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PubMed2004

Understanding the spatial clustering of severe acute respiratory syndrome (SARS) in Hong Kong.

We applied cartographic and geostatistical methods in analyzing the patterns of disease spread during the 2003 severe acute respiratory syndrome (SARS) outbreak in Hong Kong using geographic information system (GIS) technology. We analyzed an integrated database that contained clinical and personal details on all 1,755 patients confirmed to have SARS from 15 February to 22 June 2003. Elementary mapping of disease occurrences in space and time simultaneously revealed the geographic extent of spread throughout the territory. Statistical surfaces created by the kernel method confirmed that SARS cases were highly clustered and identified distinct disease "hot spots." Contextual analysis of mean and standard deviation of different density classes indicated that the period from day 1 (18 February) through day 16 (6 March) was the prodrome of the epidemic, whereas days 86 (15 May) to 106 (4 June) marked the declining phase of the outbreak. Origin-and-destination plots showed the directional bias and radius of spread of superspreading events. Integration of GIS technology into routine field epidemiologic surveillance can offer a real-time quantitative method for identifying and tracking the geospatial spread of infectious diseases, as our experience with SARS has demonstrated.

Databases, Factual↗
PubMed2004

Spatial heterogeneity, social structure and disease dynamics of animal populations.

Social groupings, population dynamics and population movements of animals all give rise to spatio-temporal variations in population levels. These variations may be of crucial importance when considering the spread of infectious diseases since infection levels do not increase unless there is a sufficient pool of susceptible individuals. This paper explores the impact of social groupings on the potential for an endemic disease to develop in a spatially explicit model system. Analysis of the model demonstrates that the explicit inclusion of space allows asymmetry between groups to arise when this was not possible in the equivalent spatially homogeneous system. Moreover, differences in movement behaviours for susceptible and infected individuals gives rise to different spatial profiles for the populations. These profiles were not observed in previous work on an epidemic system. The results are discussed in an ecological context with reference to furious and dumb strains of infectious diseases.

Animal Diseases↗
PubMed1989

Ultrasonic reflection mode imaging of the nonlinear parameter B/A. II: Signal processing.

The nonlinear acoustic interaction between a reflected single-frequency sinusoid and a broadband pump waveform propagating in the opposite direction produces phase changes in the probe proportional to the nonlinear parameter B/A in the spatial region of interaction. The instantaneous phase change along the received probe can be expressed as the convolution of the pump waveform with the spatial distribution of B/A along the propagation path over which the pump and reflected probe interact. In theory, the phase modulated sinusoidal probe can be processed (phase detection and deconvolution) to produce an "A-mode" representation of B/A. If the pump is an intense unipolar impulse and the probe a swept-frequency sinusoid, then the pump interacts with the probe at each point along the propagation path at a unique frequency. Thus the phase modulation that carries information about the spatial distribution of B/A can be extracted from the phase spectrum by a simple Fourier transformation analogous to the space to frequency mapping so basic to magnetic resonance imaging. If the impulsive pump is replaced by another swept-frequency sinusoid, then the phase change in the probe due to B/A at a particular point along the propagation path will be spread out for the duration of the pump along the probe. Passage of the received signal through an appropriate matched filter restores spatial coherence to the phase information in the probe so that it can be processed as if the pump were a broadbanded impulse. This approach suggests a means of approaching the design of effective pump waveforms that can resolve a wide range of spatial frequencies in (B/A)(x).

Algorithms↗
PubMed2002

Method to correct for the effects of limited spatial resolution in phase-contrast flow MRI measurements.

Phase-contrast (PC) magnetic resonance imaging (MRI) flow measurements suffer from the effect of the point spread function (PSF) due to the limited sampling of k-space. The PSF, which in this case is a sinc function, deforms the flow profile and forms a ringing pattern around the vessel. In this work, an empirical method is presented that corrects for errors due to the deformation of the flow profile. The ringing pattern is used to obtain a well-defined vessel segmentation, which after correction provides more accurate vessel radius and volume flow rate (VFR). The correction method was developed from phantom measurements at constant flow and applied on phantom measurements at moderately pulsatile flow. After correction, the error of the estimated tube radius and the VFR was less than 10% and 5%, respectively. Corresponding errors without correction overestimated the radius by 60% and the VFR by 35%. Preliminary results indicate that the method is also valid in vivo. The variation in the estimated radius and VFR for different spatial resolution decreased when the method was applied. The presented method gives a more accurate estimation of the radius and VFR in vessels of the size of a few pixels without prior knowledge about the true vessel radius.

Blood Flow Velocity↗
PubMed2006

Seasonal variations of PM10 and TSP in residential and industrial sites in an urban area of Kolkata, India.

The objective of the study is to investigate seasonal and spatial variations of PM10 (particulate matter with aerodynamic diameter less than or equal to 10 microm) and TSP (total suspended particulate matter) of an Indian Metropolis with high pollution and population density from November 2003 to November 2004. Ambient concentration measurements of PM10 and TSP were carried out at two monitoring sites of an urban region of Kolkata. Monitoring sites have been selected based on the dominant activities of the area. Meteorological parameters such as wind speed, wind direction, rainfall, temperature and relative humidity were also collected simultaneously during the sampling period from Indian Meteorological Department, Kolkata. The 24 h average concentrations of PM10 and TSP were found in the range 68.2-280.6 microg/m3 and 139.3-580.3 microg/m3 for residential (Kasba) area, while 62.4-401.2 microg/m3 and 125.7-732.1 microg/m3 for industrial (Cossipore) area, respectively. Winter concentrations of particulate pollutants were higher than other seasons, irrespective of the monitoring sites. It indicates a longer residence time of particulates in the atmosphere during winter due to low winds and low mixing height. Spread of air pollution sources and non-uniform mixing conditions in an urban area often result in spatial variation of pollutant concentrations. The higher particulate pollution at industrial area may be attributed due to resuspension of road dust, soil dust, automobile traffic and nearby industrial emissions. Particle size analysis result shows that PM10 is about 52% of TSP at residential area and 54% at industrial area.

Air Pollutants↗
PubMed1998

Statistical analysis of functional MRI data in the wavelet domain.

The use of the wavelet transform is explored for the detection of differences between brain functional magnetic resonance images (fMRI's) acquired under two different experimental conditions. The method benefits from the fact that a smooth and spatially localized signal can be represented by a small set of localized wavelet coefficients, while the power of white noise is uniformly spread throughout the wavelet space. Hence, a statistical procedure is developed that uses the imposed decomposition orthogonality to locate wavelet-space partitions with large signal-to-noise ratio (SNR), and subsequently restricts the testing for significant wavelet coefficients to these partitions. This results in a higher SNR and a smaller number of statistical tests, yielding a lower detection threshold compared to spatial-domain testing and, thus, a higher detection sensitivity without increasing type I errors. The multiresolution approach of the wavelet method is particularly suited to applications where the signal bandwidth and/or the characteristics of an imaging modality cannot be well specified. The proposed method was applied to compare two different fMRI acquisition modalities. Differences of the respective useful signal bandwidths could be clearly demonstrated; the estimated signal, due to the smoothness of the wavelet representation, yielded more compact regions of neuroactivity than standard spatial-domain testing.

Adult↗
PubMed2006

Anisotropy of cell adhesive microenvironment governs cell internal organization and orientation of polarity.

Control of the establishment of cell polarity is an essential function in tissue morphogenesis and renewal that depends on spatial cues provided by the extracellular environment. The molecular role of cell-cell or cell-extracellular matrix (ECM) contacts on the establishment of cell polarity has been well characterized. It has been hypothesized that the geometry of the cell adhesive microenvironment was directing cell surface polarization and internal organization. To define how the extracellular environment affects cell polarity, we analyzed the organization of individual cells plated on defined micropatterned substrates imposing cells to spread on various combinations of adhesive and nonadhesive areas. The reproducible normalization effect on overall cell compartmentalization enabled quantification of the spatial organization of the actin network and associated proteins, the spatial distribution of microtubules, and the positioning of nucleus, centrosome, and Golgi apparatus. By using specific micropatterns and statistical analysis of cell compartment positions, we demonstrated that ECM geometry determines the orientation of cell polarity axes. The nucleus-centrosome orientations were reproducibly directed toward cell adhesive edges. The anisotropy of the cell cortex in response to the adhesive conditions did not affect the centrosome positioning at the cell centroid. Based on the quantification of microtubule plus end distribution we propose a working model that accounts for that observation. We conclude that, in addition to molecular composition and mechanical properties, ECM geometry plays a key role in developmental processes.

Anisotropy↗
PubMed1999

Varying the degree of single-whisker stimulation differentially affects phases of intrinsic signals in rat barrel cortex.

Using intrinsic signal optical imaging (ISI), we have shown previously that the point spread of evoked activity in the rat barrel cortex in response to single-whisker stimulation encompasses a surprisingly large area. Given that our typical stimulation consists of five deflections at 5 Hz, the large area of evoked activity might have resulted from repetitive stimulation. Thus in the present study, we use ISI through the thinned skull to determine whether decreasing the degree of single-whisker stimulation decreases the area of the cortical point spread. We additionally outline a protocol to quantify stimulus-related differences in the temporal characteristics of intrinsic signals at a fine spatial scale. In 10 adult rats, whisker C2 was stimulated randomly with either one or five deflections delivered in a rostral-to-caudal fashion. Each deflection consisted of a 0.5-mm displacement of the whisker as measured at the point of contact, 15 mm from the snout. The number of whisker deflections did not affect the area or peak magnitude of the cortical point spread based on the intrinsic signal activity occurring from 0.5 up to 1.5 s poststimulus onset. In contrast, the magnitude and time course of intrinsic signal activity collected after 1.5-s poststimulus onset did reflect the difference in the degree of stimulation. Thus decreasing the degree of stimulation differentially affected the early and late phases of the evoked intrinsic signal response. The implications of the present results are discussed in respect to probable differences in the signal source underlying the early versus later phases of evoked intrinsic signals.

Afferent Pathways↗
PubMed2000

Spread rate for a nonlinear stochastic invasion.

Despite the recognized importance of stochastic factors, models for ecological invasions are almost exclusively formulated using deterministic equations [29]. Stochastic factors relevant to invasions can be either extrinsic (quantities such as temperature or habitat quality which vary randomly in time and space and are external to the population itself) or intrinsic (arising from a finite population of individuals each reproducing, dying, and interacting with other individuals in a probabilistic manner). It has been long conjectured [27] that intrinsic stochastic factors associated with interacting individuals can slow the spread of a population or disease, even in a uniform environment. While this conjecture has been borne out by numerical simulations, we are not aware of a thorough analytical investigation. In this paper we analyze the effect of intrinsic stochastic factors when individuals interact locally over small neighborhoods. We formulate a set of equations describing the dynamics of spatial moments of the population. Although the full equations cannot be expressed in closed form, a mixture of a moment closure and comparison methods can be used to derive upper and lower bounds for the expected density of individuals. Analysis of the upper solution gives a bound on the rate of spread of the stochastic invasion process which lies strictly below the rate of spread for the deterministic model. The slow spread is most evident when invaders occur in widely spaced high density foci. In this case spatial correlations between individuals mean that density dependent effects are significant even when expected population densities are low. Finally, we propose a heuristic formula for estimating the true rate of spread for the full nonlinear stochastic process based on a scaling argument for moments.

Animals↗
PubMed2006

Causal mapping as a tool to mechanistically interpret phenomena in cell motility: application to cortical oscillations in spreading cells.

Biological processes that occur at the cellular level and consist of large numbers of interacting elements are highly nonlinear and generally involve multiple time and spatial scales. The quantitative description of these complex systems is of great importance but presents large challenges. We outline a new systems biology approach, causal mapping (CMAP), which is a coarse-grained biological network tool that permits description of causal interactions between the elements of the network and overall system dynamics. On one hand, the CMAP is an intermediate between experiments and physical modeling, describing major requisite elements, their interactions and paths of causality propagation. On the other hand, the CMAP is an independent tool to explore the hierarchical organization of cell and the role of uncertainties in the system. It appears to be a promising easy-to-use technique for cell biologists to systematically probe verbally formulated qualitative hypotheses. We apply the CMAP to study the phenomenon of contractility oscillations in spreading cells in which microtubules have been depolymerized. The precise mechanism by which these oscillations are governed by a complex mechano-chemical system is not known but the data observed in experiments can be described by a CMAP. The CMAP suggests that the source of the oscillations results from the opposing effects of Rho activation leading to a decreased level of myosin light chain phosphatase and a cyclic calcium influx caused by increased membrane tension and leading to a periodically enhanced activation of myosin light chain kinase.

Animals↗
PubMedDate not supplied

Asymmetrical dynamics of voltage spread in retinal horizontal cell networks.

Lateral voltage spread in electrically coupled retinal horizontal cell networks is the substrate of center-surround antagonism in bipolar and ganglion cells. We studied its spatial and temporal properties in more detail in turtle L1 horizontal cells by using a contrast border as light stimulus. Experimental data were contrasted with expectations from a linear continuum model to specify the impact of nonlinearities. The assumptions for the diffusion term of the continuum model were justified by neurobiotin labeling. Measured voltage spread revealed two different length constants lambda+ and lambda0, under illuminated and nonilluminated regions of the retina, respectively, as predicted by the linear model. Length constants in the illuminated region showed strong temporal dynamics. For the initial phase of the horizontal cell responses lambda+ was larger than lambda0. This was also in accordance with the model. Right at the peak of the response, however, lambda+ dropped below lambda0 and did not change any more. It is this temporal reversal of asymmetry in voltage spread and not the decrease of lambda+ itself that is lacked by the linear model. The observed independence of the mean ratio lambda+/lambda0 from light intensity in both the peak and the plateau phases of horizontal cell responses contradicts the linear assumption, too. These two effects have to be addressed to local nonlinearities in the horizontal cell network like a negative feedback loop from photoreceptors and/or voltage-dependent conductances. Due to the failure of the linear model, firm conclusions about the membrane resistance and the coupling resistance of the horizontal cell network cannot be drawn from length constant measurements.

Animals↗
PubMed2005

Spatiotemporal complexity of patchy invasion in a predator-prey system with the Allee effect.

Invasion of an exotic species initiated by its local introduction is considered subject to predator-prey interactions and the Allee effect when the prey growth becomes negative for small values of the prey density. Mathematically, the system dynamics is described by two nonlinear diffusion-reaction equations in two spatial dimensions. Regimes of invasion are studied by means of extensive numerical simulations. We show that, in this system, along with well-known scenarios of species spread via propagation of continuous population fronts, there exists an essentially different invasion regime which we call a patchy invasion. In this regime, the species spreads over space via irregular motion and interaction of separate population patches without formation of any continuous front, the population density between the patches being nearly zero. We show that this type of the system dynamics corresponds to spatiotemporal chaos and calculate the dominant Lyapunov exponent. We then show that, surprisingly, in the regime of patchy invasion the spatially average prey density appears to be below the survival threshold. We also show that a variation of parameters can destroy this regime and either restore the usual invasion scenario via propagation of continuous fronts or brings the species to extinction; thus, the patchy spread can be qualified as the invasion at the edge of extinction. Finally, we discuss the implications of this phenomenon for invasive species management and control.

Animals↗
PubMed1979

Extracellular potentials related to intracellular action potentials during impulse conduction in anisotropic canine cardiac muscle.

This paper considers a quantitative description of intracellular and transmembrane currents in anisotropic muscle, with emphasis on the factors that determine the extracellular potentials. Although Vmax of the intracellular action potential had no relation to changes in conduction velocity in anisotropic tissue with constant membrane properties, the extracellular waveforms were quite sensitive to velocity changes. Large amplitude biphasic deflection occurred in the fast areas, and in the slow areas the waveforms were of lower amplitude and triphasic in shape; i.e., negative potentials preceded the biphasic positive-negative deflection. The extracellular potentials were simulated on the bases of a model of intracellular currents, and the theoretical and measured results showed good agreement. In tissue with anisotropic conductivity, the relationship between the spatial intracellualr potential gradient and the magnitude of the extracellular potential of the excitation wave was opposite to the classical relationship in isotropic tissue. Due to the influence of the effective intracellular conductivity on the spread of intracellular currents and on conduction velocity, in anisotropic tissue the extracellular potential decreased as the intracellular potential gradient increased. The peak values of the positive and negative potentials and the spatial distribution of the potential gradients varied considerably along the activation front. These findings were accounted for by differences in the distribution and spatial extent of the transmembrane currents, which were determined by the intracellular currents. The theoretical analysis showed that intracellular and transmembrane currents were proportional to the local conduction velocities of the wavefront. Thereby, it was not possible to have a "uniform layer" of current when there were differences in conduction velocity along the length of the excitation wave. The implications of the analysis are considerable, since the gratifying agreement between the theoretical and measured results indicates that the details of the extracellular waveforms can be explained on the basis of the distribution of intracellular currents; i.e., extracellular potentials provide a sensitive index of intracellular current flow.

Action Potentials↗
PubMed1983

Dopamine modulates S-potential amplitude and dye-coupling between external horizontal cells in carp retina.

Horizontal cells in the fish retina are electrically coupled and possess gap junctions so that intracellularly injected dye normally diffuses freely to neighbouring cells. Applied dopamine (DA) alters the spatial properties of the horizontal cell responses to light, increasing the amplitude of photopic L-type S-potentials but decreasing their lateral spread. These effects have been attributed to the action of DA on horizontal cell membrane resistance, particularly at the gap junctions, and our present study on the carp retina agrees with this in showing that DA also restricts intracellular Lucifer yellow (LY) to single injected horizontal cells, an effect, like those of DA on the S-potentials, which is antagonized by the dopamine blocker haloperidol. In addition, we present evidence that dopaminergic interplexiform cells in fish normally function to regulate the spatial properties of responses in horizontal cells, possibly acting on their junctional resistance via a DA-receptor-mediated mechanism. Previous destruction of the interplexiform cells with 6-hydroxydopamine (6-OHDA) resulted in much reduced L-type S-potentials to centred lights but wider lateral spread of these responses, while the dye injected spread extensively to neighbouring cells. After 6-OHDA treatment, however, applied DA retained its normal activity, restoring large-amplitude, narrow receptive-field S-potentials and restricting LY to the injected cells, effects which were both closely mimicked by dibutyryl cyclic AMP.

Action Potentials↗
PubMed1991

Position-specific adaptation in simple cell receptive fields of the cat striate cortex.

1. Responses of simple cells in cat striate cortex were studied with flashed light-slit stimuli. The responses to bars flashed in different positions in the receptive field were assessed quantitatively before and after periods of prolonged stimulation of one small region. This type of prolonged stimulation resulted in reduced responsivity over a limited zone within the simple cell receptive field. 2. The adaptation-induced responsivity decrement was generally confined to the receptive-field subregion that was adapted (either ON or OFF). Prolonged stimulation within an ON region did not usually result in adaptation effects that spread into neighboring OFF regions. Furthermore, the adaptation-induced response decrement did not necessarily spread throughout the subregion in which the adapting stimulus was presented. The adaptation effects from prolonged stimulation at a single receptive-field position spread throughout the subregion in nearly one-half of the 25 cells examined for position-specific adaptation. Another subpopulation of neurons (n = 12) displayed adaptation effects that spread through only one-half of the subregion, whereas in two neurons the spread of the adaptation effect was even more restricted and encompassed only one-fourth of the subregion. 3. The spread of adaptation was not systematically related to the size of the stimulus presented, the size of the receptive field, or the magnitude of the adaptation-induced response decrements but was significantly correlated with the spatial wavelength of the cell (the reciprocal of the cell's preferred spatial frequency) and with the size of the subregion in which the adapting stimulus was presented. Cells with large receptive-field subregions and long wave-lengths showed adaptation effects that spread further than those of cells with small subregions. 4. The adaptation effects from repeated stimulation at a single receptive-field position did not spread symmetrically across the receptive field, and the preferred direction of motion for a given cell indicated the direction of the asymmetric spread of the adaptation. Receptive-field positions that would be stimulated by a light slit originating at the point of adaptation and moving in the preferred direction (preferred side) showed greater adaptation-induced response decrements than did receptive-field positions that would be stimulated by a light slit moving in the opposite direction from the point of adaptation (nonpreferred side). There was significant enhancement of responses at some receptive-field positions on the nonpreferred side of the point of adaptation.(ABSTRACT TRUNCATED AT 400 WORDS)

Acclimatization↗
PubMed2001

Resolution enhancement in standing-wave total internal reflection microscopy: a point-spread-function engineering approach.

The theoretical basis for resolution enhancement in standing-wave total internal reflection microscopy (SW-TIRM) is examined. This technique relies on the formation of an excitation field containing super-diffraction-limited spatial-frequency components. Although the fluorescence generated at the object planes contains high-frequency information of the object distribution, this information is lost at the image plane, where the detection optics acts as a low-pass filter. From the perspective of point-spread-function (PSF) engineering, one can show that if this excitation field is translatable experimentally, the high-frequency information can be extracted from a set of images where the excitation fields have different displacement vectors. We have developed algorithms to combine this image set to generate a composite image with an effective PSF that is equal to the product of the excitation field and the Fraunhofer PSF. This approach can easily be extended to incorporate nonlinear excitation modalities into SW-TIRM for further resolution improvement. We theoretically examine high-resolution imaging based on the addition of two-photon, pump-probe, and stimulated-emission depletion methods to SW-TIRM and show that resolution better than 1/20 of the emission wavelength may be achievable.

Journal Article↗
PubMed2002

Proliferation and apoptosis in the developing human neocortex.

The cell kinetics of the developing central nervous system (CNS) is determined by both proliferation and apoptosis. In the human neocortex at week 6 of gestation, proliferation is confined to the ventricular zone, where mitotic figures and nuclear immunoreactivity for proliferating cell nuclear antigen (PCNA) are detectable. Cell division is symmetric, with both daughter cells reentering mitosis. At week 7, the subventricular zone, a secondary proliferative zone, appears. It mainly gives rise to local circuit neurons and glial cells. Around week 12, the ventricular and subventricular zones are thickest, and the nuclear PCNA label is strongest, indicating that proliferation peaks at this stage. Thereafter, asymmetric division becomes the predominant mode of proliferation, with one daughter cell reentering mitosis and the other one migrating out. Towards late gestation, the ventricular and subventricular zones almost completely disappear and proliferation shifts towards the intermediate and subplate zones, where mainly glial cells are generated. A remnant of the subventricular zone with proliferative activity persists into adulthood. In general, proliferation follows a latero-medial gradient in the neocortex lasting longer in its lateral parts. Apoptotic nuclei have been detected around week 5, occurring in low numbers in the ventricular zone at this stage. Apoptotic cell death increases around midgestation and then spreads throughout all cortical layers, with most dying cells located in the ventricular and subventricular zones. This spatial distribution of apoptosis extends into late gestation. During the early postnatal period, most apoptotic cells are still located in the subcortical layers. During early embryonic development, proliferation and apoptosis are closely related, and are probably regulated by common regulators. In the late fetal and early postnatal periods, when proliferation has considerably declined in all cortical layers, apoptosis may occur in neurons whose sprouting axons do not find their targets.

Apoptosis↗
PubMed1996

A simple model of recurrent epidemics.

A cellular automaton conceived as a simple model of disease spreading is investigated. We show that the steady-state of the model is described by a spatial organization of the infectious individuals on fronts and undamped temporal oscillations in the number of infectious individuals. This behaviour is observed both for a deterministic and a stochastic input of susceptible individuals, hence showing that recurrent epidemic behaviour can be persistent without any external forcing. The simplicity of the model suggests that such spatio--temporal behaviour can be obtained from nothing, but a direct transmission mechanism between nearest neighbors provided some mechanism for the introduction of new susceptible individuals, e.g., loss of immunity is present.

Computer Simulation↗