Using Hybrid Concurrent Constraint Programming to Model Dynamic Biological Systems
ICLP '02 Proceedings of the 18th International Conference on Logic Programming
TACAS '99 Proceedings of the 5th International Conference on Tools and Algorithms for Construction and Analysis of Systems
Symbolic Model Checking of Biochemical Networks
CMSB '03 Proceedings of the First International Workshop on Computational Methods in Systems Biology
CMSB '03 Proceedings of the First International Workshop on Computational Methods in Systems Biology
Hybrid modeling and simulation of genetic regulatory networks
HSCC'03 Proceedings of the 6th international conference on Hybrid systems: computation and control
On the use of temporal formal logic to model gene regulatory networks
CIBB'09 Proceedings of the 6th international conference on Computational intelligence methods for bioinformatics and biostatistics
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Cell-cell adhesion plays a critical role in the formation of tissues and organs. Adhesion between endothelial cells is also involved in the control of leukocyte migration across the endothelium of blood vessels. The most important players in this process are probably identified and the overall organization of the biochemical network can be drawn, but knowledge about connectivity is still incomplete, and the numerical values of kinetic parameters are unknown. This calls for qualitative modeling methods. Our aim in this paper is twofold: (i) to integrate in a unified model the biochemical network and the genetic circuitry. For this purpose we transform our system into a system of piecewise linear differential equations and then use Thomas theory of discrete networks. (ii) to show how constraints can be used to infer ranges of parameter values from observations and, with the same model, perform qualitative simulations.