JSM 2004 - Toronto

Abstract #300414

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Activity Number: 114
Type: Contributed
Date/Time: Monday, August 9, 2004 : 10:30 AM to 12:20 PM
Sponsor: ENAR
Abstract - #300414
Title: Sample Size Determination in Microarray Experiments for Class Comparison and Prognostic Classification
Author(s): Kevin K. Dobbin*+ and Richard Simon
Companies: National Cancer Institute and National Institutes of Health
Address: 6130 Executive Blvd., Bethesda, MD, 20892-7434,
Keywords: microarrays ; experimental design ; sample size
Abstract:

Determining sample sizes for microarray experiments is important but the complexity of these experiments, and the large amounts of data they produce, can make the sample size issue seem daunting, and tempt researchers to use rules of thumb in place of formal calculations based on the goals of the experiment. Here we present formulas for determining sample sizes to achieve a variety of experimental goals, including class comparison and the development of prognostic markers. We derive results describing the impact of pooling, technical replicates and dye-swap arrays on sample size requirements. We show how results depend on the relative sizes of different sources of variability. We consider a variety of common types of experimental situations and designs that are used with single-label and dual-label microarrays. We discuss procedures for controlling the false discovery rate. Our calculations are based on relatively simple yet realistic statistical models for the data, and provide straightforward sample size calculation formulas.

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