Using Data-Independent Mass Spectrometry to Extend Detectable Dynamic Range without Prior Fractionation

Young Ah Goo*, David R. Goodlett

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

Data-dependent acquisition (DDA) is widely used in shotgun proteomics to profile the protein components of complex samples. Although very popular, it presents major drawbacks in terms of detectable dynamic range. Recently, we demonstrated the superior performance of a data-independent acquisition (DIA) method that we termed precursor acquisition independent from ion count (PAcIFIC), which showed increased protein identification as well as extended detectable dynamic range over DDA methods. In this chapter, we discuss recent improvements to PAcIFIC that make it faster, more accurate, and quantitative. Currently, the time needed to perform a PAcIFIC experiment can be reduced to less than two days using an ion trap with an overall tandem mass spectral acquisition rate of 0.2 seconds or less.

Original languageEnglish (US)
Title of host publicationProteomic and Metabolomic Approaches to Biomarker Discovery
PublisherElsevier Inc
Pages119-130
Number of pages12
ISBN (Print)9780123944467
DOIs
StatePublished - Jan 1 2013

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Keywords

  • Data-independent acquisition (DIA)
  • Dynamic range
  • Precursor acquisition independent from ion count (PAcIFIC)
  • Pseudo-MRM
  • Quantification

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Goo, Y. A., & Goodlett, D. R. (2013). Using Data-Independent Mass Spectrometry to Extend Detectable Dynamic Range without Prior Fractionation. In Proteomic and Metabolomic Approaches to Biomarker Discovery (pp. 119-130). Elsevier Inc. https://doi.org/10.1016/B978-0-12-394446-7.00007-8