BioBayes: a software package for Bayesian inference in systems biology

Vladislav Vyshemirsky, Mark Girolami

Research output: Contribution to journalArticlepeer-review

36 Citations (Scopus)


There are several levels of uncertainty involved in the mathematical modelling of biochemical systems. There often may be a degree of uncertainty about the values of kinetic parameters, about the general structure of the model and about the behaviour of biochemical species which cannot be observed directly. The methods of Bayesian inference provide a consistent framework for modelling and predicting in these uncertain conditions. We present a software package for applying the Bayesian inferential methodology to problems in systems biology.
Described herein is a software package, BioBayes, which provides a framework for Bayesian parameter estimation and evidential model ranking over models of biochemical systems defined using ordinary differential equations. The package is extensible allowing additional modules to be included by developers. There are no other such packages available which provide this functionality.
Original languageEnglish
Pages (from-to)1933-1934
Number of pages2
Issue number17
Publication statusPublished - 1 Sep 2008


  • biobayes
  • software package
  • Bayesian inference
  • systems biology

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