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OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data

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A Publisher Correction to this article was published on 24 February 2020

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Figure 1: SWATH-MS data-independent acquisition and OpenSWATH analysis.
Figure 2: Identification and quantification accuracy of OpenSWATH on the SGS data set.
Figure 3: Streptococcus pyogenes exposed to human plasma (0% plasma versus 10% plasma).

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Acknowledgements

H.L.R. was funded by ETH (ETH-30 11-2), G.R. and S.M.M. were funded by the Swiss Federal Commission for Technology and Innovation CTI (13539.1 PFFLI-LS), P.N., L.G. and R.A. were funded by the advanced European Research Council grant Proteomics v3.0 (233226), L.G. and R.A. were funded by PhosphonetX project of SystemsX.ch, J.M. was funded by the Swedish Research Council (project 2008-3356), the Crafoord Foundation (20100892) and the Swedish Foundation for Strategic Research (FFL4). Further funding was provided to R.A. by the Swiss National Science Foundation. We would like to thank the SyBIT project of SystemsX.ch for support and maintenance of the lab-internal computing infrastructure, the ITS HPC team (Brutus) and the OpenMS developers for including OpenSWATH in the OpenMS framework and fixing MS Windows compatibility bugs.

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Correspondence to Ruedi Aebersold.

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J.M. is co-founder and board member of Biognosys AG. J.M. and R.A. hold shares of Biognosys AG, which operates in the field covered by the article. The research group of R.A. is supported by AB SCIEX by providing access to prototype instrumentation.

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Röst, H., Rosenberger, G., Navarro, P. et al. OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data. Nat Biotechnol 32, 219–223 (2014). https://doi.org/10.1038/nbt.2841

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