The dynamics of biological reaction networks are strongly constrained by thermodynamics. An holistic understanding of their behavior and regulation requires mathematical models that observe these constraints. However, kinetic models may easily violate the constraints imposed by the principle of detailed balance, if no special care is taken. Detailed balance demands that in thermodynamic equilib...

A lack of mechanistic understanding of kinetic phenomena in chemical process systems is still the major bottleneck for a more widespread application of model-based techniques in process design, operations and control. Kinetic phenomena are becoming of increasing importance given the rapidly developing capabilities for the numerical treatment of more complex – typically distributed parameter – m...

This is the first report on a systematic method for constructing a large scale kinetic metabolic model and its initial application to the modeling of central metabolism of Methylobacterium extorquens AM1, a methylotrophic and environmental important bacterium. Its central metabolic network includes formaldehyde metabolism, serine cycle, citric acid cycle, pentose phosphate pathway, gluconeogens...

MOTIVATION Oxidoreductases are a fundamental class of enzymes responsible for the catalysis of oxidation-reduction reactions, crucial in most bioenergetic metabolic pathways. From their common root in the ancient prebiotic environment, oxidoreductases have evolved into diverse and elaborate protein structures with specific kinetic properties and mechanisms adapted to their individual functional...

Pattern reversal visually evoked potentials (VEPs) provide valuable information about the visual nerves pathways and is a promising field to be explored for the investigation of vision impairments. The conventional method of analysis however, is centred on the detection of amplitude and latency values from the averaged VEP responses. This paper proposes alternative method of analysis using Stoc...

Direct two-dimensional numerical simulation and experiments, in which small rocket motors accelerate a tank containing two fluids, have been used to investigate turbulent mixing by Rayleigh-Taylor instability at a wide range of density ratios. The experimental data obtained so far has been used to calibrate an empirical model of the mixing process which is needed to make predictions for complex...

Design of muffler system strongly influences engine efficiency and noise level. Hence, comprehension of flow characteristics inside muffler system is very important. In this study, numerical study of three-dimensional steady and unsteady compressible flow inside muffler system attached to 4-cylinder engine was performed to identify the flow characteristics. To obtain the boundary conditions for...

The objectives of this work were the classification of dynamic metabolic biomarker candidates and the modeling and characterization of kinetic regulatory mechanisms in human metabolism with response to external perturbations by physical activity. Longitudinal metabolic concentration data of 47 individuals from 4 different groups were examined, obtained from a cycle ergometry cohort study. In to...

Introduction: Dynamic contrast enhanced MRI (DCE-MRI) with tracer kinetic modeling has been proposed as a biomarker of tumor angiogenesis assessment in humans. Several tracer kinetic models, distributed parameter model (DP), St. Lawrence and Lee model (ATH), and conventional compartmental model (CC), have been proposed to calculate permeability-surface area product (PS). It was found that PS co...