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  Reverse Engineering of Gene Regulatory Networks: A Comparative Study.

Hache, H., Lehrach, H., & Herwig, R. (2009). Reverse Engineering of Gene Regulatory Networks: A Comparative Study. EURASIP Journal on Bioinformatics and Systems Biology, 2009: ID 617281. doi:10.1155/2009/617281.

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Genre: Journal Article
Alternative Title : EURASIP JBSB

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617281.pdf (Any fulltext), 840KB
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 Creators:
Hache, Hendrik1, Author              
Lehrach, Hans2, Author              
Herwig, Ralf3, Author              
Affiliations:
1Systems Biology (Christoph Wierling), Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479656              
2Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433550              
3Bioinformatics (Ralf Herwig), Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479648              

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 Abstract: Reverse engineering of gene regulatory networks has been an intensively studied topic in bioinformatics since it constitutes an intermediate step from explorative to causative gene expression analysis. Many methods have been proposed through recent years leading to a wide range of mathematical approaches. In practice, different mathematical approaches will generate different resulting network structures, thus, it is very important for users to assess the performance of these algorithms. We have conducted a comparative study with six different reverse engineering methods, including relevance networks, neural networks, and Bayesian networks. Our approach consists of the generation of defined benchmark data, the analysis of these data with the different methods, and the assessment of algorithmic performances by statistical analyses. Performance was judged by network size and noise levels. The results of the comparative study highlight the neural network approach as best performing method among those under study.

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Language(s): eng - English
 Dates: 2009-03-11
 Publication Status: Published in print
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Title: EURASIP Journal on Bioinformatics and Systems Biology
  Alternative Title : EURASIP JBSB
Source Genre: Journal
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Pages: - Volume / Issue: 2009 Sequence Number: ID 617281 Start / End Page: - Identifier: ISSN: 1687-4145