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More About This Title Mass Spectrometry-Based Chemical Proteomics
English
- Provides a basic overview of chemical proteomics, up-to-date concepts, analysis, and target validation
- Covers fundamentals and strategies, including proteome profiling and chemical probes
- Explains technical advances in the field and describes on shotgun proteomics, protein profiling, quantitative proteomics, peptide biosensors, and glycoprotein analysis
- Includes a wide variety of applications in drug discovery, from drug targets to the chemoproteomics analysis of natural products
English
W. Andy Tao, PhD, is an Associate Professor in the Department of Biochemistry at Purdue University. He is also the Founder and Chief Strategy Officer at Tymora Analytical Operations, LLC, which provides lab R&D products for life sciences. Dr. Tao is the recipient of awards, such as the American Society of Mass Spectrometry Research Award, and author of several articles and book chapters on proteomics and mass spectrometry.
Ying Zhang, PhD, is an Associate Professor at Fudan University. Her research focuses on the development of mass spectrometry-based new approaches for the analysis of low abundant proteins and posttranslational proteins.
English
Preface
Chapter 1: Protein Analysis by Shotgun Proteomics
1.1 Introduction
1.2 Overview of shotgun proteomics
1.3 Sample preparation
1.4 Peptide separation and data acquisition
1.5 Informatics
Chapter 2: Quantitative Proteomics for Analyses of Multiple Samples in Parallel with Chemical Perturbation
2.1 Introduction
2.2 Relative and absolute label-free quantitation strategies
2.3 Stable isotope-based quantitative proteomics
2.4 Conclusion
2.5 Methodology
Chapter 3: Chemoproteomic Analyses by Activity-based Protein Profiling
3.1 Introduction
3.2 How ABPP works
3.3 ABPP probe design
3.4 ABPP and mass spectrometry for chemoproteomics
3.5 ABPP applications and recent advances
3.6 Conclusions and the outlook of ABPP
Chapter 4: Activity-based Probes for Profiling Protein Activities
4.1 Introduction
4.2 Analytical platforms for ABPP
4.3 Classes of enzymes studied by ABPP
4.4 Conclusions
Chapter 5: Chemical Probes for Proteins and Networks
5.1 Introduction
5.2 Application of metabolic chemical probes to lipidated protein networks
5.3 Chemical probes for target identification
5.4 Protocol
Chapter 6: Probing Kinase Activities with Peptide and Peptidomimetic Biosensors
6.1 Introduction
6.2 Peptide biosensors for assignment and characterization of enzymatic reactions and substrate specificity
6.3 Screening inhibitors and detecting ligand interactions
6.4 Diagnostic and clinical applications
6.5 Profiling enzymatic activity
6.6 Protocol
6.7 Conclusion
Chapter 7: Chemoselective Tagging to Promote Natural Product Discovery
7.1 Introduction
7.2 Non-reversible mass spectrometry tags
7.3 Reversible enrichment tags
7.4 Conclusions
7.5 Protocol for enrichment of carboxylic acid-containing natural products
Chapter 8: Identification and Quantification of Newly Synthesized Proteins Using Mass Spectrometry-based Chemical Proteomics
8.1 Introduction
8.2 Protein labeling to study newly synthesized proteins
8.3 Global identification of newly synthesized proteins by non-canonical amino acids and MS
8.4 Comprehensive quantification of newly synthesized proteins by MS
8.5 Materials
8.6 Methods
Chapter 9: Tracing Endocytosis by Mass Spectrometry
9.1 Introduction
9.2 Clathrin-mediated endocytosis
9.3 Mass spectrometry as a tool to study endocytosis
9.4 Protocols for TITAN
Chapter 10: Functional Identification of Target by Expression Proteomics (FITExP)
10.1 Introduction
10.2 FITExP Protocol
Chapter 11: Target discovery using Thermal Proteome Profiling
11.1 Introduction
11.2 Thermodynamics of ligand binding as a measure of target engagement
11.3 Thermal proteome profiling – Proteome-wide detection of drug-target interactions
11.4 Experimental formats
11.5 Experimental protocol
11.6 Present challenges with TPP
11.7 CETSA to TPP – where are we heading?
Chapter 12: Chemical Strategies to Glycoprotein Analysis
12.1 Introduction
12.2 Sample preparation strategies for glycoproteomics
12.3 MS Analysis
12.4 Conclusions
Chapter 13: Proteomic Analysis of Protein-lipid Modifications: Significance and Application
13.1 Introduction
13.2 Chemical proteomic approach to identify lipidated proteins
13.3 Protocol for Proteomic Analysis of Prenylated Proteins
Chapter 14: Site-Specific Characterization of Asp- and Glu- ADP-ribosylation by Quantitative Mass Spectrometry
14.1 Introduction
14.2 Materials
14.3 Methods
14.4 Notes
Chapter 15: MS-based Hydroxyl Radical Footprinting: Methodology and Application of Fast Photochemical Oxidation of Proteins (FPOP)
15.1 Introduction
15.2 Generation of Hydroxyl Radicals
15.3 Fast photochemical oxidation of proteins (FPOP)
15.4 Applications of FPOP
15.5 Conclusions
