In [1, 6, 7] we studied whether metabolic pathways with membrane-bound enzymes can give rise to significant concentration gradients in the cytosolic pathway components. We investigated this issue using a theoretical model for the phosphoenolpyruvate:glucose phosphotransferase system in E. coli, for which accurate measurements of the kinetic parameters are available. In this study we modeled an E. coli by a sphere. In reality E. coli is rod-like or rather cigar-shaped. In this paper we discuss the implementational aspects and the potential implications of a more realistic geometry.

Partial Differential Equations (acm G.1.8), Difference formulas (acm G.1.1.0), MATHEMATICAL SOFTWARE (acm G.4), LIFE AND MEDICAL SCIENCES (acm J.3)
Models, numerical methods (msc 65C20), Method of lines (msc 65M20), Finite volume methods (msc 76M12), Explicit machine computation and programs (not the theory of computation or programming) (msc 92-04), Biochemistry, molecular biology (msc 92C40)
Modelling, Analysis and Simulation [MAS]
Computational Dynamics

Blom, J.G, & Peletier, M.A. (2002). The importance of being cigar-shaped. Modelling, Analysis and Simulation [MAS]. CWI.