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

Nature methods, 2020-12, Vol.17 (12), p.1229-1236 [Peer Reviewed Journal]

COPYRIGHT 2020 Nature Publishing Group ;The Author(s), under exclusive licence to Springer Nature America, Inc. 2020. ;ISSN: 1548-7091 ;EISSN: 1548-7105 ;DOI: 10.1038/s41592-020-00998-0 ;PMID: 33257825

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Title:
diaPASEF: parallel accumulation-serial fragmentation combined with data-independent acquisition
Author: Meier, Florian ; Brunner, Andreas-David ; Frank, Max ; Ha, Annie ; Bludau, Isabell ; Voytik, Eugenia ; Kaspar-Schoenefeld, Stephanie ; Lubeck, Markus ; Raether, Oliver ; Bache, Nicolai ; Aebersold, Ruedi ; Collins, Ben C ; Röst, Hannes L ; Mann, Matthias
Subjects: Cell Line, Tumor ; Data acquisition ; Data entry ; Data Science - methods ; HeLa Cells ; High-Throughput Screening Assays - methods ; Humans ; Ion beams ; Ion Channels - metabolism ; Ion currents ; Ion Transport - physiology ; Ionic mobility ; Ions ; Ions - chemistry ; Methods ; Mobility ; Molecular weight ; Peptides ; Precursors ; Proteome - metabolism ; Proteomes ; Proteomics ; Proteomics - methods ; Reproducibility of Results ; Tandem Mass Spectrometry - methods ; Time-of-flight mass spectrometry ; Workflow
Is Part Of: Nature methods, 2020-12, Vol.17 (12), p.1229-1236
Description: 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.
Publisher: United States: Nature Publishing Group
Language: English
Identifier: ISSN: 1548-7091
EISSN: 1548-7105
DOI: 10.1038/s41592-020-00998-0
PMID: 33257825
Source: MEDLINE
ProQuest Central

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

COPYRIGHT 2020 Nature Publishing Group ;The Author(s), under exclusive licence to Springer Nature America, Inc. 2020. ;ISSN: 1548-7091 ;EISSN: 1548-7105 ;DOI: 10.1038/s41592-020-00998-0 ;PMID: 33257825

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