G-network modelling based abnormal pathway detection in gene regulatory networks

Date
2012
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Source Title
Computer and Information Sciences II
Print ISSN
Electronic ISSN
Publisher
Springer, London
Volume
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Pages
257 - 263
Language
English
Type
Conference Paper
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Abstract

Gene expression centered gene regulatory networks studies can provide insight into the dynamics of pathway activities that depend on changes in their environmental conditions. Thus we propose a new pathway analysis approach to detect differentially behaving pathways in abnormal conditions based on G-network theory. Using this approach gene regulatory network model parameters are estimated from normal and abnormal samples using optimization techniques with corresponding constraints. We show that in a "p53 network" application, the proposed method effectively detects anomalous activated/inactivated pathways related with MDM2, ATM/ATR and RB1 genes, which could not be observed from previous analyses of gene regulatory network normal and abnormal behaviour. © 2012 Springer-Verlag London Limited.

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Keywords
Abnormal behaviours, Abnormal conditions, Abnormal samples, Environmental conditions, Gene regulatory network model, Gene regulatory networks, Optimization techniques, Pathway activities, Gene expression, Information science
Citation