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Over the past decade, there has been an increase in powerful proteomics technologies that allow greater fundamental insights into the blood proteome. Further developments in informatic analyses, software developments, and computational tools are providing insights into large data sets, open-source data along with large-scale application of bioinformatics. Serum/Plasma Proteomics: Methods and Protocols, Second Edition is a comprehensive resource of protocols for areas, pre-analytical through to analytical, of plasma and serum proteomics. Divided into five convenient sections, covering fractionation strategies for in-depth blood proteome analysis, defined procedures for blood collection, handling and storage, detailed protocols for performing both antibody-based and non-antibody based quantitative assays, proteome analysis of blood cell compartments, circulating nanomebraneous vesicles and blood-related fluids, data management, statistical design, and bioinformatic challenges. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Authoritative and practical, Serum/Plasma Proteomics: Methods and Protocols, Second Edition delivers a valuable foundation for the development and application of blood-based proteomics, and further incorporates blood cell components, including platelets, red blood cells, circulating extracellular vesicles/exosomes, and related biofluids.
Includes cutting-edge methods and protocols
Provides step-by-step detail essential for reproducible results
Contains key notes and implementation advice from the experts
Inhalt
Part I Updated Blood Processing and Handling Strategies
Viviana Greco, Cristian Piras, Luisa Pieroni, and Andrea Urbani
Rosemary L Sparrow, David W Greening, and Richard J Simpson
David W Greening, Richard J Simpson, and Rosemary L Sparrow
Part II Updated Fractionation Strategies for In-depth Blood Proteome Analysis
Elin Birgersson, Jochen M. Schwenk, and Burcu Ayoglu
John P O'Grady, Kevin W Meyer, and Derrick N Poe
David W. Greening and Richard J. Simpson
Lynn A. Beer, Bonnie Ky, Kurt T. Barnhart, and David W. Speicher
Dong Huey Cheon, Eun Gyeong Yang, Cheolju Lee, and Ji Eun Lee
Identification of Post-Translational Modifications from Serum/Plasma by Immunoaffinity Enrichment and LC-MS/MS Analysis without Depletion of Abundant Proteins Hongbo Gu, Jianmin Ren, Xiaoying Jia, and Matthew P. Stokes
Identification of Core-fucosylated Glycoproteome in Human Plasma
Qichen Cao, Qing Zhao, Xiaohong Qian, and Wantao Ying
Part III Updated Proteome Analysis of Blood Cell Components, Vesicles, and Blood-related Fluids
Tania Martins-Marques, Sandra I. Anjo, Teresa Ribeiro-Rodrigues, Bruno Manadas, and Henrique Girao
Ana Sofia Carvalho, Manuel S Rodriguez, and Rune Matthiesen
Nicolas Christinat, Delphine Morin-Rivron, and Mojgan Masoodi
Sunil S. Adav and Siu Kwan Sze
Lipidomics of Human Blood Plasma by High Resolution Shotgun Mass Spectrometry Susanne Sales, Oskar Knittelfelder, and Andrej Shevchenko
Proteomics Analysis of Circulating Serum Exosomes
Antonius Koller, Purvi Patel, Jenny Kim Kim, and Emily I. Chen
Part IV Antibody-based Discovery and Targeted Proteomics
Cecilia Hellström, Tea Dodig-Crnkovi, Mun-Gwan Hong, Jochen M. Schwenk, Peter Nilsson, and Ronald Sjöberg
Véronique Laforte, Pik-Shan Lo, Huiyan Li, and David Juncker
Surface Profiling of Extracellular Vesicles From Plasma or Ascites Fluid using Dotscan Antibody Microarrays Larissa Belov, Susannah Hallal, Kieran Matic, Jerry Zhou, Sandra Wissmueller, Nuzhat Ahmed, Sumaiya Tanjil, Stephen P. Mulligan, O. Giles Best, Richard J. Simpson, and Richard I. Christopherson
Serum Profiling for Identification of Autoantibody Signatures in Diseases using Protein Microarrays Shabarni Gupta, Manubhai K.P., Shuvolina Mukherjee, and Sanjeeva Srivastava
Part V Developments in Discovery and Targeted Proteomics
Pengyuan Liu, Lynn A. Beer, Bonnie Ky, Kurt T. Barnhart, and David W. Speicher
Efficient Quantitative Comparisons of Plasma Proteomes using Label-free Analysis with MaxQuant Lynn A. Beer, Pengyuan Liu, Bonnie Ky, Kurt T. Barnhart, and David W. Speicher
Blood and Plasma Proteomics: Targeted Quantitation and Post-translational Redox Modifications
Julie A. Reisz, Katelyn M. Chessler, Monika Dzieciatkowska, Angelo D'Alessandro, and Kirk C. Hansen
Christoph Krisp and Mark P. Molloy
Qing-Run Li, Yan-Sheng Liu, and Rong Zeng
High-throughput Parallel Proteomic Sample Preparation using 96-well Polyvinylidene Fluoride (PVDF) Membranes and C18 Purification Plates Tue Bjerg Bennike and Hanno Steen
Targeted Quantification of the Glycated Peptides of Human Serum Albumin
Garikapati Vannuruswamy, Arvind M Korwar, Mashanipalya G Jagadeeshaprasad, and Mahesh J Kulkarni
Julia Dittrich and Uta Ceglarek
Part VI. Developments in Biomarker Discovery
Loïc Dayon, Antonio Núñez Galindo, Ornella Cominetti, John Corthésy, and Martin Kussmann
Mass Spectrometry-based Serum Proteomics for Biomarker Discovery and Validation Santosh D. Bhosale, Robert Moulder, Petri Kouvonen, Riitta Lahesmaa, and David R. Goodlett
Metabolomics Towards Biomarker Discovery
Peiyuan Yin and Guowang Xu
Michal Harel and Tamar Geiger
Ana Sofia Carvalho and Rune Matthiesen
Edmond J Breen
Appendix