title: StochDecomp--Matlab package for noise decomposition in stochastic biochemical systems.
abstract: BACKGROUND
  Stochasticity is an indispensable aspect of biochemical processes at the cellular level. Studies on how the noise enters and propagates in biochemical systems provided us with non-trivial insights into the origins of stochasticity, in total, however, they constitute a patchwork of different theoretical analyses.
  
  
  RESULTS
  Here we present a flexible and widely applicable noise decomposition tool that allows us to calculate contributions of individual reactions to the total variability of a system's output. With the package it is, therefore, possible to quantify how the noise enters and propagates in biochemical systems. We also demonstrate and exemplify using the JAK-STAT signalling pathway that the noise contributions resulting from individual reactions can be inferred from data experimental data along with Bayesian parameter inference. The method is based on the linear noise approximation, which is assumed to provide a reasonable representation of analyzed systems.
  
  
  METHODS
  http://sourceforge.net/p/stochdecomp/
authors.affiliation: Institute of Fundamental Technological Research, Institute of Computer Science, Polish Academy of Sciences, Warsaw, Poland, Faculty of Mathematics Informatics and Mechanics, Institute of Informatics, University of Warsaw, Warsaw, Poland and Division of Molecular Biosciences, Imperial College London, London, UK.
authors.forename: Tomasz
authors.initials: T
authors.lastname: Jetka
authors.forename: Agata
authors.initials: A
authors.lastname: Charzyńska
authors.forename: Anna
authors.initials: A
authors.lastname: Gambin
authors.forename: Michael P H
authors.initials: MP
authors.lastname: Stumpf
authors.forename: Michał
authors.initials: M
authors.lastname: Komorowski
mesh_terms: D001499:Bayes Theorem; D001669:Biochemical Phenomena; D053612:Janus Kinases / Q000378:metabolism; D050791:STAT Transcription Factors / Q000378:metabolism; D012984:Software; D013269:Stochastic Processes
chemical_list: D050791:STAT Transcription Factors; D053612:Janus Kinases