Journal
BIOCHEMISTRY
Volume 49, Issue 15, Pages 3216-3224Publisher
AMER CHEMICAL SOC
DOI: 10.1021/bi902202q
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Funding
- National Institutes of Health [P50-GM68762, U54-CA112967]
- Department of Defense Institute of Collaborative Biotechnologies
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Computational models are increasingly used to analyze the operation of complex biochemical networks, including dose involved in cell signaling networks. Here we review recent advances in applying logic-based modeling to mammalian cell biology. Logic-based models represent biomolecular networks in a simple and intuitive manner without describing the detailed biochemistry of each interaction. A brief description of several logic-based modeling methods is followed by six case studies that demonstrate biological questions recently addressed using logic-based models and point to potential advances in model formalisms and training procedures that promise to enhance the utility of logic-based methods for studying the relationship between environmental inputs and phenotypic or signaling state outputs of complex signaling networks.
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