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Computational Techniques for Analysis of Genetic Network Dynamics
Journal article   Open access   Peer reviewed

Computational Techniques for Analysis of Genetic Network Dynamics

Calin Belta, Joel M. Esposito, Jongwoo Kim, Vijay Kumar and JinWon Kim
The International journal of robotics research, v 24(2-3)
Feb 2005
DOI: https://doi.org/10.1177/0278364905050359
Featured in Collection :   UN Sustainable Development Goals @ Drexel
url
https://repository.upenn.edu/meam_papers/51View
SubmittedOpen Access (License Unspecified),  Open

Abstract

In this paper we propose modeling and analysis techniques for genetic networks that provide biologists with insight into the dynamics of such systems. Central to our modeling approach is the framework of hybrid systems and our analysis tools are derived from formal analysis of such systems. Given a set of states characterizing a property of biological interest P , we present the Multi-Affine Rectangular Partition (MARP) algorithm for the construction of a set of infeasible states I that will never reach P and the Rapidly Exploring Random Forest of Trees (RRFT) algorithm for the construction of a set of feasible states F that will reach P. These techniques are scalable to high dimensions and can incorporate uncertainty (partial knowledge of kinetic parameters and state uncertainty).We apply these methods to understand the genetic interactions involved in the phenomenon of luminescence production in the marine bacterium V. fischeri.

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12 Record Views
9 citations in Web of Science
15 citations in Scopus

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Collaboration types
Domestic collaboration
Web of Science research areas
Robotics
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