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Local network-based measures to assess the inferability of different regulatory networks

Local network-based measures to assess the inferability of different regulatory networks

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© The Institution of Engineering and Technology
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The purpose of this study is to compare the inferability of various synthetic as well as real biological regulatory networks. In order to assess differences we apply local network-based measures. That means, instead of applying global measures, we investigate and assess an inference algorithm locally, on the level of individual edges and subnetworks. We demonstrate the behaviour of our local network-based measures with respect to different regulatory networks by conducting large-scale simulations. As inference algorithm we use exemplarily ARACNE. The results from our exploratory analysis allow us not only to gain new insights into the strength and weakness of an inference algorithm with respect to characteristics of different regulatory networks, but also to obtain information that could be used to design novel problem-specific statistical estimators. [Includes supplementary material]

Inspec keywords: inference mechanisms; genetics; bioinformatics; genomics

Other keywords: inferability assessment; local network-based measures; biological regulatory networks; inference algorithm; synthetic regulatory network; exploratory analysis; statistical estimator; ARACNE; large-scale simulation

Subjects: Knowledge engineering techniques; Biology and medical computing; Genomic techniques; Biomolecular interactions, charge transfer complexes

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