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  JMassBalance: mass-balanced randomization and analysis of metabolic networks

Basler, G., & Nikoloski, Z. (2011). JMassBalance: mass-balanced randomization and analysis of metabolic networks. Bioinformatics, 27(19), 2761-2762. doi:10.1093/bioinformatics/btr448.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0014-226A-4 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0019-BC2A-B
Genre: Journal Article

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 Creators:
Basler, G.1, Author              
Nikoloski, Z.1, Author              
Affiliations:
1Mathematical Modelling and Systems Biology - Nikoloski, Cooperative Research Groups, Max Planck Institute of Molecular Plant Physiology, Max Planck Society, ou_1753310              

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Free keywords: complex networks
 Abstract: Analysis of biological networks requires assessing the statistical significance of network-based predictions by using a realistic null model. However, the existing network null model, switch randomization, is unsuitable for metabolic networks, as it does not include physical constraints and generates unrealistic reactions. We present JMassBalance, a tool for mass-balanced randomization and analysis of metabolic networks. The tool allows efficient generation of large sets of randomized networks under the physical constraint of mass balance. In addition, various structural properties of the original and randomized networks can be calculated, facilitating the identification of the salient properties of metabolic networks with a biologically meaningful null model.

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Language(s): eng - English
 Dates: 2011-07-292011
 Publication Status: Published in print
 Pages: -
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 Table of Contents: -
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 Identifiers: ISI: ISI:000295412200022
DOI: 10.1093/bioinformatics/btr448
ISSN: 1367-4811 (Electronic)1367-4803 (Linking)
URI: ://000295412200022http://bioinformatics.oxfordjournals.org/content/27/19/2761.full.pdf
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Title: Bioinformatics
Source Genre: Journal
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Publ. Info: Oxford : Oxford University Press
Pages: - Volume / Issue: 27 (19) Sequence Number: - Start / End Page: 2761 - 2762 Identifier: ISSN: 1367-4803
CoNE: https://pure.mpg.de/cone/journals/resource/954926969991