Comparative analysis of methods for gene transcription profiling data derived from different microarray technologies in rat and mouse models of diabetes.

ABSTRACT:

Background

Microarray technologies are widely used to quantify the abundance of transcripts corresponding to thousands of genes. To maximise the robustness of transcriptome results, we have tested the performance and reproducibility of rat and mouse gene expression data obtained with Affymetrix, Illumina and Operon platforms.

Results

We present a thorough analysis of the degree of reproducibility provided by analysing the transcriptomic profile of the same animals of several experimental groups under different popular microarray technologies in different tissues. Concordant results from inter- and intra-platform comparisons were maximised by testing many popular computational methods for generating fold changes and significances and by only considering oligonucleotides givin

SUBMITTER: Wilder SP 

PROVIDER: S-EPMC2652496 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature