The Urinary Proteome, 2010 Methods and Protocols Methods in Molecular Biology Series, Vol. 641

This book is intended for scientifc researchers, clinical laboratorians, clinical and translational scientists, and others interested in proteomics and biomarker discovery. Urine is one of the most easily accessible biological samples, and it provides a treasure trove of molecules important in clinical diagnostics. In this book, we review briefly the classical urine tests that are performed in the clinical laboratory and then delve into the state-of-the-art methods for proteomic analysis using urine specimens. The most recent advances are discussed with regard to sample preparation, data analysis, and fnally methods and applications. A multitude of examples are provided including procedural details for the identifcation and characterization of urine biomarkers that hold potential for the diagnosis and treatment of many different disease conditions. The text is arranged so as to read systematically: introduction, sample preparation methods, applications, and data analysis. However, it does not necessarily require the reader to read it from start to fnish. Each chapter is organized such that it can be read individually without requiring knowledge from other chapters. I would like to thank the many individuals who made this book possible. These include the many authors who contributed to each of the individual chapters, the corresponding authors who took responsibility in providing the complete and fnished versions solicited for the peer review process, and the many scientifc reviewers who provided their valuable input and guidance.

to Urinalysis: Historical Perspectives and Clinical Application.- A Primer on Clinical Applications and Assays Using Urine: Focus on Analysis of Plasma Cell Dyscrasias Using Automated Electrophoresis and Immunofixation.- Application of Free Flow Electrophoresis to the Analysis of the Urine Proteome.- Standardized Preprocessing of Urine for Proteome Analysis.- Different Sample Preparation and Detection Methods for Normal and Lung Cancer Urinary Proteome Analysis.- Isolation and Purification of Exosomes in Urine.- Bioinformatics of the Urinary Proteome.- PROTIS: Use of Combined Biomarkers for Providing Diagnostic Information on Disease States.- Statistical Contributions to Proteomic Research.- A Review of Experimental Design Best Practices for Proteomics Based Biomarker Discovery: Focus on SELDI-TOF.- Urine Proteomic Profiling for Biomarkers of Acute Renal Transplant Rejection.- Surface Plasmon Resonance Biosensorics in Urine Proteomics.- Urinary Proteins for the Diagnosis of Obstructive Sleep Apnea Syndrome.- Immune Response Biomarker Profiling Application on ProtoArray® Protein Microarrays.- Design and Validation of an Immunoaffinity LC–MS/MS Assay for the Quantification of a Collagen Type II Neoepitope Peptide in Human Urine: Application as a Biomarker of Osteoarthritis.- Cell-Specific Biomarkers in Renal Medicine and Research.- Proteomic Assays for the Detection of Urothelial Cancer.- Urine Proteomic Analysis: Use of Two-Dimensional Gel Electrophoresis, Isotope Coded Affinity Tags, and Capillary Electrophoresis.- Proteomic Analysis of Pancreatic Secretory Trypsin Inhibitor/Tumor-Associated Trypsin Inhibitor from Urine of Patients with Pancreatitis or Prostate Cancer.

Details the multitude of processes and technologies for identifying protein biomarkers from urine specimens Covers a wide range of proteomics technologies amenable to analysis of urine samples Comprehensive guide for urine proteomics-based biomarker discovery Includes supplementary material: sn.pub/extras