JSM 2011 Online Program

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Abstract Details

Activity Number: 404
Type: Contributed
Date/Time: Tuesday, August 2, 2011 : 2:00 PM to 3:50 PM
Sponsor: Biometrics Section
Abstract - #303031
Title: A Comparison of Methods for Identifying Differentially Expressed Genes in Microarray Experiments
Author(s): Manel Wijesinha*+ and Dhammika Amaratunga
Companies: Penn State University and Johnson & Johnson Pharmaceutical R&D, LLC
Address: 1031 Edgecomb Avenue, York, PA, 17402, USA
Keywords: conditional t ; limma ; microarray

A common task in microarray experiments is to identify genes that are differentially expressed across two conditions, e.g., in normal tissue vs diseased tissue. This can be addressed quite simply by doing a series of ordinary t-tests. However, several authors have argued that the power of the tests can be improved by borrowing strength across the genes, a process that leads to modified t-tests. Strength can be borrowed either parametrically, leading to methods such as limma, or semi-parametrically, leading to methods such as Conditional t. In this work, we will compare the effectiveness of these methods in situations where standard assumptions, such as normality, hold and in situations where such assumptions do not hold. In addition, we will explore some variations of the volcano plot for gene selection.

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