Quantitative Proteomics: (Volume 1 New Developments in Mass Spectrometry)

As a component of post-genome science, the field of proteomics has assumed great prominence in recent years. Whereas quantitative analyses focussed initially on relative quantification, a greater emphasis is now placed on absolute quantification and consideration of proteome dynamics. Coverage of the topic of quantitative proteomics requires consideration both of the analytical fundamentals of quantitative mass spectrometry and the specific demands of the problem being addressed. Quantitative Proteomics aims to outline the state of the art in mass spectrometry-based quantitative proteomics, describing recent advances and current limitations in the instrumentation used, together with the various methods employed for generating high quality data. Details on both strategies describing how stable isotope labelling can be applied and methods for performing quantitative analysis of proteins in a label-free manner are given. The utility of these strategies to understanding cellular protein dynamics are then exemplified with chapters looking at spatial proteomics, dynamics of protein function as determined by quantifying changes in protein post-translational modification and protein turnover. Finally, a key application of these techniques to biomarker discovery and validation is presented, together with the rapidly developing area of quantitative analysis of protein-based foodstuffs. This exemplary book is essential reading for analytical and biological mass spectrometrists working in proteomics research, as well as those undertaking either fundamental or clinical-based investigations with an interest in understanding protein dynamics and/or biomarker assessment.

Table of Contents:
Practical Considerations and Current Limitations in Quantitative Mass Spectrometry-Based Proteomics; Targeted Proteomics Based on High Resolution Accurate Mass Spectrometry Measurement; Making Sense Out of the Proteome: The Utility of iTRAQ and TMT; Getting Absolute: Determining Absolute Protein Quantities via Selected Reaction Monitoring Mass Spectrometry; Proteomics Standards with Controllable Trueness - Absolute Quantification of Peptides, Phosphopeptides and Proteins Using ICP- and ESI-MS Label-Free Strategies for Protein Quantification; Overview and Implementation of Mass Spectrometry-Based Label-Free Quantitative Proteomics; MS1 Label-Free Quantification Using Ion Intensity Chromatograms in Skyline (Research and Clinical Applications); Label-Free Quantification of Proteins Using Data-Independent Acquisition; Spatial Proteomics: Practical Considerations for Data Acquisition and Analysis in Protein Subcellular Localisation Studies; Quantitative Analyses of Phosphotyrosine Cellular Signalling in Disease; Next Generation Proteomics: PTMs in Space and Time; Experimental and Analytical Approaches to Quantification of Protein Turnover on a Proteome-Wide Scale; Protein Quantification by MRM for Biomarker Validation; MRM-based Protein Quantification with Labelled Standards for Biomarker Discovery, Verification, and Validation in Human Plasma; Mass Spectrometry-Based Quantification of Proteins and Peptides in Food; Subject Index