TITLE

Comparison of the latest commercial short and long oligonucleotide microarray technologies

AUTHOR(S)
Reynies, Aurelien de; Geromin, Daniela; Cayuela, Jean-Michel; Petel, Fabien; Dessen, Philippe; Sigaux, Francois; Rickman, David S
PUB. DATE
January 2006
SOURCE
BMC Genomics;2006, Vol. 7, p51
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
Background: We compared the relative precision and accuracy of expression measurements obtained from three different state-of-the-art commercial short and long-oligonucleotide microarray platforms (Affymetrix GeneChipâ„¢ , GE Healthcare CodeLinkâ„¢ and Agilent Technologies). The design of the comparison was chosen to judge each platform in the context of a multi-project program. Results: All wet-lab experiments and raw data acquisitions were performed independently by each commercial platform. Intra-platform reproducibility was assessed using measurements from all available targets. Inter-platform comparisons of relative signal intensities were based on a common and non-redundant set of roughly 3,400 targets chosen for their unique correspondence toward a single transcript. Despite many examples of strong similarities we found several areas of discrepancy between the different platforms. Conclusion: We found a higher level of reproducibility from one-color based microarrays (Affymetrix and CodeLink) compared to the two-color arrays from Agilent. Overall, Affymetrix data had a slightly higher level of concordance with sample-matched real-time quantitative reversetranscriptase polymerase chain reaction (QRT-PCR) data particularly for detecting small changes in gene expression levels.
ACCESSION #
28858612

 

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