Preparation of the Low Molecular Weight Serum Proteome for Mass Spectrometry Analysis

  • Timothy J. Waybright
  • King C. Chan
  • Timothy D. Veenstra
  • Zhen Xiao
Part of the Methods in Molecular Biology book series (MIMB, volume 1061)


The discovery of viable biomarkers or indicators of disease states is complicated by the inherent complexity of the chosen biological specimen. Every sample, whether it is serum, plasma, urine, tissue, cells, or a host of others, contains thousands of large and small components, each interacting in multiple ways. The need to concentrate on a group of these components to narrow the focus on a potential biomarker candidate becomes, out of necessity, a priority, especially in the search for immune-related low molecular weight serum biomarkers. One such method in the field of proteomics is to divide the sample proteome into groups based on the size of the protein, analyze each group, and mine the data for statistically significant items. This chapter details a portion of this method, concentrating on a method for fractionating and analyzing the low molecular weight proteome of human serum.

Key words

Low molecular weight proteome Mass spectrometry Strong cation exchange Human serum Liquid chromatography Protein depletion 



This project has been funded in whole or in part with federal funds from the National Cancer Institute, National Institutes of Health, under contract number HHSN261200800001E. The content of this publication does not necessarily reflect the views or policies of the Department of Health and Human Services, nor does mention of trade names, commercial products, or organizations imply endorsement by the US Government.


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Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  • Timothy J. Waybright
    • 1
  • King C. Chan
    • 1
  • Timothy D. Veenstra
    • 1
  • Zhen Xiao
    • 1
  1. 1.Laboratory of Proteomics and Analytical Technologies, Advanced Technology ProgramFrederick National Laboratory for Cancer Research, SAIC-FrederickFrederickUSA

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