Methods for SWATH™: Data Independent Acquisition on TripleTOF Mass Spectrometers

  • Ronald J. Holewinski
  • Sarah J. Parker
  • Andrea D. Matlock
  • Vidya Venkatraman
  • Jennifer E. Van Eyk
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1410)

Abstract

Data independent acquisition (DIA also termed SWATH) is an emerging technology in the field of mass spectrometry based proteomics. Although the concept of DIA has been around for over a decade, the recent advancements, in particular the speed of acquisition, of mass analyzers have pushed the technique into the spotlight and allowed for high-quality DIA data to be routinely acquired by proteomics labs. In this chapter we will discuss the protocols used for DIA acquisition using the Sciex TripleTOF mass spectrometers and data analysis using the Sciex processing software.

Key words

Data independent acquisition (DIA) SWATH Quantitative proteomics Mass spectrometry Spectral ion library 

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Copyright information

© Springer Science+Business Media New York 2016

Authors and Affiliations

  • Ronald J. Holewinski
    • 1
  • Sarah J. Parker
    • 1
  • Andrea D. Matlock
    • 1
  • Vidya Venkatraman
    • 1
  • Jennifer E. Van Eyk
    • 1
  1. 1.Advanced Clinical Biosystems Research Institute, The Heart InstituteCedars-Sinai Medical CenterLos AngelesUSA

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