Nature Reviews Genetics 14, 35-48 (January 2013) | doi:10.1038/nrg3356

Next-generation proteomics: towards an integrative view of proteome dynamics

A. F. Maarten Altelaar1,2,4, Javier Munoz1,2,3,4 & Albert J. R. Heck1,2  About the authors


Next-generation sequencing allows the analysis of genomes, including those representing disease states. However, the causes of most disorders are multifactorial, and systems-level approaches, including the analysis of proteomes, are required for a more comprehensive understanding. The proteome is extremely multifaceted owing to splicing and protein modifications, and this is further amplified by the interconnectivity of proteins into complexes and signalling networks that are highly divergent in time and space. Proteome analysis heavily relies on mass spectrometry (MS). MS-based proteomics is starting to mature and to deliver through a combination of developments in instrumentation, sample preparation and computational analysis. Here we describe this emerging next generation of proteomics and highlight recent applications.

Author affiliations

  1. Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands.
  2. Netherlands Proteomics Centre, Padualaan 8, 3584 CH Utrecht, The Netherlands.
  3. Present address: Proteomics Unit, Spanish National Cancer Research Centre (CNIO), 28029 Madrid, Spain.
  4. These authors contributed equally to this work.

Correspondence to: Albert J. R. Heck1,2 Email:

Published online 4 December 2012