UNIT 13.10 De Novo Interpretation of Tandem Mass Spectra

  1. Bin Ma1,
  2. Gilles Lajoie2

Published Online: 1 MAR 2009

DOI: 10.1002/0471250953.bi1310s25

Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

How to Cite

Ma, B. and Lajoie, G. 2009. De Novo Interpretation of Tandem Mass Spectra. Current Protocols in Bioinformatics. 25:13.10:13.10.1–13.10.8.

Author Information

  1. 1

    University of Waterloo, Waterloo, Ontario, Canada

  2. 2

    University of Western Ontario, London, Ontario, Canada

Publication History

  1. Published Online: 1 MAR 2009
  2. Published Print: MAR 2009


De novo sequencing is an effective method for identifying unknown peptide sequences from their tandem mass spectra. This unit briefly introduces how this can be done manually. A protocol for using the PEAKS online software for automated de novo sequencing is described. Finally, we show how to use the PEAKS scores to validate the de novo sequencing results. Curr. Protoc. Bioinform. 25:13.10.1-13.10.8. © 2009 by John Wiley & Sons, Inc.


  • de novo sequencing;
  • tandem mass spectrometry;
  • protein identification;
  • peptide sequencing;
  • PEAKS software