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Series GSE15201 Query DataSets for GSE15201
Status Public on Mar 11, 2010
Title MicroRNA expression differentiates histology and predicts survival of lung cancer
Organisms Homo sapiens; Human gammaherpesvirus 4
Experiment type Non-coding RNA profiling by array
Summary Abstract. Background. Treatment for lung adenocarcinoma (AD) and squamous cell carcinoma (SQ) is similar and shows comparable poor efficacy. We investigated whether microRNA (miR) expression profiles can differentiate histological subtypes, predict survival, and suggest histology-specific targets for treatment. Methods. We analyzed miR expression in 165 AD and 125 SQ tissue samples from the Environmental And Genetics in Lung cancer Etiology (EAGLE) study using a custom oligo array with 440 human mature antisense miRs. We compared miR expression profiles using t-tests and F-tests and accounted for multiple testing using global permutation tests. We categorized miR-targeted genes using Gene Ontology. We assessed the association of miR expression with clinical outcome using log-rank tests, Cox proportional hazards and survival risk prediction models, accounting for demographic and tumor characteristics. Findings. MiR expression profiles strongly differed between AD and SQ (global p<0.0001), particularly in the early stages. All members of the let-7 family and other oncosuppressor miRs were down-regulated in SQ, while oncomiRs like miR-21 were up-regulated in AD. The miRs with the strongest expression differences are located on chromosome loci most often altered in lung cancer (e.g., 3p21-22). Major findings were confirmed by QRT-PCR in EAGLE samples and in an independent cohort. In SQ, low expression of miRs down-regulated in the histology comparison was associated with 1.2 to 3.6-fold increased mortality risk. A 5-miR signature significantly predicted survival for SQ. Interpretation. We identified a miR expression profile that strongly differentiated AD from SQ and had prognostic implications. These findings may lead to histology-based therapeutic approaches.
 
Overall design We conducted a large miR expression study in 290 subjects, including 165 AD and 125 SQ patients, within the Environment And Genetics in Lung cancer Etiology (EAGLE) study. The reference sample is derived from an EBV cell line.
 
Citation(s) 20068076
Submission date Mar 11, 2009
Last update date May 25, 2012
Contact name Francesco Maria Marincola
E-mail(s) fmarincola@sidra.org
Phone 301-793-8210
Organization name Sidra Medical and Research Center
Street address Al Nasr Tower, AL Corniche Street, PO Box 26999
City Doha
ZIP/Postal code PO Box 26999
Country Qatar
 
Platforms (1)
GPL8377 CCDTM miRNA700-V3 (H. sapiens and EBV subset; condensed)
Samples (290)
GSM379385 FFPE1 - mAdbID:80922
GSM379386 FFPE2 - mAdbID:80924
GSM379387 FFPE3 - mAdbID:80927
Relations
BioProject PRJNA114959

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
GSE15201_RAW.tar 39.5 Mb (http)(custom) TAR (of GPR)
Raw data provided as supplementary file
Processed data included within Sample table

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