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LeBlanc A, Michaud SA, Percy AJ, Hardie DB, Yang J, Sinclair NJ, Proudfoot JI, Pistawka A, Smith DS, Borchers CH. Multiplexed MRM-Based Protein Quantitation Using Two Different Stable Isotope-Labeled Peptide Isotopologues for Calibration. J Proteome Res 2017; 16:2527-2536. [PMID: 28516774 DOI: 10.1021/acs.jproteome.7b00094] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
When quantifying endogenous plasma proteins for fundamental and biomedical research - as well as for clinical applications - precise, reproducible, and robust assays are required. Targeted detection of peptides in a bottom-up strategy is the most common and precise mass spectrometry-based quantitation approach when combined with the use of stable isotope-labeled peptides. However, when measuring protein in plasma, the unknown endogenous levels prevent the implementation of the best calibration strategies, since no blank matrix is available. Consequently, several alternative calibration strategies are employed by different laboratories. In this study, these methods were compared to a new approach using two different stable isotope-labeled standard (SIS) peptide isotopologues for each endogenous peptide to be quantified, enabling an external calibration curve as well as the quality control samples to be prepared in pooled human plasma without interference from endogenous peptides. This strategy improves the analytical performance of the assay and enables the accuracy of the assay to be monitored, which can also facilitate method development and validation.
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Affiliation(s)
- André LeBlanc
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada.,Proteomics Centre, Segal Cancer Centre, Lady Davis Institute, McGill University , Montreal, Quebec H3A 0G4, Canada
| | - Sarah A Michaud
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Andrew J Percy
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Darryl B Hardie
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Juncong Yang
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Nicholas J Sinclair
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Jillaine I Proudfoot
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Adam Pistawka
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Derek S Smith
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada
| | - Christoph H Borchers
- University of Victoria - Genome BC Proteomics Centre , Victoria, BC V8Z 7X8, Canada.,Proteomics Centre, Segal Cancer Centre, Lady Davis Institute, McGill University , Montreal, Quebec H3A 0G4, Canada.,Department of Biochemistry and Microbiology, University of Victoria , Victoria, BC V8P 5C2, Canada.,Leibniz Institut für Analytische Wissenschaften - ISAS - e.V. , Dortmund 44139, Germany.,Gerald Bronfman Department of Oncology, Jewish General Hospital , Montreal, Quebec H3T 1E2, Canada
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