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diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition

MPS-Authors
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Meier,  Florian
Mann, Matthias / Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Max Planck Society;

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Brunner,  Andreas-David
Mann, Matthias / Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Max Planck Society;

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Bludau,  Isabell
Mann, Matthias / Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Max Planck Society;

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Voytik,  Eugenia
Mann, Matthias / Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Max Planck Society;

/persons/resource/persons78356

Mann,  Matthias
Mann, Matthias / Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Max Planck Society;

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https://rdcu.be/ccndS
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Citation

Meier, F., Brunner, A.-D., Frank, M., Ha, A., Bludau, I., Voytik, E., et al. (2020). diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition. Nature Methods, 17(12), 1229-1236. doi:10.1038/s41592-020-00998-0.


Cite as: http://hdl.handle.net/21.11116/0000-0007-9898-2
Abstract
Data-independent acquisition modes isolate and concurrently fragment populations of different precursors by cycling through segments of a predefined precursor m/z range. Although these selection windows collectively cover the entire m/z range, overall, only a few per cent of all incoming ions are isolated for mass analysis. Here, we make use of the correlation of molecular weight and ion mobility in a trapped ion mobility device (timsTOF Pro) to devise a scan mode that samples up to 100 of the peptide precursor ion current in m/z and mobility windows. We extend an established targeted data extraction workflow by inclusion of the ion mobility dimension for both signal extraction and scoring and thereby increase the specificity for precursor identification. Data acquired from whole proteome digests and mixed organism samples demonstrate deep proteome coverage and a high degree of reproducibility as well as quantitative accuracy, even from 10 ng sample amounts. © 2020, The Author(s), under exclusive licence to Springer Nature America, Inc.