Fractionation of Peptides by Strong Cation-Exchange Liquid Chromatography

  • King C. Chan
  • Haleem J. Issaq
Part of the Methods in Molecular Biology book series (MIMB, volume 1002)


Chromatography in all its formats plays an important role in proteomics research. The search for protein biomarkers for different diseases has been an active area of research. The dynamic concentration range and the large number of proteins in a proteome require the development of multidimensional separation strategies to allow for the identification of the largest number of proteins. Strong cation-exchange chromatography (SCX) has been used extensively for the fractionation of proteins and peptides. This chapter provides a detailed description for the SCX fractionation of complex proteome samples.

Key words

Protein Peptides Fractionation Mass spectrometry Strong cation-exchange chromatography 


  1. 1.
    Link AJ, Eng J, Schieltz DM et al (1999) Direct analysis of protein complexes using mass spectrometry. Nat Biotechnol 17: 676–682PubMedCrossRefGoogle Scholar
  2. 2.
    Issaq HJ, Chan KC, Janini GM, Muschik GM (1999) A simple two-dimensional high performance liquid chromatography/high performance capillary electrophoresis set-up for the separation of complex mixtures. Electrophoresis 20:1533–1537PubMedCrossRefGoogle Scholar
  3. 3.
    Janini GM, Chan KC, Conrads TP, Issaq HJ, Veenstra TD (2004) Two-dimensional liquid chromatography-capillary zone electrophoresis-sheathless electrospray ionization-mass spectrometry: evaluation for peptide analysis and protein identification. Electrophoresis 25:1973–1980CrossRefGoogle Scholar
  4. 4.
    Issaq HJ, Conrads TP, Janini GM, Veenstra TD (2002) Methods for fractionation, separation and profiling of proteins and peptides. Electrophoresis 23:3048–3061PubMedCrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  • King C. Chan
    • 1
  • Haleem J. Issaq
    • 1
  1. 1.Laboratory of Proteomics and Analytical Technologies, Advanced Technology Program, SAIC-Frederick, Inc., Frederick National Laboratory for Cancer ResearchFrederickUSA

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