Encyclopedia of Systems Biology

2013 Edition
| Editors: Werner Dubitzky, Olaf Wolkenhauer, Kwang-Hyun Cho, Hiroki Yokota


  • Lars Malmström
  • Andreas Quandt
  • Ela Pustulka-Hunt
Reference work entry
DOI: https://doi.org/10.1007/978-1-4419-9863-7_1004


A proteome is the ensemble of proteins expressed in a given system at a given time and under specific conditions. The system can be an entire ecosystem, a population of a single species, an organism, a specific tissue, a cell culture, a cell, a subpart of a cell, or any other system that partly consists of proteins. The given time can be the lifetime of an individual, a specific steady state (homeostasis), or a short time interval. The proteome can also include all protein forms that constitute the system, meaning that post-translational modifications would be enough to constitute a different proteome.


All the proteins expressed by yeast as measured and described in de Godoy et al. (2008) or Picotti et al. (2009) produced using various mass spectrometry techniques.


  1. de Godoy LM, Olsen JV, Cox J, Nielsen ML, Hubner NC, Fröhlich F, Walther TC, Mann M (2008) Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast. Nature 455(7217):1251–1254PubMedGoogle Scholar
  2. Picotti P, Bodenmiller B, Mueller LN, Domon B, Aebersold R (2009) Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics. Cell 138(4):795–806PubMedGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  • Lars Malmström
    • 1
  • Andreas Quandt
    • 1
  • Ela Pustulka-Hunt
    • 2
  1. 1.Institute of Molecular Systems Biology IMSBETH ZurichZurichSwitzerland
  2. 2.GS SystemsX, ETH ZurichZurichSwitzerland