STEPS

STEPS is a tool to simulate cellular reaction-diffusion system models of biochemical signaling pathways. The STEPS algorithm allows simulation of interactions between ligands and membrane-bound proteins, conformational changes and active and passive transport, and stochastic reaction-diffusion models in natural 3D morphologies.

Topic

Systems biology;Molecular interactions, pathways and networks;Simulation experiment

Detail

  • Operation: Metabolic network modelling

  • Software interface: Command-line user interface

  • Language: C++;Python

  • License: GNU General Public License v3

  • Cost: Free

  • Version name: 4.0.0

  • Credit: Human Frontier Science Program (HFSPO), European Molecular Biology Laboratory International PhD program and Okinawa Intitute of Science and Technology Promotion Corporation (OISTPC).

  • Input: -

  • Output: -

  • Contact: steps.dev@gmail.com, Iain Hepburn ihepburn@oist.jp, Weiliang Chen w.chen@oist.jp, Stefan Wils stefanwils@gmail.com, Erik De Schutter erik@oist.jp

  • Collection: -

  • Maturity: Mature

Publications

  • STEPS: efficient simulation of stochastic reaction-diffusion models in realistic morphologies.
  • Hepburn I, Chen W, Wils S, De Schutter E. STEPS: efficient simulation of stochastic reaction-diffusion models in realistic morphologies. BMC Syst Biol. 2012 May 10;6:36. doi: 10.1186/1752-0509-6-36. PMID: 22574658; PMCID: PMC3472240.
  • https://doi.org/10.1186/1752-0509-6-36
  • PMID: 22574658
  • PMC: PMC3472240

Download and documentation

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