Shotgun Proteomics

Methods and Protocols

  • Daniel Martins-de-Souza

Part of the Methods in Molecular Biology book series (MIMB, volume 1156)

Table of contents

  1. Front Matter
    Pages i-xiv
  2. Introduction

    1. Front Matter
      Pages 1-1
    2. Fabio Cesar Sousa Nogueira, Gilberto B. Domont
      Pages 3-23
  3. Sample Pre-fractionation

    1. Front Matter
      Pages 25-25
    2. Patricia Fernández-Puente, Jesús Mateos, Francisco J. Blanco, Cristina Ruiz-Romero
      Pages 27-38
    3. Maggie P. Y. Lam, Chun Hin Law, Quan Quan, Yun Zhao, Ivan K. Chu
      Pages 39-51
    4. Monika Dzieciatkowska, Ryan Hill, Kirk C. Hansen
      Pages 53-66
    5. Murat Eravci, Christian Sommer, Matthias Selbach
      Pages 67-77
  4. In Vivo Stable Isotope Labeling

    1. Front Matter
      Pages 79-79
    2. John C. Price, Sina Ghaemmaghami
      Pages 111-131
    3. Daniel B. McClatchy, John R. Yates III
      Pages 133-146
  5. In Vitro Stable Isotope Labeling

    1. Front Matter
      Pages 155-155
    2. Giuseppina Maccarrone, Maria Lebar, Daniel Martins-de-Souza
      Pages 175-185
    3. Darragh P. O’Brien, John F. Timms
      Pages 187-199
  6. Label-Free Proteomics

    1. Front Matter
      Pages 211-211
    2. Liisa Arike, Lauri Peil
      Pages 213-222
    3. Alon Savidor, Yishai Levin
      Pages 223-236
  7. Proteomics Informatics and Quantitation

    1. Front Matter
      Pages 237-237
  8. Protein–Protein Interactions

    1. Front Matter
      Pages 249-249
    2. Livia Goto-Silva, Zoltan Maliga, Mikolaj Slabicki, Jimmy Rodriguez Murillo, Magno Junqueira
      Pages 265-278
    3. Antje Dittmann, Sonja Ghidelli-Disse, Carsten Hopf, Marcus Bantscheff
      Pages 279-291
  9. Targeted Proteomics

    1. Front Matter
      Pages 293-293
    2. Angel Mauricio Castro-Gamero, Clarice Izumi, José César Rosa
      Pages 295-306
    3. Vitor M. Faça, Camila S. Palma, Daniele Albuquerque, Gabriela N. S. Canchaya, Mariana L. Grassi, Vera L. Epifânio et al.
      Pages 323-335
  10. Posttranslational Modifications

    1. Front Matter
      Pages 365-365
    2. William C. Edelman, Kelsey M. Haas, Joanne I. Hsu, Robert T. Lawrence, Judit Villén
      Pages 389-405
  11. Mass Spectrometry for Protein Analysis

    1. Front Matter
      Pages 445-445
    2. Evgeniy V. Petrotchenko, Karl A. T. Makepeace, Jason J. Serpa, Christoph H. Borchers
      Pages 447-463
  12. Back Matter
    Pages 489-492

About this book


Shotgun Proteomics: Methods and Protocols serves as a vital collection of protocols through which thousands of proteins can be simultaneously identified, quantified, and characterized in a high throughput manner.  Beginning with the history of proteomics centered on the vital role of mass spectrometry in its development, this detailed volume continues with chapters on sample pre-fractionation, in vivo and in vitro stable isotope labeling, label-free proteomics, informatics, protein-protein interactions, targeted proteomics, and post-translational modifications. Written for the highly successful Methods in Molecular Biology series, 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.


Practical and comprehensive, Shotgun Proteomics: Methods and Protocols is an ideal and up-to-date guide for researchers seeking to understand the proteome of any given species.


High throughput identification Label-free proteomics Mass spectrometry Post-translational modifications Protein-protein interactions Proteome Sample pre-fractionation Stable isotope labeling Targeted proteomics

Editors and affiliations

  • Daniel Martins-de-Souza
    • 1
  1. 1.Ludwig-Maximilians-UniversityMunichGermany

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media New York 2014
  • Publisher Name Humana Press, New York, NY
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-4939-0684-0
  • Online ISBN 978-1-4939-0685-7
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site