Exon level integration of proteomics and microarray data

Background: Previous studies comparing quantitative proteomics and microarray data have generally found poor correspondence between the two. We hypothesised that this might in part be because the different assays were targeting different parts of the expressed genome and might therefore be subjected to confounding effects from processes such as alternative splicing. Results: Using a genome database as a platform for integration, we combined quantitative protein mass spectrometry with Affymetrix Exon array data at the level of individual exons. We found significantly higher degrees of correlation than have been previously observed (r = 0.808). The study was performed using cell lines in equilibrium in order to reduce a major potential source of biological variation, thus allowing the analysis to focus on the data integration methods in order to establish their performance. Conclusion: We conclude that part of the variation observed when integrating microarray and proteomics data may oc...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Danny A. Bitton, Michal J. Okoniewski, Yvonne Connolly, Crispin J. Miller
• Keywords: Alternative Splicing, BMCBI 2008, Individual Exons, Microarray Data