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Mass Spectrometry for Proteomics-Based Investigation

  • Alisa G. Woods
  • Izabela Sokolowska
  • Armand G. Ngounou Wetie
  • Devika Channaveerappa
  • Emmalyn J. Dupree
  • Madhuri Jayathirtha
  • Roshanak Aslebagh
  • Kelly L. Wormwood
  • Costel C. DarieEmail author
Chapter
Part of the Advances in Experimental Medicine and Biology book series (AEMB, volume 1140)

Abstract

Within the past years, we have witnessed a great improvement is mass spectrometry (MS) and proteomics approaches in terms of instrumentation, protein fractionation, and bioinformatics. With the current technology, protein identification alone is no longer sufficient. Both scientists and clinicians want not only to identify the proteins, but also to identify the protein’s post-translational modifications (PTMs), protein isoforms, protein truncation, protein-protein interactions (PPI), and protein quantitation. Here, we describe the principle of MS and proteomics, and strategies to identify proteins, protein’s PTMs, protein isoforms, protein truncation, PPIs, and protein quantitation. We also discuss the strengths and weaknesses within this field. Finally, in our concluding remarks we assess the role of mass spectrometry and proteomics in the scientific and clinical settings, in the near future. This chapter provides an introduction and overview for subsequent chapters that will discuss specific MS proteomic methodologies and their application to specific medical conditions. Other chapters will also touch upon areas that expand beyond proteomics, such as lipidomics and metabolomics.

Keywords

Mass spectrometry Proteomics MALDI-MS LC-MS/MS 

Abbreviations

BN-PAGE

Blue native PAGE

CI

Chemical ionization

CID

Collision-induced dissociation

CN-PAGE

Colorless native PAGE

DIGE

Differential gel electrophoresis

EI

Electric ionization

ESI

Electrospray ionization

ESI-MS

Electrospray ionization mass spectrometry

FAB

Fast atom bombardment

FT

Fourier transform

IT

Ion trap

LC-MS/MS

Liquid chromatography mass spectrometry

m/z

Mass/charge

MALDI

Matrix assisted laser desorption ionization

MALDI-MS

MALDI mass spectrometry

MS

Mass spectrometry

Mw

Molecular weight

PD

Plasma desorption

Q

Quadrupole

SDS-PAGE

Sodium dodecyl sulfate-polyacrylamide gel electrophoresis

TIC

Total ion current/chromatogram

TOF

Time of flight

Notes

Acknowledgments

We would like to thank the past and current members of our lab for the great working environment.

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Copyright information

© Springer Nature Switzerland AG 2019

Authors and Affiliations

  • Alisa G. Woods
    • 1
  • Izabela Sokolowska
    • 1
  • Armand G. Ngounou Wetie
    • 1
  • Devika Channaveerappa
    • 1
  • Emmalyn J. Dupree
    • 1
  • Madhuri Jayathirtha
    • 1
  • Roshanak Aslebagh
    • 1
  • Kelly L. Wormwood
    • 1
  • Costel C. Darie
    • 1
    Email author
  1. 1.Biochemistry & Proteomics Group, Department of Chemistry & Biomolecular ScienceClarkson UniversityPotsdamUSA

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