Gene expression and isoform variation analysis using Affymetrix Exon Arrays.

ABSTRACT:

Background

Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are becoming increasingly popular as a tool capable of both expression profiling and finer scale isoform detection. Despite their intuitive appeal, relatively little is known about the performance of such tools, particularly in comparison with more traditional 3' targeted microarrays. Here, we use the well studied Microarray Quality Control (MAQC) dataset to benchmark the Affymetrix Exon Array, and compare it to two other popular platforms: Illumina, and Affymetrix U133.

Results

We show that at the gene expression level, the Exon Array performs comparably with the t

SUBMITTER: Bemmo A 

PROVIDER: S-EPMC2585104 | biostudies-literature | 2008 Nov

REPOSITORIES: biostudies-literature