Outcome in Follicular Lymphoma by Using Interactive Gene Pairs
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Purpose: Follicular lymphoma is a common lymphoma of adults. Although its course is often indolent, a substantial proportion of patients have a poor prognosis, often due to rapid progression or transformation to a more aggressive lymphoma. Currently available clinical prognostic scores, such as the follicular lymphoma international prognostic index, are not able to optimally predict transformation or poor outcome. Experimental Design: Gene expression profiling was done on primary lymphoma biopsy samples. Results: Using a statistically conservative approach, predictive interaction analysis, we have identified pairs of interacting genes that predict poor outcome, measured as death within 5 years of diagnosis. The best gene pair performs >1,000-fold better than any single gene or the follicular lymphoma international prognostic index in our data set. Many gene pairs achieve outcome prediction accuracies exceeding 85% in extensive cross-validation and noise sensitivity computational analyses.Many genes repeatedly appear in top-ranking pairs, suggesting that they reproducibly provide predictive capability. Conclusions:The evidence reported here may provide the basis for an expression-based, multigene test for predicting poor follicular lymphoma outcomes.

Keywords: Comparative genomics
 
Overall design 41 frozen follicular lymphoma tissues were profiled, then correlated to 5 year follow up survival data.
 
Contributor(s) LeBrun D, Baetz T, Foster C, Farmer P, Sidhu R, Guo H, Harrison K, Somogyi R, Greller LD, Feilotter H
Citation(s) 18223222
Submission date Oct 02, 2008
Last update date Dec 06, 2012
Contact name Harriet Feilotter
Organization name Queen's University
Department Pathology and molecular department
Lab microarray facility
Street address 88 Stuart St
City Kingston
State/province Ontario
ZIP/Postal code K7L 3N6
Country Canada
 
Platforms (1)
GPL1708 Agilent-012391 Whole Human Genome Oligo Microarray G4112A (Feature Number version)
Samples (41)
GSM326361 Follicular Lymphoma tissue 1 snap frozen
GSM326362 Follicular Lymphoma tissue 2 snap frozen
GSM326363 Follicular Lymphoma tissue 3 snap frozen
Relations
BioProject PRJNA109699

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
GSE13029_RAW.tar 278.8 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table
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