Intensity-based analysis of dual-color gene expression data as an alternative to ratio-based analysis to enhance reproducibility.

ABSTRACT:

Background

Ratio-based analysis is the current standard for the analysis of dual-color microarray data. Indeed, this method provides a powerful means to account for potential technical variations such as differences in background signal, spot size and spot concentration. However, current high density dual-color array platforms are of very high quality, and inter-array variance has become much less pronounced. We therefore raised the question whether it is feasible to use an intensity-based analysis rather than ratio-based analysis of dual-color microarray datasets. Furthermore, we compared performance of both ratio- and intensity-based analyses in terms of reproducibility and sensitivity for differential gene expression.

Results

By analyzing three distinct and technically re

SUBMITTER: Bossers K 

PROVIDER: S-EPMC2838842 | biostudies-literature | 2010 Feb

REPOSITORIES: biostudies-literature