Modeling Mass Spectrometry-Based Protein Analysis

  • Jan Eriksson
  • David FenyöEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 694)


The success of mass spectrometry based proteomics depends on efficient methods for data analysis. These methods require a detailed understanding of the information value of the data. Here, we describe how the information value can be elucidated by performing simulations using synthetic data.

Key words

Protein identification Simulations Synthetic mass spectra Significance testing Value of information Peptide mass fingerprinting Tandem mass spectrometry 



This work was supported by funding provided by the National Institutes of Health Grants CA126485, DE018385, NS050276, RR00862 and RR022220, the Carl Trygger foundation, and the Swedish research council.


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Copyright information

© Springer Science+Business Media, LLC 2011

Authors and Affiliations

  1. 1.Swedish University of Agricultural SciencesUppsalaSweden
  2. 2.The Rockefeller UniversityNew YorkUSA

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