Finding Interesting Genes Using Reliability in Various Gene Expression Models.

Lee,  Eun Kyung; Cook,  Dianne; Hoffman,  Heike

doi:2011.9.1.28

Genomics Inform > Volume 9(1); 2011 > Article

Original Article

Genomics & Informatics 2011;9(1): 28-36.

DOI: https://doi.org/10.5808/gi.2011.9.1.028

Finding Interesting Genes Using Reliability in Various Gene Expression Models.

Eun Kyung Lee, Dianne Cook, Heike Hoffman

¹Department of Statistics, Ewha Womans University, Seoul 120-750, Korea. lee.eunk@ewha.ac.kr
²Department of Statistics, Iowa State University, Ames, IA, USA.

Abstract

Most statistical methods for finding interesting genes are focusing on the summary values with large fold-changes or large variations. Very few methods consider the probe level data. We developed a new measure to detect reliability that incorporates the probe level data. This reliability measure is useful for exploring the microarray data without ignoring the probe level data. It is easy to calculate, and it can be used for all the other statistical methods as a good guideline to find real differentially expressed genes. Instead of filtering out genes before the analysis, we use whole genes in the analysis and make decisions with new reliability measures.

Keywords: microarray; quality control; reliability; probe level analysis; Affymetrix