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A Survey on Methods for Modeling and Analyzing Integrated Biological Networks by N Tenazinha; S Vinga is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.

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Understanding how cellular systems build up integrated responses to their dynamically changing environment is one of the open questions in Systems Biology. Despite their intertwinement, signaling networks, gene regulation and metabolism have been frequently modeled independently in the context of well-defined subsystems. For this purpose, several mathematical formalisms have been developed according to the features of each particular network under study. Nonetheless, a deeper understanding of cellular behavior requires the integration of these various systems into a model capable of capturing how they operate as an ensemble. With the recent advances in the "omics" technologies, more data is becoming available and, thus, recent efforts have been driven toward this integrated modeling approach. We herein review and discuss methodological frameworks currently available for modeling and analyzing integrated biological networks, in particular metabolic, gene regulatory and signaling networks. These include network-based methods and Chemical Organization Theory, Flux-Balance Analysis and its extensions, logical discrete modeling, Petri Nets, traditional kinetic modeling, Hybrid Systems a

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Author

N Tenazinha; S Vinga

Publisher

Institute of Electrical and Electronics Engineers (IEEE)

Published

2011

Language

EN

Field

Biochemistry, Genetics and Molecular Biology (Life Sciences)