1. Important Issues in Planning a Proteomics Experiment: Statistical Considerations of Quantitative Proteomic Data
Karin Schork, Katharina Podwojski, Michael Turewicz, Christian Stephan, and Martin Eisenacher
2. Good Old-Fashioned Protein Concentration Determination by Amino Acid Analysis
Caroline May, Bettina Serschnitzki, and Katrin Marcus
3. Protein Quantification using the "Rapid Western Blot" Approach
Katalin Barkovits, Kathy Pfeiffer, Britta Eggers, and Katrin Marcus
4. The Whereabouts of 2D Gels in Quantitative Proteomics
Thierry Rabilloud and Cécile Lelong
5. Proteome Analysis with Classical 2D-PAGE
Caroline May, Frederic Brosseron, Kathy Pfeiffer, Kristin Fuchs, Helmut E. Meyer, Barbara Sitek, and Katrin Marcus
6. Silver Staining of 2D Electrophoresis Gels
Thierry Rabilloud
7. Differential Proteome Analysis using 2D-DIGE
Caroline May, Frederic Brosseron, Piotr Chartowski, Kristin Fuchs, Helmut E. Meyer, Barbara Sitek, and Katrin Marcus
8. Quantitative Mass Spectrometry-Based Proteomics: An Overview
Svitlana Rozanova, Miroslav Nikolov, Carla Schmidt, Henning Urlaub, and Katrin Marcus
9. Tandem Mass Tags for Comparative and Discovery Proteomics
Oliver Pagel, Laxmikanth Kollipara, and Albert Sickmann
10. An Approach for Triplex-IPTL
Christian J. Koehler and Bernd Thiede
11. Targeted Protein Quantification Using Parallel Reaction Monitoring (PRM)
Katalin Barkovits-Boeddinghaus, Weiqiang Chen, Michael Kohl, and Thilo Bracht
12. Quantitative Approach using Matrix Assisted Laser Desorption/Ionization Time of Flight (MALDI-ToF) Mass Spectrometry
Brooke A. Dilmetz, Peter Hoffmann, and Mark R. Condina
13. Application of SILAC Labeling in Phosphoproteomics Analysis
Markus Stepath and Thilo Bracht
14. Relative Quantification Of Phosphorylated and Glycosylated Peptides from the Same Sample using Isobaric Chemical Labelling with a Two-step Enrichment Strategy
Ivan Silbern, Pan Fang, Yanlong Ji, Henning Urlaub, and Kuan-Ting Pan
15. High Throughput Profiling of Proteome and Posttranslational Modifications by 16-plex TMT Labeling and Mass Spectrometry
Kaiwen Yu, Zhen Wang, Zhiping Wu, Haiyan Tan, Ashutosh Mishra, and Junmin Peng
16. Quantification and Identification of Post-Translational Modifications using Modern Proteomics Approaches
Anja Holtz, Nathan Basisty, and Birgit Schilling
17. Affinity-enrichment Chemoproteomics for Target Deconvolution and Selectivity Profiling
Thilo Werner, Michael Steidel, H. Christian Eberl, and Marcus Bantscheff
18. 2nSILAC for Quantitative Proteomics of Prototrophic Baker's Yeast
Stefan Dannenmaier, Silke Oeljeklaus, and Bettina Warscheid
19. Metabolic Labeling of Clostridioides difficile Proteins
Anke Trautwein-Schult, Jürgen Bartel, Sandra Maaß, and Dörte Becher
20. Application of Label-Free Proteomics for Quantitative Analysis of Urothelial Carcinoma and Cystitis Tissue
Kathrin E. Witzke, Frederik Großerueschkamp, Klaus Gerwert, and Barbara Sitek
21. Quantitative MS Workflow for a High-Quality Secretome Analysis by a Quantitative Secretome-proteome Comparison
Gereon Poschmann, Nina Prescher, and Kai Stühler
