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ASSA-PBN 2.0: A Software Tool for Probabilistic Boolean Networks

  • Andrzej Mizera
  • Jun Pang
  • Qixia Yuan
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 9859)

Abstract

We present a major new release of ASSA-PBN, a software tool for modelling, simulation, and analysis of probabilistic Boolean networks (PBNs). PBNs are a widely used computational framework for modelling biological systems. The steady-state dynamics of a PBN is of special interest and obtaining it poses a significant challenge due to the state space explosion problem which often arises in the case of large biological systems. In its previous version, ASSA-PBN applied efficient statistical methods to approximately compute steady-state probabilities of large PBNs. In this newly released version, ASSA-PBN not only speeds up the computation of steady-state probabilities with three different realisations of parallel computing, but also implements parameter estimation and techniques for in-depth analysis of PBNs, i.e., influence and sensitivity analysis of PBNs. In addition, a graphical user interface (GUI) is provided for the convenience of users.

Keywords

Boolean Function Predictor Function System Biology Markup Language Probabilistic Boolean Network Perfect Simulation 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgement

Qixia Yuan is supported by the National Research Fund, Luxembourg (grant 7814267). The authors also want to thank Gary Cornelius for his work on ASSA-PBN.

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Copyright information

© Springer International Publishing AG 2016

Authors and Affiliations

  1. 1.Faculty of Science, Technology and CommunicationUniversity of LuxembourgLuxembourg CityLuxembourg
  2. 2.Interdisciplinary Centre for Security, Reliability and TrustUniversity of LuxembourgLuxembourg CityLuxembourg

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