Chapter 14. Large-scale Proteomics

  1. Ingvar Eidhammer1,
  2. Kristian Flikka1,
  3. Lennart Martens2 and
  4. Svein-Ole Mikalsen3

Published Online: 10 DEC 2007

DOI: 10.1002/9780470724309.ch14

Computational Methods for Mass Spectrometry Proteomics

Computational Methods for Mass Spectrometry Proteomics

How to Cite

Eidhammer, I., Flikka, K., Martens, L. and Mikalsen, S.-O. (2007) Large-scale Proteomics, in Computational Methods for Mass Spectrometry Proteomics, John Wiley & Sons, Ltd, Chichester, UK. doi: 10.1002/9780470724309.ch14

Author Information

  1. 1

    University of Bergen, Norway

  2. 2

    European Bioinformatics Institute, Hinxton, Cambridge, UK

  3. 3

    The Norwegian Radium Hospital, Oslo, Norway

Publication History

  1. Published Online: 10 DEC 2007
  2. Published Print: 30 NOV 2007

ISBN Information

Print ISBN: 9780470512975

Online ISBN: 9780470724309

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Keywords:

  • protein sequence coverage;
  • modified and unmodified peptides;
  • data-dependent acquisition;
  • precursor mass equality criterion;
  • prefix residue mass spectrum (PRM)

Summary

This chapter contains sections titled:

  • Coverage and complexity

  • Selecting a representative peptide sample – COFRADIC

  • Separating peptides into fractions

  • Producing MS/MS spectra

  • Spectrum filtering

  • Spectrum clustering

  • Searching the database

  • LIMS

  • Exercises

  • Bibliographic notes