title: JMassBalance: mass-balanced randomization and analysis of metabolic networks.
abstract: CONCLUSIONS
  Analysis of biological networks requires assessing the statistical significance of network-based predictions by using a realistic null model. However, the existing network null model, switch randomization, is unsuitable for metabolic networks, as it does not include physical constraints and generates unrealistic reactions. We present JMassBalance, a tool for mass-balanced randomization and analysis of metabolic networks. The tool allows efficient generation of large sets of randomized networks under the physical constraint of mass balance. In addition, various structural properties of the original and randomized networks can be calculated, facilitating the identification of the salient properties of metabolic networks with a biologically meaningful null model.
  
  
  METHODS
  JMassBalance is implemented in Java and freely available on the web at http://mathbiol.mpimp-golm.mpg.de/massbalance/.
  
  
  BACKGROUND
  basler@mpimp-golm.mpg.de.
authors.affiliation: University of Potsdam, Institute for Biochemistry and Biology, D-14476 Potsdam, Germany. basler@mpimp-golm.mpg.de
authors.forename: Georg
authors.initials: G
authors.lastname: Basler
authors.forename: Zoran
authors.initials: Z
authors.lastname: Nikoloski
mesh_terms: D016000:Cluster Analysis; D006801:Humans; D053858:Metabolic Networks and Pathways; D008954:Models, Biological; D011897:Random Allocation; D012984:Software; D014584:User-Computer Interface