Benchmarking and validation of a Geant4–SHADOW Monte Carlo simulation for dose calculations in microbeam radiation therapy

Microbeam radiation therapy (MRT) is a synchrotron‐based radiotherapy modality that uses high‐intensity beams of spatially fractionated radiation to treat tumours. The rapid evolution of MRT towards clinical trials demands accurate treatment planning systems (TPS), as well as independent tools for the verification of TPS calculated dose distributions in order to ensure patient safety and treatment efficacy. Monte Carlo computer simulation represents the most accurate method of dose calculation in patient geometries and is best suited for the purpose of TPS verification. A Monte Carlo model of the ID17 biomedical beamline at the European Synchrotron Radiation Facility has been developed, including recent modifications, using the Geant4 Monte Carlo toolkit interfaced with the SHADOW X‐ray optics and ray‐tracing libraries. The code was benchmarked by simulating dose profiles in water‐equivalent phantoms subject to irradiation by broad‐beam (without spatial fractionation) and microbeam (with spatial fractionation) fields, and comparing against those calculated with a previous model of the beamline developed using the PENELOPE code. Validation against additional experimental dose profiles in water‐equivalent phantoms subject to broad‐beam irradiation was also performed. Good agreement between codes was observed, with the exception of out‐of‐field doses and toward the field edge for larger field sizes. Microbeam results showed good agreement between both codes and experimental results within uncertainties. Results of the experimental validation showed agreement for different beamline configurations. The asymmetry in the out‐of‐field dose profiles due to polarization effects was also investigated, yielding important information for the treatment planning process in MRT. This work represents an important step in the development of a Monte Carlo‐based independent verification tool for treatment planning in MRT.     

Femtosecond laser-induced periodic surface structures on steel and titanium alloy for tribological applications

Laser-induced periodic surface structures (LIPSS, ripples) were generated on stainless steel (100Cr6) and titanium alloy (Ti6Al4V) surfaces upon irradiation with multiple femtosecond laser pulses (pulse duration 30 fs, central wavelength 790 nm). The experimental conditions (laser fluence, spatial spot overlap) were optimized in a sample-scanning geometry for the processing of large surface areas (5 × 5 mm²) covered homogeneously by the nanostructures. The irradiated surface regions were subjected to white light interference microscopy and scanning electron microscopy revealing spatial periods around 600 nm. The tribological performance of the nanostructured surface was characterized by reciprocal sliding against a ball of hardened steel in paraffin oil and in commercial engine oil as lubricants, followed by subsequent inspection of the wear tracks. For specific conditions, on the titanium alloy a significant reduction of the friction coefficient by a factor of more than two was observed on the laser-irradiated (LIPSS-covered) surface when compared to the non-irradiated one, indicating the potential benefit of laser surface structuring for tribological applications.     

Excitation transfer induced spectral diffusion and the influence of structural spectral diffusion

The theory of vibrational excitation transfer, which causes spectral diffusion and is also influenced by structural spectral diffusion, is developed and applied to systems consisting of vibrational chromophores. Excitation transfer induced spectral diffusion is the time-dependent change in vibrational frequency induced by an excitation on an initially excited molecule jumping to other molecules that have different vibrational frequencies within the inhomogeneously broadened vibrational absorption line. The excitation transfer process is modeled as Fo?rster resonant transfer, which depends on the overlap of the homogeneous spectra of the donating and accepting vibrational chromophores. Because the absorption line is inhomogeneously broadened, two molecules in close proximity can have overlaps of their homogeneous lines that range from substantial to very little. In the absence of structural dynamics, the overlap of the homogeneous lines of the donating and accepting vibrational chromophores would be fixed. However, dynamics of the medium that contains the vibrational chromophores, e.g., a liquid solvent or a surrounding protein, produce spectral diffusion. Spectral diffusion causes the position of a molecule's homogeneous line within the inhomogeneous spectrum to change with time. Therefore, the overlap of donating and accepting molecules' homogeneous lines is time dependent, which must be taken into account in the excitation transfer theory. The excitation transfer problem is solved for inhomogeneous lines with fluctuating homogeneous line frequencies. The method allows the simultaneous treatment of both excitation transfer induced spectral diffusion and structural fluctuation induced spectral diffusion. It is found that the excitation transfer process is enhanced by the stochastic fluctuations in frequencies. It is shown how a measurement of spectral diffusion can be separated into the two types of spectral diffusion, which permits the structural spectral diffusion to be determined in the presence of excitation transfer spectral diffusion. Various approximations and computational methodologies are explored.     

Laminar-flow bolus shapes in flow injection analysis

Bolus shapes for injected samples have been calculated for times of interest in experiments on flow injection analysis. The effect of both system and molecular parameters on the shapes and the dispersion of samples is considered. The implications for merging-zone experiments are discussed briefly.     

Geometry of Planes over Nonassociative Algebras

In this paper the geometric interpretation of the exceptional Lie groups F₄, E₆, E₇, and E₈ is given. These groups are groups of motions of elliptic hyperbolic planes over nonassociative algebras of octaves and split octaves and their tensor products with algebras of usual and split complex numbers, quaternions and octaves. The explicit expressions of motions of these planes and their figures of symmetry are presented.     

Die Empfindlichkeit der zum Zuckernachweis im Harn dienenden Reactionen

Ohne Zusammenfassung     

Pairs of edge disjoint Hamiltonian circuits in 5-connected planar graphs

Summary A variety of examples of 4-connected 4-regular graphs with no pair of disjoint Hamiltonian circuits were constructed in response to Nash-Williams conjecture that every 4-connected 4-regular graph is Hamiltonian and also admits a pair of edge-disjoint Hamiltonian circuits. Nash-Williams's problem is especially interesting for planar graphs since 4-connected planar graphs are Hamiltonian. Examples of 4-connected 4-regular planar graphs in which every pair of Hamiltonian circuits have edges in common are included in the above mentioned examples.B. Grünbaum asked whether 5-connected planar graphs always admit a pair of disjoint Hamiltonian circuits. In this paper we introduce a technique that enables us to construct infinitely many examples of 5-connected planar graphs, 5-regular and non regular, in which every pair of Hamiltonian circuits have edges in common.     

Micromachining of quartz with ultrashort laser pulses

Received: 6 January 1997/Accepted: 1 April 1997     

Automated docking of ligands to an artificial active site: augmenting crystallographic analysis with computer modeling

The W191G cavity of cytochrome c peroxidase is useful as a model system for introducing small molecule oxidation in an artificially created cavity. A set of small, cyclic, organic cations was previously shown to bind in the buried, solvent-filled pocket created by the W191G mutation. We docked these ligands and a set of non-binders in the W191G cavity using AutoDock 3.0. For the ligands, we compared docking predictions with experimentally determined binding energies and X-ray crystal structure complexes. For the ligands, predicted binding energies differed from measured values by +/- 0.8 kcal/mol. For most ligands, the docking simulation clearly predicted a single binding mode that matched the crystallographic binding mode within 1.0 A RMSD. For 2 ligands, where the docking procedure yielded an ambiguous result, solutions matching the crystallographic result could be obtained by including an additional crystallographically observed water molecule in the protein model. For the remaining 2 ligands, docking indicated multiple binding modes, consistent with the original electron density, suggesting disordered binding of these ligands. Visual inspection of the atomic affinity grid maps used in docking calculations revealed two patches of high affinity for hydrogen bond donating groups. Multiple solutions are predicted as these two sites compete for polar hydrogens in the ligand during the docking simulation. Ligands could be distinguished, to some extent, from non-binders using a combination of two trends: predicted binding energy and level of clustering. In summary, AutoDock 3.0 appears to be useful in predicting key structural and energetic features of ligand binding in the W191G cavity.