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The Urinary Proteome

Methods and Protocols

  • Book
  • © 2010

Overview

Editors:
  1. Alex J. Rai

    1. Medical Center, Dept. Pathology & Cell Biology, Columbia University, New York, USA

    View editor publications

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  • 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

Part of the book series: Methods in Molecular Biology (MIMB, volume 641)

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Table of contents (19 protocols)

  1. Front Matter

    Pages i-xi
    Download chapter PDF

  2. Introduction to Urinalysis: Historical Perspectives and Clinical Application

    • Germán Echeverry, Glen L. Hortin, Alex J. Rai
    Pages 1-12

  3. A Primer on Clinical Applications and Assays Using Urine: Focus on Analysis of Plasma Cell Dyscrasias Using Automated Electrophoresis and Immunofixation

    • Brianne Olivieri, Alex J. Rai
    Pages 13-26

  4. Application of Free Flow Electrophoresis to the Analysis of the Urine Proteome

    • Aude L. Foucher, David R. Craft, Craig A. Gelfand
    Pages 27-45

  5. Standardized Preprocessing of Urine for Proteome Analysis

    • Georg Martin Fiedler, Uta Ceglarek, Alexander Leichtle, Joachim Thiery
    Pages 47-63

  6. Different Sample Preparation and Detection Methods for Normal and Lung Cancer Urinary Proteome Analysis

    • Supachok Sinchaikul, Payungsak Tantipaiboonwong, Supawadee Sriyam, Ching Tzao, Suree Phutrakul, Shui-Tein Chen
    Pages 65-88

  7. Isolation and Purification of Exosomes in Urine

    • Patricia A. Gonzales, Hua Zhou, Trairak Pisitkun, Nam Sun Wang, Robert A. Star, Mark A. Knepper et al.
    Pages 89-99

  8. Bioinformatics of the Urinary Proteome

    • Laurence D. Parnell, Christine M. E. Schueller
    Pages 101-122

  9. PROTIS: Use of Combined Biomarkers for Providing Diagnostic Information on Disease States

    • Walter Hofmann, Cornelia Sedlmeir-Hofmann, Miroslav Ivandic´, Dagmar Ruth, Peter Luppa
    Pages 123-142

  10. Statistical Contributions to Proteomic Research

    • Jeffrey S. Morris, Keith A. Baggerly, Howard B. Gutstein, Kevin R. Coombes
    Pages 143-166

  11. A Review of Experimental Design Best Practices for Proteomics Based Biomarker Discovery: Focus on SELDI-TOF

    • Rebecca E. Caffrey
    Pages 167-183

  12. Urine Proteomic Profiling for Biomarkers of Acute Renal Transplant Rejection

    • Shu-Ling Liang, William Clarke
    Pages 185-191

  13. Surface Plasmon Resonance Biosensorics in Urine Proteomics

    • Peter B. Luppa, Jochen Metzger, Heike Schneider
    Pages 193-221

  14. Urinary Proteins for the Diagnosis of Obstructive Sleep Apnea Syndrome

    • Ayelet Snow, David Gozal, Roland Valdes Jr., Saeed A. Jortani
    Pages 223-241

  15. Immune Response Biomarker Profiling Application on ProtoArray® Protein Microarrays

    • Barry Schweitzer, Lihao Meng, Dawn Mattoon, Alex J. Rai
    Pages 243-252

  16. 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

    • Olga Nemirovskiy, Wenlin Wendy Li, Gabriella Szekely-Klepser
    Pages 253-270

  17. Cell-Specific Biomarkers in Renal Medicine and Research

    • Martin Shaw
    Pages 271-302

  18. Proteomic Assays for the Detection of Urothelial Cancer

    • Kris E. Gaston, H. Barton Grossman
    Pages 303-323

  19. Urine Proteomic Analysis: Use of Two-Dimensional Gel Electrophoresis, Isotope Coded Affinity Tags, and Capillary Electrophoresis

    • Kimia Sobhani
    Pages 325-346

  20. Proteomic Analysis of Pancreatic Secretory Trypsin Inhibitor/Tumor-Associated Trypsin Inhibitor from Urine of Patients with Pancreatitis or Prostate Cancer

    • Leena Valmu, Suvi Ravela, Ulf-Håkan Stenman
    Pages 347-357
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Keywords

About this book

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.

Editors and Affiliations

  • Medical Center, Dept. Pathology & Cell Biology, Columbia University, New York, USA

    Alex J. Rai

Bibliographic Information

  • Book Title: The Urinary Proteome

  • Book Subtitle: Methods and Protocols

  • Editors: Alex J. Rai

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-60761-711-2

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC 2010

  • Hardcover ISBN: 978-1-60761-710-5Published: 21 April 2010

  • Softcover ISBN: 978-1-4939-5738-5Published: 23 August 2016

  • eBook ISBN: 978-1-60761-711-2Published: 21 April 2010

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XI, 361

  • Topics: Biochemistry, general, Protein Science, Proteomics

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