Serum/Plasma Proteomics

by Simpson, Richard J.; Greening, David W.

• ISBN13: 9781617790676
• ISBN10: 1617790672
• Format: Hardcover
• Copyright: 2011-04-12
• Publisher: Humana Pr Inc

Summary

Blood science has become a cornerstone of multiple disciplines, including clinical chemistry, disease diagnosis, and therapeutic monitoring.  Over the past decade, we have witnessed the advent of increasingly powerful proteomics technologies that allow greater fundamental insights into the blood proteome.  These technological improvements have, in part, fuelled the quest for the discovery of novel blood-based biomarkers of disease. Serum/Plasma Proteomics: Methods and Protocols is a comprehensive resource of protocols for areas, pre-analytical through to analytical, of plasma and serum proteomics. Divided into five convenient sections, this detailed volume covers 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, and finally data management, statistical design, and bioinformatic challenges. This book, contributed to by leading experts in the field, provides a valuable foundation for the development and application of blood-based proteomics. Written in the highly successful Methods in Molecular Biology'„¢ series format, chapters contain introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easily accessible, Serum/Plasma Proteomics: Methods and Protocols, with its well-honed methodologies, seeks to serve both professionals and investigators new to the field in an effort to further our knowledge of this fundamental science.

Table of Contents

Preface	p. v
Contributors	p. xi
Fractionation Strategies for In-Depth Blood Proteome Analysis
Plasma Biomarker Discovery Using 3D Protein Profiling Coupled with Label-Free Quantitation	p. 3
Intact Protein Separation by One- and Two-Dimensional Liquid Chromatography for the Comparative Proteomic Separation of Partitioned Serum or Plasma	p. 29
In-Depth Analysis of a Plasma or Serum Proteome Using a 4D Protein Profiling Method	p. 47
Intact-Protein Analysis System for Discovery of Serum-Based Disease Biomarkers	p. 69
Model-Based Discovery of Circulating Biomarkers	p. 87
Low-Molecular W8	p. 109
High-Throughput Analysis of Glycoproteins from Plasma	p. 125
Blood Collection and Handling Strategies
Minimizing Preanalytical Variation of Plasma Samples by Proper Blood Collection and Handling	p. 137
Collection and Handling of Blood Specimens for Peptidomics	p. 151
Investigation of Peptide Biomarker Stability in Plasma Samples Using Time-Course MS Analysis	p. 161
Methods For Quantitative Assaying of Blood-Based Biomarkers
Biomarker Validation in Blood Specimens by Selected Reaction Monitoring Mass Spectrometry of N-Glycosites	p. 179
A Fluorescent Microsphere-Based Method for Assay of Multiple Analytes in Plasma	p. 195
Immuno-Mass Spectrometry: Quantification of Low-Abundance Proteins in Biological Fluids	p. 207
Qualitative and Quantitative Analysis of Glycated Proteins in Human Plasma by Glucose Isotopic Labeling with 13C6-Reducing Sugars	p. 219
Proteome Analysis of Blood Cell Components, Vesicles, and Blood-Related Fluids
Exosome Isolation for Proteomic Analyses and RNA Profiling	p. 235
Extraction and Proteome Analysis of Liver Tissue Interstitial Fluid	p. 247
A Protocol for the Preparation of Cryoprecipitate and Cryodepleted Plasma	p. 259
Preparation of Platelet Concentrates	p. 267
Phosphoproteome Analysis of the Platelet Plasma Membrane	p. 279
Bioinformatic Analysis of Blood Proteins and Peptides
Statistical Design and Analysis of Label-free LC-MS Proteomic Experiments: A Case Study of Coronary Artery Disease	p. 293
Data Management in Mass Spectrometry-Based Proteomics	p. 321
Bioinformatics Challenges in the Proteomic Analysis of Human Plasma	p. 333
Using the Human Plasma Peptide Atlas to Study Human Plasma Proteins	p. 349
Appendix	p. 375
Index	p. 395
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