Encyclopedia of Systems Biology

2013 Edition
| Editors: Werner Dubitzky, Olaf Wolkenhauer, Kwang-Hyun Cho, Hiroki Yokota

Probabilistic Boolean Network, Transcription Regulatory Network Construction

Reference work entry
DOI: https://doi.org/10.1007/978-1-4419-9863-7_441

Synonyms

Definition

Probabilistic Boolean network (PBN) is a stochastic model to model the interactions between different genes. In a PBN, each gene is regarded as a vertex of the network and the expression state of each gene is quantized into two levels only (expressed: 1 or unexpressed: 0). This idea can be extended to the case of more than two levels. The expression level of the target gene is predicted by several genes called its input genes through some Boolean functions. Different from Boolean network (BN) ( Boolean Networks), in a PBN, there are more than one Boolean function for each gene. These Boolean functions are chosen according to some probabilities. All the Boolean functions and the selection probabilities are inferred from the real experimental data. The PBN model takes advantage of the rule-based properties of BNs and is also able to cope with the presence of uncertainty arising in the biological...

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References

  1. Kim S, Dougherty ER, Bitter ML, Chen Y, Sivakumar K, Meltzer P, Trent JM (2000) General nonlinear framework for the analysis of gene interactions via multivariate expression arrays. J Biomed Opt 5:411–444PubMedGoogle Scholar
  2. Pal R, Datta A, Bittner M, Dougherty ER (2005) Intervention in context-sensitive probabilistic Boolean networks. Bioinformatics 21(7):1211–1218PubMedGoogle Scholar
  3. Shmulevich I, Dougherty ER, Zhang W (2002a) From Boolean to probabilistic Boolean networks as models of genetic regulatory networks. Proc IEEE 90:1778–1792Google Scholar
  4. Shmulevich I, Dougherty ER, Zhang W (2002b) Gene perturbation and intervention in probabilistic Boolean networks. Bioinformatics 18:1319–1331PubMedGoogle Scholar
  5. Shmulevich I, Dougherty ER, Kim S, Zhang W (2002c) Probabilistic Boolean networks: a rule-based uncertainty model for gene regulatory networks. Bioinformatics 18:261–274PubMedGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  1. 1.School of Mathematical SciencesFudan UniversityShanghaiChina