Combining microarrays and biological knowledge for estimating gene networks via Bayesian networks

S. Imoto, T. Higuchi, T. Goto, K. Tashiro, S. Kuhara, S. Miyano

Research output: Chapter in Book/Report/Conference proceedingConference contribution

83 Citations (Scopus)

Abstract

We propose a statistical method for estimating a gene network based on Bayesian networks from microarray gene expression data together with biological knowledge including protein-protein interactions, protein-DNA interactions, binding site information, existing literature and so on. Unfortunately, microarray data do not contain enough information for constructing gene networks accurately in many cases. Our method adds biological knowledge to the estimation method of gene networks under a Bayesian statistical framework, and also controls the trade-off between microarray information and biological knowledge automatically. We conduct Monte Carlo simulations to show the effectiveness of the proposed method. We analyze Saccharomyces cerevisiae gene expression data as an application.

Original languageEnglish
Title of host publicationProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages104-113
Number of pages10
ISBN (Electronic)0769520006, 9780769520001
DOIs
Publication statusPublished - Jan 1 2003
Event2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003 - Stanford, United States
Duration: Aug 11 2003Aug 14 2003

Publication series

NameProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003

Other

Other2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003
CountryUnited States
CityStanford
Period8/11/038/14/03

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All Science Journal Classification (ASJC) codes

  • Electrical and Electronic Engineering
  • Computer Science Applications

Cite this

Imoto, S., Higuchi, T., Goto, T., Tashiro, K., Kuhara, S., & Miyano, S. (2003). Combining microarrays and biological knowledge for estimating gene networks via Bayesian networks. In Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003 (pp. 104-113). [1227309] (Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/CSB.2003.1227309