© 2003 by Oxford University Press
Journal of the National Cancer Institute, Vol. 95, No. 1, 14-18,
January 1, 2003
© 2003 Oxford University Press
COMMENTARY |
Pitfalls in the Use of DNA Microarray Data for Diagnostic and Prognostic Classification
Affiliations of authors:R. Simon, K. Dobbin, L. M. McShane, Biometric Research Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD; M. D. Radmacher, Departments of Biology and Mathematics, Kenyon College, Gambier, OH.
Correspondence to:Richard Simon, D.Sc., National Cancer Institute, 9000 Rockville Pike, MSC 7434, Bethesda, MD 20892-7434 (e-mail: rsimon@nih.gov).
| The first 150 words of the full text of this article appear below. |
DNA microarrays have made it possible to estimate the level of expression of thousands of genes for a sample of cells. Although biomedical investigators have been quick to adopt this powerful new research tool, accurate analysis and interpretation of the data have provided unique challenges. Indeed, many investigators are not experienced in the analytical steps needed to convert tens of thousands of noisy data points into reliable and interpretable biologic information. Although some investigators recognize the importance of collaborating with experienced biostatisticians to analyze microarray data, the number and availability of experienced biostatisticians is inadequate. Consequently, investigators are using available software to analyze their data, many seemingly without knowledge of potential pitfalls. Because of serious problems associated with the analysis and reporting of some DNA microarray studies, there is great interest in guidance on valid and effective methods for analysis of DNA microarray data.
The design and analysis strategy for
EXPERIMENTAL OBJECTIVES DRIVE DESIGN AND ANALYSIS
LIMITATIONS OF CLUSTER ANALYSIS FOR CLASS PREDICTION
CLASS PREDICTION USING SUPERVISED METHODS
CROSS-VALIDATION OF PREDICTION ACCURACY
VALIDATION ON INDEPENDENT DATA
REPORTING THE ERROR RATE
CLAIMS FOR NEW CLASS PREDICTION METHODS
CONCLUSION
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