Clinical Proteomics: Methods and Protocols

ISBN-13: 9781071619384 / Angielski / Miękka / 2022 / 264 str.

Fernando J. Corrales; Alberto Paradela; Miguel Marcilla

Opis

This detailed volume explores techniques in clinical proteomics, an emerging discipline aimed at deciphering the molecular mechanisms underlying the progression of diseases and at identifying new biomarkers and therapeutic targets to expand the physicians’ toolbox for precision medicine-based patient care. From sample processing to multi-omics approaches, the book provides straight-forward protocols on a wide array of vital areas of study. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. 

Authoritative and practical, Clinical Proteomics: Methods and Protocols serves as an ideal guide for researchers working to expand upon the knowledge base needed to push forward toward a more personalized version of medicine.

Spis treści

1. Bile Processing Protocol for Improved Proteomic Analysis

            Sergio Ciordia, Gloria Alvarez-Sola, María Rullán, Jesús M. Urman, Matías A. Ávila, and Fernando J. Corrales

 

2. MS-Based Extracellular Vesicles (EVs) Analysis: An Application to Helminth-Secreted EVs

            Javier Sotillo

 

3. Proteomic Profiling of Cerebrospinal Fluid by 16-Plex TMT-Based Mass Spectrometry

            Kaushik Kumar Dey, Huan Sun, Zhen Wang, Mingming Niu, Hong Wang, Yun Jiao, Xiaojun Sun, Yuxin Li, and Junmin Peng

 

4. Data-Independent Acquisition Mass Spectrometry-Based Deep Proteome Analysis for Hydrophobic Proteins from Dried Blood Spots Enriched by Sodium Carbonate Precipitation

            Daisuke Nakajima, Osamu Ohara, and Yusuke Kawashima

 

5. Sample Processing for Metaproteomic Analysis of Human Gut Microbiota

            Carmen García-Durán, Raquel Martínez López, Lucía Monteoliva, and Concha Gil

 

6. Mass Spectrometry-Based Analytical Strategy for Single Cell Proteomics

            Ákos Végvári

 

7. Lysine Acetylation Stoichiometry Analysis at the Proteome Level

            Jeovanis Gil and Sergio Encarnación-Guevara

 

8. Implementation of Clinical Phosphoproteomics and Proteomics for Personalized Medicine

            Pedro Casado, Maruan Hijazi, Henry Gerdes, and Pedro R. Cutillas

 

9. pH/Acetonitrile-Gradient-Reversed-Phase Fractionation of Enriched Hyper-Citrullinated Library in Combination with LC–MS/MS Analysis for Confident Identification of Citrullinated Peptides

            Aneta Stachowicz, Niveda Sundararaman, Vidya Venkatraman, Jennifer Van Eyk, and Justyna Fert-Bober

 

10. Purification of HLA Immunopeptidomes from Human Thymus

            Iñaki Alvarez

 

11. Generation of HLA Allele-Specific Spectral Libraries to Identify and Quantify Immunopeptidomes by SWATH/DIA-MS

            David Hamelin, Etienne Caron, and Kevin Kovalchik

 

12. Immunopeptidomic Analysis of the Phosphopeptidome Displayed by Hla Class I Molecules

            Miguel Marcilla

 

13. Development of a Standardized MRM Method for Quantification of One Carbon Metabolism Enzymes

            Laura Guerrero, Alberto Paradela, and Fernando J. Corrales

 

14. Molecular Histology Analysis of Cryopreserved Tissue Using Peptide/Protein MALDI-TOF Imaging Mass Spectrometry (MALDI-IMS)

            Ibon Iloro, Iraide Escobes, Mikel Azkargorta, and Félix Elortza

 

15. The Human Protein Atlas and Antibody-Based Tissue Profiling in Clinical Proteomics

            Borbala Katona and Cecilia Lindskog

 

16. Microbial Identification in the Clinical Microbiology Laboratory Using MALDI-TOF-MS

            Iván Bloise, M. Teresa Corcuera, Julio García-Rodríguez, and Jesús Mingorance

 

17. Combining Electron Microscopy (EM) and Cross-Linking Mass Spectrometry (XL-MS) for Structural Characterization of Protein Complexes

            Lucía Quintana-Gallardo, Moisés Maestro-López, Jaime Martín-Benito, Miguel Marcilla, Daniel Rutz, Johannes Buchner, José M. Valpuesta, and Jorge Cuéllar

 

18. Accurate Prediction of Protein Sequences for Proteogenomics Data Integration

            Yanick Paco Hagemeijer, Victor Guryev, and Peter Horvatovich