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PubMed2003

Coronary calcium scoring: modelling, predicting and correcting for the effect of CT scanner spatial resolution on Agatston and volume scores.

The purpose of this study was to evaluate the impact of spatial resolution on coronary calcium scoring by x-ray CT, to assess the scoring performance of different CT scanners as they are operated in the field and to correct for the effects of CT scanner spatial resolution on coronary calcium scoring. A phantom consisting of five aluminium wires of known diameter in water was used to measure spatial resolution and to assess scoring performance. Fourteen CT scanners (three helical, two dual, two electron-beam and seven multi-detector) from four manufacturers were evaluated, some under different operating conditions. One scanner was monitored over a 3 month period and again 6 months later. Both spatial resolution and image pixel size significantly affect calcium scoring results. Spatial resolution can be measured with a precision of about 2%. Scanner spatial resolution ranged from 1 to 1.7 mm full-width-half-maximum (FWHM), and pixel size from 0.25 to 0.86 mm. Spatial resolution differences introduce systematic scoring differences that range from 38% to 1100% depending on wire size. Significant temporal variations in spatial resolution were observed in the monitored scanner. By correcting all the scanners to the same target spatial resolution, the standard deviation of individual scanners with respect to a mean value (the spread) can be reduced by 25-70% for different wires. In conclusion, scanner spatial resolution significantly affects calcium scoring and should be controlled for. Scanner performance can change over time. Under ideal conditions, CT scanners should be operated with a standard spatial resolution for calcium scoring. When this is not possible, post-processing correction is a viable alternative.

Arteriosclerosis↗
PubMed1993

The contribution of intracortical connections to horizontal spread of activity in the neocortex as revealed by voltage sensitive dyes and a fast optical recording method.

Coronal slices from guinea-pig visual neocortex were stained with voltage-sensitive fluorescence dyes RH414 or RH795. Activity was evoked by electrical stimulation of either the white matter or layer I. Emitted light intensity changes representing summated changes of membrane potential were recorded by a 10 x 10 photodiode array with a temporal resolution of 0.4 ms and a spatial resolution of 94 microns. The distribution and spread of activity in the horizontal direction was analysed. Following stimulation of the white matter or layer I, two regions of activity were differentiated in the medio-lateral direction: a central region (approximately 1 mm wide) of high-amplitude activity close to the stimulation electrode and, distant from the stimulation electrode, peripheral regions of low-amplitude activity. Central and peripheral regions differed in their rates of decline, their relative extent with stimulation of different sites and within different layers. The total extent of non-synaptic evoked activity did not exceed that of the central region of high-amplitude activity. Along the extent of non-synaptic activity, onset latencies of potentials were almost constant. Thus, activity of high amplitude in the central region was likely mediated by simultaneous activation of distributed afferent fibres. In contrast, no non-synaptic activity was found in peripheral regions. Therefore it is suggested that this low-amplitude activity was mediated without direct afferent activation but via long-distance intracortical horizontal pathways. These pathways are known to terminate in layer III, and accordingly latencies of responses in the periphery were shortest in upper cortical layers, whereas in the central region, latencies increased from lower to upper cortical layers.

Animals↗
PubMed1999

Adapting a compact confocal microscope system to a two-photon excitation fluorescence imaging architecture.

Within the framework of a national National Institute of Physics of Matter (INFM) project, we have realised a two-photon excitation (TPE) fluorescence microscope based on a new generation commercial confocal scanning head. The core of the architecture is a mode-locked Ti:Sapphire laser (Tsunami 3960, Spectra Physics Inc., Mountain View, CA) pumped by a high-power (5 W, 532 nm) laser (Millennia V, Spectra Physics Inc.) and an ultracompact confocal scanning head, Nikon PCM2000 (Nikon Instruments, Florence, Italy) using a single-pinhole design. Three-dimensional point-spread function has been measured to define spatial resolution performances. The TPE microscope has been used with a wide range of excitable fluorescent molecules (DAPI, Fura-2, Indo-1, DiOC(6)(3), fluoresceine, Texas red) covering a single photon spectral range from UV to green. An example is reported on 3D imaging of the helical structure of the sperm head of the Octopus Eledone cirrhosa labelled with an UV excitable dye, i.e., DAPI. The system can be easily switched for operating both in conventional and two-photon mode.

Animals↗
PubMed2000

Forced expression of a dominant-negative chimeric tropomyosin causes abnormal motile behavior during cell division.

Forced expression of the chimeric human fibroblast tropomyosin 5/3 (hTM5/3) in CHO cell was previously shown to affect cytokinesis [Warren et al., 1995: J. Cell Biol. 129:697-708]. To further investigate the phenotypic consequences of misexpression, we have compared mitotic spindle organization and dynamic 2D and 3D shape changes during mitosis in normal cells and in a hTM5/3 misexpressing (mutant) cell line. Immunofluorescence microscopy of wild type and mutant cells stained with monoclonal anti-tubulin antibody revealed that the overall structures of mitotic spindles were not significantly different. However, the axis of the mitotic spindle in mutant cells was more frequently misaligned with the long axis of the cell than that of wild type cells. To assess behavioral differences during mitosis, wild type and mutant cells were reconstructed in 2D and 3D and motion analyzed with the computer-assisted 2D and 3D Dynamic Image Analysis Systems (2D-DIAS, 3D-DIAS). Mutant cells abnormally formed large numbers of blebs during the later stages of mitosis and took longer to proceed from the start of anaphase to the start of cytokinesis. Furthermore, each mutant cell undergoing mitosis exhibited greater shape complexity than wild type cells, and in every case lifted one of the two evolving daughter cells off the substratum and abnormally twisted. These results demonstrate that misexpression of hTM5/3 in CHO cells leads to morphological instability during mitosis. Misexpression of hTM5/3 interferes with normal tropomyosin function, suggesting in turn that tropomyosin plays a role through its interaction with actin microfilaments in the regulation of the contractile ring, in the localized suppression of blebbing, in the maintenance of polarity and spatial symmetry during cytokinesis, and in cell spreading after cytokinesis is complete.

Animals↗
PubMed1996

Persistence and dynamics in lattice models of epidemic spread.

We present a simple epidemic model representing the spread of a communicable disease in a spatially extended host population. The model falls into the general class of techniques which utilise lattice based simulation as a way of incorporating spatial effects. The factors relating to the persistence and dynamics of the disease are investigated. There exists a clear population threshold below which the disease dies out and above which it settles to an endemically stable state. The rate of population mixing is shown to affect this threshold density. Equations which accurately account for the mean-field limit of the model are introduced and the relevance to the epidemiological modelling of measles is discussed.

Communicable Diseases↗
PubMed1993

Activation waves in a model of platelet aggregation: existence of solutions and stability of travelling fronts.

Platelets cohere to one another to form platelet aggregates as part of the blood's clotting response. The ability of a platelet to participate in this process depends on its prior 'activation' by chemicals released into the blood plasma by other activated platelets. We study the piecewise-linear system of reaction-diffusion equations which, in one spatial dimension, describe the chemically-mediated spread of platelet activation. We establish the existence of classical solutions to this system of equations, and show that these solutions do not blow up in finite time. We also explicitly construct travelling front solutions and discuss their stability. Finally, we present numerical evidence which suggests that for a broad range of initial data with the correct limiting values at +/- infinity, the solution to the initial value problem rapidly evolves into the travelling front solution provided the front is linearly stable.

Animals↗
PubMed2006

A GIS tool to estimate West Nile virus risk based on a degree-day model.

West Nile virus (Flaviviridae: Flavivirus) is a serious infectious disease that recently spread across the North America continent. A spatial analysis tool was developed on the ArcMap 9.x platform to estimate potential West Nile virus activity using a spatially explicit degree-day model. The model identifies when the virus Extrinsic Incubation Period (EIP) is completed within the vector longevity during mid-summer months. The EIP is treated as a threshold indicator of the potential for virus emergence and activity. Comparing the number of West Nile virus cases in Wyoming reported from 2003 to 2005 with model results, actual cases and predicted events of West Nile virus activity match relatively well. The model represents a useful method for estimating potential West Nile virus activity in a large spatial scale.

Disease Outbreaks↗
PubMed2006

Simulation analyses to evaluate alternative control strategies for the 2002 foot-and-mouth disease outbreak in the Republic of Korea.

Using the stochastic and spatial simulation model of between-farm spread of disease, InterSpread Plus, we evaluated the effect of alternative strategies for controlling the 2002 epidemic of foot-and-mouth disease (FMD) in the Republic of Korea. InterSpread Plus was parameterised to simulate epidemics of FMD in the population of farms containing susceptible animal species in the Korean counties of Yongin, Icheon, Pyongtaek, Anseong, Eumseong, Asan, Cheonan, and Jincheon. The starting point of our analyses was the simulation of a reference strategy, which approximated the real epidemic. The results of simulations of alternative epidemic-control strategies were compared with this reference strategy. Ring vaccination (when used with either limited or extended pre-emptive depopulation) reduced both the size and variability of the predicted number of infected farms. Reducing the time between disease incursion and commencement of controls had the greatest effect on reducing the predicted number of infected farms.

Animals↗
PubMed2004

Effects of dispersal mechanisms on spatio-temporal development of epidemics.

The nature of pathogen transport mechanisms strongly determines the spatial pattern of disease and, through this, the dynamics and persistence of epidemics in plant populations. Up to recently, the range of possible mechanisms or interactions assumed by epidemic models has been limited: either independent of the location of individuals (mean-field models) or restricted to local contacts (between nearest neighbours or decaying exponentially with distance). Real dispersal processes are likely to lie between these two extremes, and many are well described by long-tailed contact kernels such as power laws. We investigate the effect of different spatial dispersal mechanisms on the spatio-temporal spread of disease epidemics by simulating a stochastic Susceptible-infective model motivated by previous data analyses. Both long-term stationary behaviour (in the presence of a control or recovery process) and transient behaviour (which varies widely within and between epidemics) are examined. We demonstrate the relationship between epidemic size and disease pattern (characterized by spatial autocorrelation), and its dependence on dispersal and infectivity parameters. Special attention is given to boundary effects, which can decrease disease levels significantly relative to standard, periodic geometries in cases of long-distance dispersal. We propose and test a definition of transient duration which captures the dependence of transients on dispersal mechanisms. We outline an analytical approach that represents the behaviour of the spatially-explicit model, and use it to prove that the epidemic size is predicted exactly by the mean-field model (in the limit of an infinite system) when dispersal is sufficiently long ranged (i.e. when the power-law exponent a</=2).

Disease Outbreaks↗
PubMed1998

A two-patch model of Gambian sleeping sickness: application to vector control strategies in a village and plantations.

A compartmental model is described for the spread of Gambian sleeping sickness in a spatially heterogeneous environment in which vector and human populations migrate between two "patches": the village and the plantations. The number of equilibrium points depends on two "summary parameters": gr the proportion removed among human infections, and R0, the basic reproduction number. The origin is stable for R0 < 1 and unstable for R0 > 1. Control strategies are assessed by studying the mix of vector control between the two patches that bring R0 below 1. The results demonstrate the importance of vector control in the plantations. For example if 20 percent of flies are in the village and the blood meal rate in the village is 10 percent, then a 20 percent added vector mortality in the village must be combined with a 9 percent added mortality in the plantations in order to bring R0 below 1. The results are quite insensitive to the blood meal rate in the village. Optimal strategies (that minimize the total number of flies trapped in both patches) are briefly discussed.

Communicable Disease Control↗
PubMed2001

Nitrogen isotope ratios in pine bark as an indicator of N emissions from anthropogenic sources.

The article describes the use of Scots pine bark to identify nitrogen sources in eastern Germany, as well as background areas in Russia and Bulgaria, by using natural isotope ratios of total nitrogen (Nt) and individual N compounds such as ammonium (NH4+), nitrate (NO3-) and amid nitrogen (amide-N). The samples collected were analysed using an elemental analyser in connection with a gas isotope mass spectrometer (EA-IRMS). Natural 15N abundances in pine bark from impact areas suggest that the ammonium accumulated on the surface of the bark is released from livestock management. Bark of Scots pines growing near agricultural land had highly depleted delta15Nt values (between -8 and -12 one thousand percent), while bark from background areas (unpolluted areas) displayed slightly negative delta15Nt values (mean 15Nt = -3.8 one thousand percent). It is assumed that part of the N adsorbed on the bark surface is mainly derived from ammonia (mean 15Nt = -40.3 one thousand percent) escaping from livestock housing and during the application of manure. This assumption is confirmed by experiments under controlled conditions in which manure samples were spread on soil. In addition, temporal and spatial variations of 15Nt abundances in pine bark from various locations in eastern Germany as well as pine stands in Nature Park Dübener Heath are discussed.

Agriculture↗
PubMed1998

Limitations of clinical CT in assessing cortical thickness and density.

The peak CT number (CT) and full width at half maximum (FWHM) were obtained from the image profiles of aluminium of thickness ranging from 0.1-9.5 mm. The scans were performed at different fields of view (FOVs) and with different reconstruction algorithms ('bone' and 'standard'). Above 3 mm, CT and FWHM provide measures of the density and thickness which are largely independent of FOV (i.e. pixel size) and algorithm. Below 3 mm, CT falls progressively whilst FWHM remains relatively constant. At these small thicknesses the effect of FOV on CT is more pronounced when the bone algorithm is used, whilst FWHM remains relatively constant and independent of both FOV and algorithm. The results are discussed in terms of thickness relative to pixel size and spatial resolution as characterized by the point spread function. A linear relationship was found between the product CT x FWHM and thickness that is independent of both FOV and algorithm. This product may be useful in studies of cortical bone and changes due to osteoporosis.

Algorithms↗
PubMed2005

Fully 3D Monte Carlo reconstruction in SPECT: a feasibility study.

In single photon emission computed tomography (SPECT) with parallel hole collimation, image reconstruction is usually performed as a set of bidimensional (2D) analytical or iterative reconstructions. This approach ignores the tridimensional (3D) nature of scatter and detector response function that affects the detected signal. To deal with the 3D nature of the image formation process, iterative reconstruction can be used by considering a 3D projector modelling the 3D spread of photons. In this paper, we investigate the value of using accurate Monte Carlo simulations to determine the 3D projector used in a fully 3D Monte Carlo (F3DMC) reconstruction approach. Given the 3D projector modelling all physical effects affecting the imaging process, the reconstruction problem is solved using the maximum likelihood expectation maximization (MLEM) algorithm. To validate the concept, three data sets were simulated and F3DMC was compared with two other 3D reconstruction strategies using analytical corrections for attenuation, scatter and camera point spread function. Results suggest that F3DMC improves spatial resolution, relative and absolute quantitation and signal-to-noise ratio. The practical feasibility of the approach on real data sets is discussed.

Algorithms↗
PubMedDate not supplied

X-ray scatter removal by deconvolution.

The distribution of scattered x rays detected in a two-dimensional projection radiograph at diagnostic x-ray energies is measured as a function of field size and object thickness at a fixed x-ray potential and air gap. An image intensifier-TV based imaging system is used for image acquisition, manipulation, and analysis. A scatter point spread function (PSF) with an assumed linear, spatially invariant response is modeled as a modified Gaussian distribution, and is characterized by two parameters describing the width of the distribution and the fraction of scattered events detected. The PSF parameters are determined from analysis of images obtained with radio-opaque lead disks centrally placed on the source side of a homogeneous phantom. Analytical methods are used to convert the PSF into the frequency domain. Numerical inversion provides an inverse filter that operates on frequency transformed, scatter degraded images. Resultant inverse transformed images demonstrate the nonarbitrary removal of scatter, increased radiographic contrast, and improved quantitative accuracy. The use of the deconvolution method appears to be clinically applicable to a variety of digital projection images.

Computer Simulation↗
PubMed1997

The transneuronal spread phenotype of herpes simplex virus type 1 infection of the mouse hind footpad.

The mouse hind footpad inoculation model has served as a standard laboratory system for the study of the neuropathogenesis of herpes simplex virus type 1 (HSV-1) infection. The temporal and spatial distribution of viral antigen, known as the transneuronal spread phenotype, has not previously been described; nor is it understood why mice develop paralysis in an infection that involves sensory nerves. The HSV-as-transneuronal-tracer experimental paradigm was used to define the transneuronal spread of HSV-1 in this model. A new decalcification technique and standard immunocytochemical staining of HSV-1 antigens enabled a detailed analysis of the time-space distribution of HSV-1 in the intact spinal column. Mice were examined on days 3, 4, 5, and 6 postinoculation (p.i.) of a lethal dose of wild-type HSV-1 strain 17 syn+. Viral antigen was traced retrograde into first-order neurons in dorsal root ganglia on day 3 p.i., to the dorsal spinal roots on days 4 and 5 p.i., and to second- and third-order neurons within sensory regions of the spinal cord on days 5 and 6 p.i. HSV-1 antigen distribution was localized to the somatotopic representation of the footpad dermatome within the dorsal root ganglia and spinal cord. Antigen was found in the spinal cord gray and white matter sensory neuronal circuits of nociception (the spinothalamic tract) and proprioception (the dorsal spinocerebellar tract and gracile fasciculus). Within the brain stems and brains of three paralyzed animals examined late in infection (days 5 and 6 p.i.), HSV antigen was restricted to the nucleus subcoeruleus region bilaterally. Since motor neurons were not directly involved, we postulate that hindlimb paralysis may have resulted from intense involvement of the posterior column (gracile fasciculus) in the thoracolumbar spinal cord, a region known to contain the corticospinal tract in rodents.

Animals↗
PubMed2006

Functional unity of the ponto-cerebellum: evidence that intrapontine communication is mediated by a reciprocal loop with the cerebellar nuclei.

The majority of cerebral signals destined for the cerebellum are handed over by the pontine nuclei (PN), which thoroughly reorganize the neocortical topography. The PN maps neocortical signals of wide-spread origins into adjacent compartments delineated by spatially precise distribution of cortical terminals and postsynaptic dendrites. We asked whether and how signals interact on the level of the PN. Intracellular fillings of rat PN cells in vitro did not reveal any intrinsic axonal branching neither within the range of the cells' dendrites nor farther away. Furthermore, double whole cell patch recordings did not show any signs of interaction between neighboring pontine cells. Using simultaneous unit recording in the PN and cerebellar nuclei (CN) in rats in vivo, we investigated whether PN compartments interact via extrinsic reciprocal connections with the CN. Repetitive electrical stimulation of the cerebral peduncle of < or = 40 Hz readily evoked rapid sequential activation of PN and CN, demonstrating a direct connection between the structures. Stimulation of the PN gray matter led to responses in neurons < or = 600 microm away from the stimulation site at latencies compatible with di- or polysynaptic pathways via the CN. Importantly, these interactions were spatially discontinuous around the stimulation electrode suggesting that reciprocal PN-CN loops in addition reflect the compartmentalized organization of the PN. These findings are in line with the idea that the cerebellum makes use of the compartmentalized map in the PN to orchestrate the composition of its own neocortical input.

Action Potentials↗
PubMed2001

On the extinction of radiation by a homogeneous but spatially correlated random medium.

Exponential extinction of incoherent radiation intensity in a random medium (sometimes referred to as the Beer-Lambert law) arises early in the development of several branches of science and underlies much of radiative transfer theory and propagation in turbid media with applications in astronomy, atmospheric science, and oceanography. We adopt a stochastic approach to exponential extinction and connect it to the underlying Poisson statistics of extinction events. We then show that when a dilute random medium is statistically homogeneous but spatially correlated, the attenuation of incoherent radiation with depth is often slower than exponential. This occurs because spatial correlations among obstacles of the medium spread out the probability distribution of photon extinction events. Therefore the probability of transmission (no extinction) is increased.

Journal Article↗
PubMedDate not supplied

[Chemotaxis as a method for testing of the biological effects of silver nanoparticles].

A method for assessing the abiotic efficiency of water-dispersed nano-sized silver particles is suggested. Nanoparticles were obtained by the method of biochemical synthesis in reversed micelles made from anionic surfactant bis-(2-ethylhexyl) sodium sulfosuccinate (AOT). A water dispersion of nanoparticles was prepared from the micellar solution in organic solvent by means of a special procedure. The abiotic efficiency assay is based on the capacity of cells to respond by the negative chemotaxis to chemical agents with harmful metabolic action. In plasmodium of myxomicete Physarum polycephalum, the biocide and repellent effects of silver nanoparticles, Ag+ ions, and AOT were tested in order to compare the abiotic efficiency of these substances in water solution and after introduction into agar substrate. The increase in the oscillation period, the reduction in the area of spreading, and the avoidance reaction in the spatial test, taken together, revealed a much higher repellent efficiency of silver nanoparticles as compared with that of Ag+ ions and AOT. The NSP concentrations lethal for Physarum were similar to those found earlier for bacteria and viruses. The chemotaxis-based tests applied in this study allow one to quantitatively assess cell reactions and monitor their time course. Besides, they have a much higher resolving capacity than the tests based on lethal effects of abiotic substances.

Agar↗