Quantitative Proteomics by Stable Isotope Labeling and Mass Spectrometry

The goal of quantitative proteomics is to systematically study static state or perturbation-induced changes in protein profile. Most of the recently developed mass spectrometry (MS)-based quantitative proteomic methods employ stable isotope labeling to introduce signature mass tags to peptides/proteins that can be used by a mass spectrometer to quantify each analyte and to determine the sample from which it originates. In this chapter, we discuss several methods for the introduction of mass tags to proteins and peptides for MS-based quantitative proteomic analysis, including isotope-coded affinity tags, stable isotope labeling by amino acids in cell culture, global internal standard technology, and mass-coded abundance tagging.