Bayesian integration of biological prior knowledge into the reconstruction of gene networks with Bayesian networks

Husmeier, D. and Werhli, A. (2007) Bayesian integration of biological prior knowledge into the reconstruction of gene networks with Bayesian networks. In: Markstein, P. and Xu, Y. (eds.) Proceedings of the International Conference on Computational Systems Bioinformatics (CSB 2007). Imperial College Press: London, UK, pp. 85-95. ISBN 9781860948725

Abstract

There have been various attempts to improve the reconstruction of gene regulatory networks from microarray data by the systematic integration of biological prior knowledge. Our approach is based on pioneering work by Imoto et al. 11 , where the prior knowledge is expressed in terms of energy functions, from which a prior distribution over network structures is obtained in the form of a Gibbs distribution. The hyperparameters of this distribution represent the weights associated with the prior knowledge relative to the data. To complement the work of Imoto et al. 11 , we have derived and tested an MCMC scheme for sampling networks and hyperparameters simultaneously from the posterior distribution. We have assessed the viability of this approach by reconstructing the RAF pathway from cytometry protein concentrations and prior knowledge from KEGG.

• Item Type: Book Sections
• Status: Published
• Glasgow Author(s) Enlighten ID: Husmeier, Professor Dirk
• Authors: Husmeier, D., and Werhli, A.
• College/School: College of Science and Engineering > School of Mathematics and Statistics > Statistics
• Publisher: Imperial College Press
• ISBN: 9781860948725