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Discrete breathers: exact solutions in piecewise linear models

Exact breather solutions are constructed in piecewise linear (PWL) versions of the discrete nonlinear Schrodinger and Klein-Gordon equations. These solutions correspond to intersections of stable and unstable manifolds of relevant fixed points in associated 2D mappings, an exact construction of which is possible due to the PWL nature of the models. Such exact solutions give us insight into several aspects of breather properties. The problem of dynamical stability of the breathers is mentioned as an instance, detailed results on which will be presented in a future paper.

Journal Article↗

Solving a linear model of nonfatal risk behavior and injuries in school children.

A calculating method and computer program have been developed for solving an overdetermined system of linear equations. It was applied for calculation of group risk exposure of school children (10-15 years) to nonfatal injuries in sport recreation and playing (SRP). Interviewed non-injured school children were separated into non-overlapping groups of risky behavior. Data on interviewed non-injured and non-interviewed injured children were put into a linear system of equations consisting of a 4 x 3 matrix scheme. Each equation represents children of the same age and sex and consists of the percentage of interviewed children grouped into high medium or low risk behavior and of the percentage of injured children. Four methods of calculating the matrix system were evaluated and the best implemented as a new developed computer program. The resulting linear group risk factors enable the prediction of behavior outcome. Data on interviewed injured children were compared with the results obtained. The validation procedure is proposed by testing the sensitivity and robustness of the method.

Adolescent↗

Linear modeling of the effect of intravenous histamine infusion on rat gastric acid secretion: a biostatistical evaluation by splitting the time-effect curves.

Lumen perfusion experiments have been widely employed for the evaluation of gastric acid secretion in rats. The advantage of the lumen perfusion models is the simplicity in evaluating the effectiveness of secretagogues and antisecretagogues. There is, however, no efficient methodology for biostatistical modeling of gastric acid secretion in lumen-perfused rats. In order to optimize methodology, we applied a linear regression model after splitting the time-effect curves obtained from histamine-induced gastric acid secretion in rats.

Animals↗

A systematic statistical linear modeling approach to oligonucleotide array experiments.

We outline and describe steps for a statistically rigorous approach to analyzing probe-level Affymetrix GeneChip data. The approach employs classical linear mixed models and operates on a gene-by-gene basis. Forgoing any attempts at gene presence or absence calls, the method simultaneously considers the data across all chips in an experiment. Primary output includes precise estimates of fold change (some as low as 1.1), their statistical significance, and measures of array and probe variability. The method can accommodate complex experiments involving many kinds of treatments and can test for their effects at the probe level. Furthermore, mismatch probe data can be incorporated in different ways or ignored altogether. Data from an ionizing radiation experiment on human cell lines illustrate the key concepts.

Cells, Cultured↗

Fit of four curve-linear models to decay profiles for pest control substances in soil.

Experiments that investigate the pattern of degradation of pest control substances in soil are often undertaken to estimate the persistence of compounds in the environment. Mathematical models are typically fit to decay data to facilitate the interpretation of the results and make predictions concerning the environmental fate of xenobiotics in soil. Four mathematical models were fit to 61 data sets to compare their performance in conforming to empirical patterns of degradation of pest control substances in soil. The use of composite residual plots allowed comparisons of the performance of the different models over many data sets. While an exponential model, estimated using nonlinear regression, fit many data sets very well, a shift-log, biexponential, and Monod equation appears superior in many cases, and systematic deviations from data sets are often less evident with the latter models. A knowledge of the patterns of bias typically exhibited by each model across many data sets may be useful for selecting models with reduced bias when fitting individual data sets.

Linear Models↗

Estimation of non-linear growth models by linearization: a simulation study using a Gompertz function.

A method based on Taylor series expansion for estimation of location parameters and variance components of non-linear mixed effects models was considered. An attractive property of the method is the opportunity for an easily implemented algorithm. Estimation of non-linear mixed effects models can be done by common methods for linear mixed effects models, and thus existing programs can be used after small modifications. The applicability of this algorithm in animal breeding was studied with simulation using a Gompertz function growth model in pigs. Two growth data sets were analyzed: a full set containing observations from the entire growing period, and a truncated time trajectory set containing animals slaughtered prematurely, which is common in pig breeding. The results from the 50 simulation replicates with full data set indicate that the linearization approach was capable of estimating the original parameters satisfactorily. However, estimation of the parameters related to adult weight becomes unstable in the case of a truncated data set.

Algorithms↗

Linear model of brain electrical activity--EEG as a superposition of damped oscillatory modes.

EEG time series were modeled as an output of the linear filter driven by white noise. Parameters describing the signal were determined in a way fulfilling the maximum entropy principle. Transfer function and the impulse response function were found. The solutions of the differential equations describing the system have the form of the damped oscillatory modes. The representation of the EEG time series as a superposition of the resonant modes with characteristic decay factors seems a valuable method of the analysis of the signal, since it offers high reduction of the data to the few parameters of a clear physiological meaning.

Animals↗

Piecewise-linear models of genetic regulatory networks: equilibria and their stability.

A formalism based on piecewise-linear (PL) differential equations, originally due to Glass and Kauffman, has been shown to be well-suited to modelling genetic regulatory networks. However, the discontinuous vector field inherent in the PL models raises some mathematical problems in defining solutions on the surfaces of discontinuity. To overcome these difficulties we use the approach of Filippov, which extends the vector field to a differential inclusion. We study the stability of equilibria (called singular equilibrium sets) that lie on the surfaces of discontinuity. We prove several theorems that characterize the stability of these singular equilibria directly from the state transition graph, which is a qualitative representation of the dynamics of the system. We also formulate a stronger conjecture on the stability of these singular equilibrium sets.

Genes, Regulator↗

Contrast normalization and a linear model for the directional selectivity of simple cells in cat striate cortex.

Previous tests of the linearity of spatiotemporal summation in cat simple cells have compared the responses to moving sinusoidal gratings and to gratings whose contrast was modulated sinusoidally in time. In particular, since a moving grating can be expressed as a sum of modulated gratings, the response to a moving grating should be predictable (assuming linearity) from the responses to modulated gratings. However, these simple linear predictions have shown varying degrees of failure (e.g. Reid et al., 1987, 1991), depending on the directional selectivity of the neurons (Tolhurst & Dean, 1991). We demonstrate here that the failures of these linear predictions are, in fact, explained by the contrast-normalization model of Heeger (1993). We concentrate on the ratio of the measured to predicted moving grating responses. In the context of the contrast-normalization model, calculating this ratio turns out to be particularly appropriate, since the ratio is independent of the precise details of the linear front-end mechanisms ultimately responsible for directional selectivity. Hence, the contrast-normalization model can be compared quantitatively with this ratio measure, by varying only one free parameter. When account is taken both of the expansive output nonlinearity and of contrast normalization, the directional selectivity of simple cells seems to be dependent only on linear spatiotemporal filtering.

Animals↗

The effects of scrambling on Spanish and Korean agrammatic interpretation: why linear models fail and structural models survive.

Several models of comprehension deficits in agrammatic aphasia rely heavily on linear considerations in the assignment of thematic roles to structural positions (e.g., the Trace-Deletion Hypothesis, the Mapping Hypothesis, and the Argument-Linking Hypothesis). These accounts predict that constructions in languages with rules that affect syntactic structure but preserve relative linear order should be unimpaired. Other models [e.g., the Double-Dependency Hypothesis, (DDH)] do not resort to linearity but are purely structural in conception and therefore should be immune to word-order effects. We tested linear and nonlinear accounts with scrambling structures in Korean and topicalization structures in Spanish. The results are very clear. The (nonlinear) DDH is entirely compatible with the evidence, but the linear accounts are not.

Adult↗

A linear model for the response time in motion prediction.

A linear relationship was found to exist between the response time and the concealment time in motion extrapolation experiments. It follows that the subjects performance is characterized by the two parameters of the linear relationship rather than by the error in determining the position of the occluded moving stimulus. These two parameters can be manipulated separetely by specific changes in the experimental arrangement. A suggestion is made that one of the parameters is connected with velocity estimation, while the other with internal organization and execution of the motor response.

Humans↗

The dynamics of quantifiable homeostasis. III: a linear model of certain metrical diseases.

A generalization of the linear, lagged, homeostatic process shows that whether a displacement of the trait function dies out with time, continues indefinitely, or shows a steadily amplifying (wild) oscillation depends on the value assumed by the product of the lag time and the restoration constant. Moreover, it is shown that if a steady displacing force is used rather than an instantaneous displacement, a new homing value results which is given by the ratio of the displacing force to the restoration coefficient. Combining these two developments furnishes grounds for determining whether or not an overshoot will occur when administration of a drug is stopped (for instance, the rebound thrombosis on discontinuing heparin). Further developments of these ideas show how the diabetes that begins in mature patients can be wholly accounted for by the well-known prolongation of the lag in insulin response that occurs in that disorder. If wild oscillation is to be avoided as the lag time increases, the restoration constant must be weakened (evidently by a systematic reduction in insulin receptors) and this weakening means that the homing value is displaced. Thus the hyperglycemia in this diabetes is to be seen as the price paid for avoiding wild oscillation. Provided that the therapeutic use of exogenous insulin is systematic and regular, rather than cybernetic, its success where endogenous (cybernetic) insulin secretion has failed is readily understood. The point is illustrated by a familiar analogy of a car driver with slow responses. The genetic and evolutionary implications of these ideas are outlined.

Cybernetics↗

Utility and limitations of linear models for echocardiographic estimation of left ventricular ejection fraction by segmental wall-motion scoring. A geometric analysis.

Although the geometric relation between left ventricular (LV) volume and its internal dimensions is nonlinear, recent clinical study has shown that LV ejection fraction (EF) predicted by a linear combination of segmental contraction scores correlates well with the EF by radionuclide angiography. To determine whether the linear coefficients found by empirical study are consistent with basic geometric principles, we compared the LV EF obtained by exact geometric calculation to the EF predicted using a simple linear combination of segmental contraction scores over a wide range of segmental function, from marked dyskinesis to marked hyperkinesis. We found that an optimal linear equation for global EF on geometric grounds is: Global EF = 4 + 0.28xC1 + 0.24xC2 + 0.12xC3, where C1, C2, and C3 are the mean segmental contraction scores at the base, mid-left ventricle, and the apex, respectively. The EF predicted by this formula differs by less than 6 percentage points from the EF predicted by exact geometry when segmental contraction ranges from normal to akinetic, and the coefficients are in close accord with those found empirically by regression of linearly-derived EFs against the radionuclide EFs in 50 patients. However, when segmental contraction is significantly hyperkinetic or dyskinetic, agreement with the exact geometric formula is poor. We conclude that: (1) a linear combination of segmental contraction scores can provide reasonable estimates of LV EF over a broad range of contraction; (2) previous, empirically determined linear coefficients are consistent with geometric principles; and (3) exact, nonlinear formulas may be required for ventricles with significant degrees of hyperkinesis or dyskinesis.

Echocardiography↗