A training-testing approach to the molecular classification of resected non-small cell lung cancer.
OBJECTIVE
RNA expression patterns associated with non-small cell lung cancer subclassification have been reported, but there are substantial differences in the key genes and clinical features of these subsets casting doubt on their biological significance.


METHODS
In this study, we used a training-testing approach to test the reliability of cDNA microarray-based classifications of resected human non-small cell lung cancers (NSCLCs) analyzed by cDNA microarray.


RESULTS
Groups of genes were identified that were able to differentiate primary tumors from normal lung and lung metastases, as well as identify known histological subgroups of NSCLCs. Groups of genes were identified to discriminate sample clusters. A blinded confirmatory set of tumors was correctly classified by using these patterns. Some histologically diagnosed large cell tumors were clearly classified by expression profile analysis as being either adenocarcinoma or squamous cell carcinoma, indicating that this group of tumors may not be genetically homogeneous. High alpha-actinin-4 expression was identified as highly correlated with poor prognosis.


CONCLUSIONS
These results demonstrate that gene expression profiling can identify molecular classes of resected NSCLCs that correctly classifies a blinded test cohort, and correlates with and supplements standard histological evaluation.
Vanderbilt-Ingram Cancer Center, Vanderbilt University School of Medicine, Nashville, Tennessee 37232-6838, USA.
Noboru
N
Yamagata
Yu
Y
Shyr
Kiyoshi
K
Yanagisawa
Mary
M
Edgerton
Thao P
TP
Dang
Adriana
A
Gonzalez
Sorena
S
Nadaf
Paul
P
Larsen
John R
JR
Roberts
Jonathan C
JC
Nesbitt
Roy
R
Jensen
Shawn
S
Levy
Jason H
JH
Moore
John D
JD
Minna
David P
DP
Carbone
D000185:Actinin / Q000096:biosynthesis; D000230:Adenocarcinoma / Q000175:diagnosis / Q000235:genetics; D002289:Carcinoma, Non-Small-Cell Lung / Q000175:diagnosis* / Q000235:genetics*; D002294:Carcinoma, Squamous Cell / Q000175:diagnosis / Q000235:genetics; D015331:Cohort Studies; D018076:DNA, Complementary / Q000378:metabolism; D015536:Down-Regulation; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D008175:Lung Neoplasms / Q000175:diagnosis* / Q000235:genetics*; D008840:Microfilament Proteins; D009362:Neoplasm Metastasis; D020411:Oligonucleotide Array Sequence Analysis; D011379:Prognosis; D012313:RNA / Q000378:metabolism; D013997:Time Factors; D015854:Up-Regulation
C111453:ACTN4 protein, human; D018076:DNA, Complementary; D008840:Microfilament Proteins; D000185:Actinin; D012313:RNA