JSM 2004 - Toronto

Abstract #300022

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Activity Number: 2
Type: Invited
Date/Time: Sunday, August 8, 2004 : 2:00 PM to 3:50 PM
Sponsor: WNAR
Abstract - #300022
Title: Normalization and Significance Analysis of cDNA Microarrays
Author(s): Jianqing Fan*+
Companies: Princeton University
Address: Dept. of Operations Res. & Fin. Eng., Princeton, NJ, 08544,
Keywords:
Abstract:

The quantitative comparison of two or more microarrays can reveal, for example, the distinct patterns of gene expression that define different cellular phenotypes or the genes that are induced in the cellular response to certain stimulations. Normalization of the measured intensities is a prerequisite of such comparisons. However, a fundamental problem in cDNA microarray analysis is the lack of a common standard to compare the expression levels of different samples. Several normalization protocols have been proposed to overcome the variabilities inherent in this technology. We have developed a normalization procedure based on within-array replications via a Semi-Linear In-slide Model (SLIM), which adjusts objectively experimental variations without making critical biological assumptions. The significant analysis of gene expressions is based on a newly developed weighted t statistic, which accounts for the heteroscedasticity of the observed log-ratios of expressions, and a balanced sign permutation test.

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Revised March 2004