TY - JOUR
T1 - Simulating feedback and reversibility in substrate-enzyme reactions
AU - Zwieten, van, D.A.J.
AU - Rooda, J.E.
AU - Armbruster, H.D.
AU - Nagy, J.D.
PY - 2011
Y1 - 2011
N2 - We extend discrete event models (DEM) of substrate-enzyme reactions to include regulatory feedback and reversible reactions. Steady state as well as transient systems are modeled and validated against ordinary differential equation (ODE) models. The approach is exemplified in a model of the first steps of glycolysis with the most common regulatory mechanisms. We find that in glycolysis, feedback and reversibility together act as a significant damper on the stochastic variations of the intermediate products as well as for the stochastic variation of the transit times. This suggests that these feedbacks have evolved to control both the overall rate of, as well as stochastic fluctuations in, glycolysis.
AB - We extend discrete event models (DEM) of substrate-enzyme reactions to include regulatory feedback and reversible reactions. Steady state as well as transient systems are modeled and validated against ordinary differential equation (ODE) models. The approach is exemplified in a model of the first steps of glycolysis with the most common regulatory mechanisms. We find that in glycolysis, feedback and reversibility together act as a significant damper on the stochastic variations of the intermediate products as well as for the stochastic variation of the transit times. This suggests that these feedbacks have evolved to control both the overall rate of, as well as stochastic fluctuations in, glycolysis.
U2 - 10.1140/epjb/e2011-10911-x
DO - 10.1140/epjb/e2011-10911-x
M3 - Article
SN - 1434-6028
VL - 84
SP - 673
EP - 684
JO - European Physical Journal B
JF - European Physical Journal B
IS - 4
ER -