Biomedical subjects

A P J Jansen

Publications and source records attributed to A P J Jansen.

7 recordsLinked to original sources

PubMed2005

Lateral interactions and multi-isotherms: nitrogen recombination from Rh(111).

Lateral adsorbate-adsorbate interactions result in variation of the desorption rate constants with coverage. This effect can be studied in great detail from the shape of a multi-isotherm. To produce the multi-isotherm, the temperature is increased in a (semi)stepwise fashion to some temperature, followed by maintaining this temperature for a prolonged time. Then, the temperature is stepped to a higher value and held constant at this new temperature. This cycle is continued until all of the adsorbates have desorbed. Using a detailed kinetic Monte Carlo model and an optimization algorithm based on Evolutionary Strategy, we are able to reproduce the shape of the experimentally measured multi-isotherm of nitrogen on Rh(111) and obtain the lateral interactions between the nitrogen atoms.

Journal Article↗

PubMed2004

Quantum chemical calculation of infrared spectra of acidic groups in chabazite in the presence of water.

The changes in the spectra of the acidic group in chabazite are studied by quantum chemical calculations. The zeolite is modeled by two clusters consisting of eight tetrahedral atoms arranged in a ring and seven tetrahedral atoms coordinated around the zeolite OH group. The potential energy and dipole surfaces were constructed from the zeolite OH stretch, in-plane and out-of-plane bending coordinates, and the intermolecular stretch coordinate that corresponds to a movement of the water molecule as a whole. Both the anharmonicities of the potential energy and dipole were taken into account by calculation of the frequencies and intensities. The matrix elements of the vibrational Hamiltonian were calculated within the discrete variable representation basis set. We have assigned the experimentally observed frequencies at approximately 2900, approximately 2400, and approximately 1700 cm(-1) to the strongly perturbed zeolite OH vibrations caused by the hydrogen bonding with the water molecule. The ABC triplet is a Fermi resonance of the zeolite OH stretch mode with the overtone of the in-plane bending (the A band) and the overtone of the out-of-plane bending (the C band). In the B band the stretch is also coupled with the second overtone of the out-of-plane bending. The frequencies at approximately 3700 and approximately 3550 cm(-1) we have assigned to the OH stretch frequencies of a slightly perturbed water molecule.

Journal Article↗

PubMed2004

Synchronization of surface reactions via Turing-like structures.

We discuss an alternative to the traditional gas-phase coupling approach in order to explain synchronized global oscillations in CO oxidation on Pt(110). We use a microscopic model which includes structural Pt surface reconstruction via front propagation, and large diffusion rates for CO. The synchronization mechanism is associated with the formation of a Turing-like structure of the substrate. By using large parallel microscopic simulations we derive scaling laws which allow us to extrapolate to realistic diffusion rates, pattern size, and oscillation periods.

Journal Article↗

PubMed2003

Infinitely fast diffusion in single-file systems.

We have used dynamic Monte Carlo(DMC) methods and analytical techniques to analyze single-file systems for which diffusion is infinitely fast. We have simplified the master equation removing the fast reactions, and we have introduced a DMC algorithm for infinitely fast diffusion. The DMC method for fast diffusion give similar results as the standard DMC with high diffusion rates. We have investigated the influence of characteristic parameters, such as pipe length, adsorption, desorption, and conversion rate constants on the steady-state properties of single-file systems with a reaction, looking at cases when all the sites are reactive and when only some of them are reactive. We find that the effect of fast diffusion on single-file properties of the system is absent even when diffusion is infinitely fast. Diffusion is not important in these systems. Smaller systems are less reactive and the occupancy profiles for infinitely long systems show an exponential behavior.

Journal Article↗

PubMed2003

Analytical results for the reactivity of a single-file system.

We derive analytical expressions for the reactivity of a single-file system with fast diffusion and particles entering and leaving the system at one end. If the conversion reaction is fast, then the reactivity depends only very weakly on the system size, and the conversion is about 100%. If the reaction is slow, then the reactivity becomes proportional to the system size, the loading, and the reaction rate constant. If the system size increases the reactivity goes to the geometric mean of the reaction rate constant and the rate of particles entering and leaving the system. For large systems, the number of unconverted particles decreases exponentially with distance from the open end.

Journal Article↗

PubMed2002

Transient behavior in single-file systems.

We have used Monte Carlo methods and analytical techniques to investigate the influence of the characteristics, such as pipe length, diffusion, adsorption, desorption, and reaction rates on the transient properties of single-file systems. The transient or the relaxation regime is the period in which the system is evolving to equilibrium. We have studied the system when all the sites are reactive and also when only some of them are reactive. Comparisons between mean-field predictions, cluster approximation predictions, and Monte Carlo simulations for the relaxation time of the system are shown. We outline the cases where the mean-field analysis gives good results compared to dynamic Monte Carlo results. For some specific cases we can analytically derive the relaxation time. Occupancy profiles for different distributions of the sites both for the mean field and simulations are compared. Different results for slow and fast reaction systems and different distributions of reactive sites are discussed.

Journal Article↗

PubMed2002

Steady-state properties of single-file systems with conversion.

We have used Monte Carlo methods and analytical techniques to investigate the influence of the characteristic parameters, such as pipe length, diffusion, adsorption, desorption, and reaction rate constants on the steady-state properties of single-file systems with a reaction. We looked at cases when all the sites are reactive and when only some of them are reactive. Comparisons between mean-field predictions and Monte Carlo simulations for the occupancy profiles and reactivity are made. Substantial differences between mean-field and the simulations are found when rates of diffusion are high. Mean-field results only include single-file behavior by changing the diffusion rate constant, but it effectively allows passing of particles. Reactivity converges to a limit value if more reactive sites are added: sites in the middle of the system have little or no effect on the kinetics. Occupancy profiles show approximately exponential behavior from the ends to the middle of the system.

Journal Article↗