title: Mass spectrometry-based proteomics and network biology.
abstract: In the life sciences, a new paradigm is emerging that places networks of interacting molecules between genotype and phenotype. These networks are dynamically modulated by a multitude of factors, and the properties emerging from the network as a whole determine observable phenotypes. This paradigm is usually referred to as systems biology, network biology, or integrative biology. Mass spectrometry (MS)-based proteomics is a central life science technology that has realized great progress toward the identification, quantification, and characterization of the proteins that constitute a proteome. Here, we review how MS-based proteomics has been applied to network biology to identify the nodes and edges of biological networks, to detect and quantify perturbation-induced network changes, and to correlate dynamic network rewiring with the cellular phenotype. We discuss future directions for MS-based proteomics within the network biology paradigm.
authors.affiliation: Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, CH 8093, Switzerland. bensimon@imsb.biol.ethz.ch
authors.forename: Ariel
authors.initials: A
authors.lastname: Bensimon
authors.forename: Albert J R
authors.initials: AJ
authors.lastname: Heck
authors.forename: Ruedi
authors.initials: R
authors.lastname: Aebersold
mesh_terms: D000818:Animals; D006801:Humans; D013058:Mass Spectrometry / Q000379:methods*; D060066:Protein Interaction Maps; D040901:Proteomics / Q000379:methods*; D015398:Signal Transduction; D049490:Systems Biology / Q000379:methods