caa a22 4500 52878482X 20200103030208.0 cr unu---uuuuu 180924e200802 xx s 000 0 eng 10.3929/ethz-b-000014608 doi 10.1186/1471-2105-9-118 doi (ETHRESEARCH)oai:www.research-collection.ethz.ch:20.500.11850/14608 Exon level integration of proteomics and microarray data [Elektronische Daten] [Danny A. Bitton, Michał J. Okoniewski, Yvonne Connolly, Crispin J. Miller] Open access ethresearch 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 occur as a consequence both of the data analysis and of the high granularity to which studies have until recently been limited. The approach opens up the possibility for the first time of considering combined microarray and proteomics datasets at the level of individual exons and isoforms, important given the high proportion of alternative splicing observed in the human genome. Creative Commons Attribution 2.0 Generic http://creativecommons.org/licenses/by/2.0 ethresearch Proteomics Data ethresearch Log2 Fold Change ethresearch Exon Array ethresearch Transcript Location ethresearch Reporter Group ethresearch Bitton Danny A. joint author Okoniewski Michał J. joint author Connolly Yvonne joint author Miller Crispin J. joint author BMC bioinformatics London : BioMed Central 9, p. 118 http://hdl.handle.net/20.500.11850/14608 text/html WWW-Backlink auf das Repository (Open access) 1 Journal Article ethresearch ETHRESEARCH 856 40 http://hdl.handle.net/20.500.11850/14608 text/html WWW-Backlink auf das Repository (Open access) ETHRESEARCH 700 1- Bitton Danny A. joint author ETHRESEARCH 700 1- Okoniewski Michał J. joint author ETHRESEARCH 700 1- Connolly Yvonne joint author ETHRESEARCH 700 1- Miller Crispin J. joint author ETHRESEARCH 773 0- BMC bioinformatics London : BioMed Central 9, p. 118 BK010053 XK010053 XK010000 ETHRESEARCH ETHRESEARCH ETHRESEARCH Journal Article Open access