Proteomics Mass Spectrometry Methods
Sample Preparation, Protein Digestion, and Research Protocols
- 1st Edition - February 13, 2024
- Imprint: Academic Press
- Editor: Paula Meleady
- Language: English
- Paperback ISBN:9 7 8 - 0 - 3 2 3 - 9 0 3 9 5 - 0
- eBook ISBN:9 7 8 - 0 - 3 2 3 - 9 0 6 5 2 - 4
Proteomics Mass Spectrometry Methods: Sample Preparation, Protein Digestion, and Research Protocols shares best practices collected across key laboratories and core facilitie… Read more
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Request a sales quoteProteomics Mass Spectrometry Methods: Sample Preparation, Protein Digestion, and Research Protocols shares best practices collected across key laboratories and core facilities, taking the reader through key tactics for executing the most usual mass spectrometry experiments. Sections review research making use of MS proteomics experiments, focus on critical sample preparation, cover mammalian cell lines and samples from clinical tissue and biological fluids, discuss subcellular fractionation, provide methods for protein digestion both for in gel and in solution, and delve into key MS proteomics analysis protocols, including label-free LC-MS, TMT and iTRAQ labelled LC-MS, phosphorylation enrichment, ubiquination enrichment, and more. This book is the perfect lab manual for research teams or for use as a new staff training material. Core facility managers may also find it useful for sharing best practices with their staff and researchers.
- Explores the most common questions new researchers have
- Guides readers to properly design the workflow for successful integration of mass spectrometry into protein biochemical analyses
- Provides examples of sample preparation for a number of different materials, mammalian cells, and others
Cell biologists, Biochemists, Molecular Biologists, Biomedical Engineers at Ph.D level and above, mostly in academia, Biophysicists and Structural Biologists, Clinicians and Research physicians, Industry-based proteomics researchers
- Cover image
- Title page
- Table of Contents
- Copyright
- Contributors
- Section I. Introduction
- Chapter 1. Book introduction
- Chapter 2. Introduction to sample preparation for proteomics and mass spectrometry
- 1. Introduction
- 2. Sample preparation for proteomic analysis
- 3. Application of mass spectrometry for the analysis of proteins and peptides
- 4. Bioinformatic analysis of proteomic data
- 5. Conclusions
- Section II. Sample preparation
- Chapter 3. Sample preparation for proteomics and mass spectrometry from mammalian cell lines
- 1. Introduction
- 2. Materials and equipment
- 3. Before you begin
- 4. Step-by-step method details
- 5. Strengths and limitations of FASP and PreOmics iST protocol
- 6. Optimization and troubleshooting/notes
- 7. Alternative procedures and protocols
- 8. Safety considerations and standards
- 9. Summary
- Chapter 4. Sample preparation for proteomics and mass spectrometry from clinical tissue
- 1. Before you begin
- 2. Key resources table
- 3. Materials and equipment
- 4. Step-by-step method details
- 5. Expected outcomes
- 6. Quantification and statistical analysis
- 7. Advantages
- 8. Limitations
- 9. Optimization and troubleshooting
- 10. Safety considerations and standards
- 11. Alternative methods/procedures
- Chapter 5. Sample preparation for proteomics and mass spectrometry from patient biological fluids
- 1. Introduction
- 2. Materials and equipment
- 3. Before you begin
- 4. Step-by-step method details
- 5. Anticipated results
- 6. Optimization and troubleshooting/notes
- 7. Safety considerations
- 8. Summary
- Chapter 6. Preparation of bacterial and fungal samples for proteomic analysis
- 1. Section 1 (bacteria)
- 2. Section 2 (fungi)
- 3. Section 3 label-free mass spectrometry
- 4. Data availability
- 5. Concluding remarks
- Chapter 7. Urinary extracellular vesicles isolated by hydrostatic filtration dialysis without Tamm–Horsfall protein interference for Mass Spectrometry analysis
- 1. Introduction
- 2. Before you begin
- 3. Key resources table
- 4. Materials and equipment
- 5. Step-by-step method details
- 6. Expected outcomes
- 7. Advantages
- 8. Limitations
- 9. Optimization and troubleshooting
- 10. Safety considerations and standards
- 11. Alternative methods/procedures
- Chapter 8. Sample preparation for proteomics and mass spectrometry from animal samples
- 1. Introduction
- 2. Materials and equipment
- 3. Before you begin
- 4. Step-by-step method details
- 5. Optimization and troubleshooting/notes
- Section III. Protein digestion
- Chapter 9. In-gel tryptic digestion approaches for protein and proteome characterization
- 1. Introduction
- 2. Materials and equipment
- 3. Before you begin
- 4. Step-by-step method details
- 5. Anticipated results
- 6. Optimization and troubleshooting/notes
- 7. Safety considerations
- 8. Summary
- Section IV. MS proteomic analysis protocols
- Chapter 10. Protocols for label-free LC-MS/MS proteomic analysis
- 1. Introduction
- 2. Materials and equipment
- 3. Before you begin
- 4. Step-by-step method details
- 5. Safety considerations and standards
- 6. Summary
- 7. Notes
- Acknowledgments
- Chapter 11. Profiling of the phosphoproteome using tandem mass tag labeling
- 1. Key resources table
- 2. Materials and equipment
- 3. Experimental procedure
- 4. Expected outcomes
- 5. Quantification and statistical analysis
- 6. Advantages
- 7. Limitations
- 8. Optimization and troubleshooting
- 9. Safety considerations and standards
- 10. Alternative methods/procedures
- Chapter 12. Phosphopeptide enrichment and post translational modification characterization using LC-MS/MS
- 1. Introduction
- 2. Materials and equipment
- 3. Step-by-step method details
- 4. Anticipated results
- 5. Optimization and troubleshooting/notes
- 6. Safety considerations
- 7. Summary
- Chapter 13. Ubiquitin diGly peptide enrichment and LC-MS/MS analysis to characterize the ubiquitinated proteome of mammalian cells
- 1. Introduction
- 2. Materials and equipment
- 3. Before you begin
- 4. Step-by-step method details
- 5. Expected outcomes
- 6. Optimization and troubleshooting/notes
- 7. Safety considerations and standards
- 8. Summary
- Chapter 14. Liquid chromatography mass spectrometry–based proteomics: Global cell proteome profile
- 1. Introduction
- 2. Key resources table
- 3. Materials and equipment
- 4. Before you begin
- 5. Step-by-step method details
- 6. Advantages
- 7. Limitations
- 8. Safety considerations and standards
- 9. Alternative methods/procedures
- 10. Troubleshooting and optimization/notes
- 11. Summary
- Index
- Edition: 1
- Published: February 13, 2024
- Imprint: Academic Press
- No. of pages: 350
- Language: English
- Paperback ISBN: 9780323903950
- eBook ISBN: 9780323906524
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Paula Meleady
Dr. Meleady received her degree in Biotechnology from the Dublin City University and PhD from the National Cell and Tissue Culture Centre. She is currently Senior Research Scientist, Programme Leader, Proteomics Core Facility, and Associate Director National Institute for Cell Biology.
Affiliations and expertise
Senior Research Scientist, Programme Leader, Proteomics Core Facility; Associate Director National Institute for Cell Biology, IrelandRead Proteomics Mass Spectrometry Methods on ScienceDirect