Cluster analysis and visualization techniques for large datasets in complexome profiling

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1 Molecular Bioinformatics, Institute of Computer Science, Faculty of Computer Science and Mathematics, Johann Wolfgang Goethe Universität Frankfurt am Main, Frankfurt am Main, Hessen, Germany
2 Nijmegen Centre for Mitochondrial Disorders, Radboud University Nijmegen, Nijmegen, Netherlands
3 Functional Proteomics, SFB815 core unit, Medical School, Johann Wolfgang Goethe Universität Frankfurt am Main, Frankfurt am Main, Hessen, Germany
DOI
10.7287/peerj.preprints.1303v1
Published
Accepted
Subject Areas
Bioinformatics, Computational Biology, Visual Analytics
Keywords
complexome profiling, visualization, clustering, protein complexes, proteomics
Copyright
© 2015 Giese et al.
Licence
This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ PrePrints) and either DOI or URL of the article must be cited.
Cite this article
Giese H, Ackermann J, Brandt U, Wittig I, Koch I. 2015. Cluster analysis and visualization techniques for large datasets in complexome profiling. PeerJ PrePrints 3:e1303v1

Abstract

Dysfunctional protein complexes are often associated with diseases. To develop effective treatments it is essential to understand the composition, formation and functionality of protein complexes. Novel techniques like complexome profiling give an overview of possible protein-protein interactions in an entire sample. In this approach intact protein complexes are separated using blue-native electrophoresis. The migration patterns of thousands of proteins are then uncovered using quantitative mass spectrometry and compared to find co-migrating proteins. Here, we present the concepts of our visualization approach for large complexome profiling datasets using our software NOVA. In agreement with recent literature we show that the protein NDUFA4, a previously known subunit of complex I of the mitochondrial respiratory chain, is instead a subunit of complex IV.

Author Comment

This work has been presented at the German Conference on Bioinformatics 2015.