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Tissue Proteomics

Methods and Protocols

  • Book
  • © 2018

Overview

Editors:
  1. Minnie M. Sarwal

    1. Professor, Department of Surgery Medicine and Pediatrics Director, Kidney-Pancreas Transplant Program, University of California San Francisco, San Francisco, USA

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    You can also search for this editor in PubMed   Google Scholar

  2. Tara K. Sigdel

    1. Asst. Professor, Department of Surgery, University of California San Francisco, San Francisco, USA

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 1788)

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Table of contents (24 protocols)

  1. Front Matter

    Pages i-xii
    Download chapter PDF

  2. Depletion of Myofibril-Associated Proteins Using Selective Protein Extraction as a Tool in Cardiac Proteomics

    • Achim Treumann, Pawel Palmowski, Wing Chiu Tong, Julie Taggart, Nick Morrice, G. Nicholas Europe-Finner et al.
    Pages 1-9

  3. Discovery of Immune Reactive Human Proteins by High-Density Protein Arrays and Customized Validation of Potential Biomarkers by ELISA

    • Tara K. Sigdel, Minnie. M. Sarwal
    Pages 11-21

  4. HLA Class I and Class II-Induced Intracellular Signaling and Molecular Associations in Primary Human Endothelial Cells

    • Nicole Valenzuela, Nwe Nwe Soe, Fang Li, Xiaohai Zhang, Yi-Ping Jin, Elaine F. Reed
    Pages 23-41

  5. Characterization of Protein Complexes Using Chemical Cross-Linking Coupled Electrospray Mass Spectrometry

    • Timothy D. Cummins, Gopal P. Sapkota
    Pages 43-61

  6. Optimization for Peptide Sample Preparation for Urine Peptidomics

    • Tara K. Sigdel, Carrie D. Nicora, Wei-Jun Qian, Minnie M. Sarwal
    Pages 63-72

  7. Purification of Target Proteins from Native Tissues: CCT Complex from Bovine Testes and PP2Ac from Porcine Brains

    • Feng Guo, Nathan Wlodarchak, Patrick Menden, Yongna Xing
    Pages 73-88

  8. Integrative Analysis of Proteomics Data to Obtain Clinically Relevant Markers

    • Nathan Salomonis
    Pages 89-111

  9. Untargeted Screening of Urinary Peptides Using Offline Nano-Liquid Chromatography: MALDI-TOF/TOF Mass Spectrometry

    • François-Ludovic Sauvage, Sébastien Passeron, Pierre Marquet
    Pages 113-121

  10. Identifying Clinically Relevant Proteins for Targeted Analysis in the Development of a Multiplexed Proteomic Biomarker Assay

    • Emily M. Mackay, Oliver F. Bathe
    Pages 123-129

  11. In Situ Hybridization and Double Immunohistochemistry for the Detection of VEGF-A mRNA and CD34/Collagen IV Proteins in Renal Transplant Biopsies

    • Dejan Dobi, Zoltan G. Laszik
    Pages 131-143

  12. LC-SRM-Based Targeted Quantification of Urinary Protein Biomarkers

    • Yuqian Gao, Hui Wang, Carrie D. Nicora, Tujin Shi, Richard D. Smith, Tara K. Sigdel et al.
    Pages 145-156

  13. Fractionation of Soluble Proteins Using DEAE-Sepharose, SP-Sepharose, and Phenyl Sepharose Chromatographies for Proteomics

    • Parhom Towfighi, Jacob Shaw, Tara Sigdel
    Pages 157-164

  14. GeLC-MS: A Sample Preparation Method for Proteomics Analysis of Minimal Amount of Tissue

    • Manousos Makridakis, Antonia Vlahou
    Pages 165-175

  15. Targeted Proteomics Driven Verification of Biomarker Candidates Associated with Breast Cancer Aggressiveness

    • Iva Procházková, Juraj Lenčo, Pavel Bouchal
    Pages 177-184

  16. Combination Strategy of Quantitative Proteomics Uncovers the Related Proteins of Colorectal Cancer in the Interstitial Fluid of Colonic Tissue from the AOM-DSS Mouse Model

    • Guixue Hou, Yang Wang, Xiaomin Lou, Siqi Liu
    Pages 185-192

  17. Multiple Reaction Monitoring Using Double Isotopologue Peptide Standards for Protein Quantification

    • Azad Eshghi, Christoph H. Borchers
    Pages 193-214

  18. Isobaric Labeling-Based LC-MS/MS Strategy for Comprehensive Profiling of Human Pancreatic Tissue Proteome

    • Chih-Wei Liu, Qibin Zhang
    Pages 215-224

  19. MALDI Imaging Mass Spectrometry of N-glycans and Tryptic Peptides from the Same Formalin-Fixed, Paraffin-Embedded Tissue Section

    • Peggi M. Angel, Anand Mehta, Kim Norris-Caneda, Richard R. Drake
    Pages 225-241

  20. Differential Adipose Tissue Proteomics

    • Kelly J. Shields, Changgong Wu
    Pages 243-250
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Keywords

About this book

This book presents a compilation of methods that detail improved protein and peptide sample preparation and identification. Chapters guide readers through methods for depletion of myofibril-associated proteins, peptide sample preparation in urinary proteomics, purification of targeted proteins from native tissues, fractionation strategies for protein analysis, and GeLC-MS as a sample preparation method for sample preparation for proteomics using minimal amount of tissue. 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, Tissue Proteomics: Methods and Protocols, Second Edition aims to ensure successful results in the further study of this vital field.

Editors and Affiliations

  • Professor, Department of Surgery Medicine and Pediatrics Director, Kidney-Pancreas Transplant Program, University of California San Francisco, San Francisco, USA

    Minnie M. Sarwal

  • Asst. Professor, Department of Surgery, University of California San Francisco, San Francisco, USA

    Tara K. Sigdel

Bibliographic Information

  • Book Title: Tissue Proteomics

  • Book Subtitle: Methods and Protocols

  • Editors: Minnie M. Sarwal, Tara K. Sigdel

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-7854-0

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2018

  • Hardcover ISBN: 978-1-4939-7852-6Published: 18 August 2018

  • Softcover ISBN: 978-1-4939-9304-8Published: 10 December 2019

  • eBook ISBN: 978-1-4939-7854-0Published: 17 August 2018

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 2

  • Number of Pages: XII, 320

  • Number of Illustrations: 6 b/w illustrations, 44 illustrations in colour

  • Topics: Protein Science

  • Industry Sectors: Biotechnology, Pharma

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