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  • © 2020

Mass Spectrometry Data Analysis in Proteomics

Editors:

  • 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 2051)

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Table of contents (18 protocols)

  1. Front Matter

    Pages i-x
  2. Introduction to Mass Spectrometry-Based Proteomics

    • Rune Matthiesen, Jakob Bunkenborg
    Pages 1-58
  3. LC-MS Spectra Processing

    • Rune Matthiesen
    Pages 59-77
  4. Isotopic Distributions

    • Alan L. Rockwood, Magnus Palmblad
    Pages 79-114
  5. Retention Time Prediction and Protein Identification

    • Alex Henneman, Magnus Palmblad
    Pages 115-132
  6. Comparing Peptide Spectra Matches Across Search Engines

    • Rune Matthiesen, Gorka Prieto, Hans Christian Beck
    Pages 133-143
  7. Methods and Algorithms for Quantitative Proteomics by Mass Spectrometry

    • Rune Matthiesen, Ana Sofia Carvalho
    Pages 161-197
  8. Phosphoproteomics Profiling to Identify Altered Signaling Pathways and Kinase-Targeted Cancer Therapies

    • Barnali Deb, Irene A. George, Jyoti Sharma, Prashant Kumar
    Pages 241-264
  9. Mass Spectrometry-Based Characterization of Ub- and UbL-Modified Proteins

    • Nagore Elu, Benoit Lectez, Juanma Ramirez, Nerea Osinalde, Ugo Mayor
    Pages 265-276
  10. Targeted Proteomics as a Tool for Quantifying Urine-Based Biomarkers

    • Sonali V. Mohan, D. S. Nayakanti, Gajanan Sathe, Irene A. George, Harsha Gowda, Prashant Kumar
    Pages 277-295
  11. Data Imputation in Merged Isobaric Labeling-Based Relative Quantification Datasets

    • Nicolai Bjødstrup Palstrøm, Rune Matthiesen, Hans Christian Beck
    Pages 297-308
  12. Clustering Clinical Data in R

    • Ana Pina, Maria Paula Macedo, Roberto Henriques
    Pages 309-343
  13. Review of Batch Effects Prevention, Diagnostics, and Correction Approaches

    • Jelena Čuklina, Patrick G. A. Pedrioli, Ruedi Aebersold
    Pages 373-387
  14. Using the Object-Oriented PowerShell for Simple Proteomics Data Analysis

    • Yassene Mohammed, Magnus Palmblad
    Pages 389-405
  15. Considerations in the Analysis of Hydrogen Exchange Mass Spectrometry Data

    • Michael J. Eggertson, Keith Fadgen, John R. Engen, Thomas E. Wales
    Pages 407-435
  16. Back Matter

    Pages 437-445

About this book

The aim of this new edition is to provide detailed information on each topic and present novel ideas and views that can influence future developments in mass spectrometry-based proteomics. In contrast to the previous editions, this third edition aims to provide the most relevant computational methods, focusing on computational concepts. 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 cutting-edge, Mass Spectrometry Data Analysis in Proteomics, Third Edition to ensure successful results in the further study of this vital field.

Editors and Affiliations

  • Computational and Experimental Biology Group, CEDOC, Chronic Diseases Research Centre, NOVA Medical School, Faculdade de Ciências Médicas, Universidade NOVA de Lisboa, Lisboa, Portugal

    Rune Matthiesen

Bibliographic Information

  • Book Title: Mass Spectrometry Data Analysis in Proteomics

  • Editors: Rune Matthiesen

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-9744-2

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2020

  • Hardcover ISBN: 978-1-4939-9743-5Published: 26 September 2019

  • Softcover ISBN: 978-1-4939-9746-6Published: 26 September 2020

  • eBook ISBN: 978-1-4939-9744-2Published: 24 September 2019

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 3

  • Number of Pages: X, 445

  • Number of Illustrations: 42 b/w illustrations, 94 illustrations in colour

  • Topics: Mass Spectrometry, Proteomics

Buy it now

Buying options

eBook USD 84.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 109.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 199.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access