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

Florian Meier, Andreas-David Brunner, Max Frank, Annie Ha, Isabell Bludau, Eugenia Voytik, Stephanie Kaspar-Schoenefeld, Markus Lubeck, Oliver Raether, Nicolai Bache, Ruedi Aebersold, Ben C. Collins, Hannes L. Röst, Matthias Mann

Research output: Contribution to journalArticlepeer-review

28 Citations (Scopus)
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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 100z 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.
Original languageEnglish
Pages (from-to)1229-1236
JournalNature Methods
Early online date30 Nov 2020
Publication statusPublished - 01 Dec 2020

Bibliographical note

Number: 12 Publisher: Nature Publishing Group


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