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PubMed1994

[Unusual course of candidiasis of the central nervous system].

Six months after an attack of pyelonephritis, adnexitis and candida colpitis an 18-year-old girl developed some clouding of consciousness. On neurological examination she showed organic behavioural changes, discrete anisocoria and possible meningism. Computed tomography revealed hydrocephalus and signs of increased cerebrospinal fluid (CSF) pressure. CSF contained 2336/3 cells, while total protein was raised to 7.0 g/l and lactate concentration to 6.85 mmol/l. Glucose concentration in CSF was 51 mg/dl and 75 mg/dl in serum. As tuberculous meningitis was suspected, treatment was started with four tuberculostatic drugs, but there was no improvement. Five weeks later microscopic CSF examination showed fungal spores and nonbranching hyphae. The maximal candida haemagglutination titre in CSF was 1:2048. CSF culture grew Candida albicans. The further course was complicated by side effects to the antimycotic drugs (amphotericin B between 4.5 and 45 mg daily; flucytosine 1.7 g four times daily) and recurrent obstruction in the ventricular system requiring repeated neurosurgical interventions. However, full cure was achieved after seven months' hospital treatment.

Adolescent↗
PubMed2005

Robust estimation of adaptive tensors of curvature by tensor voting.

Although curvature estimation from a given mesh or regularly sampled point set is a well-studied problem, it is still challenging when the input consists of a cloud of unstructured points corrupted by misalignment error and outlier noise. Such input is ubiquitous in computer vision. In this paper, we propose a three-pass tensor voting algorithm to robustly estimate curvature tensors, from which accurate principal curvatures and directions can be calculated. Our quantitative estimation is an improvement over the previous two-pass algorithm, where only qualitative curvature estimation (sign of Gaussian curvature) is performed. To overcome misalignment errors, our improved method automatically corrects input point locations at subvoxel precision, which also rejects outliers that are uncorrectable. To adapt to different scales locally, we define the RadiusHit of a curvature tensor to quantify estimation accuracy and applicability. Our curvature estimation algorithm has been proven with detailed quantitative experiments, performing better in a variety of standard error metrics (percentage error in curvature magnitudes, absolute angle difference in curvature direction) in the presence of a large amount of misalignment noise.

Algorithms↗
PubMed2005

Scattering and absorption property database for nonspherical ice particles in the near- through far-infrared spectral region.

The single-scattering properties of ice particles in the near- through far-infrared spectral region are computed from a composite method that is based on a combination of the finite-difference time-domain technique, the T-matrix method, an improved geometrical-optics method, and Lorenz-Mie theory. Seven nonspherical ice crystal habits (aggregates, hexagonal solid and hollow columns, hexagonal plates, bullet rosettes, spheroids, and droxtals) are considered. A database of the single-scattering properties for each of these ice particles has been developed at 49 wavelengths between 3 and 100 microm and for particle sizes ranging from 2 to 10,000 microm specified in terms of the particle maximum dimension. The spectral variations of the single-scattering properties are discussed, as well as their dependence on the particle maximum dimension and effective particle size. The comparisons show that the assumption of spherical ice particles in the near-IR through far-IR region is generally not optimal for radiative transfer computation. Furthermore, a parameterization of the bulk optical properties is developed for mid-latitude cirrus clouds based on a set of 21 particle size distributions obtained from various field campaigns.

Journal Article↗
PubMed2006

Lessons learned from LNG safety research.

During the period from 1977 to 1989, the Lawrence Livermore National Laboratory (LLNL) conducted a liquefied gaseous fuels spill effects program under the sponsorship of the US Department of Energy, Department of Transportation, Gas Research Institute and others. The goal of this program was to develop and validate tools that could be used to predict the effects of a large liquefied gas spill through the execution of large scale field experiments and the development of computer models to make predictions for conditions under which tests could not be performed. Over the course of the program, three series of LNG spill experiments were performed to study cloud formation, dispersion, combustion and rapid phase transition (RPT) explosions. The purpose of this paper is to provide an overview of this program, the lessons learned from 12 years of research as well as some recommendations for the future. The general conclusion from this program is that cold, dense gas related phenomena can dominate the dispersion of a large volume, high release rate spill of LNG especially under low ambient wind speed and stable atmospheric conditions, and therefore, it is necessary to include a detailed and validated description of these phenomena in computer models to adequately predict the consequences of a release. Specific conclusions include: * LNG vapor clouds are lower and wider than trace gas clouds and tend to follow the downhill slope of terrain due to dampened vertical turbulence and gravity flow within the cloud. Under low wind speed, stable atmospheric conditions, a bifurcated, two lobed structure develops. * Navier-Stokes models provide the most complete description of LNG dispersion, while more highly parameterized Lagrangian models were found to be well suited to emergency response applications. * The measured heat flux from LNG vapor cloud burns exceeded levels necessary for third degree burns and were large enough to ignite most flammable materials. * RPTs are of two types, source generated and enrichment generated, and were observed to increase the burn area by a factor of two and to extend the downwind burn distance by 65%. Additional large scale experiments and model development are recommended.

Accidents↗
PubMed2003

Impact of ozone mini-holes on the heterogeneous destruction of stratospheric ozone.

A comprehensive study of ozone mini-holes over the mid-latitudes of both hemispheres is presented, based on model simulations with the coupled climate-chemistry model ECHAM4.L39(DLR)/CHEM representing atmospheric conditions in 1960, 1980, 1990 and 2015. Ozone mini-holes are synoptic-scale regions of strongly reduced total ozone, directly associated with tropospheric weather systems. Mini-holes are supposed to have chemical and dynamical impacts on ozone levels. Since ozone levels over northern mid-latitudes show a negative trend of approximately -4%/decade and since it exists a negative correlation between total column ozone and erythemally active solar UV-radiation reaching the surface it is important to understand and assess the processes leading to the observed ozone decline. The simulated mini-hole events are validated with a mini-hole climatology based on daily ozone measurements with the TOMS (total ozone mapping spectrometer) instrument on the satellite Nimbus-7 between 1979 and 1993. Furthermore, possible trends in the event frequency and intensity over the simulation period are assessed. In the northern hemisphere the number of mini-hole events in early winter decreases between 1960 and 1990 and increases towards 2015. In the southern hemisphere a positive trend in mini-hole event frequency is detected between 1960 and 2015 in spring associated with the increasing Antarctic Ozone Hole. Finally, the impact of mini-holes on the stratospheric heterogeneous ozone chemistry is investigated. For this purpose, a computer-based detection routine for mini-holes was developed for the use in ECHAM4.L39(DLR)/CHEM. This method prevents polar stratospheric cloud formation and therefore heterogeneous ozone depletion inside mini-holes. Heterogeneous processes inside mini-holes amount to one third of heterogeneous ozone destruction in general over northern mid- and high-latitudes during winter (January-April) in the simulation.

Atmosphere↗
PubMed2004

Towards an accurate representation of electrostatics in classical force fields: efficient implementation of multipolar interactions in biomolecular simulations.

The accurate simulation of biologically active macromolecules faces serious limitations that originate in the treatment of electrostatics in the empirical force fields. The current use of "partial charges" is a significant source of errors, since these vary widely with different conformations. By contrast, the molecular electrostatic potential (MEP) obtained through the use of a distributed multipole moment description, has been shown to converge to the quantum MEP outside the van der Waals surface, when higher order multipoles are used. However, in spite of the considerable improvement to the representation of the electronic cloud, higher order multipoles are not part of current classical biomolecular force fields due to the excessive computational cost. In this paper we present an efficient formalism for the treatment of higher order multipoles in Cartesian tensor formalism. The Ewald "direct sum" is evaluated through a McMurchie-Davidson formalism [L. McMurchie and E. Davidson, J. Comput. Phys. 26, 218 (1978)]. The "reciprocal sum" has been implemented in three different ways: using an Ewald scheme, a particle mesh Ewald (PME) method, and a multigrid-based approach. We find that even though the use of the McMurchie-Davidson formalism considerably reduces the cost of the calculation with respect to the standard matrix implementation of multipole interactions, the calculation in direct space remains expensive. When most of the calculation is moved to reciprocal space via the PME method, the cost of a calculation where all multipolar interactions (up to hexadecapole-hexadecapole) are included is only about 8.5 times more expensive than a regular AMBER 7 [D. A. Pearlman et al., Comput. Phys. Commun. 91, 1 (1995)] implementation with only charge-charge interactions. The multigrid implementation is slower but shows very promising results for parallelization. It provides a natural way to interface with continuous, Gaussian-based electrostatics in the future. It is hoped that this new formalism will facilitate the systematic implementation of higher order multipoles in classical biomolecular force fields.

Algorithms↗
PubMed1989

New high-flow "cloud" catheter for safer delivery of contrast material.

The authors describe a new angiographic catheter, which delivers equal flow rates through the side holes and reduced flow through the end hole compared with conventional catheters. Computer analysis of catheter-flow models revealed that placement of larger side holes proximally and smaller side holes distally produces more uniform flow rates out of the holes. This decreases the risk of potentially hazardous delivery of high-pressure jets of contrast material from the end hole. The flow pattern is so uniform that it resembles a cloud of contrast material on injection. This catheter design is particularly applicable for 3-5-F catheters, which require high-pressure injections. Clinical testing in 50 cases revealed no extravasations or unintentional selective injections with use of this catheter.

Angiography↗
PubMed2006

United states regulations for siting LNG terminals: problems and potential.

The regulations being applied to liquefied natural gas (LNG) import terminal siting in the United States are reviewed. There are no requirements for exclusion zones to protect the public from LNG spills onto water. Serious problems with current practices used to determine exclusion zones on the land-based part of the facility are identified. Many of the questions that are considered relate to the use of computational fluid dynamic (CFD) models, which appear to offer the best potential for realistic modeling to determine vapor cloud exclusion zones that result from LNG spills into impounded areas with or without dispersion in the presence of other obstacles to the wind flow. Failure to use CFD models, which are already approved by the regulation, and continued use of practices which have been demonstrated to be in error, raises important questions of credibility as well as denies the applicant full use of scientific tools that are available to optimize the design of such facilities so as to best provide for safety of the public.

Accidents↗
PubMed2003

Rationalization of membrane protein crystallization with polyethylene glycol using a simple depletion model.

Based on the importance of crystallizing membrane proteins in a rational way, cytochrome bc(1) complex (BC1) was crystallized using polyethylene glycol (PEG) as a sole crystallization agent. Interaction between protein-detergent complexes of BC1 was estimated by dynamic light scattering, and was compared with the numerical calculation using the Derjaguin-Landau-Verwey-Overbeek potential plus a depletion potential, without considering specific surface properties of the protein-detergent complexes. The experiments and calculation were found to be consistent and we obtained a relation between PEG molecular weight M and the range of depletion zone delta as delta approximately M(0.48+/-0.02). The stability of liquid phase of BC1 solutions was controlled by a ratio of (the range of depletion zone)/(the radius of a BC1 particle), which was consistent with recent theoretical predictions. The crystallization was most successful under a condition where the stability of the liquid phase changed from stable to unstable. The PEG molecular weight that fulfilled this condition coincided with the one used empirically to crystallize BC1 in the past by a number of groups. These results are compared to the fact that membrane proteins were often successfully crystallized close to the detergent cloud point.

Animals↗
PubMed1992

[Bilateral epidural hematomas].

Bilateral epidural haematomata are rare and comprise only approximately 2% of all the intracranial haematomata. The symptomatology frequently differs from that of unilateral haematomata in that lateralisation is frequently absent. Most commonly, protracted or secondary development of clouding of consciousness is encountered. In cases of head injury, the above mentioned symptoms are indications for emergency computed tomographic (CT) scanning. When operation is performed early, the prognosis is good.

Adult↗
PubMed2007

The medial scaffold of 3D unorganized point clouds.

We introduce the notion of the medial scaffold, a hierarchical organization of the medial axis of a 3D shape in the form of a graph constructed from special medial curves connecting special medial points. A key advantage of the scaffold is that it captures the qualitative aspects of shape in a hierarchical and tightly condensed representation. We propose an efficient and exact method for computing the medial scaffold based on a notion of propagation along the scaffold itself, starting from initial sources of the flow and constructing the scaffold during the propagation. We examine this method specifically in the context of an unorganized cloud of points in 3D, e.g., as obtained from laser range finders, which typically involve hundreds of thousands of points, but the ideas are generalizable to data arising from geometrically described surface patches. The computational bottleneck in the propagation-based scheme is in finding the initial sources of the flow. We thus present several ideas to avoid the unnecessary consideration of pairs of points which cannot possibly form a medial point source, such as the "visibility" of a point from another given a third point and the interaction of clusters of points. An application of using the medial scaffold for the representation of point samplings of real-life objects is also illustrated.

Algorithms↗
PubMed1997

Neutron RBEs for cytopenia and repopulation of stroma and hematopoietic stem cells: mathematical models of marrow cell kinetics.

The objectives of this study were to (a) extend previous bone-marrow cell kinetics models that have been published for ionizing photons to include neutron radiations, and (b) provide Relative Biological Effectiveness (RBE) values for time-specific cell killing (cytopenia) and compensatory cellular proliferation (repopulation in response to toxic injury) for neutron doses ranging from 0.01 to 4.5 Gy delivered uniformly over one minute, hour, day, week, and month. RBEs for cytopenia of a cell lineage were based on ratios of protocol-specific doses that determined the same cell population nadir, whereas the RBEs for repopulation of a lineage were based on the ratios of protocol-specific doses that corresponded to the same total number of cells killed over the radiation treatments, and which should be replaced for long-term survival of the animal. Time-dependent RBEs were computed for neutron exposures relative to the effect of 60Co gamma rays given as a prompt dose. By the use of these RBE factors, low or variable dose rates, dose fractionations given over long periods of time, and different protocols involving several radiation qualities can be converted realistically, and by standard convention, into an equivalent dose of a reference radiation comprised of x or gamma rays given either as a pulse or at any other reference dose rate for which risk information based on epidemiological or animal dose-response data are available. For stromal tissues irradiated by fission neutrons, time-dependent RBEs for cytopenia were computed to range from 4.24 to 0.70 and RBEs for repopulation varied from a high of 6.88 to a low of 2.24. For hematopoietic stem cells irradiated by fission neutrons, time-dependent RBEs for cytopenia were computed to range from 5.02 to 0.22 and RBEs for repopulation varied from a high of 5.02 to a low of 1.98. RBEs based on tissue-kerma-free-in-air would be about twofold lower for isotropic cloud or rotational exposure geometries because marrow dose from isotropic neutron fields suffer factor-of-two greater attenuation than the gamma doses from gamma photons. For certain doses and dose rates, the RBE values computed for compensatory cellular proliferation clearly demonstrate the behavior that is commonly referred to as an inverse dose-rate effect, i.e., protraction of exposure may-under certain conditions-increase the magnitude of the dose response. Furthermore, because of non-linear rates for repair and repopulation, the highest RBEs are not necessarily found for the lowest doses nor the lowest RBEs always found at the highest doses.

Animals↗
PubMed2005

On the colors of distant objects.

Distant objects like clouds, mountains, and the Sun can appear to have colors that are significantly different from their intrinsic colors: the low Sun is often red, white clouds and snow-capped peaks appear yellow or pink, and dark green or gray mountains can appear blue or purple. The color alteration increases with distance, or alternatively, optical depth. We investigate the perceived colors of distant objects by computing the CIE chromaticity coordinates from their spectra. For sources viewed through significant amounts of atmosphere (e.g., the low Sun), MODTRAN4 radiative-transfer calculations are used to retrieve the spectra. In addition to clouds and mountains, the colors of stars, the Sun, and the sky are presented as a function of solar elevation under a variety of atmospheric conditions.

Journal Article↗
PubMed2006

Three dimensional visualisation of human facial exposure to solar ultraviolet.

A three dimensional computer model of the human face has been developed to represent solar ultraviolet exposures recorded by dosimeter measurements on a manikin headform under low cloud conditions and various solar zenith angles. Additionally, polysulfone dosimeters have been successfully miniaturised to provide the detailed measurements required across the face. The headform used in this research was scanned at 709 individual locations to make a wireframe mesh consisting of 18 vertical contours and 49 horizontal contours covering half the manikin's frontal facial topography. Additionally, the back of the headform and neck have also been scanned at 576 locations. Each scanned location has been used as a viable dosimeter position on the headform and represents a grid intersection point on the developed computer wireframe. A series of exposures recorded by dosimeters have been translated into three dimensional exposure ratio maps, representing ambient solar ultraviolet exposure. High dosimeter density has allowed for the development of individual topographic contour models which take into account complex variation in the face and improve upon previously employed techniques which utilise fewer dosimeters to interpolate exposure across facial contours. Exposure ratios for solar zenith angle ranges of 0 degrees -30 degrees, 30 degrees -50 degrees, and 50 degrees -80 degrees have been developed.

Computer Simulation↗
PubMed1989

The thermal structure of Titan's atmosphere.

We have developed a radiative-convective model of the thermal structure of Titan's atmosphere. The model computes the solar and infrared radiation in a series of spectral intervals with vertical resolution. Sources of opacity in the visible and near infrared include stratospheric haze particles, methane cloud particles, and gaseous methane; sources of opacity in the thermal infrared include the pressure-induced opacity of N2, CH4, and H2, the permitted transitions of C2H2 and C2H6, and particulate opacity. The haze properties are determined with a simple microphysics model. The model contains a minimum of free parameters and we try to determine these by fits to independent data sets. We find that gas and haze opacity alone, with the temperatures fixed by Voyager observations, produces a model that is within a few percent of radiative convective balance everywhere in the atmosphere. In a self-consistent computation of temperatures, we find that our model calculation for the surface temperature is, in general, colder than the observed value by 5-10 degrees K. The presence or absence of methane condensation clouds only slightly alters the results. Good agreement can be obtained by adjusting the parameters in the model. The model parameters in these optimized cases are typically within 15% of the baseline values and within the limits allowed by observations. We conclude that the most important factors controlling Titan's thermal structure are absorption of sunlight by the stratospheric haze and the pressure-induced gas opacity in the infrared. Within the uncertainties of the model, these effects can explain the observed temperature profile. Condensation clouds play a minor role, if any.

Atmosphere↗
PubMed2004

Model simulations of the Arctic atmospheric boundary-layer from the SHEBA year.

We present Arctic atmospheric boundary-layer modeling with a regional model COAMPS, for the Surface Heat Budget of the Arctic Ocean (SHEBA) experiment. Model results are compared to soundings, near-surface measurements and forecasts from the ECMWF model. The near-surface temperature is often too high in winter, except in shorter periods when the boundary layer was cloud-capped and well-mixed due to cloud-top cooling. Temperatures are slightly too high also during the summer melt season. Effects are too high boundary-layer moisture and formation of too dense stratocumulus, generating a too deep well-mixed boundary layer with a cold bias at the simulated boundary-layer top. Errors in temperature and therefore moisture are responsible for large errors in heat flux, in particular in solar radiation, by forming these clouds. We conclude that the main problems lie in the surface energy balance and the treatment of the heat conduction through the ice and snow and in how low-level clouds are treated.

Arctic Regions↗
PubMed1997

Analysis of the role of the Spitzenkörper in fungal morphogenesis by computer simulation of apical branching in Aspergillus niger.

High-resolution video microscopy, image analysis, and computer simulation were used to study the role of the Spitzenkörper (Spk) in apical branching of ramosa-1, a temperature-sensitive mutant of Aspergillus niger. A shift to the restrictive temperature led to a cytoplasmic contraction that destabilized the Spk, causing its disappearance. After a short transition period, new Spk appeared where the two incipient apical branches emerged. Changes in cell shape, growth rate, and Spk position were recorded and transferred to the FUNGUS SIMULATOR program to test the hypothesis that the Spk functions as a vesicle supply center (VSC). The simulation faithfully duplicated the elongation of the main hypha and the two apical branches. Elongating hyphae exhibited the growth pattern described by the hyphoid equation. During the transition phase, when no Spk was visible, the growth pattern was nonhyphoid, with consecutive periods of isometric and asymmetric expansion; the apex became enlarged and blunt before the apical branches emerged. Video microscopy images suggested that the branch Spk were formed anew by gradual condensation of vesicle clouds. Simulation exercises where the VSC was split into two new VSCs failed to produce realistic shapes, thus supporting the notion that the branch Spk did not originate by division of the original Spk. The best computer simulation of apical branching morphogenesis included simulations of the ontogeny of branch Spk via condensation of vesicle clouds. This study supports the hypothesis that the Spk plays a major role in hyphal morphogenesis by operating as a VSC-i.e., by regulating the traffic of wall-building vesicles in the manner predicted by the hyphoid model.

Aspergillus niger↗