articleNature CommunicationsAug 10, 2017GOLD OA

Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry

BCBen C. CollinsCLChristie L. HunterYLYansheng LiuBSBirgit SchillingGRGeorge Rosenberger

ETH Zurich · Box (United States) · +17 more institutions

PubMed
Indexed incrossrefdoajpubmed

Abstract

Quantitative proteomics employing mass spectrometry is an indispensable tool in life science research. Targeted proteomics has emerged as a powerful approach for reproducible quantification but is limited in the number of proteins quantified. SWATH-mass spectrometry consists of data-independent acquisition and a targeted data analysis strategy that aims to maintain the favorable quantitative characteristics (accuracy, sensitivity, and selectivity) of targeted proteomics at large scale. While previous SWATH-mass spectrometry studies have shown high intra-lab reproducibility, this has not been evaluated between labs. In this multi-laboratory evaluation study including 11 sites worldwide, we demonstrate that…

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Topics & keywords

Topics
Keywords
  • Mass spectrometry
  • Reproducibility
  • Proteomics
  • Quantitative proteomics
  • Computer science
  • Data acquisition
  • Label-free quantification
  • Scale (ratio)
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