Multiplexed MS/MS for improved data-independent acquisition

Jarrett D. Egertson, Andreas Kuehn, Gennifer E. Merrihew, Nicholas W. Bateman, Brendan X. MacLean, Ying S. Ting, Jesse D. Canterbury, Donald M. Marsh, Markus Kellmann, Vlad Zabrouskov, Christine C. Wu, Michael J. MacCoss*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

230 Scopus citations


In mass spectrometry-based proteomics, data-independent acquisition (DIA) strategies can acquire a single data set useful for both identification and quantification of detectable peptides in a complex mixture. However, DIA data are noisy owing to a typical five- to tenfold reduction in precursor selectivity compared to data obtained with data-dependent acquisition or selected reaction monitoring. We demonstrate a multiplexing strategy, MSX, for DIA analysis that increases precursor selectivity fivefold.

Original languageEnglish
Pages (from-to)744-746
Number of pages3
JournalNature Methods
Issue number8
StatePublished - Aug 2013
Externally publishedYes


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