Modeling and simulation of genetic regulatory systems: A literature review

Modeling and simulation of genetic regulatory systems: A literature review (2002)

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by Hidde De Jong

Venue:	Journal of Computational Biology
Citations:	275 - 8 self

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Datum	Value	Source
TITLE	Modeling and simulation of genetic regulatory systems: A literature review	INFERENCE
AUTHOR NAME	Hidde De Jong	SVM HeaderParse 0.2
ABSTRACT	In order to understand the functioning of organisms on the molecular level, we need to know which genes are expressed, when and where in the organism, and to which extent. The regulation of gene expression is achieved through genetic regulatory systems structured by networks of interactions between DNA, RNA, proteins, and small molecules. As most genetic regulatory networks of interest involve many components connected through interlocking positive and negative feedback loops, an intuitive understanding of their dynamics is hard to obtain. As a consequence, formal methods and computer tools for the modeling and simulation of genetic regulatory networks will be indispensable. This paper reviews formalisms that have been employed in mathematical biology and bioinformatics to describe genetic regulatory systems, in particular directed graphs, Bayesian networks, Boolean networks and their generalizations, ordinary and partial differential equations, qualitative differential equations, stochastic equations, and rule-based formalisms. In addition, the paper discusses how these formalisms have been used in the simulation of the behavior of actual regulatory systems. Key words: genetic regulatory networks, mathematical modeling, simulation, computational biology.	SVM HeaderParse 0.2
YEAR	2002	INFERENCE
VENUE	Journal of Computational Biology	INFERENCE
VENUE TYPE	JOURNAL	INFERENCE
PAGES	67--103	INFERENCE
VOLUME	9	INFERENCE
CITATIONS	319 found	ParsCit 1.0