Mass spectrometry-based proteomics and peptidomics for systems biology and biomarker discovery

Abstract

The scientific community has shown great interest in the field of mass spectrometry-based proteomics and peptidomics for its applications in biology. Proteomics technologies have evolved to produce large data sets of proteins or peptides involved in various biologic and disease progression processes generating testable hypothesis for complex biologic questions. This review provides an introduction to relevant topics in proteomics and peptidomics including biologic material selection, sample preparation, separation techniques, peptide fragmentation, post-translational modifications, quantification, bioinformatics, and biomarker discovery and validation. In addition, current literature, remaining challenges, and emerging technologies for proteomics and peptidomics are presented.

Keywords

mass spectrometry / proteomics / peptidomics / review / post-translational modifications / fragmentation / separation / protein quantitation / sample preparation / biomarker discovery / validation / bioinformatics

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Acknowledgments

Preparation of this manuscript was supported in part by the University of Wisconsin Graduate School, Wisconsin Alzheimer’s Disease Research Center Pilot Grant, and a Department of Defense Pilot Award. L.L. acknowledges an H. I. Romnes Faculty Fellowship.

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2014 Higher Education Press and Springer-Verlag Berlin Heidelberg