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Multiple Reaction Monitoring Using Double Isotopologue Peptide Standards for Protein Quantification

  • Azad Eshghi
  • Christoph H. Borchers
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1788)

Abstract

Multiple reaction monitoring (MRM) is a technique used in tandem mass spectrometry where the first mass analyzer preselects parent ions for fragmentation and the second mass analyzer transmits selected product ions to the detector. This targeted technique has found widespread application in bottom-up proteomics for monitoring target peptides in a complex enzymatic digest. Quantitative MRM can be performed on enzymatically digested samples using spiked-in synthetic peptide standards, providing unsurpassed quantitative accuracy and a dynamic range of four orders of magnitude, often eliminating the need for prior depletion of high-abundance proteins. The development of MRM assays requires technical rigor, and this chapter details a methodology for sample preparation, data acquisition, and analyses to successfully perform quantitative MRM assays using two distinct isotopologue peptide standards to quantify proteins in mouse plasma and heart tissue.

Keywords

Heart Isotopologue Monitoring Mouse MRM Multiple Multiplex Peptide Plasma Protein Proteomics Quantification Reaction 

Notes

Acknowledgments

We are grateful to Genome Canada and Genome British Columbia for financial support (project codes 181MRM GAPP, 234DMP-DIG, 204PRO for operations and 214PRO for technology development). CHB is grateful for support from the Leading Edge Endowment Fund (University of Victoria) and for support from the Segal McGill Chair in Molecular Oncology at McGill University (Montreal, QC, Canada). CHB is also grateful for support from the Warren Y. Soper Charitable Trust and the Alvin Segal Family Foundation to the Jewish General Hospital (Montreal, QC, Canada).

We would like to thank Helena Petrosova for technical editing and Sarah A. Michaud for providing sample preparation protocols for mouse tissues. Helena Petrosova and Sarah A. Michaud are affiliated with the University of Victoria Genome BC Proteomics Centre.

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Copyright information

© Springer Science+Business Media New York 2017

Authors and Affiliations

  1. 1.University of Victoria—Genome BC Proteomics CentreVictoriaCanada
  2. 2.Department of Biochemistry and MicrobiologyUniversity of VictoriaVictoriaCanada
  3. 3.Proteomics Centre, Segal Cancer Centre, Lady Davis InstituteMcGill UniversityMontrealCanada
  4. 4.Gerald Bronfman Department of OncologyJewish General HospitalMontrealCanada
  5. 5.Jewish General Hospital Proteomics Laboratory, Lady Davis InstituteMcGill UniversityMontréalCanada

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