ERIC Educational Resources Information Center
Cepeda-Cuervo, Edilberto; Núñez-Antón, Vicente
2013-01-01
In this article, a proposed Bayesian extension of the generalized beta spatial regression models is applied to the analysis of the quality of education in Colombia. We briefly revise the beta distribution and describe the joint modeling approach for the mean and dispersion parameters in the spatial regression models' setting. Finally, we…
ERIC Educational Resources Information Center
Campos, Jose Alejandro Gonzalez; Moraga, Paulina Saavedra; Del Pozo, Manuel Freire
2013-01-01
This paper introduces the generalized beta (GB) model as a new modeling tool in the educational assessment area and evaluation analysis, specifically. Unlike normal model, GB model allows us to capture some real characteristics of data and it is an important tool for understanding the phenomenon of learning. This paper develops a contrast with the…
Lasram, Frida Ben Rais; Hattab, Tarek; Halouani, Ghassen; Romdhane, Mohamed Salah; Le Loc'h, François
2015-01-01
Spatial patterns of beta diversity are a major focus of ecology. They can be especially valuable in conservation planning. In this study, we used a generalized dissimilarity modeling approach to analyze and predict the spatial patterns of beta diversity for commercially exploited, demersal marine species assemblages along the Tunisian coasts. For this study, we used a presence/absence dataset which included information on 174 species (invertebrates and fishes) and 9 environmental variables. We first performed the modeling analyses and assessed beta diversity using the turnover component of the Jaccard’s dissimilarity index. We then performed nonmetric multidimensional scaling to map predicted beta diversity. To delineate the biogeographical regions, we used fuzzy cluster analysis. Finally, we also identified a set of indicator species which characterized the species assemblages in each identified biogeographical region. The predicted beta diversity map revealed two patterns: an inshore-offshore gradient and a south-north latitudinal gradient. Three biogeographical regions were identified and 14 indicator species. These results constitute a first contribution of the bioregionalisation of the Tunisian waters and highlight the issues associated with current fisheries management zones and conservation strategies. Results could be useful to follow an Ecosystem Based Management approach by proposing an objective spatial partitioning of the Tunisian waters. This partitioning could be used to prioritize the adjustment of the actual fisheries management entities, identify current data gaps, inform future scientific surveys and improve current MPA network. PMID:26147371
Modeling Nucleon Generalized Parton Distributions
Radyushkin, Anatoly V.
2013-05-01
We discuss building models for nucleon generalized parton distributions (GPDs) H and E that are based on the formalism of double distributions (DDs). We found that the usual "DD+D-term" construction should be amended by an extra term, xiE^1_+ (x,xi) built from the alpha/Beta moment of the DD e(Beta,alpha) that generates GPD E(x,xi). Unlike the D-term, this function has support in the whole -1< x<1 region, and in general does not vanish at the border points |x|=xi.
Trials of the beta model for complex inheritance.
Collins, A; MacLean, C J; Morton, N E
1996-01-01
Theoretical advantages of nonparametric logarithm of odds to map polygenic diseases are supported by tests of the beta model that depends on a single logistic parameter and is the only model under which paternal and maternal transmissions to sibs of specified phenotypes are independent. Although it does not precisely describe recurrence risks in monozygous twins, the beta model has greater power to detect family resemblance or linkage than the more general delta model which describes the probability of 0, 1, or 2 alleles identical by descent (ibd) with two parameters. Available data on ibd in sibs are consistent with the beta model, but not with the equally parsimonious but less powerful gamma model that assumes a fixed probability of 1/2 for 1 allele ibd. Additivity of loci on the liability scale is not disproven. A simple equivalence extends the beta model to multipoint analysis. PMID:8799174
Beta Regression Finite Mixture Models of Polarization and Priming
ERIC Educational Resources Information Center
Smithson, Michael; Merkle, Edgar C.; Verkuilen, Jay
2011-01-01
This paper describes the application of finite-mixture general linear models based on the beta distribution to modeling response styles, polarization, anchoring, and priming effects in probability judgments. These models, in turn, enhance our capacity for explicitly testing models and theories regarding the aforementioned phenomena. The mixture…
Kenakin, T. P.
1980-01-01
1. The sensitization of guinea-pig atria and trachea to noradrenaline, isoprenaline, and salbutamol, produced by an inhibitor of neuronal (cocaine) and extraneuronal (metanephrine) uptake, was studied quantitatively. The data were compared to a theoretical model. 2. Cocaine produced near maximal sensitization to noradrenaline in guinea-pig atria (5 fold) at concentrations which produced only partial sensitization in guinea-pig trachea (4.7 fold sensitization of a maximum 11 fold). These results agreed with the model which predicts that there is a direct relationship between the amount of uptake inhibitor required to produce full sensitization and the magnitude of maximal sensitization demonstrable in the tissue. This makes extrapolation of uptake inhibition concentrations from tissue to tissue a potentially erroneous practice. 3. In normal trachea, salbutamol is 20 times more potent than noradrenaline but this difference is abolished (to 0.9 times) by cocaine (100 microM). This reduction of potency-ratio is due to the selective cocaine-induced sensitization of trachea to noradrenaline and raises a serious objection to the classification of salbutamol as a beta 2 selective agonist. 4. Metanephrine produced very little sensitization of trachea to isoprenaline. Experiments with salbutamol showed metanephrine to be a simple competitive antagonist of beta-adrenoceptors (pKb = 4.3) and that this receptor antagonism masked sensitization to isoprenaline. 5. A theoretical model indicates that an inhibitor of agonist uptake requires a remarkable degree of selectivity for the uptake mechanism (i.e. Kb for receptors 10(4) x KI for uptake sites) to demonstrate tissue sensitization to the agonist. This analysis and the data with metanephrine indicate that a sinistral shift of the concentration-response curve is a poor indicator of the importance of uptake mechanisms in an isolated tissue. 6. An alternate method to determine the importance of agonist-uptake effects on
Generalized Latent Trait Models.
ERIC Educational Resources Information Center
Moustaki, Irini; Knott, Martin
2000-01-01
Discusses a general model framework within which manifest variables with different distributions in the exponential family can be analyzed with a latent trait model. Presents a unified maximum likelihood method for estimating the parameters of the generalized latent trait model and discusses the scoring of individuals on the latent dimensions.…
Decoding {beta}-decay systematics: A global statistical model for {beta}{sup -} half-lives
Costiris, N. J.; Mavrommatis, E.; Gernoth, K. A.; Clark, J. W.
2009-10-15
Statistical modeling of nuclear data provides a novel approach to nuclear systematics complementary to established theoretical and phenomenological approaches based on quantum theory. Continuing previous studies in which global statistical modeling is pursued within the general framework of machine learning theory, we implement advances in training algorithms designed to improve generalization, in application to the problem of reproducing and predicting the half-lives of nuclear ground states that decay 100% by the {beta}{sup -} mode. More specifically, fully connected, multilayer feed-forward artificial neural network models are developed using the Levenberg-Marquardt optimization algorithm together with Bayesian regularization and cross-validation. The predictive performance of models emerging from extensive computer experiments is compared with that of traditional microscopic and phenomenological models as well as with the performance of other learning systems, including earlier neural network models as well as the support vector machines recently applied to the same problem. In discussing the results, emphasis is placed on predictions for nuclei that are far from the stability line, and especially those involved in r-process nucleosynthesis. It is found that the new statistical models can match or even surpass the predictive performance of conventional models for {beta}-decay systematics and accordingly should provide a valuable additional tool for exploring the expanding nuclear landscape.
Continuous multifractal models with zero values: a continuous \\beta -multifractal model
NASA Astrophysics Data System (ADS)
Schmitt, F. G.
2014-02-01
In this paper we propose for the first time a multiplicative continuous model for generating multifractal fields with zero values, as a continuous generalization of the intermittent lognormal \\beta -model proposed by Over and Gupta (1996). It is built using infinitely multiplicative random variables, the multiplicative analog to infinitely divisible distributions for addition. The model also needs stochastic multiplicative measures and multiplicative stochastic integrals. It possesses as a special case a continuous generalization of the classical discrete \\beta -model. Applications are numerous in many fields of applied science, including small-scale rainfall and soil science.
Generalized species sampling priors with latent Beta reinforcements
Airoldi, Edoardo M.; Costa, Thiago; Bassetti, Federico; Leisen, Fabrizio; Guindani, Michele
2014-01-01
Many popular Bayesian nonparametric priors can be characterized in terms of exchangeable species sampling sequences. However, in some applications, exchangeability may not be appropriate. We introduce a novel and probabilistically coherent family of non-exchangeable species sampling sequences characterized by a tractable predictive probability function with weights driven by a sequence of independent Beta random variables. We compare their theoretical clustering properties with those of the Dirichlet Process and the two parameters Poisson-Dirichlet process. The proposed construction provides a complete characterization of the joint process, differently from existing work. We then propose the use of such process as prior distribution in a hierarchical Bayes modeling framework, and we describe a Markov Chain Monte Carlo sampler for posterior inference. We evaluate the performance of the prior and the robustness of the resulting inference in a simulation study, providing a comparison with popular Dirichlet Processes mixtures and Hidden Markov Models. Finally, we develop an application to the detection of chromosomal aberrations in breast cancer by leveraging array CGH data. PMID:25870462
Generalized gamma frailty model.
Balakrishnan, N; Peng, Yingwei
2006-08-30
In this article, we present a frailty model using the generalized gamma distribution as the frailty distribution. It is a power generalization of the popular gamma frailty model. It also includes other frailty models such as the lognormal and Weibull frailty models as special cases. The flexibility of this frailty distribution makes it possible to detect a complex frailty distribution structure which may otherwise be missed. Due to the intractable integrals in the likelihood function and its derivatives, we propose to approximate the integrals either by Monte Carlo simulation or by a quadrature method and then determine the maximum likelihood estimates of the parameters in the model. We explore the properties of the proposed frailty model and the computation method through a simulation study. The study shows that the proposed model can potentially reduce errors in the estimation, and that it provides a viable alternative for correlated data. The merits of proposed model are demonstrated in analysing the effects of sublingual nitroglycerin and oral isosorbide dinitrate on angina pectoris of coronary heart disease patients based on the data set in Danahy et al. (sustained hemodynamic and antianginal effect of high dose oral isosorbide dinitrate. Circulation 1977; 55:381-387). PMID:16220516
Functional Generalized Additive Models.
McLean, Mathew W; Hooker, Giles; Staicu, Ana-Maria; Scheipl, Fabian; Ruppert, David
2014-01-01
We introduce the functional generalized additive model (FGAM), a novel regression model for association studies between a scalar response and a functional predictor. We model the link-transformed mean response as the integral with respect to t of F{X(t), t} where F(·,·) is an unknown regression function and X(t) is a functional covariate. Rather than having an additive model in a finite number of principal components as in Müller and Yao (2008), our model incorporates the functional predictor directly and thus our model can be viewed as the natural functional extension of generalized additive models. We estimate F(·,·) using tensor-product B-splines with roughness penalties. A pointwise quantile transformation of the functional predictor is also considered to ensure each tensor-product B-spline has observed data on its support. The methods are evaluated using simulated data and their predictive performance is compared with other competing scalar-on-function regression alternatives. We illustrate the usefulness of our approach through an application to brain tractography, where X(t) is a signal from diffusion tensor imaging at position, t, along a tract in the brain. In one example, the response is disease-status (case or control) and in a second example, it is the score on a cognitive test. R code for performing the simulations and fitting the FGAM can be found in supplemental materials available online. PMID:24729671
General composite Higgs models
NASA Astrophysics Data System (ADS)
Marzocca, David; Serone, Marco; Shu, Jing
2012-08-01
We construct a general class of pseudo-Goldstone composite Higgs models, within the minimal SO(5)/SO(4) coset structure, that are not necessarily of moose-type. We characterize the main properties these models should have in order to give rise to a Higgs mass around 125 GeV. We assume the existence of relatively light and weakly coupled spin 1 and 1/2 resonances. In absence of a symmetry principle, we introduce the Minimal Higgs Potential (MHP) hypothesis: the Higgs potential is assumed to be one-loop dominated by the SM fields and the above resonances, with a contribution that is made calculable by imposing suitable generalizations of the first and second Weinberg sum rules. We show that a 125 GeV Higgs requires light, often sub-TeV, fermion resonances. Their presence can also be important for the models to successfully pass the electroweak precision tests. Interestingly enough, the latter can also be passed by models with a heavy Higgs around 320 GeV. The composite Higgs models of the moose-type considered in the literature can be seen as particular limits of our class of models.
New model for nucleon generalized parton distributions
Radyushkin, Anatoly V.
2014-01-01
We describe a new type of models for nucleon generalized parton distributions (GPDs) H and E. They are heavily based on the fact nucleon GPDs require to use two forms of double distribution (DD) representations. The outcome of the new treatment is that the usual DD+D-term construction should be amended by an extra term, {xi} E{sub +}{sup 1} (x,{xi}) which has the DD structure {alpha}/{beta} e({beta},{alpha}, with e({beta},{alpha}) being the DD that generates GPD E(x,{xi}). We found that this function, unlike the D-term, has support in the whole -1 <= x <= 1 region. Furthermore, it does not vanish at the border points |x|={xi}.
Ocean General Circulation Models
Yoon, Jin-Ho; Ma, Po-Lun
2012-09-30
1. Definition of Subject The purpose of this text is to provide an introduction to aspects of oceanic general circulation models (OGCMs), an important component of Climate System or Earth System Model (ESM). The role of the ocean in ESMs is described in Chapter XX (EDITOR: PLEASE FIND THE COUPLED CLIMATE or EARTH SYSTEM MODELING CHAPTERS). The emerging need for understanding the Earth’s climate system and especially projecting its future evolution has encouraged scientists to explore the dynamical, physical, and biogeochemical processes in the ocean. Understanding the role of these processes in the climate system is an interesting and challenging scientific subject. For example, a research question how much extra heat or CO2 generated by anthropogenic activities can be stored in the deep ocean is not only scientifically interesting but also important in projecting future climate of the earth. Thus, OGCMs have been developed and applied to investigate the various oceanic processes and their role in the climate system.
Generalized Multilevel Structural Equation Modeling
ERIC Educational Resources Information Center
Rabe-Hesketh, Sophia; Skrondal, Anders; Pickles, Andrew
2004-01-01
A unifying framework for generalized multilevel structural equation modeling is introduced. The models in the framework, called generalized linear latent and mixed models (GLLAMM), combine features of generalized linear mixed models (GLMM) and structural equation models (SEM) and consist of a response model and a structural model for the latent…
A Beta-splitting model for evolutionary trees
Sainudiin, Raazesh
2016-01-01
In this article, we construct a generalization of the Blum–François Beta-splitting model for evolutionary trees, which was itself inspired by Aldous' Beta-splitting model on cladograms. The novelty of our approach allows for asymmetric shares of diversification rates (or diversification ‘potential’) between two sister species in an evolutionarily interpretable manner, as well as the addition of extinction to the model in a natural way. We describe the incremental evolutionary construction of a tree with n leaves by splitting or freezing extant lineages through the generating, organizing and deleting processes. We then give the probability of any (binary rooted) tree under this model with no extinction, at several resolutions: ranked planar trees giving asymmetric roles to the first and second offspring species of a given species and keeping track of the order of the speciation events occurring during the creation of the tree, unranked planar trees, ranked non-planar trees and finally (unranked non-planar) trees. We also describe a continuous-time equivalent of the generating, organizing and deleting processes where tree topology and branch lengths are jointly modelled and provide code in SageMath/Python for these algorithms. PMID:27293780
A Beta-splitting model for evolutionary trees.
Sainudiin, Raazesh; Véber, Amandine
2016-05-01
In this article, we construct a generalization of the Blum-François Beta-splitting model for evolutionary trees, which was itself inspired by Aldous' Beta-splitting model on cladograms. The novelty of our approach allows for asymmetric shares of diversification rates (or diversification 'potential') between two sister species in an evolutionarily interpretable manner, as well as the addition of extinction to the model in a natural way. We describe the incremental evolutionary construction of a tree with n leaves by splitting or freezing extant lineages through the generating, organizing and deleting processes. We then give the probability of any (binary rooted) tree under this model with no extinction, at several resolutions: ranked planar trees giving asymmetric roles to the first and second offspring species of a given species and keeping track of the order of the speciation events occurring during the creation of the tree, unranked planar trees, ranked non-planar trees and finally (unranked non-planar) trees. We also describe a continuous-time equivalent of the generating, organizing and deleting processes where tree topology and branch lengths are jointly modelled and provide code in SageMath/Python for these algorithms. PMID:27293780
The Generalized DINA Model Framework
ERIC Educational Resources Information Center
de la Torre, Jimmy
2011-01-01
The G-DINA ("generalized deterministic inputs, noisy and gate") model is a generalization of the DINA model with more relaxed assumptions. In its saturated form, the G-DINA model is equivalent to other general models for cognitive diagnosis based on alternative link functions. When appropriate constraints are applied, several commonly used…
Augmented Beta rectangular regression models: A Bayesian perspective.
Wang, Jue; Luo, Sheng
2016-01-01
Mixed effects Beta regression models based on Beta distributions have been widely used to analyze longitudinal percentage or proportional data ranging between zero and one. However, Beta distributions are not flexible to extreme outliers or excessive events around tail areas, and they do not account for the presence of the boundary values zeros and ones because these values are not in the support of the Beta distributions. To address these issues, we propose a mixed effects model using Beta rectangular distribution and augment it with the probabilities of zero and one. We conduct extensive simulation studies to assess the performance of mixed effects models based on both the Beta and Beta rectangular distributions under various scenarios. The simulation studies suggest that the regression models based on Beta rectangular distributions improve the accuracy of parameter estimates in the presence of outliers and heavy tails. The proposed models are applied to the motivating Neuroprotection Exploratory Trials in Parkinson's Disease (PD) Long-term Study-1 (LS-1 study, n = 1741), developed by The National Institute of Neurological Disorders and Stroke Exploratory Trials in Parkinson's Disease (NINDS NET-PD) network. PMID:26289406
NASA Astrophysics Data System (ADS)
Alvarez-Martinez, R.; Martinez-Mekler, G.; Cocho, G.
2011-01-01
The behavior of rank-ordered distributions of phenomena present in a variety of fields such as biology, sociology, linguistics, finance and geophysics has been a matter of intense research. Often power laws have been encountered; however, their validity tends to hold mainly for an intermediate range of rank values. In a recent publication (Martínez-Mekler et al., 2009 [7]), a generalization of the functional form of the beta distribution has been shown to give excellent fits for many systems of very diverse nature, valid for the whole range of rank values, regardless of whether or not a power law behavior has been previously suggested. Here we give some insight on the significance of the two free parameters which appear as exponents in the functional form, by looking into discrete probabilistic branching processes with conflicting dynamics. We analyze a variety of realizations of these so-called expansion-modification models first introduced by Wentian Li (1989) [10]. We focus our attention on an order-disorder transition we encounter as we vary the modification probability p. We characterize this transition by means of the fitting parameters. Our numerical studies show that one of the fitting exponents is related to the presence of long-range correlations exhibited by power spectrum scale invariance, while the other registers the effect of disordering elements leading to a breakdown of these properties. In the absence of long-range correlations, this parameter is sensitive to the occurrence of unlikely events. We also introduce an approximate calculation scheme that relates this dynamics to multinomial multiplicative processes. A better understanding through these models of the meaning of the generalized beta-fitting exponents may contribute to their potential for identifying and characterizing universality classes.
General Graded Response Model.
ERIC Educational Resources Information Center
Samejima, Fumiko
This paper describes the graded response model. The graded response model represents a family of mathematical models that deal with ordered polytomous categories, such as: (1) letter grading; (2) an attitude survey with "strongly disagree, disagree, agree, and strongly agree" choices; (3) partial credit given in accord with an individual's degree…
The beta distribution: A statistical model for world cloud cover
NASA Technical Reports Server (NTRS)
Falls, L. W.
1973-01-01
Much work has been performed in developing empirical global cloud cover models. This investigation was made to determine an underlying theoretical statistical distribution to represent worldwide cloud cover. The beta distribution with probability density function is given to represent the variability of this random variable. It is shown that the beta distribution possesses the versatile statistical characteristics necessary to assume the wide variety of shapes exhibited by cloud cover. A total of 160 representative empirical cloud cover distributions were investigated and the conclusion was reached that this study provides sufficient statical evidence to accept the beta probability distribution as the underlying model for world cloud cover.
NASA Technical Reports Server (NTRS)
Williams, R. M.; Ryan, M. A.; LeDuc, H.; Cortez, R. H.; Saipetch, C.; Shields, V.; Manatt, K.; Homer, M. L.
1998-01-01
This paper presents a model of the exchange current developed for porous molybdenum electrodes on sodium beta-alumina ceramics in low pressure sodium vapor, but which has general applicability to gas/porous metal electrodes on solid electrolytes.
Numerical models for high beta magnetohydrodynamic flow
Brackbill, J.U.
1987-01-01
The fundamentals of numerical magnetohydrodynamics for highly conducting, high-beta plasmas are outlined. The discussions emphasize the physical properties of the flow, and how elementary concepts in numerical analysis can be applied to the construction of finite difference approximations that capture these features. The linear and nonlinear stability of explicit and implicit differencing in time is examined, the origin and effect of numerical diffusion in the calculation of convective transport is described, and a technique for maintaining solenoidality in the magnetic field is developed. Many of the points are illustrated by numerical examples. The techniques described are applicable to the time-dependent, high-beta flows normally encountered in magnetically confined plasmas, plasma switches, and space and astrophysical plasmas. 40 refs.
Xu, R; Thomas, E A; Gazina, E V; Richards, K L; Quick, M; Wallace, R H; Harkin, L A; Heron, S E; Berkovic, S F; Scheffer, I E; Mulley, J C; Petrou, S
2007-08-10
Two novel mutations (R85C and R85H) on the extracellular immunoglobulin-like domain of the sodium channel beta1 subunit have been identified in individuals from two families with generalized epilepsy with febrile seizures plus (GEFS+). The functional consequences of these two mutations were determined by co-expression of the human brain NaV1.2 alpha subunit with wild type or mutant beta1 subunits in human embryonic kidney (HEK)-293T cells. Patch clamp studies confirmed the regulatory role of beta1 in that relative to NaV1.2 alone the NaV1.2+beta1 currents had right-shifted voltage dependence of activation, fast and slow inactivation and reduced use dependence. In addition, the NaV1.2+beta1 current entered fast inactivation slightly faster than NaV1.2 channels alone. The beta1(R85C) subunit appears to be a complete loss of function in that none of the modulating effects of the wild type beta1 were observed when it was co-expressed with NaV1.2. Interestingly, the beta1(R85H) subunit also failed to modulate fast kinetics, however, it shifted the voltage dependence of steady state slow inactivation in the same way as the wild type beta1 subunit. Immunohistochemical studies revealed cell surface expression of the wild type beta1 subunit and undetectable levels of cell surface expression for both mutants. The functional studies suggest association of the beta1(R85H) subunit with the alpha subunit where its influence is limited to modulating steady state slow inactivation. In summary, the mutant beta1 subunits essentially fail to modulate alpha subunits which could increase neuronal excitability and underlie GEFS+ pathogenesis. PMID:17629415
The general NFP hospital model.
Al-Amin, Mona
2012-01-01
Throughout the past 30 years, there has been a lot of controversy surrounding the proliferation of new forms of health care delivery organizations that challenge and compete with general NFP community hospitals. Traditionally, the health care system in the United States has been dominated by general NFP (NFP) voluntary hospitals. With the number of for-profit general hospitals, physician-owned specialty hospitals, and ambulatory surgical centers increasing, a question arises: “Why is the general NFP community hospital the dominant model?” In order to address this question, this paper reexamines the history of the hospital industry. By understanding how the “general NFP hospital” model emerged and dominated, we attempt to explain the current dominance of general NFP hospitals in the ever changing hospital industry in the United States. PMID:22324062
Misleading Betas: An Educational Example
ERIC Educational Resources Information Center
Chong, James; Halcoussis, Dennis; Phillips, G. Michael
2012-01-01
The dual-beta model is a generalization of the CAPM model. In the dual-beta model, separate beta estimates are provided for up-market and down-market days. This paper uses the historical "Anscombe quartet" results which illustrated how very different datasets can produce the same regression coefficients to motivate a discussion of the…
Populational Growth Models Proportional to Beta Densities with Allee Effect
NASA Astrophysics Data System (ADS)
Aleixo, Sandra M.; Rocha, J. Leonel; Pestana, Dinis D.
2009-05-01
We consider populations growth models with Allee effect, proportional to beta densities with shape parameters p and 2, where the dynamical complexity is related with the Malthusian parameter r. For p>2, these models exhibit a population dynamics with natural Allee effect. However, in the case of 1
models do not include this effect. In order to inforce it, we present some alternative models and investigate their dynamics, presenting some important results.
General Thermodynamic Heat Engine Models
NASA Astrophysics Data System (ADS)
Nuwayhid, R. Y.; Moukalled, F.; Denton, J. C.
2002-11-01
Heat engine models, starting from the most fundamental Carnot case, are analyzed. Two major methods of viewing the power plant as a thermodynamic heat engine are presented and studied. Realistic models are sought by introducing internal heat transport or bypass heat leak treatments. Simple treatments are presented to convey the general modeling ideas without unnecessary complications. Some new results are obtained and certain old results are commented on.
Modeling Nucleon Generalized Parton Distributions
Radyushkin, Anatoly V.
2013-05-01
We discuss building models for nucleon generalized parton distributions (GPDs) H and E that are based on the formalism of double distributions (DDs). We find that the usual "DD+D-term'' construction should be amended by an extra term, generated by GPD E(x,\\xi). Unlike the $D$-term, this function has support in the whole -1 < x< 1 region, and in general does not vanish at the border points|x|=\\xi.
Fluxon modeling of low-beta plasmas
NASA Astrophysics Data System (ADS)
Deforest, C. E.; Kankelborg, C. C.
2007-02-01
We have developed a new, quasi-Lagrangian approach for numerical modeling of magnetohydrodynamics in low to moderate β plasmas such as the solar corona. We introduce the concept of a “fluxon”, a discretized field line. Fluxon models represent the magnetic field as a skeleton of such discrete field lines, and interpolate field values from the geometry of the skeleton where needed, reversing the usual direction of the field line transform. The fluxon skeleton forms the grid for a collection of 1-D Eulerian models of plasma along individual flux tubes. Fluxon models have no numerical resistivity, because they preserve topology explicitly. Our prototype code, FLUX, is currently able to find 3-D nonlinear force-free field solutions with a specified field topology, and work is ongoing to validate and extend the code to full magnetohydrodynamics. FLUX has significant scaling advantages over conventional models: for “magnetic carpet” models, with photospheric line-tied boundary conditions, FLUX simulations scale in complexity like a conventional 2-D grid although the full 3-D field is represented. The code is free software and is available online. In this current paper we introduce fluxons and our prototype code, and describe the course of future work with the code.
Minimal modeling of the extratropical general circulation
NASA Technical Reports Server (NTRS)
O'Brien, Enda; Branscome, Lee E.
1989-01-01
The ability of low-order, two-layer models to reproduce basic features of the mid-latitude general circulation is investigated. Changes in model behavior with increased spectral resolution are examined in detail. Qualitatively correct time-mean heat and momentum balances are achieved in a beta-plane channel model which includes the first and third meridional modes. This minimal resolution also reproduces qualitatively realistic surface and upper-level winds and mean meridional circulations. Higher meridional resolution does not result in substantial changes in the latitudinal structure of the circulation. A qualitatively correct kinetic energy spectrum is produced when the resolution is high enough to include several linearly stable modes. A model with three zonal waves and the first three meridional modes has a reasonable energy spectrum and energy conversion cycle, while also satisfying heat and momentum budget requirements. This truncation reproduces the basic mechanisms and zonal circulation features that are obtained at higher resolution. The model performance improves gradually with higher resolution and is smoothly dependent on changes in external parameters.
Measuring and Modeling Xenon Uptake in Plastic Beta-Cells
NASA Astrophysics Data System (ADS)
Suarez, R.; Hayes, J. C.; Harper, W. W.; Humble, P.; Ripplinger, M. D.; Stephenson, D. E.; Williams, R. M.
2013-12-01
The precision of the stable xenon volume measurement in atmospheric monitoring radio-xenon systems is a critical parameter used to determine the activity concentration of a radio-xenon sample. Typically these types of systems use a plastic scintillating beta-cell as part of a beta-gamma detection scheme to measure the radioactivity present in the gas sample. Challenges arise when performing the stable xenon calculation during or after radioactive counting of the sample due to xenon uptake into the plastic beta-cells. Plastic beta cells can adsorb as much as 5% of the sample during counting. If quantification is performed after counting, the uptake of xenon into the plastic results in an underestimation of the xenon volume measurement. This behavior also causes what is typically known as 'memory effect' in the cell. Experiments were conducted using a small volume low pressure range thermal conductivity sensor to quantify the amount of xenon uptake into the cell over a given period of time. Understanding the xenon uptake in the cell provides a better estimate of the stable volume which improves the overall measurement capability of the system. The results from these experiments along with modeling will be presented.
Modeling of mechanical properties in alpha/beta-titanium alloys
NASA Astrophysics Data System (ADS)
Kar, Sujoy Kumar
2005-11-01
The accelerated insertion of titanium alloys in component application requires the development of predictive capabilities for various aspects of their behavior, for example, phase stability, microstructural evolution and property-microstructure relationships over a wide range of length and time scales. In this presentation some navel aspects of property-microstructure relationships and microstructural evolution in alpha/beta Ti alloys will be discussed. Neural Network (NN) Models based on a Bayesian framework have been developed to predict the mechanical properties of alpha/beta Ti alloys. The development of such rules-based model requires the population of extensive databases, which in the present case are microstructurally-based. The steps involved in database development include producing controlled variations of the microstructure using novel approaches to heat-treatments, the use of standardized stereology protocols to characterize and quantify microstructural features rapidly, and mechanical testing of the heat-treated specimens. These databases have been used to train and test NN Models for prediction of mechanical properties. In addition, these models have been used to identify the influence of individual microstructural features on the mechanical properties, consequently guiding the efforts towards development of more robust mechanistically based models. In order to understand the property-microstructure relationships, a detailed understanding of microstructure evolution is imperative. The crystallography of the microstructure developing as a result of the solid-state beta → beta+alpha transformation has been studied in detail by employing Scanning Electron Microscopy (SEM), Orientation Imaging Microscopy (in a high resolution SEM), site-specific TEM sample preparation using focused ion beam, and TEM based techniques. The influence of variant selection on the evolution of microstructure will be specifically addressed.
Smart Grid Interoperability Maturity Model Beta Version
Widergren, Steven E.; Drummond, R.; Giroti, Tony; Houseman, Doug; Knight, Mark; Levinson, Alex; longcore, Wayne; Lowe, Randy; Mater, J.; Oliver, Terry V.; Slack, Phil; Tolk, Andreas; Montgomery, Austin
2011-12-02
The GridWise Architecture Council was formed by the U.S. Department of Energy to promote and enable interoperability among the many entities that interact with the electric power system. This balanced team of industry representatives proposes principles for the development of interoperability concepts and standards. The Council provides industry guidance and tools that make it an available resource for smart grid implementations. In the spirit of advancing interoperability of an ecosystem of smart grid devices and systems, this document presents a model for evaluating the maturity of the artifacts and processes that specify the agreement of parties to collaborate across an information exchange interface. You are expected to have a solid understanding of large, complex system integration concepts and experience in dealing with software component interoperation. Those without this technical background should read the Executive Summary for a description of the purpose and contents of the document. Other documents, such as checklists, guides, and whitepapers, exist for targeted purposes and audiences. Please see the www.gridwiseac.org website for more products of the Council that may be of interest to you.
Technology Transfer Automated Retrieval System (TEKTRAN)
This chapter covers the use of wild beets in sugar beet improvement, including the basic botany of the species, its distribution; geographical locations of genetic diversity; morphology; cytology and karyotype; genome size; taxonomic position; agricultural status (model plant/weeds/invasive species/...
Virasoro irregular conformal block and beta deformed random matrix model
NASA Astrophysics Data System (ADS)
Choi, Sang Kwan; Rim, Chaiho; Zhang, Hong
2015-03-01
Virasoro irregular conformal block is presented as the expectation value of Jack-polynomials of the beta-deformed Penner-type matrix model and is compared with the inner product of Gaiotto states with arbitrary rank. It is confirmed that there are non-trivial modifications of the Gaiotto states due to the normalization of the states. The relation between the two is explicitly checked for rank 2 irregular conformal block.
RNA replication by Q beta replicase: a working model.
Brown, D; Gold, L
1996-01-01
Two classes of RNA ligands that bound to separate, high affinity nucleic acid binding sites on Q beta replicase were previously identified. RNA ligands to the two sites, referred to as site I and site II, were used to investigate the molecular mechanism of RNA replication employed by the four-subunit replicase. Replication inhibition by site I- and site II-specific ligands defined two subsets of replicatable RNAs. When provided with appropriate 3' ends, ligands to either site served as replication templates. UV crosslinking experiments revealed that site I is associated with the S1 subunit, site II with elongation factor Tu, and polymerization with the viral subunit of the holoenzyme. These results provide the framework for a three site model describing template recognition and product strand initiation by Q beta replicase. Images Fig. 2 Fig. 3 PMID:8876174
Sherman, Maxwell A.; Lee, Shane; Law, Robert; Haegens, Saskia; Thorn, Catherine A.; Hämäläinen, Matti S.; Moore, Christopher I.; Jones, Stephanie R.
2016-01-01
Human neocortical 15–29-Hz beta oscillations are strong predictors of perceptual and motor performance. However, the mechanistic origin of beta in vivo is unknown, hindering understanding of its functional role. Combining human magnetoencephalography (MEG), computational modeling, and laminar recordings in animals, we present a new theory that accounts for the origin of spontaneous neocortical beta. In our MEG data, spontaneous beta activity from somatosensory and frontal cortex emerged as noncontinuous beta events typically lasting <150 ms with a stereotypical waveform. Computational modeling uniquely designed to infer the electrical currents underlying these signals showed that beta events could emerge from the integration of nearly synchronous bursts of excitatory synaptic drive targeting proximal and distal dendrites of pyramidal neurons, where the defining feature of a beta event was a strong distal drive that lasted one beta period (∼50 ms). This beta mechanism rigorously accounted for the beta event profiles; several other mechanisms did not. The spatial location of synaptic drive in the model to supragranular and infragranular layers was critical to the emergence of beta events and led to the prediction that beta events should be associated with a specific laminar current profile. Laminar recordings in somatosensory neocortex from anesthetized mice and awake monkeys supported these predictions, suggesting this beta mechanism is conserved across species and recording modalities. These findings make several predictions about optimal states for perceptual and motor performance and guide causal interventions to modulate beta for optimal function. PMID:27469163
Sherman, Maxwell A; Lee, Shane; Law, Robert; Haegens, Saskia; Thorn, Catherine A; Hämäläinen, Matti S; Moore, Christopher I; Jones, Stephanie R
2016-08-16
Human neocortical 15-29-Hz beta oscillations are strong predictors of perceptual and motor performance. However, the mechanistic origin of beta in vivo is unknown, hindering understanding of its functional role. Combining human magnetoencephalography (MEG), computational modeling, and laminar recordings in animals, we present a new theory that accounts for the origin of spontaneous neocortical beta. In our MEG data, spontaneous beta activity from somatosensory and frontal cortex emerged as noncontinuous beta events typically lasting <150 ms with a stereotypical waveform. Computational modeling uniquely designed to infer the electrical currents underlying these signals showed that beta events could emerge from the integration of nearly synchronous bursts of excitatory synaptic drive targeting proximal and distal dendrites of pyramidal neurons, where the defining feature of a beta event was a strong distal drive that lasted one beta period (∼50 ms). This beta mechanism rigorously accounted for the beta event profiles; several other mechanisms did not. The spatial location of synaptic drive in the model to supragranular and infragranular layers was critical to the emergence of beta events and led to the prediction that beta events should be associated with a specific laminar current profile. Laminar recordings in somatosensory neocortex from anesthetized mice and awake monkeys supported these predictions, suggesting this beta mechanism is conserved across species and recording modalities. These findings make several predictions about optimal states for perceptual and motor performance and guide causal interventions to modulate beta for optimal function. PMID:27469163
Earthquake Early Warning Beta Users: Java, Modeling, and Mobile Apps
NASA Astrophysics Data System (ADS)
Strauss, J. A.; Vinci, M.; Steele, W. P.; Allen, R. M.; Hellweg, M.
2014-12-01
Earthquake Early Warning (EEW) is a system that can provide a few to tens of seconds warning prior to ground shaking at a user's location. The goal and purpose of such a system is to reduce, or minimize, the damage, costs, and casualties resulting from an earthquake. A demonstration earthquake early warning system (ShakeAlert) is undergoing testing in the United States by the UC Berkeley Seismological Laboratory, Caltech, ETH Zurich, University of Washington, the USGS, and beta users in California and the Pacific Northwest. The beta users receive earthquake information very rapidly in real-time and are providing feedback on their experiences of performance and potential uses within their organization. Beta user interactions allow the ShakeAlert team to discern: which alert delivery options are most effective, what changes would make the UserDisplay more useful in a pre-disaster situation, and most importantly, what actions users plan to take for various scenarios. Actions could include: personal safety approaches, such as drop cover, and hold on; automated processes and procedures, such as opening elevator or fire stations doors; or situational awareness. Users are beginning to determine which policy and technological changes may need to be enacted, and funding requirements to implement their automated controls. The use of models and mobile apps are beginning to augment the basic Java desktop applet. Modeling allows beta users to test their early warning responses against various scenarios without having to wait for a real event. Mobile apps are also changing the possible response landscape, providing other avenues for people to receive information. All of these combine to improve business continuity and resiliency.
Beta test of models-3 with Community Multiscale Air Quality (CMAQ) model
LeDuc, S.
1997-12-31
The Models-3 framework for advanced air quality modeling, developed by the Environmental Protection Agency, Office of Research and Development (EPA/ORD), was provided to a limited number of beta test sites during the summer of 1997. Tutorial datasets and the Community Multiscale Air Quality (CMAQ) model were also provided. Valuable feedback on framework installation, performance, functionality, intuitiveness, user friendliness resulted from the beta test. This information will be used to guide framework improvements preparatory to public release in June 1998.
Modeling the transmission of beta rays through thin foils in planar geometry.
Stanga, D; De Felice, P; Keightley, J; Capogni, M; Ionescu, E
2016-01-01
This paper is concerned with the modeling of the transmission of beta rays through thin foils in planar geometry based on the plane source concept, using Monte Carlo simulation of electron transport and least squares fitting. Applications of modeling results for calculating the efficiency of large-area beta sources, transmission coefficient of beta rays through thin foils and the beta detection efficiency of large-area detectors used in surface contamination measurements are also presented. PMID:26524407
Generalized model of island biodiversity.
Kessler, David A; Shnerb, Nadav M
2015-04-01
The dynamics of a local community of competing species with weak immigration from a static regional pool is studied. Implementing the generalized competitive Lotka-Volterra model with demographic noise, a rich dynamics with four qualitatively distinct phases is unfolded. When the overall interspecies competition is weak, the island species recapitulate the mainland species. For higher values of the competition parameter, the system still admits an equilibrium community, but now some of the mainland species are absent on the island. Further increase in competition leads to an intermittent "disordered" phase, where the dynamics is controlled by invadable combinations of species and the turnover rate is governed by the migration. Finally, the strong competition phase is glasslike, dominated by uninvadable states and noise-induced transitions. Our model contains, as a special case, the celebrated neutral island theories of Wilson-MacArthur and Hubbell. Moreover, we show that slight deviations from perfect neutrality may lead to each of the phases, as the Hubbell point appears to be quadracritical. PMID:25974525
Generalized model of island biodiversity
NASA Astrophysics Data System (ADS)
Kessler, David A.; Shnerb, Nadav M.
2015-04-01
The dynamics of a local community of competing species with weak immigration from a static regional pool is studied. Implementing the generalized competitive Lotka-Volterra model with demographic noise, a rich dynamics with four qualitatively distinct phases is unfolded. When the overall interspecies competition is weak, the island species recapitulate the mainland species. For higher values of the competition parameter, the system still admits an equilibrium community, but now some of the mainland species are absent on the island. Further increase in competition leads to an intermittent "disordered" phase, where the dynamics is controlled by invadable combinations of species and the turnover rate is governed by the migration. Finally, the strong competition phase is glasslike, dominated by uninvadable states and noise-induced transitions. Our model contains, as a special case, the celebrated neutral island theories of Wilson-MacArthur and Hubbell. Moreover, we show that slight deviations from perfect neutrality may lead to each of the phases, as the Hubbell point appears to be quadracritical.
Protoplanetary Nebula Evolution using the Beta Viscosity Model
NASA Technical Reports Server (NTRS)
Davis, Sanford S.
2003-01-01
The evolutionary dynamics of a protoplanetary disk is an important component of the planet formation process. In particular, the dynamic and thermodynamic field plays a critical role in chemical evolution, the migration of dust particles in the nebula, and the radial transport of meteoritic components. The dynamic evolution is investigated using analytical solutions of the surface density transport equations using a turbulence model based on hydrodynamic generation of turbulence. It captures the major properties of the disk including region of separation between radial inflow and-outflow and the evolution of the central plane temperature. The analytical formulas are compared with available numerical solutions based on the alpha viscosity model. The beta viscosity model, heretofore used for steady-state disks, is shown to be a useful approximation for unsteady problems.
Estimating riparian understory vegetation cover with beta regression and copula models
Eskelson, Bianca N.I.; Madsen, Lisa; Hagar, Joan C.; Temesgen, Hailemariam
2011-01-01
Understory vegetation communities are critical components of forest ecosystems. As a result, the importance of modeling understory vegetation characteristics in forested landscapes has become more apparent. Abundance measures such as shrub cover are bounded between 0 and 1, exhibit heteroscedastic error variance, and are often subject to spatial dependence. These distributional features tend to be ignored when shrub cover data are analyzed. The beta distribution has been used successfully to describe the frequency distribution of vegetation cover. Beta regression models ignoring spatial dependence (BR) and accounting for spatial dependence (BRdep) were used to estimate percent shrub cover as a function of topographic conditions and overstory vegetation structure in riparian zones in western Oregon. The BR models showed poor explanatory power (pseudo-R2 ≤ 0.34) but outperformed ordinary least-squares (OLS) and generalized least-squares (GLS) regression models with logit-transformed response in terms of mean square prediction error and absolute bias. We introduce a copula (COP) model that is based on the beta distribution and accounts for spatial dependence. A simulation study was designed to illustrate the effects of incorrectly assuming normality, equal variance, and spatial independence. It showed that BR, BRdep, and COP models provide unbiased parameter estimates, whereas OLS and GLS models result in slightly biased estimates for two of the three parameters. On the basis of the simulation study, 93–97% of the GLS, BRdep, and COP confidence intervals covered the true parameters, whereas OLS and BR only resulted in 84–88% coverage, which demonstrated the superiority of GLS, BRdep, and COP over OLS and BR models in providing standard errors for the parameter estimates in the presence of spatial dependence.
Generalized Environment for Modeling Systems
Energy Science and Technology Software Center (ESTSC)
2012-02-07
GEMS is an integrated environment that allows technical analysts, modelers, researchers, etc. to integrate and deploy models and/or decision tools with associated data to the internet for direct use by customers. GEMS does not require that the model developer know how to code or script and therefore delivers this capability to a large group of technical specialists. Customers gain the benefit of being able to execute their own scenarios directly without need for technical support.more » GEMS is a process that leverages commercial software products with specialized codes that add connectivity and unique functions to support the overall capability. Users integrate pre-existing models with a commercial product and store parameters and input trajectories in a companion commercial database. The model is then exposed into a commercial web environment and a graphical user interface (GUI) is applied by the model developer. Users execute the model through the web based GUI and GEMS manages supply of proper inputs, execution of models, routing of data to models and display of results back to users. GEMS works in layers, the following description is from the bottom up. Modelers create models in the modeling tool of their choice such as Excel, Matlab, or Fortran. They can also use models from a library of previously wrapped legacy codes (models). Modelers integrate the models (or a single model) by wrapping and connecting the models using the Phoenix Integration tool entitled ModelCenter. Using a ModelCenter/SAS plugin (DOE copyright CW-10-08) the modeler gets data from either an SAS or SQL database and sends results back to SAS or SQL. Once the model is working properly, the ModelCenter file is saved and stored in a folder location to which a SharePoint server tool created at INL is pointed. This enables the ModelCenter model to be run from SharePoint. The modeler then goes into Microsoft SharePoint and creates a graphical user interface (GUI) using the ModelCenter Web
Generalized Environment for Modeling Systems
2012-02-07
GEMS is an integrated environment that allows technical analysts, modelers, researchers, etc. to integrate and deploy models and/or decision tools with associated data to the internet for direct use by customers. GEMS does not require that the model developer know how to code or script and therefore delivers this capability to a large group of technical specialists. Customers gain the benefit of being able to execute their own scenarios directly without need for technical support. GEMS is a process that leverages commercial software products with specialized codes that add connectivity and unique functions to support the overall capability. Users integrate pre-existing models with a commercial product and store parameters and input trajectories in a companion commercial database. The model is then exposed into a commercial web environment and a graphical user interface (GUI) is applied by the model developer. Users execute the model through the web based GUI and GEMS manages supply of proper inputs, execution of models, routing of data to models and display of results back to users. GEMS works in layers, the following description is from the bottom up. Modelers create models in the modeling tool of their choice such as Excel, Matlab, or Fortran. They can also use models from a library of previously wrapped legacy codes (models). Modelers integrate the models (or a single model) by wrapping and connecting the models using the Phoenix Integration tool entitled ModelCenter. Using a ModelCenter/SAS plugin (DOE copyright CW-10-08) the modeler gets data from either an SAS or SQL database and sends results back to SAS or SQL. Once the model is working properly, the ModelCenter file is saved and stored in a folder location to which a SharePoint server tool created at INL is pointed. This enables the ModelCenter model to be run from SharePoint. The modeler then goes into Microsoft SharePoint and creates a graphical user interface (GUI) using the ModelCenter WebPart (CW-12
Trending in Probability of Collision Measurements via a Bayesian Zero-Inflated Beta Mixed Model
NASA Technical Reports Server (NTRS)
Vallejo, Jonathon; Hejduk, Matt; Stamey, James
2015-01-01
We investigate the performance of a generalized linear mixed model in predicting the Probabilities of Collision (Pc) for conjunction events. Specifically, we apply this model to the log(sub 10) transformation of these probabilities and argue that this transformation yields values that can be considered bounded in practice. Additionally, this bounded random variable, after scaling, is zero-inflated. Consequently, we model these values using the zero-inflated Beta distribution, and utilize the Bayesian paradigm and the mixed model framework to borrow information from past and current events. This provides a natural way to model the data and provides a basis for answering questions of interest, such as what is the likelihood of observing a probability of collision equal to the effective value of zero on a subsequent observation.
Shell model nuclear matrix elements for competing mechanisms contributing to double beta decay
Horoi, Mihai
2013-12-30
Recent progress in the shell model approach to the nuclear matrix elements for the double beta decay process are presented. This includes nuclear matrix elements for competing mechanisms to neutrionless double beta decay, a comparison between closure and non-closure approximation for {sup 48}Ca, and an updated shell model analysis of nuclear matrix elements for the double beta decay of {sup 136}Xe.
Using beta binomials to estimate classification uncertainty for ensemble models
2014-01-01
Background Quantitative structure-activity (QSAR) models have enormous potential for reducing drug discovery and development costs as well as the need for animal testing. Great strides have been made in estimating their overall reliability, but to fully realize that potential, researchers and regulators need to know how confident they can be in individual predictions. Results Submodels in an ensemble model which have been trained on different subsets of a shared training pool represent multiple samples of the model space, and the degree of agreement among them contains information on the reliability of ensemble predictions. For artificial neural network ensembles (ANNEs) using two different methods for determining ensemble classification – one using vote tallies and the other averaging individual network outputs – we have found that the distribution of predictions across positive vote tallies can be reasonably well-modeled as a beta binomial distribution, as can the distribution of errors. Together, these two distributions can be used to estimate the probability that a given predictive classification will be in error. Large data sets comprised of logP, Ames mutagenicity, and CYP2D6 inhibition data are used to illustrate and validate the method. The distributions of predictions and errors for the training pool accurately predicted the distribution of predictions and errors for large external validation sets, even when the number of positive and negative examples in the training pool were not balanced. Moreover, the likelihood of a given compound being prospectively misclassified as a function of the degree of consensus between networks in the ensemble could in most cases be estimated accurately from the fitted beta binomial distributions for the training pool. Conclusions Confidence in an individual predictive classification by an ensemble model can be accurately assessed by examining the distributions of predictions and errors as a function of the degree of
NASA Orbital Debris Engineering Model ORDEM2008 (Beta Version)
NASA Technical Reports Server (NTRS)
Stansbery, Eugene G.; Krisko, Paula H.
2009-01-01
This is an interim document intended to accompany the beta-release of the ORDEM2008 model. As such it provides the user with a guide for its use, a list of its capabilities, a brief summary of model development, and appendices included to educate the user as to typical runtimes for different orbit configurations. More detailed documentation will be delivered with the final product. ORDEM2008 supersedes NASA's previous model - ORDEM2000. The availability of new sensor and in situ data, the re-analysis of older data, and the development of new analytical techniques, has enabled the construction of this more comprehensive and sophisticated model. Integrated with the software is an upgraded graphical user interface (GUI), which uses project-oriented organization and provides the user with graphical representations of numerous output data products. These range from the conventional average debris size vs. flux magnitude for chosen analysis orbits, to the more complex color-contoured two-dimensional (2-D) directional flux diagrams in terms of local spacecraft pitch and yaw.
General models of multilocus evolution.
Kirkpatrick, Mark; Johnson, Toby; Barton, Nick
2002-01-01
In 1991, Barton and Turelli developed recursions to describe the evolution of multilocus systems under arbitrary forms of selection. This article generalizes their approach to allow for arbitrary modes of inheritance, including diploidy, polyploidy, sex linkage, cytoplasmic inheritance, and genomic imprinting. The framework is also extended to allow for other deterministic evolutionary forces, including migration and mutation. Exact recursions that fully describe the state of the population are presented; these are implemented in a computer algebra package (available on the Web at http://helios.bto.ed.ac.uk/evolgen). Despite the generality of our framework, it can describe evolutionary dynamics exactly by just two equations. These recursions can be further simplified using a "quasi-linkage equilibrium" (QLE) approximation. We illustrate the methods by finding the effect of natural selection, sexual selection, mutation, and migration on the genetic composition of a population. PMID:12196414
Inhomogeneous generalization of some Bianchi models
NASA Astrophysics Data System (ADS)
Carmeli, M.; Charach, Ch.
1980-02-01
Vacuum Bianchi models which can be transformed to the Einstein-Rosen metric are considered. The models are used in order to construct new inhomogeneous universes, which are generalizations of Bianchi cosmologies of types III, V and VIh. Recent generalizations of these Bianchi models, considered by Wainwright et al., are also discussed.
Duality in a maximum generalized entropy model
NASA Astrophysics Data System (ADS)
Eguchi, Shinto; Komori, Osamu; Ohara, Atsumi
2015-01-01
This paper discusses a possible generalization for the maximum entropy principle. A class of generalized entropy is introduced by that of generator functions, in which the maximum generalized distribution model is explicitly derived including q-Gaussian distributions, Wigner semicircle distributions and Pareto distributions. We define a totally geodesic subspace in the total space of all probability density functions in a framework of information geometry. The model of maximum generalized entropy distributions is shown to be totally geodesic. The duality of the model and the estimation in the maximum generalized principle is elucidated to give intrinsic understandings from the point of information geometry.
LLNL Ocean General Circulation Model
Energy Science and Technology Software Center (ESTSC)
2005-12-29
The LLNL OGCM is a numerical ocean modeling tool for use in studying ocean circulation over a wide range of space and time scales, with primary applications to climate change and carbon cycle science.
Theoretical Models of Generalized Quasispecies.
Wagner, Nathaniel; Atsmon-Raz, Yoav; Ashkenasy, Gonen
2016-01-01
Theoretical modeling of quasispecies has progressed in several directions. In this chapter, we review the works of Emmanuel Tannenbaum, who, together with Eugene Shakhnovich at Harvard University and later with colleagues and students at Ben-Gurion University in Beersheva, implemented one of the more useful approaches, by progressively setting up various formulations for the quasispecies model and solving them analytically. Our review will focus on these papers that have explored new models, assumed the relevant mathematical approximations, and proceeded to analytically solve for the steady-state solutions and run stochastic simulations . When applicable, these models were related to real-life problems and situations, including changing environments, presence of chemical mutagens, evolution of cancer and tumor cells , mutations in Escherichia coli, stem cells , chromosomal instability (CIN), propagation of antibiotic drug resistance , dynamics of bacteria with plasmids , DNA proofreading mechanisms, and more. PMID:26373410
General Pressurization Model in Simscape
NASA Technical Reports Server (NTRS)
Servin, Mario; Garcia, Vicky
2010-01-01
System integration is an essential part of the engineering design process. The Ares I Upper Stage (US) is a complex system which is made up of thousands of components assembled into subsystems including a J2-X engine, liquid hydrogen (LH2) and liquid oxygen (LO2) tanks, avionics, thrust vector control, motors, etc. System integration is the task of connecting together all of the subsystems into one large system. To ensure that all the components will "fit together" as well as safety and, quality, integration analysis is required. Integration analysis verifies that, as an integrated system, the system will behave as designed. Models that represent the actual subsystems are built for more comprehensive analysis. Matlab has been an instrument widely use by engineers to construct mathematical models of systems. Simulink, one of the tools offered by Matlab, provides multi-domain graphical environment to simulate and design time-varying systems. Simulink is a powerful tool to analyze the dynamic behavior of systems over time. Furthermore, Simscape, a tool provided by Simulink, allows users to model physical (such as mechanical, thermal and hydraulic) systems using physical networks. Using Simscape, a model representing an inflow of gas to a pressurized tank was created where the temperature and pressure of the tank are measured over time to show the behavior of the gas. By further incorporation of Simscape into model building, the full potential of this software can be discovered and it hopefully can become a more utilized tool.
Levitt, P R
1975-01-01
A population genetic approach is presented for general analysis and comparison of kin selection models of sib and half-sib altruism. Nine models are described, each assuming a particular mode of inheritance, number of female inseminations, and Mendelian dominance of the altruist gene. In each model, the selective effects of altruism are described in terms of two general fitness functions, A(beta) and S(beta), giving respectively the expected fitness of an altruist and a nonaltruist as a function of the fraction of altruists beta in a given sibship. For each model, exact conditions are reported for stability at altruist and nonaltruist fixation. Under the Table 3 axions, the stability conditions may then be partially ordered on the basis of implications holding between pairs of conditions. The partial orderings are compared with predictions of the kin selection theory of Hamilton. PMID:1060136
Levitt, P R
1975-11-01
A population genetic approach is presented for general analysis and comparison of kin selection models of sib and half-sib altruism. Nine models are described, each assuming a particular mode of inheritance, number of female inseminations, and Mendelian dominance of the altruist gene. In each model, the selective effects of altruism are described in terms of two general fitness functions, A(beta) and S(beta), giving respectively the expected fitness of an altruist and a nonaltruist as a function of the fraction of altruists beta in a given sibship. For each model, exact conditions are reported for stability at altruist and nonaltruist fixation. Under the Table 3 axions, the stability conditions may then be partially ordered on the basis of implications holding between pairs of conditions. The partial orderings are compared with predictions of the kin selection theory of Hamilton. PMID:1060136
Harkany, T; Hortobágyi, T; Sasvári, M; Kónya, C; Penke, B; Luiten, P G; Nyakas, C
1999-08-01
1. beta-Amyloid peptides (A beta s) accumulate abundantly in the Alzheimer's disease (AD) brain in areas subserving information acquisition and processing, and memory formation. A beta fragments are produced in a process of abnormal proteolytic cleavage of their precursor, the amyloid precursor protein (APP). While conflicting data exist in the literature on the roles of A beta s in the brain, and particularly in AD, recent studies have provided firm experimental evidence for the direct neurotoxic properties of A beta. 2. Sequence analysis of A beta s revealed a high degree of evolutionary conservation and inter-species homology of the A beta amino acid sequence. In contrast, synthetic A beta fragments, even if modified fluorescent or isotope-labeled derivatives, are pharmacological candidates for in vitro and in vivo modeling of their cellular actions. During the past decade, acute injection, prolonged mini-osmotic brain perfusion approaches or A beta infusions into the blood circulation were developed in order to investigate the effects of synthetic A beta s, whereas transgenic models provided insight into the distinct molecular steps of pathological APP cleavage. 3. The hippocampus, caudate putamen, amygdala and neocortex all formed primary targets of acute neurotoxicity screening, but functional consequences of A beta infusions were primarily demonstrated following either intracerebroventricular or basal forebrain (medial septum or magnocellular basal nucleus (MBN)) infusions of A beta fragments. 4. In vivo investigations confirmed that, while the active core of A beta is located within the beta(25-35) sequence, the flanking peptide regions influence not only the folding properties of the A beta fragments, but also their in vivo neurotoxic potentials. 5. It has recently been established that A beta administration deranges neuron-glia signaling, affects the glial glutamate uptake and thereby induces noxious glutamatergic stimulation of nerve cells. In fact, a
Classical integrability for beta-ensembles and general Fokker-Planck equations
Rumanov, Igor
2015-01-15
Beta-ensembles of random matrices are naturally considered as quantum integrable systems, in particular, due to their relation with conformal field theory, and more recently appeared connection with quantized Painlevé Hamiltonians. Here, we demonstrate that, at least for even integer beta, these systems are classically integrable, e.g., there are Lax pairs associated with them, which we explicitly construct. To come to the result, we show that a solution of every Fokker-Planck equation in one space (and one time) dimensions can be considered as a component of an eigenvector of a Lax pair. The explicit finding of the Lax pair depends on finding a solution of a governing system–a closed system of two nonlinear partial differential equations (PDEs) of hydrodynamic type. This result suggests that there must be a solution for all values of beta. We find the solution of this system for even integer beta in the particular case of quantum Painlevé II related to the soft edge of the spectrum for beta-ensembles. The solution is given in terms of Calogero system of β/2 particles in an additional time-dependent potential. Thus, we find another situation where quantum integrability is reduced to classical integrability.
NASA Astrophysics Data System (ADS)
Schmitt, F. G.
2014-12-01
Multiplicative cascade models, when densified (continuous scale invariance) correspond to the exponential of a linear process. Hence this cannot generate zero values. Such framework is not complete and not purely multiplicative. We present here a stochastic framework which stays in the multiplicative realm and can be used to generate zero values. The multiplicative continuous model for multifractal fields with zero values is built using infinitely multiplicative random variables, the multiplicative analog to infinitely divisible distributions for addition. It also needs stochastic multiplicative measures and multiplicative stochastic integrals. The model hence generates continuous multiplicative cascades. The model produced possesses as special case a continuous generalization of the classical discrete beta-model. Applications are numerous in many fields of applied sciences, including smallscale rainfall, soil sciences. The theory is first proposed, then simulation algorithm is presented and simulations are shown in 1D and in 2D. Figure: a continuous lognormal multifractal with zero values (512x512).
A Bayesian beta distribution model for estimating rainfall IDF curves in a changing climate
NASA Astrophysics Data System (ADS)
Lima, Carlos H. R.; Kwon, Hyun-Han; Kim, Jin-Young
2016-09-01
The estimation of intensity-duration-frequency (IDF) curves for rainfall data comprises a classical task in hydrology studies to support a variety of water resources projects, including urban drainage and the design of flood control structures. In a changing climate, however, traditional approaches based on historical records of rainfall and on the stationary assumption can be inadequate and lead to poor estimates of rainfall intensity quantiles. Climate change scenarios built on General Circulation Models offer a way to access and estimate future changes in spatial and temporal rainfall patterns at the daily scale at the utmost, which is not as fine temporal resolution as required (e.g. hours) to directly estimate IDF curves. In this paper we propose a novel methodology based on a four-parameter beta distribution to estimate IDF curves conditioned on the observed (or simulated) daily rainfall, which becomes the time-varying upper bound of the updated nonstationary beta distribution. The inference is conducted in a Bayesian framework that provides a better way to take into account the uncertainty in the model parameters when building the IDF curves. The proposed model is tested using rainfall data from four stations located in South Korea and projected climate change Representative Concentration Pathways (RCPs) scenarios 6 and 8.5 from the Met Office Hadley Centre HadGEM3-RA model. The results show that the developed model fits the historical data as good as the traditional Generalized Extreme Value (GEV) distribution but is able to produce future IDF curves that significantly differ from the historically based IDF curves. The proposed model predicts for the stations and RCPs scenarios analysed in this work an increase in the intensity of extreme rainfalls of short duration with long return periods.
Modeling the Production of Beta-Delayed Gamma Rays for the Detection of Special Nuclear Materials
Hall, J M; Pruet, J A; Brown, D A; Descalle, M; Hedstrom, G W; Prussin, S G
2005-02-14
The objective of this LDRD project was to develop one or more models for the production of {beta}-delayed {gamma} rays following neutron-induced fission of a special nuclear material (SNM) and to define a standardized formatting scheme which will allow them to be incorporated into some of the modern, general-purpose Monte Carlo transport codes currently being used to simulate inspection techniques proposed for detecting fissionable material hidden in sea-going cargo containers. In this report, we will describe a Monte Carlo model for {beta}-delayed {gamma}-ray emission following the fission of SNM that can accommodate arbitrary time-dependent fission rates and photon collection histories. The model involves direct sampling of the independent fission yield distributions of the system, the branching ratios for decay of individual fission products and spectral distributions representing photon emission from each fission product and for each decay mode. While computationally intensive, it will be shown that this model can provide reasonably detailed estimates of the spectra that would be recorded by an arbitrary spectrometer and may prove quite useful in assessing the quality of evaluated data libraries and identifying gaps in the libraries. The accuracy of the model will be illustrated by comparing calculated and experimental spectra from the decay of short-lived fission products following the reactions {sup 235}U(n{sub th}, f) and {sup 239}Pu(n{sub th}, f). For general-purpose transport calculations, where a detailed consideration of the large number of individual {gamma}-ray transitions in a spectrum may not be necessary, it will be shown that a simple parameterization of the {gamma}-ray source function can be defined which provides high-quality average spectral distributions that should suffice for calculations describing photons being transported through thick attenuating media. Finally, a proposal for ENDF-compatible formats that describe each of the models and
Waninge, Rianne; Walstra, Pieter; Bastiaans, Jan; Nieuwenhuijse, Hans; Nylander, Tommy; Paulsson, Marie; Bergenståhl, Björn
2005-02-01
This study investigated the competitive adsorption between milk proteins and model milk membrane lipids at the oil-water interface and its dependence on the state of the lipid dispersion and the formation of emulsions. Both protein and membrane lipid surface load were determined using a serum depletion technique. The membrane lipid mixture used was a model milk membrane lipid system, containing dioleoylphosphatidylcholine, dioleoylphosphatidylethanolamine, milk sphingomyelin, dioleoylphosphatidylserine, and soybean phosphatidylinositol. The model composition mimics the lipid composition of natural milk fat globule membranes. The interactions were studied for two proteins, beta-lactoglobulin and beta-casein. The mixing order was varied to allow for differentiation between equilibrium structures and nonequilibrium structures. The results showed more than monolayer adsorption for most combinations. Proteins dominated at the oil-water interface in the protein-emulsified emulsion even after 48 h of exposure to a vesicular dispersion of membrane lipids. The membrane lipids dominated the oil-water interface in the case of the membrane lipid emulsified emulsion even after equilibration with a protein solution. Protein displacement with time was observed only for emulsions in which both membrane lipids and beta-casein were included during the emulsification. This study shows that kinetics controls the structures rather than the thermodynamic equilibrium, possibly resulting in structures more complex than an adsorbed monolayer. Thus, it can be expected that procedures such as the mixing order during emulsion preparation are of crucial importance to the emulsification performance. PMID:15686425
Generalized Linear Models in Family Studies
ERIC Educational Resources Information Center
Wu, Zheng
2005-01-01
Generalized linear models (GLMs), as defined by J. A. Nelder and R. W. M. Wedderburn (1972), unify a class of regression models for categorical, discrete, and continuous response variables. As an extension of classical linear models, GLMs provide a common body of theory and methodology for some seemingly unrelated models and procedures, such as…
Bilepton contributions to the neutrinoless double beta decay in the economical 3-3-1 model
Soa, D. V. Dong, P. V. Huong, T. T.; Long, H. N.
2009-05-15
A new bound of the mixing angle between charged gauge bosons (the standard-model W and the bilepton Y) in the economical 3-3-1 model is given. Possible contributions of the charged bileptons to the neutrinoless double beta (({beta}{beta}){sub 0{nu}}) decay are discussed. We show that the ({beta}{beta}){sub 0{nu}} decay in this model is due to both the Majorana
NASA Astrophysics Data System (ADS)
Farfan, Eduardo Balderrama
2002-01-01
Predicting equivalent dose in the human respiratory tract is significant in the assessment of health risks associated with the inhalation of radioactive aerosols. A complete respiratory tract methodology based on the International Commission on Radiological Protection Publication 66 model was used in this research project for beta-particle and photon emitters. The conventional methodology has been to use standard values (from Reference Man) for parameters to obtain a single dose value. However, the methods used in the current study allow lung dose values to be determined as probability distributions to reflect the spread or variability in doses. To implement the methodology, a computer code, LUDUC, has been modified to include inhalation scenarios of beta-particle and photon emitters. For beta particles, a new methodology was implemented into Monte Carlo simulations to determine absorbed fractions in target tissues within the thoracic region of the respiratory tract. For photons, a new mathematical phantom of extrathoracic and thoracic regions was created based on previous studies to determine specific absorbed fractions in several tissues and organs of the human body due to inhalation of radioactive materials. The application of the methodology and developed data will be helpful in dose reconstruction and prediction efforts concerning the inhalation of short-lived radionuclides or radionuclides of Inhalation Class S. The resulting dose distributions follow a lognormal distribution shape for all scenarios examined. Applying the probabilistic computer code LUDUC to inhalation of strontium and yttrium aerosols has shown several trends, which could also be valid for many S radionuclide compounds that are beta-particle emitters. The equivalent doses are, in general, found to follow lognormal distributions. Therefore, these distributions can be described by geometric means and geometric standard deviations. Furthermore, a mathematical phantom of the extrathoracic and
Stiles, Jessica M.; Amaya, Clarissa; Rains, Steven; Diaz, Dolores; Pham, Robert; Battiste, James; Modiano, Jaime F.; Kokta, Victor; Boucheron, Laura E.; Mitchell, Dianne C.; Bryan, Brad A.
2013-01-01
Therapeutic targeting of the beta-adrenergic receptors has recently shown remarkable efficacy in the treatment of benign vascular tumors such as infantile hemangiomas. As infantile hemangiomas are reported to express high levels of beta adrenergic receptors, we examined the expression of these receptors on more aggressive vascular tumors such as hemangioendotheliomas and angiosarcomas, revealing beta 1, 2, and 3 receptors were indeed present and therefore aggressive vascular tumors may similarly show increased susceptibility to the inhibitory effects of beta blockade. Using a panel of hemangioendothelioma and angiosarcoma cell lines, we demonstrate that beta adrenergic inhibition blocks cell proliferation and induces apoptosis in a dose dependent manner. Beta blockade is selective for vascular tumor cells over normal endothelial cells and synergistically effective when combined with standard chemotherapeutic or cytotoxic agents. We demonstrate that inhibition of beta adrenergic signaling induces large scale changes in the global gene expression patterns of vascular tumors, including alterations in the expression of established cell cycle and apoptotic regulators. Using in vivo tumor models we demonstrate that beta blockade shows remarkable efficacy as a single agent in reducing the growth of angiosarcoma tumors. In summary, these experiments demonstrate the selective cytotoxicity and tumor suppressive ability of beta adrenergic inhibition on malignant vascular tumors and have laid the groundwork for a promising treatment of angiosarcomas in humans. PMID:23555867
A general consumer-resource population model
Lafferty, Kevin D.; DeLeo, Giulio; Briggs, Cheryl J.; Dobson, Andrew P.; Gross, Thilo; Kuris, Armand M.
2015-01-01
Food-web dynamics arise from predator-prey, parasite-host, and herbivore-plant interactions. Models for such interactions include up to three consumer activity states (questing, attacking, consuming) and up to four resource response states (susceptible, exposed, ingested, resistant). Articulating these states into a general model allows for dissecting, comparing, and deriving consumer-resource models. We specify this general model for 11 generic consumer strategies that group mathematically into predators, parasites, and micropredators and then derive conditions for consumer success, including a universal saturating functional response. We further show how to use this framework to create simple models with a common mathematical lineage and transparent assumptions. Underlying assumptions, missing elements, and composite parameters are revealed when classic consumer-resource models are derived from the general model.
Conformity and Dissonance in Generalized Voter Models
NASA Astrophysics Data System (ADS)
Page, Scott E.; Sander, Leonard M.; Schneider-Mizell, Casey M.
2007-09-01
We generalize the voter model to include social forces that produce conformity among voters and avoidance of cognitive dissonance of opinions within a voter. The time for both conformity and consistency (which we call the exit time) is, in general, much longer than for either process alone. We show that our generalized model can be applied quite widely: it is a form of Wright's island model of population genetics, and is related to problems in the physical sciences. We give scaling arguments, numerical simulations, and analytic estimates for the exit time for a range of relative strengths in the tendency to conform and to avoid dissonance.
Building a generalized distributed system model
NASA Technical Reports Server (NTRS)
Mukkamala, Ravi
1991-01-01
A number of topics related to building a generalized distributed system model are discussed. The effects of distributed database modeling on evaluation of transaction rollbacks, the measurement of effects of distributed database models on transaction availability measures, and a performance analysis of static locking in replicated distributed database systems are covered.
Vierling-Claassen, Dorea; Siekmeier, Peter; Stufflebeam, Steven; Kopell, Nancy
2008-05-01
The disorganized symptoms of schizophrenia, including severely disordered thought patterns, may be indicative of a problem with the construction and maintenance of cell assemblies during sensory processing and attention. The gamma and beta frequency bands (15-70 Hz) are believed relevant to such processing. This paper addresses the results of an experimental examination of the cortical response of 12 schizophrenia patients and 12 control subjects when presented with auditory click-train stimuli in the gamma/beta frequency band during measurement using magnetoencephalography (MEG), as well as earlier work by Kwon et al. These data indicate that control subjects show an increased 40-Hz response to both 20- and 40-Hz stimulation as compared with patients, whereas schizophrenic subjects show a preference for 20-Hz response to the same driving frequencies. In this work, two computational models of the auditory cortex are constructed based on postmortem studies that indicate cortical interneurons in schizophrenic subjects have decreased GAT-1 (a GABA transporter) and GAD(67) (1 of 2 enzymes responsible for GABA synthesis). The models transition from control to schizophrenic frequency response when an extended inhibitory decay time is introduced; this change captures a possible effect of these GABA alterations. Modeling gamma/beta range auditory entrainment in schizophrenia provides insight into how biophysical mechanisms can impact cognitive function. In addition, the study of dynamics that underlie auditory entrainment in schizophrenia may contribute to the understanding of how gamma and beta rhythms impact cognition in general. PMID:18287555
Tensions and Models in General Education Planning.
ERIC Educational Resources Information Center
Newton, Robert R.
2000-01-01
Asserts that general education revision committees are often unprepared for their task. Presents an analysis identifying four key issues confronting reformers--knowledge, student learning, faculty competence, and content--and describing how three models of general education (Great Books, Scholarly Discipline, and Effective Citizen) might respond…
On Keats' Generalization of the Rasch Model
ERIC Educational Resources Information Center
Colonius, Hans
1977-01-01
Parameter estimation for Keats generalization of the Rasch model that takes account of guessing behavior is investigated. It is shown that no minimal sufficient statistics for the ability parameters independent of the difficulty parameters exist. (Author/JKS)
Compactlike kinks and vortices in generalized models
Bazeia, D.; Hora, E. da; Menezes, R.; Oliveira, H. P. de; Santos, C. dos
2010-06-15
This work deals with the presence of topological defects in k-field models, where the dynamics is generalized to include higher order power in the kinetic term. We investigate kinks in (1, 1) dimensions and vortices in (2, 1) dimensions, focusing on some specific features of the solutions. In particular, we show how the kinks and vortices change to compactlike solutions, controlled by the parameter used to introduce the generalized models.
GENERALIZED VISCOPLASTIC MODELING OF DEBRIS FLOW.
Chen, Cheng-lung
1988-01-01
The earliest model developed by R. A. Bagnold was based on the concept of the 'dispersive' pressure generated by grain collisions. Some efforts have recently been made by theoreticians in non-Newtonian fluid mechanics to modify or improve Bagnold's concept or model. A viable rheological model should consist both of a rate-independent part and a rate-dependent part. A generalized viscoplastic fluid (GVF) model that has both parts as well as two major rheological properties (i. e. , the normal stress effect and soil yield criterion) is shown to be sufficiently accurate, yet practical for general use in debris-flow modeling. In fact, Bagnold's model is found to be only a particular case of the GVF model. analytical solutions for (steady) uniform debris flows in wide channels are obtained from the GVF model based on Bagnold's simplified assumption of constant grain concentration.
Simple implementation of general dark energy models
Bloomfield, Jolyon K.; Pearson, Jonathan A. E-mail: jonathan.pearson@durham.ac.uk
2014-03-01
We present a formalism for the numerical implementation of general theories of dark energy, combining the computational simplicity of the equation of state for perturbations approach with the generality of the effective field theory approach. An effective fluid description is employed, based on a general action describing single-scalar field models. The formalism is developed from first principles, and constructed keeping the goal of a simple implementation into CAMB in mind. Benefits of this approach include its straightforward implementation, the generality of the underlying theory, the fact that the evolved variables are physical quantities, and that model-independent phenomenological descriptions may be straightforwardly investigated. We hope this formulation will provide a powerful tool for the comparison of theoretical models of dark energy with observational data.
Computational modelling of movement-related beta-oscillatory dynamics in human motor cortex.
Bhatt, Mrudul B; Bowen, Stephanie; Rossiter, Holly E; Dupont-Hadwen, Joshua; Moran, Rosalyn J; Friston, Karl J; Ward, Nick S
2016-06-01
Oscillatory activity in the beta range, in human primary motor cortex (M1), shows interesting dynamics that are tied to behaviour and change systematically in disease. To investigate the pathophysiology underlying these changes, we must first understand how changes in beta activity are caused in healthy subjects. We therefore adapted a canonical (repeatable) microcircuit model used in dynamic causal modelling (DCM) previously used to model induced responses in visual cortex. We adapted this model to accommodate cytoarchitectural differences between visual and motor cortex. Using biologically plausible connections, we used Bayesian model selection to identify the best model of measured MEG data from 11 young healthy participants, performing a simple handgrip task. We found that the canonical M1 model had substantially more model evidence than the generic canonical microcircuit model when explaining measured MEG data. The canonical M1 model reproduced measured dynamics in humans at rest, in a manner consistent with equivalent studies performed in mice. Furthermore, the changes in excitability (self-inhibition) necessary to explain beta suppression during handgrip were consistent with the attenuation of sensory precision implied by predictive coding. These results establish the face validity of a model that can be used to explore the laminar interactions that underlie beta-oscillatory dynamics in humans in vivo. Our canonical M1 model may be useful for characterising the synaptic mechanisms that mediate pathophysiological beta dynamics associated with movement disorders, such as stroke or Parkinson's disease. PMID:26956910
A comparison of directed evolution approaches using the beta-glucuronidase model system.
Rowe, Lori A; Geddie, Melissa L; Alexander, Omar B; Matsumura, Ichiro
2003-09-26
Protein engineers can alter the properties of enzymes by directing their evolution in vitro. Many methods to generate molecular diversity and to identify improved clones have been developed, but experimental evolution remains as much an art as a science. We previously used DNA shuffling (sexual recombination) and a histochemical screen to direct the evolution of Escherichia coli beta-glucuronidase (GUS) variants with improved beta-galactosidase (BGAL) activity. Here, we employ the same model evolutionary system to test the efficiencies of several other techniques: recursive random mutagenesis (asexual), combinatorial cassette mutagenesis (high-frequency recombination) and a versatile high-throughput microplate screen. GUS variants with altered specificity evolved in each trial, but different combinations of mutagenesis and screening techniques effected the fixation of different beneficial mutations. The new microplate screen identified a broader set of mutations than the previously employed X-gal colony screen. Recursive random mutagenesis produced essentially asexual populations, within which beneficial mutations drove each other into extinction (clonal interference); DNA shuffling and combinatorial cassette mutagenesis led instead to the accumulation of beneficial mutations within a single allele. These results explain why recombinational approaches generally increase the efficiency of laboratory evolution. PMID:12972256
Maximum Likelihood Estimation in Generalized Rasch Models.
ERIC Educational Resources Information Center
de Leeuw, Jan; Verhelst, Norman
1986-01-01
Maximum likelihood procedures are presented for a general model to unify the various models and techniques that have been proposed for item analysis. Unconditional maximum likelihood estimation, proposed by Wright and Haberman, and conditional maximum likelihood estimation, proposed by Rasch and Andersen, are shown as important special cases. (JAZ)
Superconformal generalizations of the Starobinsky model
Kallosh, Renata; Linde, Andrei E-mail: alinde@stanford.edu
2013-06-01
We find a way to represent the Starobinsky model in terms of a simple conformally invariant theory with spontaneous symmetry breaking. We also present a superconformal theory, which, upon spontaneous breaking of the superconformal symmetry, provides a consistent supergravity generalization of the Starobinsky model.
Cheng, Jin; Ju, Xiu-Lian; Chen, Xiang-Yang; Liu, Gen-Yan
2009-09-01
To further explore the mechanism of selective binding of the representative gamma-aminobutyric acid receptors (GABARs) noncompetitive antagonist (NCA) fipronil to insect over mammalian GABARs, three-dimensional models of human alpha 1 beta 2 gamma 2 and house fly beta 3 GABAR were generated by homology modeling, using the cryo-electron microscopy structure of the nicotinic acetylcholine receptor (nAChR) of Torpedo marmorata as a template. Fipronil was docked into the putative binding site of the human alpha 1 beta 2 gamma 2 and house fly beta 3 receptors by Surflex-docking, and the calculated docking energies are in agreement with experimental results. The GABA receptor antagonist fipronil exhibited higher potency with house fly beta 3 GABAR than with human alpha 1 beta 2 gamma 2 GABAR. Furthermore, analyses of Surflex-docking suggest that the H-bond interaction of fipronil with Ala2 and Thr6 in the second transmembrane segment (TM2) of these GABARs plays a relatively important role in ligand selective binding. The different subunit assemblies of human alpha 1 beta 2 gamma 2 and house fly beta 3 GABARs may result in differential selectivity for fipronil. PMID:19238461
Cosmology of generalized modified gravity models
Carroll, Sean M.; Duvvuri, Vikram; De Felice, Antonio; Easson, Damien A.; Trodden, Mark; Turner, Michael S.
2005-03-15
We consider general curvature-invariant modifications of the Einstein-Hilbert action that become important only in regions of extremely low space-time curvature. We investigate the far future evolution of the Universe in such models, examining the possibilities for cosmic acceleration and other ultimate destinies. The models generically possess de Sitter space as an unstable solution and exhibit an interesting set of attractor solutions which, in some cases, provide alternatives to dark energy models.
Generalized force model of traffic dynamics
NASA Astrophysics Data System (ADS)
Helbing, Dirk; Tilch, Benno
1998-07-01
Floating car data of car-following behavior in cities were compared to existing microsimulation models, after their parameters had been calibrated to the experimental data. With these parameter values, additional simulations have been carried out, e.g., of a moving car which approaches a stopped car. It turned out that, in order to manage such kinds of situations without producing accidents, improved traffic models are needed. Good results were obtained with the proposed generalized force model.
Meadows, Laurence S; Malhotra, Jyoti; Loukas, Andrew; Thyagarajan, Veena; Kazen-Gillespie, Kristin A; Koopman, Matthew C; Kriegler, Steven; Isom, Lori L; Ragsdale, David S
2002-12-15
Generalized epilepsy with febrile seizures plus type 1 is an inherited human epileptic syndrome, associated with a cysteine-to-tryptophan (C121W) mutation in the extracellular immunoglobin domain of the auxiliary beta1 subunit of the voltage-gated sodium channel. The mutation disrupts beta1 function, but how this leads to epilepsy is not understood. In this study, we make several observations that may be relevant for understanding why this beta1 mutation results in seizures. First, using electrophysiological recordings from mammalian cell lines, coexpressing sodium channel alpha subunits and either wild-type beta1 or C121Wbeta1, we show that loss of beta1 functional modulation, caused by the C121W mutation, leads to increased sodium channel availability at hyperpolarized membrane potentials and reduced sodium channel rundown during high-frequency channel activity, compared with channels coexpressed with wild-type beta1. In contrast, neither wild-type beta1 nor C121Wbeta1 significantly affected sodium current time course or the voltage dependence of channel activation. We also show, using a Drosophila S2 cell adhesion assay, that the C121W mutation disrupts beta1-beta1 homophilic cell adhesion, suggesting that the mutation may alter the ability of beta1 to mediate protein-protein interactions critical for sodium channel localization. Finally, we demonstrate that neither functional modulation nor cell adhesion mediated by wild-type beta1 is occluded by coexpression of C121Wbeta1, arguing against the idea that the mutant beta1 acts as a dominant-negative subunit. Together, these data suggest that C121Wbeta1 causes subtle effects on channel function and subcellular distribution that bias neurons toward hyperexcitabity and epileptogenesis. PMID:12486163
Space Station Freedom Beta Gimbal Control via Sensitivity Models
NASA Technical Reports Server (NTRS)
Schoenwald, David A.; Ozguner, Umit; Graham, Ronald E.
1993-01-01
Tracking control of the Space Station Freedom solar array beta gimbals is investigated. Of particular interest is the issue of control in the presence of uncertainty in gimbal friction parameters. Sensitivity functions are incorporated into the feedback loop to desensitize the gimbal control law to parameter variations. Simulation results indicated that one such sensitivity function improves the closed-loop performance of the gimbals in the presence of unexpected friction parameter dispersions.
The effects of interferon-alpha/beta in a model of rat heart transplantation
NASA Technical Reports Server (NTRS)
Slater, A. D.; Klein, J. B.; Sonnenfeld, G.; Ogden, L. L. 2nd; Gray, L. A. Jr
1992-01-01
Interferons have multiple immunologic effects. One such effect is the activation of expression of cell surface antigens. Interferon alpha/beta enhance expression of class I but not class II histocompatibility antigens. Contradictory information has been published regarding the effect of interferon-alpha/beta administration in patients with kidney transplantation. In a model of rat heart transplantation we demonstrated that administration of interferon-alpha/beta accelerated rejection in a dose-dependent fashion in the absence of maintenance cyclosporine. Animals treated with maintenance cyclosporine had evidence of increased rejection at 20 days that was resolved completely at 45 days with cyclosporine alone.
Implicitly modelled stratigraphic surfaces using generalized interpolation
NASA Astrophysics Data System (ADS)
Hillier, Michael; de Kemp, Eric; Schetselaar, Ernst
2016-06-01
Stratigraphic surfaces implicitly modelled using a generalized interpolation approach in various geological settings is presented to demonstrate its modelling capabilities and limitations. The generalized interpolation approach provides a useful mathematical framework in modelling continuous surfaces from scattered data consisting of the following geological constraints: contact locations and planar orientations. Examples are presented to show the effectiveness of the method in generating plausible representations of geological structures in sparse data environments. One of the major advantages of implicit surface modelling has long been claimed as its ability to model geometries with arbitrary topology. It is, however, demonstrated that this is in fact a disadvantage in robustly generating geologically realistic surfaces in structurally complex domains with a known topology.
Generalized Gibbs ensemble in integrable lattice models
NASA Astrophysics Data System (ADS)
Vidmar, Lev; Rigol, Marcos
2016-06-01
The generalized Gibbs ensemble (GGE) was introduced ten years ago to describe observables in isolated integrable quantum systems after equilibration. Since then, the GGE has been demonstrated to be a powerful tool to predict the outcome of the relaxation dynamics of few-body observables in a variety of integrable models, a process we call generalized thermalization. This review discusses several fundamental aspects of the GGE and generalized thermalization in integrable systems. In particular, we focus on questions such as: which observables equilibrate to the GGE predictions and who should play the role of the bath; what conserved quantities can be used to construct the GGE; what are the differences between generalized thermalization in noninteracting systems and in interacting systems mappable to noninteracting ones; why is it that the GGE works when traditional ensembles of statistical mechanics fail. Despite a lot of interest in these questions in recent years, no definite answers have been given. We review results for the XX model and for the transverse field Ising model. For the latter model, we also report original results and show that the GGE describes spin–spin correlations over the entire system. This makes apparent that there is no need to trace out a part of the system in real space for equilibration to occur and for the GGE to apply. In the past, a spectral decomposition of the weights of various statistical ensembles revealed that generalized eigenstate thermalization occurs in the XX model (hard-core bosons). Namely, eigenstates of the Hamiltonian with similar distributions of conserved quantities have similar expectation values of few-spin observables. Here we show that generalized eigenstate thermalization also occurs in the transverse field Ising model.
Redshift propagation equations in the {beta}{sup '{ne}}0 Szekeres models
Krasinski, Andrzej; Bolejko, Krzysztof
2011-04-15
The set of differential equations obeyed by the redshift in the general {beta}{sup '{ne}}0 Szekeres spacetimes is derived. Transversal components of the ray's momentum have to be taken into account, which leads to a set of 3 coupled differential equations. It is shown that in a general Szekeres model, and in a general Lemaitre-Tolman (L-T) model, generic light rays do not have repeatable paths (RLPs): two rays sent from the same source at different times to the same observer pass through different sequences of intermediate matter particles. The only spacetimes in the Szekeres class in which all rays are RLPs are the Friedmann models. Among the proper Szekeres models, RLPs exist only in the axially symmetric subcases, and in each one the RLPs are the null geodesics that intersect each t=constant space on the symmetry axis. In the special models with a 3-dimensional symmetry group (L-T among them), the only RLPs are radial geodesics. This shows that RLPs are very special and in the real Universe should not exist. We present several numerical examples which suggest that the rate of change of positions of objects in the sky, for the studied configuration, is 10{sup -6}-10{sup -7} arc sec per year. With the current accuracy of direction measurement, this drift would become observable after approximately 10 years of monitoring. More precise future observations will be able, in principle, to detect this effect, but there are basic problems with determining the reference direction that does not change.
Jobling, Andrew Ian; Wan, Ran; Gentle, Alex; Bui, Bang Viet; McBrien, Neville Anthony
2009-03-01
A visually evoked signalling cascade, which begins in the retina, transverses the choroid, and mediates scleral remodelling, is considered to control eye growth. The ubiquitous cytokine TGF-beta has been associated with alterations in ocular growth, where alterations in scleral TGF-beta isoforms mediate the scleral remodelling that results in myopia. However, while the TGF-beta isoforms have been implicated in the scleral change during myopia development, it is unclear whether alterations in retinal and choroidal isoforms constitute part of the retinoscleral cascade. This study characterised the retinal and choroidal TGF-beta isoform profiles and TGF-beta2 activation during different stages of myopia development, as induced by form deprivation, in a mammalian model of eye growth. Using quantitative real-time PCR, the mRNA for all three mammalian isoforms of TGF-beta was detected in tree shrew retina and choroid. Distinct tissue-specific isoform profiles were observed for the retina (TGF-beta1:TGF-beta2:TGF-beta3=20:2085:1) and choroid (TGF-beta1:TGF-beta2:TGF-beta3=16:23:1), which remained constant over the development period under investigation. The active and latent pools of retinal TGF-beta2 were quantified using ELISA with the majority (>94%) of total TGF-beta2 found in the latent form. Unlike previous scleral data showing early and continuous decreases in TGF-beta isoform expression during myopia development, the levels of the three isoforms remained within normal ranges for retinal (TGF-beta1, -14 to +14%; TGF-beta2, -2 to +20%; TGF-beta3, -10 to +26%) and choroidal (TGF-beta1, -19 to +21%; TGF-beta2, -26 to +8%; TGF-beta3, -11 to +28%) tissues during myopia development (induction times of 3h, 7h, 11h, 24h, and 5 days). A 40% decrease in retinal TGF-beta2 activation was observed after 5 days of myopia development, however, there was no functional correlate of altered TGF-beta2 activity, as assessed by the retinal ERG response. Overall, these data highlight
The General Education Collaboration Model: A Model for Successful Mainstreaming.
ERIC Educational Resources Information Center
Simpson, Richard L.; Myles, Brenda Smith
1990-01-01
The General Education Collaboration Model is designed to support general educators teaching mainstreamed disabled students, through collaboration with special educators. The model is based on flexible departmentalization, program ownership, identification and development of supportive attitudes, student assessment as a measure of program…
General Equilibrium Models: Improving the Microeconomics Classroom
ERIC Educational Resources Information Center
Nicholson, Walter; Westhoff, Frank
2009-01-01
General equilibrium models now play important roles in many fields of economics including tax policy, environmental regulation, international trade, and economic development. The intermediate microeconomics classroom has not kept pace with these trends, however. Microeconomics textbooks primarily focus on the insights that can be drawn from the…
Generalized hydrodynamics model for strongly coupled plasmas
NASA Astrophysics Data System (ADS)
Diaw, A.; Murillo, M. S.
2015-07-01
Beginning with the exact equations of the Bogoliubov-Born-Green-Kirkwood-Yvon hierarchy, we obtain the density, momentum, and stress tensor-moment equations. We close the moment equations with two closures, one that guarantees an equilibrium state given by density-functional theory and another that includes collisions in the relaxation of the stress tensor. The introduction of a density functional-theory closure ensures self-consistency in the equation-of-state properties of the plasma (ideal and excess pressure, electric fields, and correlations). The resulting generalized hydrodynamics thus includes all impacts of Coulomb coupling, viscous damping, and the high-frequency (viscoelastic) response. We compare our results with those of several known models, including generalized hydrodynamic theory and models obtained using the Singwi-Tosi-Land-Sjolander approximation and the quasilocalized charge approximation. We find that the viscoelastic response, including both the high-frequency elastic generalization and viscous wave damping, is important for correctly describing ion-acoustic waves. We illustrate this result by considering three very different systems: ultracold plasmas, dusty plasmas, and dense plasmas. The new model is validated by comparing its results with those of the current autocorrelation function obtained from molecular-dynamics simulations of Yukawa plasmas, and the agreement is excellent. Generalizations of this model to mixtures and quantum systems should be straightforward.
Anzai, Jun; Kitamura, Masahiro; Nozaki, Takenori; Nagayasu, Toshie; Terashima, Akio; Asano, Taiji; Murakami, Shinya
2010-12-17
Research highlights: {yields} Concomitant use of FGF-2 and {beta}-TCP (an osteo-conductive scaffold) significantly promotes periodontal regeneration in the severe periodontitis model (1-wall defect model) of beagle dog. {yields} FGF-2 enhanced new bone formation via {beta}-TCP at the defects. {yields} In particular, FGF-2 dramatically regenerated new periodontal ligament and cementum formations at the defects, that is one of the most important healing outcomes during the process of periodontal regeneration. {yields} Epithelial downgrowth (undesirable wound healing) was decreased by administration of FGF-2. {yields} This manuscript indicates for the first time that concomitant use of FGF-2 and {beta}-TCP is efficacious in regenerating periodontal tissue following severe destruction of the tissue by progression of periodontitis. -- Abstract: The effects of concomitant use of fibroblast growth factor-2 (FGF-2) and beta-tricalcium phosphate ({beta}-TCP) on periodontal regeneration were investigated in the beagle dog 1-wall periodontal defect model. One-wall periodontal defects were created in the mesial portion of both sides of the mandibular first molars, and 0.3% FGF-2 plus {beta}-TCP or {beta}-TCP alone was administered. Radiographic evaluation was performed at 0, 3, and 6 weeks. At 6 weeks, the periodontium with the defect site was removed and histologically analyzed. Radiographic findings showed that co-administration of FGF-2 significantly increased bone mineral contents of the defect sites compared with {beta}-TCP alone. Histologic analysis revealed that the length of the regenerated periodontal ligament, the cementum, distance to the junctional epithelium, new bone height, and area of newly formed bone were significantly increased in the FGF-2 group. No abnormal inflammatory response or ankylosis was observed in either group. These findings indicate the efficacy of concomitant use of FGF-2 and {beta}-TCP as an osteoconductive material for periodontal
Beste, Ariana; Buchanan III, A C; Younker, Jarod M
2012-01-01
The biopolymer lignin is a potential source of valuable chemicals. The $\\beta$-5 linkage comprises $\\sim$10\\% of the linkages in lignin. Density Functional Theory (DFT) was used to calculate the $\\alpha$C-O and $\\alpha$C-$\\beta$C bond dissociation enthalpies (BDEs) for $\\beta$-5 models with varied substituents, which are important for understanding initial lignin decomposition. The $\\alpha$C-O ($\\alpha$C-$\\beta$C) BDEs were in the range of 40-44 (57-62) kcal/mol. The products resulting from either homolysis are bi-radicals with multi-determinant character in the singlet electronic state. Multiconfiguration self-consistent field (MCSCF) theory results were used to verify that unrestricted DFT and broken-symmetry DFT were sufficient to study these reactions.
Bes, D. R.; Civitarese, O.
2010-01-15
Theoretical matrix elements, for the ground-state to ground-state two-neutrino double-{beta}-decay mode (2{nu}{beta}{sup -}{beta}{sup -}gs->gs) of {sup 128,130}Te isotopes, are calculated within a formalism that describes interactions between neutrons in a superfluid phase and protons in a normal phase. The elementary degrees of freedom of the model are proton-pair modes and pairs of protons and quasineutrons. The calculation is basically a parameter-free one, because all relevant parameters are fixed from the phenomenology. A comparison with the available experimental data is presented.
Topics in conformal invariance and generalized sigma models
Bernardo, L M
1997-05-01
This thesis consists of two different parts, having in common the fact that in both, conformal invariance plays a central role. In the first part, the author derives conditions for conformal invariance, in the large N limit, and for the existence of an infinite number of commuting classical conserved quantities, in the Generalized Thirring Model. The treatment uses the bosonized version of the model. Two different approaches are used to derive conditions for conformal invariance: the background field method and the Hamiltonian method based on an operator algebra, and the agreement between them is established. The author constructs two infinite sets of non-local conserved charges, by specifying either periodic or open boundary conditions, and he finds the Poisson Bracket algebra satisfied by them. A free field representation of the algebra satisfied by the relevant dynamical variables of the model is also presented, and the structure of the stress tensor in terms of free fields (and free currents) is studied in detail. In the second part, the author proposes a new approach for deriving the string field equations from a general sigma model on the world sheet. This approach leads to an equation which combines some of the attractive features of both the renormalization group method and the covariant beta function treatment of the massless excitations. It has the advantage of being covariant under a very general set of both local and non-local transformations in the field space. The author applies it to the tachyon, massless and first massive level, and shows that the resulting field equations reproduce the correct spectrum of a left-right symmetric closed bosonic string.
Mozar, Anaïs; Lin, Hugo; Williams, Katoura; Chin, Connie; Li, Rosemary; Kondegowda, Nagesha Guthalu; Stewart, Andrew F.; Garcia-Ocaña, Adolfo; Vasavada, Rupangi Chhaya
2016-01-01
Aims/Hypothesis Finding ways to stimulate the regeneration of endogenous pancreatic beta cells is an important goal in the treatment of diabetes. Parathyroid hormone-related protein (PTHrP), the full-length (1–139) and amino-terminal (1–36) peptides, enhance beta cell function, proliferation, and survival. Therefore, we hypothesize that PTHrP(1–36) has the potential to regenerate endogenous beta cells. Methods The partial pancreatectomy (PPx) mouse model of beta cell injury was used to test this hypothesis. Male Balb/c mice underwent either sham-operation or PPx, and were subsequently injected with PTHrP(1–36) (160μg/kg) or vehicle (veh), for 7, 30, or 90 days. The four groups of mice, sham-veh, sham-PTHrP, PPx-veh, and PPx-PTHrP were assessed for PTHrP and receptor expression, and glucose and beta cell homeostasis. Results PTHrP-receptor, but not the ligand, was significantly up-regulated in islets from mice that underwent PPx compared to sham-operated mice. This suggests that exogenous PTHrP could further enhance beta cell regeneration after PPx. PTHrP did not significantly affect body weight, blood glucose, plasma insulin, or insulin sensitivity, in either sham or PPx mice. Glucose tolerance improved in the PPx-PTHrP versus PPx-veh mice only in the early stages of treatment. As hypothesized, there was a significant increase in beta cell proliferation in PPx-PTHrP mice at days 7 and 30; however, this was normalized by day 90, compared to PPx-veh mice. Enhanced beta cell proliferation translated to a marked increase in beta cell mass at day 90, in PPx-PTHrP versus PPx-veh mice. Conclusions PTHrP(1–36) significantly enhances beta cell regeneration through increased beta cell proliferation and beta cell mass after PPx. Future studies will determine the potential of PTHrP to enhance functional beta cell mass in the setting of diabetes. PMID:27391423
A More General Model for the Intrinsic Scatter in Type Ia Supernova Distance Moduli
Marriner, John; Bernstein, J.P.; Kessler, Richard; Lampeitl, Hubert; Miquel, Ramon; Mosher, Jennifer; Nichol, Robert C.; Sako, Masao; Smith, Mathew; /Cape Town U.
2011-07-01
We describe a new formalism to fit the parameters {alpha} and {beta} that are used in the SALT2 model to determine the standard magnitudes of Type Ia supernovae (SNe Ia). The new formalism describes the intrinsic scatter in SNe Ia by a covariance matrix in place of the single parameter normally used. We have applied this formalism to the Sloan Digital Sky Survey Supernova Survey (SDSS-II) data and conclude that the data are best described by {alpha} = 0.135{sup +.033} - .017 and {beta} = 3.19{sup +0.14} - 0.24, where the error is dominated by the uncertainty in the form of the intrinsic scatter matrix. Our result depends on the introduction of a more general form for the intrinsic scatter of the distance moduli of SNe Ia than is conventional, resulting in a larger value of {beta} and a larger uncertainty than the conventional approach. Although this analysis results in a larger value of {beta} and a larger error, the SDSS data differ (at a 98% confidence level) from {beta} = 4.1, the value expected for extinction by the type of dust found in the Milky Way. We have modeled the distribution of SNe Ia in terms of their color and conclude that there is strong evidence that variation in color is a significant contributor to the scatter of SNe Ia around their standard candle magnitude.
General Regression and Representation Model for Classification
Qian, Jianjun; Yang, Jian; Xu, Yong
2014-01-01
Recently, the regularized coding-based classification methods (e.g. SRC and CRC) show a great potential for pattern classification. However, most existing coding methods assume that the representation residuals are uncorrelated. In real-world applications, this assumption does not hold. In this paper, we take account of the correlations of the representation residuals and develop a general regression and representation model (GRR) for classification. GRR not only has advantages of CRC, but also takes full use of the prior information (e.g. the correlations between representation residuals and representation coefficients) and the specific information (weight matrix of image pixels) to enhance the classification performance. GRR uses the generalized Tikhonov regularization and K Nearest Neighbors to learn the prior information from the training data. Meanwhile, the specific information is obtained by using an iterative algorithm to update the feature (or image pixel) weights of the test sample. With the proposed model as a platform, we design two classifiers: basic general regression and representation classifier (B-GRR) and robust general regression and representation classifier (R-GRR). The experimental results demonstrate the performance advantages of proposed methods over state-of-the-art algorithms. PMID:25531882
The Application of Global Kinetic Models to HMX Beta-Delta Transition and Cookoff Processes
Wemhoff, A P; Burnham, A K; Nichols III, A L
2006-12-07
The reduction of the number of reactions in kinetic models for both the HMX beta-delta phase transition and thermal cookoff provides an attractive alternative to traditional multi-stage kinetic models due to reduced calibration effort requirements. In this study, we use the LLNL code ALE3D to provide calibrated kinetic parameters for a two-reaction bidirectional beta-delta HMX phase transition model based on Sandia Instrumented Thermal Ignition (SITI) and Scaled Thermal Explosion (STEX) temperature history curves, and a Prout-Tompkins cookoff model based on One-Dimensional Time to Explosion (ODTX) data. Results show that the two-reaction bidirectional beta-delta transition model presented here agrees as well with STEX and SITI temperature history curves as a reversible four-reaction Arrhenius model, yet requires an order of magnitude less computational effort. In addition, a single-reaction Prout-Tompkins model calibrated to ODTX data provides better agreement with ODTX data than a traditional multi-step Arrhenius model, and can contain up to 90% less chemistry-limited time steps for low-temperature ODTX simulations. Manual calibration methods for the Prout-Tompkins kinetics provide much better agreement with ODTX experimental data than parameters derived from Differential Scanning Calorimetry (DSC) measurements at atmospheric pressure. The predicted surface temperature at explosion for STEX cookoff simulations is a weak function of the cookoff model used, and a reduction of up to 15% of chemistry-limited time steps can be achieved by neglecting the beta-delta transition for this type of simulation. Finally, the inclusion of the beta-delta transition model in the overall kinetics model can affect the predicted time to explosion by 1% for the traditional multi-step Arrhenius approach, while up to 11% using a Prout-Tompkins cookoff model.
Generalized Models for Rock Joint Surface Shapes
Du, Shigui; Hu, Yunjin; Hu, Xiaofei
2014-01-01
Generalized models of joint surface shapes are the foundation for mechanism studies on the mechanical effects of rock joint surface shapes. Based on extensive field investigations of rock joint surface shapes, generalized models for three level shapes named macroscopic outline, surface undulating shape, and microcosmic roughness were established through statistical analyses of 20,078 rock joint surface profiles. The relative amplitude of profile curves was used as a borderline for the division of different level shapes. The study results show that the macroscopic outline has three basic features such as planar, arc-shaped, and stepped; the surface undulating shape has three basic features such as planar, undulating, and stepped; and the microcosmic roughness has two basic features such as smooth and rough. PMID:25152901
The Beta Problem: The Incompatibility of X-ray and Sunyaev-Zeldovich Model Fitting
NASA Astrophysics Data System (ADS)
Burns, Jack O.; Hallman, E.; Motl, P.; Norman, M.
2006-12-01
We describe an analysis of a large sample of numerically simulated clusters which demonstrates the effects of using X-ray fitted beta-model parameters with Sunyaev-Zeldovich effect (SZE) data. There is a fundamental incompatibility between beta-model fits to X-ray surface brightness profiles and those done with SZE profiles. Since observational SZE radial profiles are in short supply, the X-ray parameters are often used in SZE analysis. We show that this leads to biased estimates of the integrated Compton y-parameter inside r500 and the value of the Hubble constant calculated from clusters. We suggest a simple scaling of the X-ray beta-model parameters which brings these calculated quantities into close agreement with the true values.
Study of {beta}-Decay in the Proton-Neutron Interacting Boson-Fermion Model
Zuffi, L.; Brant, S.; Yoshida, N.
2006-04-26
We study {beta}-decay in odd-A nuclei together with the energy levels and other properties in the proton-neutron interacting-boson-fermion model. We also report on the preliminary results in the odd-odd nuclei in the proton-neutron interacting boson-fermion-fermion model.
Money exchange model and a general outlook
NASA Astrophysics Data System (ADS)
Gupta, Abhijit Kar
2006-01-01
The kinetic gas theory, like the two-agent money exchange model, recently introduced in the econophysics of wealth distributions, is revisited. The emergence of a Boltzmann-Gibbs-like distribution of money into Pareto's law in the tail of the distribution is examined in terms of a 2×2 transition matrix with a general and simplified outlook. Some additional interesting results are also reported.
Modeling the Pion Generalized Parton Distribution
NASA Astrophysics Data System (ADS)
Mezrag, C.
2016-02-01
We compute the pion Generalized Parton Distribution (GPD) in a valence dressed quarks approach. We model the Mellin moments of the GPD using Ansätze for Green functions inspired by the numerical solutions of the Dyson-Schwinger Equations (DSE) and the Bethe-Salpeter Equation (BSE). Then, the GPD is reconstructed from its Mellin moment using the Double Distribution (DD) formalism. The agreement with available experimental data is very good.
A general business model for marine reserves.
Sala, Enric; Costello, Christopher; Dougherty, Dawn; Heal, Geoffrey; Kelleher, Kieran; Murray, Jason H; Rosenberg, Andrew A; Sumaila, Rashid
2013-01-01
Marine reserves are an effective tool for protecting biodiversity locally, with potential economic benefits including enhancement of local fisheries, increased tourism, and maintenance of ecosystem services. However, fishing communities often fear short-term income losses associated with closures, and thus may oppose marine reserves. Here we review empirical data and develop bioeconomic models to show that the value of marine reserves (enhanced adjacent fishing + tourism) may often exceed the pre-reserve value, and that economic benefits can offset the costs in as little as five years. These results suggest the need for a new business model for creating and managing reserves, which could pay for themselves and turn a profit for stakeholder groups. Our model could be expanded to include ecosystem services and other benefits, and it provides a general framework to estimate costs and benefits of reserves and to develop such business models. PMID:23573192
A General Business Model for Marine Reserves
Sala, Enric; Costello, Christopher; Dougherty, Dawn; Heal, Geoffrey; Kelleher, Kieran; Murray, Jason H.; Rosenberg, Andrew A.; Sumaila, Rashid
2013-01-01
Marine reserves are an effective tool for protecting biodiversity locally, with potential economic benefits including enhancement of local fisheries, increased tourism, and maintenance of ecosystem services. However, fishing communities often fear short-term income losses associated with closures, and thus may oppose marine reserves. Here we review empirical data and develop bioeconomic models to show that the value of marine reserves (enhanced adjacent fishing + tourism) may often exceed the pre-reserve value, and that economic benefits can offset the costs in as little as five years. These results suggest the need for a new business model for creating and managing reserves, which could pay for themselves and turn a profit for stakeholder groups. Our model could be expanded to include ecosystem services and other benefits, and it provides a general framework to estimate costs and benefits of reserves and to develop such business models. PMID:23573192
Hobolth, Asger; Siren, Jukka
2016-04-01
We consider the diffusion approximation of the multivariate Wright-Fisher process with mutation. Analytically tractable formulas for the first-and second-order moments of the allele frequency distribution are derived, and the moments are subsequently used to better understand key population genetics parameters and modeling frameworks. In particular we investigate the behavior of the expected homozygosity (the probability that two randomly sampled genes are identical) in the transient and stationary phases, and how appropriate the Dirichlet distribution is for modeling the allele frequency distribution at different evolutionary time scales. We find that the Dirichlet distribution is adequate for the pure drift model (no mutations allowed), but the distribution is not sufficiently flexible for more general mutation models. We suggest a new hierarchical Beta distribution for the allele frequencies in the Wright-Fisher process with a mutation model on the nucleotide level that distinguishes between transitions and transversions. PMID:26612605
Formulation and Application of the Generalized Multilevel Facets Model
ERIC Educational Resources Information Center
Wang, Wen-Chung; Liu, Chih-Yu
2007-01-01
In this study, the authors develop a generalized multilevel facets model, which is not only a multilevel and two-parameter generalization of the facets model, but also a multilevel and facet generalization of the generalized partial credit model. Because the new model is formulated within a framework of nonlinear mixed models, no efforts are…
Design of the UCLA general circulation model
NASA Technical Reports Server (NTRS)
Arakawa, A.
1972-01-01
An edited version is reported of notes distributed at the Summer Workshop on the UCLA General Circulation Model in June 1971. It presents the computational schemes of the UCLA model, along with the mathematical and physical principles on which these schemes are based. Included are the finite difference schemes for the governing fluid-dynamical equations, designed to maintain the important integral constraints and dispersion characteristics of the motion. Also given are the principles of parameterization of cumulus convection by an ensemble of identical clouds. A model of the ground hydrology, involving the liquid, ice and snow states of water, is included. A short summary is given of the scheme for computing solar and infrared radiation transfers through clear and cloudy air.
He, Xue Ying; Wen, Guang Yeong; Merz, George; Lin, Dawei; Yang, Ying Zi; Mehta, Penkaj; Schulz, Horst; Yang, Song Yu
2002-02-28
A full-length cDNA of mouse type 10 17 beta-hydroxysteroid dehydrogenase (17 beta-HSD10) was cloned from brain, representing the accurate nucleotide sequence information that rendered possible an accurate deduction of the amino acid sequence of the wild-type enzyme. A comparison of sequences and three-dimensional models of this enzyme revealed that structures previously reported by other groups carry either a truncated or mutated amino-terminal sequence. Fusion of the first 11 residues of the wild-type enzyme to the green fluorescent protein directed the reporter protein into mitochondria. Thus, the N-terminus was identified as a mitochondrial targeting signal that accounts for the intracellular localization of the mouse enzyme. This enzyme is normally associated with mitochondria, not with the endoplasmic reticulum as suggested by its trivial name 'endoplasmic reticulum-associated amyloid-beta biding protein (ERAB)'. After its C-terminal region was used to raise rabbit anti-17 betaHSD10 antibodies, immunogold electron microscopy showed that an abundance of this enzyme could be found in hippocampal synaptic mitochondria of betaAPP transgenic mice, but not in normal controls. High levels of this enzyme may disrupt steroid hormone homeostasis in synapses and contribute to synapse loss in the hippocampus of the mouse Alzheimer's disease model. PMID:11869808
Nasirpour, A; Landillon, V; Cuq, B; Scher, J; Banon, S; Desobry, S
2007-08-01
Handling and storage alter infant food powders due to lactose crystallization and interactions among components. Model infant foods were prepared by colyophilization of lactose, beta-lactoglobulin (beta-LG), and gelatinized starch. A mixture design was used to define the percentage of each mixture component to simulate a wide range of infant food powders. The kinetics of crystallization was studied by a gravimetric method (dynamic vapor sorption) at 70% relative humidity (RH). After freeze-drying, lactose was amorphous and crystallized at 70% RH. The delay before crystallization depends on the contents of beta-LG and starch in the formulations. A mathematical model was proposed to predict crystallization time (delay) at 70% RH. For the formulation containing 50% lactose, 25% beta-LG, and 25% starch, lactose was still amorphous after 42 h at 70% RH, whereas pure amorphous lactose crystallized after approximately 70 min. Calculated and experimental results of adsorbed moisture from the formulations were compared. Adsorbed water of formulation containing lactose could not be calculated from moisture sorption properties of each component at a given RH because beta-LG and gelatinized starch prevented lactose crystal growth. PMID:17638972
Generalized transformation for decorated spin models
NASA Astrophysics Data System (ADS)
Rojas, Onofre; Valverde, J. S.; de Souza, S. M.
2009-04-01
The paper discusses the transformation of decorated Ising models into an effective undecorated spin model, using the most general Hamiltonian for interacting Ising models including a long range and high order interactions. The inverse of a Vandermonde matrix with equidistant nodes [-s,s] is used to obtain an analytical expression of the transformation. This kind of transformation is very useful to obtain the partition function of decorated systems. The method presented by Fisher is also extended, in order to obtain the correlation functions of the decorated Ising models transforming into an effective undecorated Ising model. We apply this transformation to a particular mixed spin-(1/2, 1) and (1/2, 2) square lattice with only nearest site interaction. This model could be transformed into an effective uniform spin- S square lattice with nearest and next-nearest interaction, furthermore the effective Hamiltonian also includes combinations of three-body and four-body interactions; in particular we considered spin 1 and 2.
Generalized Mixture Models for Molecular Phylogenetic Estimation
Evans, Jason; Sullivan, Jack
2012-01-01
The rapidly growing availability of multigene sequence data during the past decade has enabled phylogeny estimation at phylogenomic scales. However, dealing with evolutionary process heterogeneity across the genome becomes increasingly challenging. Here we develop a mixture model approach that uses reversible jump Markov chain Monte Carlo (MCMC) estimation to permit as many distinct models as the data require. Each additional model considered may be a fully parametrized general time-reversible model or any of its special cases. Furthermore, we expand the usual proposal mechanisms for topology changes to permit hard polytomies (i.e., zero-length internal branches). This new approach is implemented in the Crux software toolkit. We demonstrate the feasibility of using reversible jump MCMC on mixture models by reexamining a well-known 44-taxon mammalian data set comprising 22 concatenated genes. We are able to reproduce the results of the original analysis (with respect to bipartition support) when we make identical assumptions, but when we allow for polytomies and/or use data-driven mixture model estimation, we infer much lower bipartition support values for several key bipartitions. PMID:21873377
General Model for Multicomponent Ablation Thermochemistry
NASA Technical Reports Server (NTRS)
Milos, Frank S.; Marschall, Jochen; Rasky, Daniel J. (Technical Monitor)
1994-01-01
A previous paper (AIAA 94-2042) presented equations and numerical procedures for modeling the thermochemical ablation and pyrolysis of thermal protection materials which contain multiple surface species. This work describes modifications and enhancements to the Multicomponent Ablation Thermochemistry (MAT) theory and code for application to the general case which includes surface area constraints, rate limited surface reactions, and non-thermochemical mass loss (failure). Detailed results and comparisons with data are presented for the Shuttle Orbiter reinforced carbon-carbon oxidation protection system which contains a mixture of sodium silicate (Na2SiO3), silica (SiO2), silicon carbide (SiC), and carbon (C).
A generalized model for compact stars
NASA Astrophysics Data System (ADS)
Aziz, Abdul; Ray, Saibal; Rahaman, Farook
2016-05-01
By virtue of the maximum entropy principle, we get an Euler-Lagrange equation which is a highly nonlinear differential equation containing the mass function and its derivatives. Solving the equation by a homotopy perturbation method we derive a generalized expression for the mass which is a polynomial function of the radial distance. Using the mass function we find a partially stable configuration and its characteristics. We show that different physical features of the known compact stars, viz. Her~X-1, RXJ~1856-37, SAX J ( SS1), SAX J ( SS2), and PSR~J~1614-2230, can be explained by the present model.
Generalized Drift-Diffusion Model In Semiconductors
Mesbah, S.; Bendib-Kalache, K.; Bendib, A.
2008-09-23
A new drift-diffusion model is proposed based on the computation of the stationary nonlocal current density. The semi classical Boltzmann equation is solved keeping all the anisotropies of the distribution function with the use of the continued fractions. The conductivity is calculated in the linear approximation and for arbitrary collision frequency with respect to Kv{sub t} where K{sup -1} is the characteristic length scale of the system and V{sub t} is the thermal velocity. The nonlocal conductivity can be used to close the generalized drift-diffusion equations valid for arbitrary collisionality.
Snow Hydrology in a General Circulation Model.
NASA Astrophysics Data System (ADS)
Marshall, Susan; Roads, John O.; Glatzmaier, Gary
1994-08-01
A snow hydrology has been implemented in an atmospheric general circulation model (GCM). The snow hydrology consists of parameterizations of snowfall and snow cover fraction, a prognostic calculation of snow temperature, and a model of the snow mass and hydrologic budgets. Previously, only snow albedo had been included by a specified snow line. A 3-year GCM simulation with this now more complete surface hydrology is compared to a previous GCM control run with the specified snow line, as well as with observations. In particular, the authors discuss comparisons of the atmospheric and surface hydrologic budgets and the surface energy budget for U.S. and Canadian areas.The new snow hydrology changes the annual cycle of the surface moisture and energy budgets in the model. There is a noticeable shift in the runoff maximum from winter in the control run to spring in the snow hydrology run. A substantial amount of GCM winter precipitation is now stored in the seasonal snow pack. Snow cover also acts as an important insulating layer between the atmosphere and the ground. Wintertime soil temperatures are much higher in the snow hydrology experiment than in the control experiment. Seasonal snow cover is important for dampening large fluctuations in GCM continental skin temperature during the Northern Hemisphere winter.Snow depths and snow extent show good agreement with observations over North America. The geographic distribution of maximum depths is not as well simulated by the model due, in part, to the coarse resolution of the model. The patterns of runoff are qualitatively and quantitatively similar to observed patterns of streamflow averaged over the continental United States. The seasonal cycles of precipitation and evaporation are also reasonably well simulated by the model, although their magnitudes are larger than is observed. This is due, in part, to a cold bias in this model, which results in a dry model atmosphere and enhances the hydrologic cycle everywhere.
Snow hydrology in a general circulation model
NASA Technical Reports Server (NTRS)
Marshall, Susan; Roads, John O.; Glatzmaier, Gary
1994-01-01
A snow hydrology has been implemented in an atmospheric general circulation model (GCM). The snow hydrology consists of parameterizations of snowfall and snow cover fraction, a prognostic calculation of snow temperature, and a model of the snow mass and hydrologic budgets. Previously, only snow albedo had been included by a specified snow line. A 3-year GCM simulation with this now more complete surface hydrology is compared to a previous GCM control run with the specified snow line, as well as with observations. In particular, the authors discuss comparisons of the atmospheric and surface hydrologic budgets and the surface energy budget for U.S. and Canadian areas. The new snow hydrology changes the annual cycle of the surface moisture and energy budgets in the model. There is a noticeable shift in the runoff maximum from winter in the control run to spring in the snow hydrology run. A substantial amount of GCM winter precipitation is now stored in the seasonal snowpack. Snow cover also acts as an important insulating layer between the atmosphere and the ground. Wintertime soil temperatures are much higher in the snow hydrology experiment than in the control experiment. Seasonal snow cover is important for dampening large fluctuations in GCM continental skin temperature during the Northern Hemisphere winter. Snow depths and snow extent show good agreement with observations over North America. The geographic distribution of maximum depths is not as well simulated by the model due, in part, to the coarse resolution of the model. The patterns of runoff are qualitatively and quantitatively similar to observed patterns of streamflow averaged over the continental United States. The seasonal cycles of precipitation and evaporation are also reasonably well simulated by the model, although their magnitudes are larger than is observed. This is due, in part, to a cold bias in this model, which results in a dry model atmosphere and enhances the hydrologic cycle everywhere.
Schmid, Matthias; Wickler, Florian; Maloney, Kelly O.; Mitchell, Richard; Fenske, Nora; Mayr, Andreas
2013-01-01
Regression analysis with a bounded outcome is a common problem in applied statistics. Typical examples include regression models for percentage outcomes and the analysis of ratings that are measured on a bounded scale. In this paper, we consider beta regression, which is a generalization of logit models to situations where the response is continuous on the interval (0,1). Consequently, beta regression is a convenient tool for analyzing percentage responses. The classical approach to fit a beta regression model is to use maximum likelihood estimation with subsequent AIC-based variable selection. As an alternative to this established - yet unstable - approach, we propose a new estimation technique called boosted beta regression. With boosted beta regression estimation and variable selection can be carried out simultaneously in a highly efficient way. Additionally, both the mean and the variance of a percentage response can be modeled using flexible nonlinear covariate effects. As a consequence, the new method accounts for common problems such as overdispersion and non-binomial variance structures. PMID:23626706
A More General, Quasineutral Plasma Model
NASA Astrophysics Data System (ADS)
Fernsler, Richard
2003-10-01
More than seventy-five years ago, Irving Langmuir proposed a quasineutral plasma model still widely used today. The electrostatic field is derived from the electron density using the Boltzmann approximation, while the electron density is obtained from the ion densities using quasineutrality. However, the Boltzmann approximation is not always valid and has no relationship to quasineutrality. Moreover, the solutions thus obtained are usually singular near the ion sound speed, thus necessitating an additional boundary condition known as the Bohm condition. This condition is difficult to use when multiple ion species are present, is ill posed in kinetic treatments, and does not always apply. In this talk, a more general quasineutral model is presented to circumvent these limitations.
Generalized mathematical models in design optimization
NASA Technical Reports Server (NTRS)
Papalambros, Panos Y.; Rao, J. R. Jagannatha
1989-01-01
The theory of optimality conditions of extremal problems can be extended to problems continuously deformed by an input vector. The connection between the sensitivity, well-posedness, stability and approximation of optimization problems is steadily emerging. The authors believe that the important realization here is that the underlying basis of all such work is still the study of point-to-set maps and of small perturbations, yet what has been identified previously as being just related to solution procedures is now being extended to study modeling itself in its own right. Many important studies related to the theoretical issues of parametric programming and large deformation in nonlinear programming have been reported in the last few years, and the challenge now seems to be in devising effective computational tools for solving these generalized design optimization models.
Two-loop beta-functions of the sine-Gordon model
NASA Astrophysics Data System (ADS)
Balog, János; Hegedus, Árpád
2000-09-01
We recalculate the two-loop beta-functions in the two-dimensional sine-Gordon model in a two-parameter expansion around the asymptotically free point. Our results agree with those of Amit et al (Amit D J, Goldschmidt Y Y and Grinstein G 1980 J. Phys. A: Math. Gen. 13 585).
Modeling of turbulent supersonic H2-air combustion with a multivariate beta PDF
NASA Technical Reports Server (NTRS)
Baurle, R. A.; Hassan, H. A.
1993-01-01
Recent calculations of turbulent supersonic reacting shear flows using an assumed multivariate beta PDF (probability density function) resulted in reduced production rates and a delay in the onset of combustion. This result is not consistent with available measurements. The present research explores two possible reasons for this behavior: use of PDF's that do not yield Favre averaged quantities, and the gradient diffusion assumption. A new multivariate beta PDF involving species densities is introduced which makes it possible to compute Favre averaged mass fractions. However, using this PDF did not improve comparisons with experiment. A countergradient diffusion model is then introduced. Preliminary calculations suggest this to be the cause of the discrepancy.
Sorption of agrochemical model compounds by sorbent materials containing beta-cyclodextrin.
Wilson, Lee D; Mohamed, Mohamed H; Guo, Rui; Pratt, Dawn Y; Kwon, Jae Hyuck; Mahmud, Sarker T
2010-04-01
Polymeric sorbent materials that incorporate beta-cyclodextrin (CD) have been prepared and their sorption behavior toward two model agrochemical contaminant compounds, p-nitrophenol (PNP) and methyl chloride examined. The sorption of PNP was studied in aqueous solution using ultraviolet-visible (UV-Vis) spectroscopy, whereas the sorption of methyl chloride from the gas phase was studied using a Langmuir adsorption method. The sorption results for PNP in solution were compared between granular activated carbon (GAC), modified GAC, CD copolymers, and CD-based mesoporous silica hybrid materials. Nitrogen porosimetry at 77 K was used to estimate the surface area and pore structure properties of the sorbent materials. The sorbents displayed variable surface areas as follows: copolymers (36.2-157 m(2)/g), CD-silica materials (307-906 m(2)/g), surface modified GAC (657 m(2)/g), and granular activated carbon (approximately 10(3) m(2)/g). The sorption capacities for PNP and methyl chloride with the different sorbents are listed in descending order as follows: GAC > copolymers > surface modified GAC > CD-silica hybrid materials. In general, the differences in the sorption properties of the sorbents were related to the following: (i) surface area of the sorbent, (ii) CD content and accessibility, (iii) and the chemical nature of the sorbent material. PMID:20407992
Modeling global lightning distributions in a general circulation model
NASA Technical Reports Server (NTRS)
Price, Colin; Rind, David
1994-01-01
A general circulation model (GCM) is used to model global lightning distributions and frequencies. Both total and cloud-to-ground lightning frequencies are modeled using parameterizations that relate the depth of convective clouds to lightning frequencies. The model's simulations of lightning distributions in time and space show good agreement with available observations. The model's annual mean climatology shows a global lightning frequency of 77 flashes per second, with cloud-to-ground lightning making up 25% of the total. The maximum lightning activity in the GCM occurs during the Northern Hemisphere summer, with approximately 91% of all lightning occurring over continental and coastal regions.
Generalized Chen-Wu type cosmological model
NASA Astrophysics Data System (ADS)
John, Moncy V.; Joseph, K. Babu
2000-04-01
Recent measurements require modifications in conventional cosmology by way of introducing components other than ordinary matter into the total energy density in the universe. On the basis of some dimensional considerations in line with quantum cosmology, Chen and Wu [W. Chen and Y. Wu, Phys. Rev. D 41, 695 (1990)] have argued that an additional component, which corresponds to an effective cosmological constant Λ, must vary as a-2 in the classical era. Their decaying-Λ model assumes inflation and yields a value for q0, which is not compatible with observations. We generalize this model by arguing that the Chen-Wu ansatz is applicable to the total energy density of the universe and not to Λ alone. The resulting model, which has a coasting evolution (i.e., a~t), is devoid of the problems of horizon, flatness, monopole, cosmological constant, size, age and generation of density perturbations. However, to avoid serious contradictions with big bang nucleosynthesis, the model has to make the predictions Ωm=4/3 and ΩΛ=2/3, which in turn are at variance with current observational values.
Generalization ability of fractional polynomial models.
Lei, Yunwen; Ding, Lixin; Ding, Yiming
2014-01-01
In this paper, the problem of learning the functional dependency between input and output variables from scattered data using fractional polynomial models (FPM) is investigated. The estimation error bounds are obtained by calculating the pseudo-dimension of FPM, which is shown to be equal to that of sparse polynomial models (SPM). A linear decay of the approximation error is obtained for a class of target functions which are dense in the space of continuous functions. We derive a structural risk analogous to the Schwartz Criterion and demonstrate theoretically that the model minimizing this structural risk can achieve a favorable balance between estimation and approximation errors. An empirical model selection comparison is also performed to justify the usage of this structural risk in selecting the optimal complexity index from the data. We show that the construction of FPM can be efficiently addressed by the variable projection method. Furthermore, our empirical study implies that FPM could attain better generalization performance when compared with SPM and cubic splines. PMID:24140985
MSCALE: A General Utility for Multiscale Modeling
Woodcock, H. Lee; Miller, Benjamin T.; Hodoscek, Milan; Okur, Asim; Larkin, Joseph D.; Ponder, Jay W.; Brooks, Bernard R.
2011-01-01
The combination of theoretical models of macromolecules that exist at different spatial and temporal scales has become increasingly important for addressing complex biochemical problems. This work describes the extension of concurrent multiscale approaches, introduces a general framework for carrying out calculations, and describes its implementation into the CHARMM macromolecular modeling package. This functionality, termed MSCALE, generalizes both the additive and subtractive multiscale scheme (e.g. QM/MM ONIOM-type), and extends its support to classical force fields, coarse grained modeling (e.g. ENM, GNM, etc.), and a mixture of them all. The MSCALE scheme is completely parallelized with each subsystem running as an independent, but connected calculation. One of the most attractive features of MSCALE is the relative ease of implementation using the standard MPI communication protocol. This allows external access to the framework and facilitates the combination of functionality previously isolated in separate programs. This new facility is fully integrated with free energy perturbation methods, Hessian based methods, and the use of periodicity and symmetry, which allows the calculation of accurate pressures. We demonstrate the utility of this new technique with four examples; (1) subtractive QM/MM and QM/QM calculations; (2) multi-force field alchemical free energy perturbation; (3) integration with the SANDER module of AMBER and the TINKER package to gain access to potentials not available in CHARMM; and (4) mixed resolution (i.e. coarse grain / all-atom) normal mode analysis. The potential of this new tool is clearly established and in conclusion an interesting mathematical problem is highlighted and future improvements are proposed. PMID:21691425
Pelmont, J; Barrelle, M; Hauteville, M; Gamba, D; Romdhane, M; Dardas, A; Beguin, C
1985-09-01
A lignin model compound, named in short guaiagylglycerol beta-guaiacyl ether (GGE), contains the beta-0-4 ether linkage that is common in the chemical structure of lignin. A Pseudomonas sp. (GU5) had been isolated as an organism able to grow with GGE as the sole source of carbon and energy. When grown on vanillate, the bacteria contained a NAD+ -dependent dehydrogenase converting GGE to a 355 nm absorbing product. The enzyme, named GGE-dehydrogenase, was purified about 160-fold using gel permeation, ion exchange on DEAE-Sephadex, and dye-ligand affinity chromatography. The new protein was about 52 kDa in apparent size with but one polypeptide chain after denaturation and reduction. According to several criteria, the product of GGE oxidation (Km = 12 microM) was identified as the corresponding conjugated ketone at the alpha-carbon of the C3 side-chain. The secondary alcohol function in GGE was apparently the sole target of the enzyme action. However the conversion of GGE into ketone catalyzed by the enzyme was only partial, and did not exceed 50%, probably because only one of the alpha-enantiomers was susceptible to enzyme attack. In contrast the ketone, either made by organic synthesis or by enzymic oxidation of GGE, could be totally reduced back to GGE (Km = 13 microM at pH 8.4, 8 microM at neutral pH), with NADH as the reductant, as confirmed by UV absorption and NMR spectra. Other model compounds with no primary alcoholic function, ether linkage or phenolic group were also substrates for the enzyme, confirming the specificity of GGE-dehydrogenase for the alpha-carbon position. Conjugation of the alpha-ketone with an adjacent phenolic nucleus interfered strongly with equilibrium constants and redox potentials of the system according to pH, and the enzyme displayed widely different optima with pH over 9 when oxidizing GGE, below 7 when reducing the ketone. Equilibrium studies showed that the ketone/GGE potential was -0.37 volt at pH 8.7, -0.23 volt at pH 7 (30
Neutrinoless double beta decay in type I+II seesaw models
NASA Astrophysics Data System (ADS)
Borah, Debasish; Dasgupta, Arnab
2015-11-01
We study neutrinoless double beta decay in left-right symmetric extension of the standard model with type I and type II seesaw origin of neutrino masses. Due to the enhanced gauge symmetry as well as extended scalar sector, there are several new physics sources of neutrinoless double beta decay in this model. Ignoring the left-right gauge boson mixing and heavy-light neutrino mixing, we first compute the contributions to neutrinoless double beta decay for type I and type II dominant seesaw separately and compare with the standard light neutrino contributions. We then repeat the exercise by considering the presence of both type I and type II seesaw, having non-negligible contributions to light neutrino masses and show the difference in results from individual seesaw cases. Assuming the new gauge bosons and scalars to be around a TeV, we constrain different parameters of the model including both heavy and light neutrino masses from the requirement of keeping the new physics contribution to neutrinoless double beta decay amplitude below the upper limit set by the GERDA experiment and also satisfying bounds from lepton flavor violation, cosmology and colliders.
Ocean general circulation models for parallel architectures
Smith, R.D.
1993-05-01
The authors report continuing work in developing ocean general circulation models for parallel architectures. In earlier work, they began with the widely-used Bryan-Cox ocean model, but reformulated the barotropic equations (which describe the vertically integrated flow) to solve for the surface-pressure field rather than the volume-transport streamfunction as in the original model. This had the advantage of being more easily parallelized and allowed for a more realistic representation of coastal and bottom topography. Both streamfunction and surface-pressure formulations use a rigid-lid approximation to eliminate fast surface waves. They have now replaced the rigid-lid with a free surface, and solve the barotropic equations implicitly to overcome the timestep restriction associated with the fast waves. This method has several advantages, including: (1) a better physical representation of the barotropic mode, and (2) a better-conditioned operator matrix, which leads to much faster convergence in the conjugate-gradient solver. They have also extended the model to allow use of arbitrary orthogonal curvilinear coordinates for the horizontal grid. The original model uses a standard polar grid that has a singularity at each pole, making it difficult to include the Arctic basin, which plays an important role in global ocean circulation. They can now include the Arctic (while still using an explicit time-integration scheme without high-latitude filtering) by using a distorted grid with a displaced pole for the North Atlantic - Arctic region of the ocean. The computer code, written in Fortran 90 and developed on the Connection Machine, has been substantially restructured so that all communication occurs in low-level stencil routines. The idea is that the stencil routines may be rewritten to optimize communication costs on a particular architecture, while the remainder of the code is for the most part machine-independent, involving only the simplest Fortran 90 constructs.
GPU Developments for General Circulation Models
NASA Astrophysics Data System (ADS)
Appleyard, Jeremy; Posey, Stan; Ponder, Carl; Eaton, Joe
2014-05-01
Current trends in high performance computing (HPC) are moving towards the use of graphics processing units (GPUs) to achieve speedups through the extraction of fine-grain parallelism of application software. GPUs have been developed exclusively for computational tasks as massively-parallel co-processors to the CPU, and during 2013 an extensive set of new HPC architectural features were developed in a 4th generation of NVIDIA GPUs that provide further opportunities for GPU acceleration of general circulation models used in climate science and numerical weather prediction. Today computational efficiency and simulation turnaround time continue to be important factors behind scientific decisions to develop models at higher resolutions and deploy increased use of ensembles. This presentation will examine the current state of GPU parallel developments for stencil based numerical operations typical of dynamical cores, and introduce new GPU-based implicit iterative schemes with GPU parallel preconditioning and linear solvers based on ILU, Krylov methods, and multigrid. Several GCMs show substantial gain in parallel efficiency from second-level fine-grain parallelism under first-level distributed memory parallel through a hybrid parallel implementation. Examples are provided relevant to science-scale HPC practice of CPU-GPU system configurations based on model resolution requirements of a particular simulation. Performance results compare use of the latest conventional CPUs with and without GPU acceleration. Finally a forward looking discussion is provided on the roadmap of GPU hardware, software, tools, and programmability for GCM development.
Generalized Measure of Entropy, Mathai's Distributional Pathway Model, and Tsallis Statistics
NASA Astrophysics Data System (ADS)
Mathai, A. M.; Haubold, H. J.
2006-11-01
mathai@math.mcgill.ca The well-known pathway model of Mathai (2005) mainly deals with the rectangular matrix-variate case. In this paper the scalar version is shown to be associated with a large number of probability models used in physics. Different families of densities are discussed, which are all connected through the pathway parameter α, generating a distributional pathway. The idea is to switch from one functional form to another through this parameter and it is shown that basically one can proceed from the generalized type-1 beta family to generalized type-2 beta family to generalized gamma family when the real variable is positive and a wider set of families when the variable can take negative values also. For simplicity, only the real scalar case is discussed here but corresponding families are available when the variable is in the complex domain. A large number of densities used in physics are shown to be special cases of or associated with the pathway model, including Maxwell-Boltzmann, Fermi-Dirac, and Bose- Einstein distributions. It is also shown that the pathway model is available by maximizing a generalized measure of entropy, leading to an entropic pathway. Particular cases of the pathway model are shown to cover Tsallis statistics (Tsallis, 1988) and the superstatistics introduced by Beck and Cohen (2003).
Spatiotemporal representation of 3D hand trajectory based on beta-elliptic models.
Boubaker, Houcine; Rezzoug, Nasser; Kherallah, Monji; Gorce, Philippe; Alimi, Adel M
2015-01-01
The aim of this paper was to model the hand trajectory during grasping by an extension in 3D of the 2D written language beta-elliptic model. The interest of this model is that it takes into account both geometric and velocity information. The method relies on the decomposition of the task space trajectories in elementary bricks. The latter is characterized by a velocity profile modelled with beta functions and a geometry modelled with elliptic shapes. A data base of grasping movements has been constructed and the errors of reconstruction were assessed (distance and curvature) considering two variations of the beta-elliptic model ('quarter ellipse' and 'two tangents points' method). The results showed that the method based on two tangent points outperforms the quarter ellipse method with average and maximum relative errors of 2.73% and 8.62%, respectively, and a maximum curvature error of 9.26% for the former. This modelling approach can find interesting application to characterize the improvement due to a rehabilitation or teaching process by a quantitative measurement of hand trajectory parameters. PMID:25199025
A Simple General Model of Evolutionary Dynamics
NASA Astrophysics Data System (ADS)
Thurner, Stefan
Evolution is a process in which some variations that emerge within a population (of, e.g., biological species or industrial goods) get selected, survive, and proliferate, whereas others vanish. Survival probability, proliferation, or production rates are associated with the "fitness" of a particular variation. We argue that the notion of fitness is an a posteriori concept in the sense that one can assign higher fitness to species or goods that survive but one can generally not derive or predict fitness per se. Whereas proliferation rates can be measured, fitness landscapes, that is, the inter-dependence of proliferation rates, cannot. For this reason we think that in a physical theory of evolution such notions should be avoided. Here we review a recent quantitative formulation of evolutionary dynamics that provides a framework for the co-evolution of species and their fitness landscapes (Thurner et al., 2010, Physica A 389, 747; Thurner et al., 2010, New J. Phys. 12, 075029; Klimek et al., 2009, Phys. Rev. E 82, 011901 (2010). The corresponding model leads to a generic evolutionary dynamics characterized by phases of relative stability in terms of diversity, followed by phases of massive restructuring. These dynamical modes can be interpreted as punctuated equilibria in biology, or Schumpeterian business cycles (Schumpeter, 1939, Business Cycles, McGraw-Hill, London) in economics. We show that phase transitions that separate phases of high and low diversity can be approximated surprisingly well by mean-field methods. We demonstrate that the mathematical framework is suited to understand systemic properties of evolutionary systems, such as their proneness to collapse, or their potential for diversification. The framework suggests that evolutionary processes are naturally linked to self-organized criticality and to properties of production matrices, such as their eigenvalue spectra. Even though the model is phrased in general terms it is also practical in the sense
NASA Astrophysics Data System (ADS)
Khosravi Tanak, A.; Mohtashami Borzadaran, G. R.; Ahmadi, J.
2015-11-01
In economics and social sciences, the inequality measures such as Gini index, Pietra index etc., are commonly used to measure the statistical dispersion. There is a generalization of Gini index which includes it as special case. In this paper, we use principle of maximum entropy to approximate the model of income distribution with a given mean and generalized Gini index. Many distributions have been used as descriptive models for the distribution of income. The most widely known of these models are the generalized beta of second kind and its subclass distributions. The obtained maximum entropy distributions are fitted to the US family total money income in 2009, 2011 and 2013 and their relative performances with respect to generalized beta of second kind family are compared.
A Beta Item Response Model for Continuous Bounded Responses
ERIC Educational Resources Information Center
Noel, Yvonnick; Dauvier, Bruno
2007-01-01
An item response model is proposed for the analysis of continuous response formats in an item response theory (IRT) framework. With such formats, respondents are asked to report their response as a mark on a fixed-length graphical segment whose ends are labeled with extreme responses. An interpolation process is proposed as the response mechanism…
Jupiter Thermospheric General Circulation Model (jtgcm)
NASA Astrophysics Data System (ADS)
Majeed, T.; Waite, J. H.; Bougher, S. W.; Gladstone, G. R.
Recent observations of infrared and FUV auroral emissions from Jupiter have shown the presence of high-speed (> 2km/s) winds in the jovian thermosphere. The Galileo probe measurements of the altitude profile of equatorial temperature exhibit wave-like oscillations at all altitudes from 1029 to 133 km above the 1-bar level. A number of recent studies interpret these oscillations as being due to upward propagating gravity waves. The transport of significant auroral energy and species to equatorial latitudes by the thermospheric winds has also been proposed to explain the measured temper- ature structure observed by the Galileo probe. We examine this hypothesis using a fully 3-D Jupiter Thermospheric General Circulation Model (JTGCM) that has been developed and exercised to address global scale temperature, wind, and neutral-ion specie distributions. It was developed from a suitable adaptation of the NCAR Ther- mosphere Ionosphere General Circulation Model (TIGCM). New code was developed to parameterize the estimated auroral and equatorial heating and ionization distribu- tions learned from Galileo, HST, ROSAT, and Voyager data. Asymmetric auroral ovals are specified separately for the north and south poles. The lower boundary is set at 20 µb in order to capture the bulk of the hydrocarbon cooling due to C2H2 and CH4 at the base of the thermosphere. The upper boundary is set at 10-4 nb, sufficiently high enough to capture most auroral heating processes and winds. An ion-drag scheme is incorporated based on the formulation described by Roble and Ridley [1987]. A con- vection electric field is estimated and corresponding ion drifts are generated using the formulation of Evitar and Barbosa [1984]. These prescriptions provide a means to test the general impact of ion drag and Joule heating on the JTGCM neutral winds. The JTGCM has been fully spun-up (closely approaching steady state) and exercised for various cases to simulate 3-component neutral winds, and corresponding
Lightning Climatology with a Generalized Additive Model
NASA Astrophysics Data System (ADS)
Simon, Thorsten; Mayr, Georg; Umlauf, Nikolaus; Zeileis, Achim
2016-04-01
This study present a lightning climatology on a 1km x 1km grid estimated via generalized additive models (GAM). GAMs provide a framework to account for non-linear effects in time and space and for non-linear spatial-temporal interaction terms simultaneously. The degrees of smoothness of the non-linear effects is selected automatically in our approach. Furthermore, the influence of topography is captured in the model by including a non-linear term. To illustrate our approach we use lightning data from the ALDIS networks and selected a region in Southeastern Austria, where complex terrain extends from 200 an 3800 m asl and summertime lightning activity is high compared to other parts of the Eastern Alps. The temporal effect in the GAM shows a rapid increase in lightning activity in early July and a slow decay in activity afterwards. The estimated spatial effect is not very smooth and requires approximately 225 effective degrees of freedom. It reveals that lightning is more likely in the Eastern and Southern part of the region of interest. This spatial effect only accounts for variability not already explained by the topography. The topography effect shows lightning to be more likely at higher altitudes. The effect describing the spatio-temporal interactions takes approximately 200 degrees of freedom, and reveals local deviations of the climatology.
Detecting contaminated birthdates using generalized additive models
2014-01-01
Background Erroneous patient birthdates are common in health databases. Detection of these errors usually involves manual verification, which can be resource intensive and impractical. By identifying a frequent manifestation of birthdate errors, this paper presents a principled and statistically driven procedure to identify erroneous patient birthdates. Results Generalized additive models (GAM) enabled explicit incorporation of known demographic trends and birth patterns. With false positive rates controlled, the method identified birthdate contamination with high accuracy. In the health data set used, of the 58 actual incorrect birthdates manually identified by the domain expert, the GAM-based method identified 51, with 8 false positives (resulting in a positive predictive value of 86.0% (51/59) and a false negative rate of 12.0% (7/58)). These results outperformed linear time-series models. Conclusions The GAM-based method is an effective approach to identify systemic birthdate errors, a common data quality issue in both clinical and administrative databases, with high accuracy. PMID:24923281
Generalized Reduced Order Modeling of Aeroservoelastic Systems
NASA Astrophysics Data System (ADS)
Gariffo, James Michael
Transonic aeroelastic and aeroservoelastic (ASE) modeling presents a significant technical and computational challenge. Flow fields with a mixture of subsonic and supersonic flow, as well as moving shock waves, can only be captured through high-fidelity CFD analysis. With modern computing power, it is realtively straightforward to determine the flutter boundary for a single structural configuration at a single flight condition, but problems of larger scope remain quite costly. Some such problems include characterizing a vehicle's flutter boundary over its full flight envelope, optimizing its structural weight subject to aeroelastic constraints, and designing control laws for flutter suppression. For all of these applications, reduced-order models (ROMs) offer substantial computational savings. ROM techniques in general have existed for decades, and the methodology presented in this dissertation builds on successful previous techniques to create a powerful new scheme for modeling aeroelastic systems, and predicting and interpolating their transonic flutter boundaries. In this method, linear ASE state-space models are constructed from modal structural and actuator models coupled to state-space models of the linearized aerodynamic forces through feedback loops. Flutter predictions can be made from these models through simple eigenvalue analysis of their state-transition matrices for an appropriate set of dynamic pressures. Moreover, this analysis returns the frequency and damping trend of every aeroelastic branch. In contrast, determining the critical dynamic pressure by direct time-marching CFD requires a separate run for every dynamic pressure being analyzed simply to obtain the trend for the critical branch. The present ROM methodology also includes a new model interpolation technique that greatly enhances the benefits of these ROMs. This enables predictions of the dynamic behavior of the system for flight conditions where CFD analysis has not been explicitly
Remote Sensing of Alpha and Beta Sources - Modeling Summary
Dignon, J; Frank, M; Cherepy, N
2005-10-20
Evaluating the potential for optical detection of the products of interactions of energetic electrons or other particles with the background atmosphere depends on predictions of change in atmospheric concentrations of species which would generate detectable spectral signals within the range of observation. The solar blind region of the spectrum, in the ultra violet, would be the logical band for outdoor detection (see Figure 1). The chemistry relevant to these processes is composed of ion-molecule reactions involving the initially created N{sub 2}{sup +} and O{sub 2}{sup +} ions, and their subsequent interactions with ambient trace atmospheric constituents. Effective modeling of the atmospheric chemical system acted upon by energetic particles requires knowledge of the dominant mechanism that exchange charge and associate it with atmospheric constituents, kinetic parameters of the individual processes (see e.g. Brasseur and Solomon, 1995), and a solver for the coupled differential equations that is accurate for the very stiff set of time constants involved. The LLNL box model, VOLVO, simulates the diel cycle of trace constituent photochemistry for any point on the globe over the wide range of time scales present using a stiff Gear-type ODE solver, i.e. LSODE. It has been applied to problems such as tropospheric and stratospheric nitrogen oxides, stratospheric ozone production and loss, and tropospheric hydrocarbon oxidation. For this study we have included the appropriate ion flux.
Wade, Cian; Brown, Peter
2016-01-01
Beta oscillations are a dominant feature of the sensorimotor system. A transient and prominent increase in beta oscillations is consistently observed across the sensorimotor cortical-basal ganglia network after cessation of voluntary movement: the post-movement beta synchronization (PMBS). Current theories about the function of the PMBS have been focused on either the closure of motor response or the processing of sensory afferance. Computational models of sensorimotor control have emphasized the importance of the integration between feedforward estimation and sensory feedback, and therefore the putative motor and sensory functions of beta oscillations may reciprocally interact with each other and in fact be indissociable. Here we show that the amplitude of sensorimotor PMBS is modulated by the history of visual feedback of task-relevant errors, and negatively correlated with the trial-to-trial exploratory adjustment in a sensorimotor adaptation task in young healthy human subjects. The PMBS also negatively correlated with the uncertainty associated with the feedforward estimation, which was recursively updated in light of new sensory feedback, as identified by a Bayesian learning model. These results reconcile the two opposing motor and sensory views of the function of PMBS, and suggest a unifying theory in which PMBS indexes the confidence in internal feedforward estimation in Bayesian sensorimotor integration. Its amplitude simultaneously reflects cortical sensory processing and signals the need for maintenance or adaptation of the motor output, and if necessary, exploration to identify an altered sensorimotor transformation. SIGNIFICANCE STATEMENT For optimal sensorimotor control, sensory feedback and feedforward estimation of a movement's sensory consequences should be weighted by the inverse of their corresponding uncertainties, which require recursive updating in a dynamic environment. We show that post-movement beta activity (13–30 Hz) over sensorimotor
Sakurai, A.; Takeda, K.; Ain, K.; Ceccarelli, P.; Nakai, A.; Seino, S.; Bell, G.I.; Refetoff, S.; DeGroot, L.J. )
1989-11-01
The syndrome of generalized resistance to thyroid hormone is characterized by elevated circulating levels of thyroid hormone in the presence of an overall eumetabolic state and failure to respond normally to triiodothyronine. The authors have evaluated a family with inherited generalized resistance to thyroid hormone for abnormalities in the thyroid hormone nuclear receptors. A single guanine {yields} cytosine replacement in the codon for amino acid 340 resulted in a glycine {yields} arginine substitution in the hormone-binding domain of one of two alleles of the patient's thyroid hormone nuclear receptor {beta} gene. In vitro translation products of this mutant human thyroid hormone nuclear receptor {beta} gene did not bind triiodothyronine. Thus, generalized resistance to thyroid hormone can result from expression of an abnormal thyroid hormone nuclear receptor molecule.
NASA Astrophysics Data System (ADS)
Rudy, Ashley C. A.; Lamoureux, Scott F.; Treitz, Paul; van Ewijk, Karin Y.
2016-07-01
To effectively assess and mitigate risk of permafrost disturbance, disturbance-prone areas can be predicted through the application of susceptibility models. In this study we developed regional susceptibility models for permafrost disturbances using a field disturbance inventory to test the transferability of the model to a broader region in the Canadian High Arctic. Resulting maps of susceptibility were then used to explore the effect of terrain variables on the occurrence of disturbances within this region. To account for a large range of landscape characteristics, the model was calibrated using two locations: Sabine Peninsula, Melville Island, NU, and Fosheim Peninsula, Ellesmere Island, NU. Spatial patterns of disturbance were predicted with a generalized linear model (GLM) and generalized additive model (GAM), each calibrated using disturbed and randomized undisturbed locations from both locations and GIS-derived terrain predictor variables including slope, potential incoming solar radiation, wetness index, topographic position index, elevation, and distance to water. Each model was validated for the Sabine and Fosheim Peninsulas using independent data sets while the transferability of the model to an independent site was assessed at Cape Bounty, Melville Island, NU. The regional GLM and GAM validated well for both calibration sites (Sabine and Fosheim) with the area under the receiver operating curves (AUROC) > 0.79. Both models were applied directly to Cape Bounty without calibration and validated equally with AUROC's of 0.76; however, each model predicted disturbed and undisturbed samples differently. Additionally, the sensitivity of the transferred model was assessed using data sets with different sample sizes. Results indicated that models based on larger sample sizes transferred more consistently and captured the variability within the terrain attributes in the respective study areas. Terrain attributes associated with the initiation of disturbances were
Modeling beta-adrenergic control of cardiac myocyte contractility in silico
NASA Technical Reports Server (NTRS)
Saucerman, Jeffrey J.; Brunton, Laurence L.; Michailova, Anushka P.; McCulloch, Andrew D.; McCullough, A. D. (Principal Investigator)
2003-01-01
The beta-adrenergic signaling pathway regulates cardiac myocyte contractility through a combination of feedforward and feedback mechanisms. We used systems analysis to investigate how the components and topology of this signaling network permit neurohormonal control of excitation-contraction coupling in the rat ventricular myocyte. A kinetic model integrating beta-adrenergic signaling with excitation-contraction coupling was formulated, and each subsystem was validated with independent biochemical and physiological measurements. Model analysis was used to investigate quantitatively the effects of specific molecular perturbations. 3-Fold overexpression of adenylyl cyclase in the model allowed an 85% higher rate of cyclic AMP synthesis than an equivalent overexpression of beta 1-adrenergic receptor, and manipulating the affinity of Gs alpha for adenylyl cyclase was a more potent regulator of cyclic AMP production. The model predicted that less than 40% of adenylyl cyclase molecules may be stimulated under maximal receptor activation, and an experimental protocol is suggested for validating this prediction. The model also predicted that the endogenous heat-stable protein kinase inhibitor may enhance basal cyclic AMP buffering by 68% and increasing the apparent Hill coefficient of protein kinase A activation from 1.0 to 2.0. Finally, phosphorylation of the L-type calcium channel and phospholamban were found sufficient to predict the dominant changes in myocyte contractility, including a 2.6x increase in systolic calcium (inotropy) and a 28% decrease in calcium half-relaxation time (lusitropy). By performing systems analysis, the consequences of molecular perturbations in the beta-adrenergic signaling network may be understood within the context of integrative cellular physiology.
Beta-cryptoxanthin as a source of vitamin A.
Burri, Betty J
2015-07-01
Beta-cryptoxanthin is a common carotenoid that is found in fruit, and in human blood and tissues. Foods that are rich in beta-cryptoxanthin include tangerines, persimmons and oranges. Beta-cryptoxanthin has several functions that are important for human health, including roles in antioxidant defense and cell-to-cell communication. Most importantly, beta-cryptoxanthin is a precursor of vitamin A, which is an essential nutrient needed for eyesight, growth, development and immune response. We evaluate the evidence for beta-cryptoxanthin as a vitamin A-forming carotenoid in this paper. Observational, in vitro, animal model and human studies suggest that beta-cryptoxanthin has greater bioavailability from its common food sources than do alpha- and beta-carotene from theirs. Although beta-cryptoxanthin appears to be a poorer substrate for beta-carotene 15,15' oxygenase than is beta-carotene, animal model and human studies suggest that the comparatively high bioavailability of beta-cryptoxanthin from foods makes beta-cryptoxanthin-rich foods equivalent to beta-carotene-rich foods as sources of vitamin A. These results mean that beta-cryptoxanthin-rich foods are probably better sources of vitamin A, and more important for human health in general, than previously assumed. PMID:25270992
Bali, Moez; Jansen, Michaela; Akabas, Myles H
2009-03-11
The molecular basis of general anesthetic interactions with GABA(A) receptors is uncertain. An accurate homology model would facilitate studies of anesthetic action. Construction of a GABA(A) model based on the 4 A resolution acetylcholine receptor structure is complicated by alignment uncertainty between the acetylcholine and GABA(A) receptor M3 and M4 transmembrane segments. Using disulfide crosslinking we previously established the orientation of M2 and M3 within a single GABA(A) subunit. The resultant model predicts that the betaM3 residue beta2M286, implicated in anesthetic binding, faces the adjacent alpha1-M1 segment and not into the beta2 subunit interior as some models have suggested. To assess the proximity of beta2M286 to the alpha1-M1 segment we expressed beta2M286C and gamma2 with 10 consecutive alpha1-M1 cysteine (Cys) mutants, alpha1I223C to alpha1L232C, in and flanking the extracellular end of alpha1-M1. In activated states, beta2M286C formed disulfide bonds with alpha1Y225C and alpha1Q229C based on electrophysiological assays and dimers on Western blots, but not with other alpha1-M1 mutants. beta2F289, one helical turn below beta2M286, formed disulfide bonds with alpha1I228C, alpha1Q229C and alpha1L232C in activated states. The intervening residues, beta2G287C and beta2C288, did not form disulfide bonds with alpha1-M1 Cys mutants. We conclude that the beta2-M3 residues beta2M286 and beta2F289 face the intersubunit interface in close proximity to alpha1-M1 and that channel gating induces a structural rearrangement in the transmembrane subunit interface that reduces the betaM3 to alphaM1 separation by approximately 7 A. This supports the hypothesis that some intravenous anesthetics bind in the betaM3-alphaM1 subunit interface consistent with azi-etomidate photoaffinity labeling. PMID:19279245
Infrared spectroscopy of pyrrole-2-carboxaldehyde and its dimer: a planar beta-sheet peptide model?
Rice, Corey A; Dauster, Ingo; Suhm, Martin A
2007-04-01
Intermolecular interactions relevant for antiparallel beta-sheet formation between peptide strands are studied by Fourier transform infrared spectroscopy of the low temperature, vacuum-isolated model compound pyrrole-2-carboxaldehyde and its dimer in the N-H and C=O stretching range. Comparison to quantum chemical predictions shows that even for some triple-zeta quality basis sets, hybrid density functionals and Møller-Plesset perturbation calculations fail to provide a consistent and fully satisfactory description of hydrogen bond induced frequency shifts and intensity ratios in the double-harmonic approximation. The latter approach even shows problems in reproducing the planar structure of the dimer and the correct sign of the C=O stretching shift for standard basis sets. The effect of matrix isolation is modeled by condensing layers of Ar atoms on the isolated monomer and dimer. The dimer structure is discussed in the context of the peptide beta-sheet motif. PMID:17430038
Building Restoration Operations Optimization Model Beta Version 1.0
Energy Science and Technology Software Center (ESTSC)
2007-05-31
The Building Restoration Operations Optimization Model (BROOM), developed by Sandia National Laboratories, is a software product designed to aid in the restoration of large facilities contaminated by a biological material. BROOMs integrated data collection, data management, and visualization software improves the efficiency of cleanup operations, minimizes facility downtime, and provides a transparent basis for reopening the facility. Secure remote access to building floor plans Floor plan drawings and knowledge of the HVAC system are criticalmore » to the design and implementation of effective sampling plans. In large facilities, access to these data may be complicated by the sheer abundance and disorganized state they are often stored in. BROOM avoids potentially costly delays by providing a means of organizing and storing mechanical and floor plan drawings in a secure remote database that is easily accessed. Sampling design tools BROOM provides an array of tools to answer the question of where to sample and how many samples to take. In addition to simple judgmental and random sampling plans, the software includes two sophisticated methods of adaptively developing a sampling strategy. Both tools strive to choose sampling locations that best satisfy a specified objective (i.e. minimizing kriging variance) but use numerically different strategies to do so. Surface samples are collected early in the restoration process to characterize the extent of contamination and then again later to verify that the facility is safe to reenter. BROOM supports sample collection using a ruggedized PDA equipped with a barcode scanner and laser range finder. The PDA displays building floor drawings, sampling plans, and electronic forms for data entry. Barcodes are placed on sample containers for the purpose of tracking the specimen and linking acquisition data (i.e. location, surface type, texture) to laboratory results. Sample location is determined by activating the integrated
Building Restoration Operations Optimization Model Beta Version 1.0
2007-05-31
The Building Restoration Operations Optimization Model (BROOM), developed by Sandia National Laboratories, is a software product designed to aid in the restoration of large facilities contaminated by a biological material. BROOMs integrated data collection, data management, and visualization software improves the efficiency of cleanup operations, minimizes facility downtime, and provides a transparent basis for reopening the facility. Secure remote access to building floor plans Floor plan drawings and knowledge of the HVAC system are critical to the design and implementation of effective sampling plans. In large facilities, access to these data may be complicated by the sheer abundance and disorganized state they are often stored in. BROOM avoids potentially costly delays by providing a means of organizing and storing mechanical and floor plan drawings in a secure remote database that is easily accessed. Sampling design tools BROOM provides an array of tools to answer the question of where to sample and how many samples to take. In addition to simple judgmental and random sampling plans, the software includes two sophisticated methods of adaptively developing a sampling strategy. Both tools strive to choose sampling locations that best satisfy a specified objective (i.e. minimizing kriging variance) but use numerically different strategies to do so. Surface samples are collected early in the restoration process to characterize the extent of contamination and then again later to verify that the facility is safe to reenter. BROOM supports sample collection using a ruggedized PDA equipped with a barcode scanner and laser range finder. The PDA displays building floor drawings, sampling plans, and electronic forms for data entry. Barcodes are placed on sample containers for the purpose of tracking the specimen and linking acquisition data (i.e. location, surface type, texture) to laboratory results. Sample location is determined by activating the integrated laser
Application of Improved Radiation Modeling to General Circulation Models
Michael J Iacono
2011-04-07
This research has accomplished its primary objectives of developing accurate and efficient radiation codes, validating them with measurements and higher resolution models, and providing these advancements to the global modeling community to enhance the treatment of cloud and radiative processes in weather and climate prediction models. A critical component of this research has been the development of the longwave and shortwave broadband radiative transfer code for general circulation model (GCM) applications, RRTMG, which is based on the single-column reference code, RRTM, also developed at AER. RRTMG is a rigorously tested radiation model that retains a considerable level of accuracy relative to higher resolution models and measurements despite the performance enhancements that have made it possible to apply this radiation code successfully to global dynamical models. This model includes the radiative effects of all significant atmospheric gases, and it treats the absorption and scattering from liquid and ice clouds and aerosols. RRTMG also includes a statistical technique for representing small-scale cloud variability, such as cloud fraction and the vertical overlap of clouds, which has been shown to improve cloud radiative forcing in global models. This development approach has provided a direct link from observations to the enhanced radiative transfer provided by RRTMG for application to GCMs. Recent comparison of existing climate model radiation codes with high resolution models has documented the improved radiative forcing capability provided by RRTMG, especially at the surface, relative to other GCM radiation models. Due to its high accuracy, its connection to observations, and its computational efficiency, RRTMG has been implemented operationally in many national and international dynamical models to provide validated radiative transfer for improving weather forecasts and enhancing the prediction of global climate change.
Revising a statistical cloud scheme for general circulation models
NASA Astrophysics Data System (ADS)
Schemann, Vera; Stevens, Bjorn; Grützun, Verena; Quaas, Johannes
2013-04-01
Cloud cover is an important factor for global climate simulations (e.g. for radiation). But in a global climate model with a typical resolution around 100 km clouds can not be resolved. The parameterization of cloud cover still is a major reason for uncertainties in climate change simulations. The aim of this study is to revise a statistical cloud scheme with special focus on the representation of low level clouds in the trade wind region. The development is based on the assumed PDF (probability density function) scheme of Tompkins 2002, which is part of the global climate model ECHAM6. The assumed PDF approach is based on the assumption of a certain PDF family and the determination of a certain member by further assumptions or constraints. For the scheme used in this study a beta distribution is assumed and two prognostic equations are added. Besides the original prognostic equations for a shape parameter and the distribution width, adjusted equations for the higher moments variance and skewness are introduced. This change leads to an easier physical interpretation. The source and sink terms due to the physical processes of convection, turbulence and microphysics play an important role in describing the total water PDF and with this the cloud fraction in one grid box. A better understanding of these terms and their effect on the cloud fraction and their vertical distribution is essential for the evaluation and development of the statistical cloud scheme. One known problem of the scheme is the underestimation of subgrid-scale variance of total water (Quaas 2012, Weber 2011). The aim of this study is to improve the representation of subgrid-scale variability by introducing and evaluating different source terms. For this several runs with the ECHAM6 model and modified cloud schemes are performed and analyzed. The focus is placed on the trade wind region to get a better understanding of the important processes for an improved representation of shallow cumuli
Radiation protection in inhomogeneous beta-gamma fields and modelling of hand phantoms with MCNPX.
Blunck, Ch; Becker, F; Hegenbart, L; Heide, B; Schimmelpfeng, J; Urban, M
2009-02-01
The usage of beta-radiation sources in various nuclear medicine therapies is increasing. Consequently, enhanced radiation protection measures are required, as medical staff more frequently handle high-activity sources required for therapy. Inhomogeneous radiation fields make it difficult to determine absorbed dose reliably. Routine monitoring with dosimeters does not guarantee any accurate determination of the local skin dose (LSD). In general, correction factors are used to correct for the measured dose and the maximum absorbed dose received. However, strong underestimations of the maximum exposure are possible depending on the individual handling the process and the reliability of dose measurements. Simulations can be used as a tool for a better understanding of the maximum possible exposure depending on the individual-related handling. While measurements reveal the overall dose during the entire irradiation time of the dosimeter, simulations help to analyse sequences of action. Hence, simulations allow for tracking the points of highest absorbed dose received during the handling process. In this respect, simulations were performed using the MCNPX software. In order to investigate the LSD, two hand phantoms were used, a model based on geometrical elements and a voxel hand. A typical situation of radiosynoviorthesis, i.e. handling a syringe filled with (90)Y, was simulated. The results of the simulations show that the annual dose limit may be exceeded within minutes at the position of maximum absorbed dose received and that finger-ring dosimeters measure significantly different doses depending on their wearing position. It is of essential importance to wear the dosimeter properly and to use suitable correction factors with respect to the individual. Simulations are a suitable tool for ensuring reliable dose determination and may help to derive recommendations regarding radiation protection measures. PMID:19395711
Comparison of the Beta and the Hidden Markov Models of Trust in Dynamic Environments
NASA Astrophysics Data System (ADS)
Moe, Marie E. G.; Helvik, Bjarne E.; Knapskog, Svein J.
Computational trust and reputation models are used to aid the decision-making process in complex dynamic environments, where we are unable to obtain perfect information about the interaction partners. In this paper we present a comparison of our proposed hidden Markov trust model to the Beta reputation system. The hidden Markov trust model takes the time between observations into account, it also distinguishes between system states and uses methods previously applied to intrusion detection for the prediction of which state an agent is in. We show that the hidden Markov trust model performs better when it comes to the detection of changes in behavior of agents, due to its larger richness in model features. This means that our trust model may be more realistic in dynamic environments. However, the increased model complexity also leads to bigger challenges in estimating parameter values for the model. We also show that the hidden Markov trust model can be parameterized so that it responds similarly to the Beta reputation system.
McCutchan, E. A. Bonatsos, D. Zamfir, N. V.
2007-08-15
The parameter-independent (up to overall scale factors) predictions of the X(5)-{beta}{sup 2},X(5)-{beta}{sup 4}, and X(3) models, which are variants of the X(5) critical point symmetry developed within the framework of the geometric collective model, are compared to two-parameter calculations in the framework of the interacting boson approximation (IBA) model. The results show that these geometric models coincide with IBA parameters consistent with the phase/shape transition region of the IBA for boson numbers of physical interest (close to 10). {sup 186}Pt and {sup 172}Os are identified as good examples of X(3), while {sup 146}Ce, {sup 174}Os, and {sup 158}Er, {sup 176}Os are identified as good examples of X(5)-{beta}{sub 2} and X(5)-{beta}{sup 4} behavior, respectively.
Gennclus: New Models for General Nonhierarchical Clustering Analysis.
ERIC Educational Resources Information Center
Desarbo, Wayne S.
1982-01-01
A general class of nonhierarchical clustering models and associated algorithms for fitting them are presented. These models generalize the Shepard-Arabie Additive clusters model. Two applications are given and extensions to three-way models, nonmetric analyses, and other model specifications are provided. (Author/JKS)
A Continuous Correlated Beta Process Model for Genetic Ancestry in Admixed Populations
Gompert, Zachariah
2016-01-01
Admixture and recombination create populations and genomes with genetic ancestry from multiple source populations. Analyses of genetic ancestry in admixed populations are relevant for trait and disease mapping, studies of speciation, and conservation efforts. Consequently, many methods have been developed to infer genome-average ancestry and to deconvolute ancestry into continuous local ancestry blocks or tracts within individuals. Current methods for local ancestry inference perform well when admixture occurred recently or hybridization is ongoing, or when admixture occurred in the distant past such that local ancestry blocks have fixed in the admixed population. However, methods to infer local ancestry frequencies in isolated admixed populations still segregating for ancestry do not exist. In the current paper, I develop and test a continuous correlated beta process model to fill this analytical gap. The method explicitly models autocorrelations in ancestry frequencies at the population-level and uses discriminant analysis of SNP windows to take advantage of ancestry blocks within individuals. Analyses of simulated data sets show that the method is generally accurate such that ancestry frequency estimates exhibited low root-mean-square error and were highly correlated with the true values, particularly when large (±10 or ±20) SNP windows were used. Along these lines, the proposed method outperformed post hoc inference of ancestry frequencies from a traditional hidden Markov model (i.e., the linkage model in structure), particularly when admixture occurred more distantly in the past with little on-going gene flow or was followed by natural selection. The reliability and utility of the method was further assessed by analyzing genetic ancestry in an admixed human population (Uyghur) and three populations from a hybrid zone between Mus domesticus and M. musculus. Considerable variation in ancestry frequencies was detected within and among chromosomes in the Uyghur
Osinski, Bolesław L; Kay, Leslie M
2016-08-01
Odors evoke gamma (40-100 Hz) and beta (20-30 Hz) oscillations in the local field potential (LFP) of the mammalian olfactory bulb (OB). Gamma (and possibly beta) oscillations arise from interactions in the dendrodendritic microcircuit between excitatory mitral cells (MCs) and inhibitory granule cells (GCs). When cortical descending inputs to the OB are blocked, beta oscillations are extinguished whereas gamma oscillations become larger. Much of this centrifugal input targets inhibitory interneurons in the GC layer and regulates the excitability of GCs, which suggests a causal link between the emergence of beta oscillations and GC excitability. We investigate the effect that GC excitability has on network oscillations in a computational model of the MC-GC dendrodendritic network with Ca(2+)-dependent graded inhibition. Results from our model suggest that when GC excitability is low, the graded inhibitory current mediated by NMDA channels and voltage-dependent Ca(2+) channels (VDCCs) is also low, allowing MC populations to fire in the gamma frequency range. When GC excitability is increased, the activation of NMDA receptors and other VDCCs is also increased, allowing the slow decay time constants of these channels to sustain beta-frequency oscillations. Our model argues that Ca(2+) flow through VDCCs alone could sustain beta oscillations and that the switch between gamma and beta oscillations can be triggered by an increase in the excitability state of a subpopulation of GCs. PMID:27121582
Scott, B.R.
1995-12-01
Individuals who work at nuclear reactor facilities can be at risk for deterministic effects in the skin from exposure to discrete {Beta}- and {gamma}-emitting ({Beta}{gamma}E) sources (e.g., {Beta}{gamma}E hot particles) on the skin or clothing. Deterministic effects are non-cancer effects that have a threshold and increase in severity as dose increases (e.g., ulcer in skin). Hot {Beta}{gamma}E particles are {sup 60}Co- or nuclear fuel-derived particles with diameters > 10 {mu}m and < 3 mm and contain at least 3.7 kBq (0.1 {mu}Ci) of radioactivity. For such {Beta}{gamma}E sources on the skin, it is the beta component of the dose that is most important. To develop exposure limitation systems that adequately control exposure of workers to discrete {Beta}{gamma}E sources, models are needed for systems that adequately control exposure of workers to discrete {Beta}{gamma}E sources, models are needed for evaluating the risk of deterministic effects of localized {Beta} irradiation of the skin. The purpose of this study was to develop dose-rate and irradiated-area dependent, response-surface models for evaluating risks of significant deterministic effects of localized irradiation of the skin by discrete {Beta}{gamma}E sources and to use modeling results to recommend approaches to limiting occupational exposure to such sources. The significance of the research results as follows: (1) response-surface models are now available for evaluating the risk of specific deterministic effects of localized irradiation of the skin; (2) modeling results have been used to recommend approaches to limiting occupational exposure of workers to {Beta} radiation from {Beta}{gamma}E sources on the skin or on clothing; and (3) the generic irradiated-volume, weighting-factor approach to limiting exposure can be applied to other organs including the eye, the ear, and organs of the respiratory or gastrointestinal tract and can be used for both deterministic and stochastic effects.
Towards a General Model of Temporal Discounting
ERIC Educational Resources Information Center
van den Bos, Wouter; McClure, Samuel M.
2013-01-01
Psychological models of temporal discounting have now successfully displaced classical economic theory due to the simple fact that many common behavior patterns, such as impulsivity, were unexplainable with classic models. However, the now dominant hyperbolic model of discounting is itself becoming increasingly strained. Numerous factors have…
A Generalized Deduction of the Ideal-Solution Model
ERIC Educational Resources Information Center
Leo, Teresa J.; Perez-del-Notario, Pedro; Raso, Miguel A.
2006-01-01
A new general procedure for deriving the Gibbs energy of mixing is developed through general thermodynamic considerations, and the ideal-solution model is obtained as a special particular case of the general one. The deduction of the Gibbs energy of mixing for the ideal-solution model is a rational one and viewed suitable for advanced students who…
Elizur, Arnon; Ben-Abraham, Ron; Manisterski, Yossi; Barak, Asher; Efrati, Ori; Lotan, Danny; Barzilay, Zohar; Paret, Gideon
2003-11-01
Tracheal epinephrine (adrenaline) has been associated with two major deletorious side effects: increased heart rate (HR) and an initial decrease of blood pressure (BP). This prospective randomized animal study compared the haemodynamic responses to tracheally administered epinephrine or norepinephrine (nor adrenaline) alone versus each after pretreatment with propranolol for ameliorating those two untoward effects associated with epinephrine administration. Five anaesthetized mongrel dogs underwent 25 experiments of tracheal epinephrine or norepinephrine (0.02 mg/kg diluted with normal saline to 5 ml total volume) with or without an I/V non-selective beta-blocker (propranolol 0.1 mg/kg) pretreatment, and served as their own controls. Tracheal epinephrine alone produced a rise in both diastolic and mean arterial BP and an increase of HR. Tracheal norepinephrine alone produced the largest increase of diastolic and mean BP but this change was associated with a significant tachycardia (from 37 to 72/m, P<0.001). While both epinephrine or norepinephrine after pretreatment with propranolol produced a significant increase in both diastolic (from 106 to 166 mmHg and from 118 to 169 mmHg, respectively) (P<0.01) and mean BP (from 122 to 183 mmHg and from 133 to 188 mmHg, respectively) (P<0.01), only propranolol-pretreated tracheal epinephrine yielded a significant decrease in HR (from 52 to 33/m, P=0.002). Pretreatment with a beta-blocker protected against the deleterious tachycardia associated with epinephrine or norepinephrine and, by doing so, may improve the myocardial oxygen supply-and-demand balance. At the same time, the pretreatment augmented the relatively mild diastolic BP increase associated with the beta-adrenergic effect of epinephrine. PMID:14625119
A Mechanistic Beta-Binomial Probability Model for mRNA Sequencing Data
Smith, Gregory R.; Birtwistle, Marc R.
2016-01-01
A main application for mRNA sequencing (mRNAseq) is determining lists of differentially-expressed genes (DEGs) between two or more conditions. Several software packages exist to produce DEGs from mRNAseq data, but they typically yield different DEGs, sometimes markedly so. The underlying probability model used to describe mRNAseq data is central to deriving DEGs, and not surprisingly most softwares use different models and assumptions to analyze mRNAseq data. Here, we propose a mechanistic justification to model mRNAseq as a binomial process, with data from technical replicates given by a binomial distribution, and data from biological replicates well-described by a beta-binomial distribution. We demonstrate good agreement of this model with two large datasets. We show that an emergent feature of the beta-binomial distribution, given parameter regimes typical for mRNAseq experiments, is the well-known quadratic polynomial scaling of variance with the mean. The so-called dispersion parameter controls this scaling, and our analysis suggests that the dispersion parameter is a continually decreasing function of the mean, as opposed to current approaches that impose an asymptotic value to the dispersion parameter at moderate mean read counts. We show how this leads to current approaches overestimating variance for moderately to highly expressed genes, which inflates false negative rates. Describing mRNAseq data with a beta-binomial distribution thus may be preferred since its parameters are relatable to the mechanistic underpinnings of the technique and may improve the consistency of DEG analysis across softwares, particularly for moderately to highly expressed genes. PMID:27326762
A Mechanistic Beta-Binomial Probability Model for mRNA Sequencing Data.
Smith, Gregory R; Birtwistle, Marc R
2016-01-01
A main application for mRNA sequencing (mRNAseq) is determining lists of differentially-expressed genes (DEGs) between two or more conditions. Several software packages exist to produce DEGs from mRNAseq data, but they typically yield different DEGs, sometimes markedly so. The underlying probability model used to describe mRNAseq data is central to deriving DEGs, and not surprisingly most softwares use different models and assumptions to analyze mRNAseq data. Here, we propose a mechanistic justification to model mRNAseq as a binomial process, with data from technical replicates given by a binomial distribution, and data from biological replicates well-described by a beta-binomial distribution. We demonstrate good agreement of this model with two large datasets. We show that an emergent feature of the beta-binomial distribution, given parameter regimes typical for mRNAseq experiments, is the well-known quadratic polynomial scaling of variance with the mean. The so-called dispersion parameter controls this scaling, and our analysis suggests that the dispersion parameter is a continually decreasing function of the mean, as opposed to current approaches that impose an asymptotic value to the dispersion parameter at moderate mean read counts. We show how this leads to current approaches overestimating variance for moderately to highly expressed genes, which inflates false negative rates. Describing mRNAseq data with a beta-binomial distribution thus may be preferred since its parameters are relatable to the mechanistic underpinnings of the technique and may improve the consistency of DEG analysis across softwares, particularly for moderately to highly expressed genes. PMID:27326762
The Beta-Geometric Model Applied to Fecundability in a Sample of Married Women
NASA Astrophysics Data System (ADS)
Adekanmbi, D. B.; Bamiduro, T. A.
2006-10-01
The time required to achieve pregnancy among married couples termed fecundability has been proposed to follow a beta-geometric distribution. The accuracy of the method used in estimating the parameters of the model has an implication on the goodness of fit of the model. In this study, the parameters of the model are estimated using the Method of Moments and Newton-Raphson estimation procedure. The goodness of fit of the model was considered, using estimates from the two methods of estimation, as well as the asymptotic relative efficiency of the estimates. A noticeable improvement in the fit of the model to the data on time to conception was observed, when the parameters are estimated by Newton-Raphson procedure, and thereby estimating reasonable expectations of fecundability for married female population in the country.
Modeling of Antarctic sea ice in a general circulation model
Wu, Xingren; Budd, W.F.; Simmonds, I.
1997-04-01
A dynamic-thermodynamic sea ice model is developed and coupled with the Melbourne University general circulation model to simulate the seasonal cycle of the Antarctic sea ice distributions The model is efficient, rapid to compute, and useful for a range of climate studies. The thermodynamic part of the sea ice model is similar to that developed by Parkinson and Washington, the dynamics contain a simplified ice rheology that resists compression. The thermodynamics is based on energy conservation at the top surface of the ice/snow, the ice/water interface, and the open water area to determine the ice formation, accretion, and ablation. A lead parameterization is introduced with an effective partitioning scheme for freezing between and under the ice floes. The dynamic calculation determines the motion of ice, which is forced with the atmospheric wind, taking account of ice resistance and rafting. The simulated sea ice distribution compares reasonably well with observations. The seasonal cycle of ice extent is well simulated in phase as well as in magnitude. Simulated sea ice thickness and concentration are also in good agreement with observations over most regions and serve to indicate the importance of advection and ocean drift in the determination of the sea ice distribution. 64 refs., 15 figs., 2 tabs.
ERIC Educational Resources Information Center
Tsai, Tien-Lung; Shau, Wen-Yi; Hu, Fu-Chang
2006-01-01
This article generalizes linear path analysis (PA) and simultaneous equations models (SiEM) to deal with mixed responses of different types in a recursive or triangular system. An efficient instrumental variable (IV) method for estimating the structural coefficients of a 2-equation partially recursive generalized path analysis (GPA) model and…
Stratospheric General Circulation with Chemistry Model (SGCCM)
NASA Technical Reports Server (NTRS)
Rood, Richard B.; Douglass, Anne R.; Geller, Marvin A.; Kaye, Jack A.; Nielsen, J. Eric; Rosenfield, Joan E.; Stolarski, Richard S.
1990-01-01
In the past two years constituent transport and chemistry experiments have been performed using both simple single constituent models and more complex reservoir species models. Winds for these experiments have been taken from the data assimilation effort, Stratospheric Data Analysis System (STRATAN).
Specification of the Model 3 General Lexicon.
ERIC Educational Resources Information Center
Rhode, Mary
The Model 3 communication skills lexicon consists of three lists of words developed by the Southwest Regional Laboratory (SWRL) for use in communication skills instruction in K-6. This report documents the procedures followed in the specification and generation of the second component of the Model 3 communication skills lexicon, the general…
Flavor constraints on two-Higgs-doublet models with general diagonal Yukawa couplings
Mahmoudi, F.
2010-02-01
We consider constraints from flavor physics on two-Higgs-doublet models (2HDM) with general, flavor-diagonal, Yukawa couplings. Analyzing the charged Higgs contribution to different observables, we find that b{yields}s{gamma} transitions and {Delta}M{sub B{sub d}} restrict the coupling {lambda}{sub tt} of the top quark (corresponding to cot{beta} in models with a Z{sub 2} symmetry) to |{lambda}{sub tt}|<1 for m{sub H}{sup +} < or approx. 500 GeV. Stringent constraints from B meson decays are obtained also on the other third generation couplings {lambda}{sub bb} and {lambda}{sub {tau}{tau},} but with stronger dependence on m{sub H}{sup +}. For the second generation, we obtain constraints on combinations of {lambda}{sub ss}, {lambda}{sub cc}, and {lambda}{sub {mu}{mu}}from leptonic K and D{sub s} decays. The limits on the general couplings are translated to the common 2HDM types I-IV with a Z{sub 2} symmetry, and presented on the (m{sub H}{sup +},tan{beta}) plane. The flavor constraints are most excluding in the type II model which lacks a decoupling limit in tan{beta}. We obtain a lower limit m{sub H}{sup +} > or approx. 300 GeV in models of type II and III, while no lower bound on m{sub H}{sup +} is found for types I and IV.
Fractal generalization of Thomas-Fermi model
NASA Astrophysics Data System (ADS)
Rekhviashvili, S. Sh.; Sokurov, A. A.
2016-05-01
The Thomas-Fermi model is developed for a multielectron neutral atom at an arbitrary metric dimension of the electron cloud. It has been shown that the electron cloud with the reduced dimension should be located in the close vicinity of the nucleus. At a metric dimension of the electron cloud of 2, the differential equation of the model admits an analytical solution. In this case, the screening parameter does not depend on the charge of the nucleus.
Duality and Stationary Distributions of the "Immediate Exchange Model" and Its Generalizations
NASA Astrophysics Data System (ADS)
van Ginkel, Bart; Redig, Frank; Sau, Federico
2016-04-01
We study the "Immediate Exchange Model", a wealth distribution model introduced in Heinsalu and Patriarca (Eur Phys J B 87:170, 2014). We prove that the model has a discrete dual, where the duality functions are natural polynomials associated to the Gamma distribution with shape parameter 2 and are exactly those connecting the Brownian Energy Process (with parameter 2) and the corresponding Symmetric Inclusion Process in Carinci et al. (J Stat Phys 152:657-697, 2013) and Giardinà et al. (J Stat Phys 135(1):25-55, 2009). As a consequence, we recover invariance of products of Gamma distributions with shape parameter 2, and obtain ergodicity results. Next we show similar properties for a more general model, where the exchange fraction is Beta(s, t) distributed, and product measures with text{ Gamma }(s+t) marginals are invariant. We also show that the discrete dual model itself is self-dual and has the original continuous model as its scaling limit. We show that the self-duality is linked with an underlying SU(1, 1) symmetry, reminiscent of the one found before for the Symmetric Inclusion Process and related processes.
Lincomycin protects mice from septic shock in beta-glucan-indomethacin model.
Nameda, Sachiko; Miura, Noriko N; Adachi, Yoshiyuki; Ohno, Naohito
2007-12-01
We have developed a septic shock model in mice by sequential administration of beta-glucan, a biological response modifier, and indomethacin (IND), a nonsteroidal anti-inflammatory drug. Lethality was significantly related to the translocation of gut flora to various organs and mal-adjustment of the cytokine network. In the present study, we have examined the effect of antibiotics on this model to further clarify meanings of microbial flora. Schizophyllan (SPG), antitumor beta-glucan for clinical use, obtained from the culture filtrate of Schizophyllum commune, was used to induce sepsis. Lincomycin (LCM), imipenem (IPM), cilastatine (CS), and ampicillin (ABPC) were used for antibiotics treatment. The survival rate of SPG/IND-treated mice was significantly increased by administering LCM or ABPC/IPM/CS, and the effect was more significant by LCM. In in vitro spleen cell culture, LCM decreased proinflammatory cytokine production. Moreover, prednisolone, immune suppresser treatment improved survival of SPG/IND-treated mice. These findings suggest that LCM is an effective antibiotic in this endogenous septic model by modulating gut microbial flora and, at least a part, by regulating cytokine production of leukocytes. PMID:18057718
Generalized random sign and alert delay models for imperfect maintenance.
Dijoux, Yann; Gaudoin, Olivier
2014-04-01
This paper considers the modelling of the process of Corrective and condition-based Preventive Maintenance, for complex repairable systems. In order to take into account the dependency between both types of maintenance and the possibility of imperfect maintenance, Generalized Competing Risks models have been introduced in "Doyen and Gaudoin (J Appl Probab 43:825-839, 2006)". In this paper, we study two classes of these models, the Generalized Random Sign and Generalized Alert Delay models. A Generalized Competing Risks model can be built as a generalization of a particular Usual Competing Risks model, either by using a virtual age framework or not. The models properties are studied and their parameterizations are discussed. Finally, simulation results and an application to real data are presented. PMID:23460491
A general simulation model for Stirling cycles
Schulz, S.; Schwendig, F.
1996-01-01
A mathematical model for the calculation of the Stirling cycle and of similar processes is presented. The model comprises a method to reproduce schematically any kind of process configuration, including free piston engines. The differential balance equations describing the process are solved by a stable integration algorithm. Heat transfer and pressure loss are calculated by using new correlations, which consider the special conditions of the periodic compression/expansion respectively of the oscillating flow. A comparison between experimental data achieved by means of a test apparatus and calculated data shows a good agreement.
Generalized Hertz model for bimodal nanomechanical mapping.
Labuda, Aleksander; Kocuń, Marta; Meinhold, Waiman; Walters, Deron; Proksch, Roger
2016-01-01
Bimodal atomic force microscopy uses a cantilever that is simultaneously driven at two of its eigenmodes (resonant modes). Parameters associated with both resonances can be measured and used to extract quantitative nanomechanical information about the sample surface. Driving the first eigenmode at a large amplitude and a higher eigenmode at a small amplitude simultaneously provides four independent observables that are sensitive to the tip-sample nanomechanical interaction parameters. To demonstrate this, a generalized theoretical framework for extracting nanomechanical sample properties from bimodal experiments is presented based on Hertzian contact mechanics. Three modes of operation for measuring cantilever parameters are considered: amplitude, phase, and frequency modulation. The experimental equivalence of all three modes is demonstrated on measurements of the second eigenmode parameters. The contact mechanics theory is then extended to power-law tip shape geometries, which is applied to analyze the experimental data and extract a shape and size of the tip interacting with a polystyrene surface. PMID:27547614
Generalized Hertz model for bimodal nanomechanical mapping
Kocuń, Marta; Meinhold, Waiman; Walters, Deron; Proksch, Roger
2016-01-01
Summary Bimodal atomic force microscopy uses a cantilever that is simultaneously driven at two of its eigenmodes (resonant modes). Parameters associated with both resonances can be measured and used to extract quantitative nanomechanical information about the sample surface. Driving the first eigenmode at a large amplitude and a higher eigenmode at a small amplitude simultaneously provides four independent observables that are sensitive to the tip–sample nanomechanical interaction parameters. To demonstrate this, a generalized theoretical framework for extracting nanomechanical sample properties from bimodal experiments is presented based on Hertzian contact mechanics. Three modes of operation for measuring cantilever parameters are considered: amplitude, phase, and frequency modulation. The experimental equivalence of all three modes is demonstrated on measurements of the second eigenmode parameters. The contact mechanics theory is then extended to power-law tip shape geometries, which is applied to analyze the experimental data and extract a shape and size of the tip interacting with a polystyrene surface. PMID:27547614
Generalized IRT Models for Extreme Response Style
ERIC Educational Resources Information Center
Jin, Kuan-Yu; Wang, Wen-Chung
2014-01-01
Extreme response style (ERS) is a systematic tendency for a person to endorse extreme options (e.g., strongly disagree, strongly agree) on Likert-type or rating-scale items. In this study, we develop a new class of item response theory (IRT) models to account for ERS so that the target latent trait is free from the response style and the tendency…
Invariance Properties for General Diagnostic Classification Models
ERIC Educational Resources Information Center
Bradshaw, Laine P.; Madison, Matthew J.
2016-01-01
In item response theory (IRT), the invariance property states that item parameter estimates are independent of the examinee sample, and examinee ability estimates are independent of the test items. While this property has long been established and understood by the measurement community for IRT models, the same cannot be said for diagnostic…
A General Model for Shallow Magmatic Intrusions
NASA Astrophysics Data System (ADS)
Thorey, C.; Michaut, C.
2015-12-01
Shallow magmatic intrusions make room for themselves by upward bending of the elastic overburden. Previous studies have shown that the bending of the overlying layer first controls the dynamics. Then, when the radius reaches a few times the flexural wavelength of the overburden, it transitions to a gravity current regime. This model predicts the appropriate geometry for both terrestrial laccoliths and large mafic sills. However, it underestimates the absolute dimensions of these magmatic intrusions; in particular, it requires abnormally high viscosity to reconcile both observations and predictions. To get some insights into the effective flow viscosity, we develop a model that account for the cooling of such elastic-plated gravity currents. We show that the coupling between the temperature field and the flow itself leads to the formation of a highly viscous region at the tip that slows down the spreading in both regimes. The intrusions are predicted to be thicker and their dimensions, especially in the bending regime, are now consistent with observations. By introducing the potentially complex structure of the overburden, we also show that the topography largely contributes to constrain the final intrusion morphology. For instance, in the case of an intrusion centered below a circular depression, the model predicts that the lithostatic increase at the crater rim prevents the magma from spreading laterally and enhances the thickening of the intrusion. This model has already proven successful in reproducing the deformations observed on potential intrusion centered below lunar impact craters. Caldera complexes often exhibit ground deformations that might be associated to the formation of shallow magmatic intrusions. InSAR imaging and GPS measurements now provide efficient tools to monitor these deformations. We conclude this study by examining the ability of the model to reproduce the deformation observed in several caldera complexes.
Takagawa, Shinsuke; Lakos, Gabriella; Mori, Yasuji; Yamamoto, Toshiyuki; Nishioka, Kiyoshi; Varga, John
2003-07-01
Transforming growth factor-beta is responsible for triggering a cascade of events leading to fibrosis in scleroderma. The Smads are intracellular signal transducers recently shown to mediate fibroblast activation and other profibrotic responses elicited by transforming growth factor-betain vitro. To understand better the involvement of Smads in the pathogenesis of fibrosis, we examined Smad expression and activation in situ in a murine model of scleroderma. Bleomycin injections induced striking dermal infiltration with macrophages by 3 d, and progressive fibrosis by 2 wk. Infiltrating macrophages and resident fibroblasts expressed Smad3, the positive mediator for transforming growth factor-beta responses. Importantly, in bleomycin-injected skin, fibroblasts showed predominantly nuclear localization of Smad3 and intense staining for phospho-Smad2/3. Furthermore, phosphorylated Smad2/3 in fibroblasts was detected even after the resolution of inflammation. Expression of Smad7, the endogenous inhibitor of transforming growth factor-beta/Smad signaling, was strongly induced in dermal cells by transforming growth factor-beta, but not by bleomycin injections. Collectively, these results indicate that bleomycin-induced murine scleroderma is associated with rapid and sustained induction of transforming growth factor-beta/Smad signaling in resident dermal fibroblasts. Despite apparent activation of the intracellular transforming growth factor-beta signaling pathway in the lesional dermis, the expression of transforming growth factor-beta-inducible Smad7 was not upregulated. In light of the critical function of Smad7 as an endogenous inhibitor of Smad signaling that restricts the duration and magnitude of transforming growth factor-beta responses, and as a mediator of apoptosis, relative Smad7 deficiency observed in the present studies may account for sustained activation of transforming growth factor-beta/Smad signaling in lesional tissues. These findings raise the
Shell-Model Calculations of Two-Nucleon Tansfer Related to Double Beta Decay
NASA Astrophysics Data System (ADS)
Brown, Alex
2013-10-01
I will discuss theoretical results for two-nucleon transfer cross sections for nuclei in the regions of 48Ca, 76Ge and 136Xe of interest for testing the wavefuntions used for the nuclear matrix elements in double-beta decay. Various reaction models are used. A simple cluster transfer model gives relative cross sections. Thompson's code Fresco with direct and sequential transfer is used for absolute cross sections. Wavefunctions are obtained in large-basis proton-neutron coupled model spaces with the code NuShellX with realistic effecive Hamiltonians such as those used for the recent results for 136Xe [M. Horoi and B. A. Brown, Phys. Rev. Lett. 110, 222502 (2013)]. I acknowledge support from NSF grant PHY-1068217.
Reduced Order Modeling in General Relativity
NASA Astrophysics Data System (ADS)
Tiglio, Manuel
2014-03-01
Reduced Order Modeling is an emerging yet fast developing filed in gravitational wave physics. The main goals are to enable fast modeling and parameter estimation of any detected signal, along with rapid matched filtering detecting. I will focus on the first two. Some accomplishments include being able to replace, with essentially no lost of physical accuracy, the original models with surrogate ones (which are not effective ones, that is, they do not simplify the physics but go on a very different track, exploiting the particulars of the waveform family under consideration and state of the art dimensional reduction techniques) which are very fast to evaluate. For example, for EOB models they are at least around 3 orders of magnitude faster than solving the original equations, with physically equivalent results. For numerical simulations the speedup is at least 11 orders of magnitude. For parameter estimation our current numbers are about bringing ~100 days for a single SPA inspiral binary neutron star Bayesian parameter estimation analysis to under a day. More recently, it has been shown that the full precessing problem for, say, 200 cycles, can be represented, through some new ideas, by a remarkably compact set of carefully chosen reduced basis waveforms (~10-100, depending on the accuracy requirements). I will highlight what I personally believe are the challenges to face next in this subarea of GW physics and where efforts should be directed. This talk will summarize work in collaboration with: Harbir Antil (GMU), Jonathan Blackman (Caltech), Priscila Canizares (IoA, Cambridge, UK), Sarah Caudill (UWM), Jonathan Gair (IoA. Cambridge. UK), Scott Field (UMD), Chad R. Galley (Caltech), Frank Herrmann (Germany), Han Hestahven (EPFL, Switzerland), Jason Kaye (Brown, Stanford & Courant). Evan Ochsner (UWM), Ricardo Nochetto (UMD), Vivien Raymond (LIGO, Caltech), Rory Smith (LIGO, Caltech) Bela Ssilagyi (Caltech) and MT (UMD & Caltech).
Surrogate oracles, generalized dependency and simpler models
NASA Technical Reports Server (NTRS)
Wilson, Larry
1990-01-01
Software reliability models require the sequence of interfailure times from the debugging process as input. It was previously illustrated that using data from replicated debugging could greatly improve reliability predictions. However, inexpensive replication of the debugging process requires the existence of a cheap, fast error detector. Laboratory experiments can be designed around a gold version which is used as an oracle or around an n-version error detector. Unfortunately, software developers can not be expected to have an oracle or to bear the expense of n-versions. A generic technique is being investigated for approximating replicated data by using the partially debugged software as a difference detector. It is believed that the failure rate of each fault has significant dependence on the presence or absence of other faults. Thus, in order to discuss a failure rate for a known fault, the presence or absence of each of the other known faults needs to be specified. Also, in simpler models which use shorter input sequences without sacrificing accuracy are of interest. In fact, a possible gain in performance is conjectured. To investigate these propositions, NASA computers running LIC (RTI) versions are used to generate data. This data will be used to label the debugging graph associated with each version. These labeled graphs will be used to test the utility of a surrogate oracle, to analyze the dependent nature of fault failure rates and to explore the feasibility of reliability models which use the data of only the most recent failures.
Emergent General Relativity and Local Translation Symmetry in Tensor Model
NASA Astrophysics Data System (ADS)
Sasakura, Naoki
2009-12-01
The tensor model is discussed as theory of dynamical fuzzy spaces and as a way to formulate gravity on fuzzy spaces. From numerical analyses, it is shown that the low-lying long-wavelength fluctuation spectra around Gaussian background solutions in the tensor model are in agreement with the geometric fluctuations on flat spaces in the general relativity. It is also shown that part of the orthogonal symmetry of the tensor model spontaneously broken by the backgrounds correspond to the local translation symmetry of the general relativity. Thus the tensor model can provide an interesting model of simultaneous emergence of space and the general relativity including the local translation symmetry.
Down syndrome as a model of DNA polymerase beta haploinsufficiency and accelerated aging.
Patterson, David; Cabelof, Diane C
2012-04-01
Down syndrome is a condition of intellectual disability characterized by accelerated aging. As with other aging syndromes, evidence accumulated over the past several decades points to a DNA repair defect inherent in Down syndrome. This evidence has led us to suggest that Down syndrome results in reduced DNA base excision repair (BER) capacity, and that this contributes to the genomic instability and the aging phenotype of Down syndrome. We propose important roles for microRNA and/or folate metabolism and oxidative stress in the dysregulation of BER in Down syndrome. Further, we suggest these pathways are involved in the leukemogenesis of Down syndrome. We have reviewed the role of BER in the processing of oxidative stress, and the impact of folate depletion on BER capacity. Further, we have reviewed the role that loss of BER, specifically DNA polymerase beta, plays in accelerating the rate of aging. Like that seen in the DNA polymerase beta heterozygous mouse, the aging phenotype of Down syndrome is subtle, unlike the aging phenotypes seen in the classical progeroid syndromes and mouse models of aging. As such, Down syndrome may provide a model for elucidating some of the basic mechanisms of aging. PMID:22019846
El-Khoury, Riyad; Kaulio, Eveliina; Lassila, Katariina A; Crowther, Damian C; Jacobs, Howard T; Rustin, Pierre
2016-07-01
Mitochondrial dysfunction has been widely associated with the pathology of Alzheimer's disease, but there is no consensus on whether it is a cause or consequence of disease, nor on the precise mechanism(s). We addressed these issues by testing the effects of expressing the alternative oxidase AOX from Ciona intestinalis, in different models of AD pathology. AOX can restore respiratory electron flow when the cytochrome segment of the mitochondrial respiratory chain is inhibited, supporting ATP synthesis, maintaining cellular redox homeostasis and mitigating excess superoxide production at respiratory complexes I and III. In human HEK293-derived cells, AOX expression decreased the production of beta-amyloid peptide resulting from antimycin inhibition of respiratory complex III. Because hydrogen peroxide was neither a direct product nor substrate of AOX, the ability of AOX to mimic antioxidants in this assay must be indirect. In addition, AOX expression was able to partially alleviate the short lifespan of Drosophila models neuronally expressing human beta-amyloid peptides, whilst abrogating the induction of markers of oxidative stress. Our findings support the idea of respiratory chain dysfunction and excess ROS production as both an early step and as a pathologically meaningful target in Alzheimer's disease pathogenesis, supporting the concept of a mitochondrial vicious cycle underlying the disease. PMID:27094492
Elbert, Donald L.; Patterson, Bruce W.; Bateman, Randall J.
2014-01-01
Amyloid beta (Aβ) peptides, and in particular Aβ42, are found in senile plaques associated with Alzheimer's disease. A compartmental model of Aβ production, exchange and irreversible loss was recently developed to explain the kinetics of isotope-labeling of Aβ peptides collected in cerebrospinal fluid (CSF) following infusion of stable isotope-labeled leucine in humans. The compartmental model allowed calculation of the rates of production, irreversible loss (or turnover) and short-term exchange of Aβ peptides. Exchange of Aβ42 was particularly pronounced in amyloid plaque-bearing participants. In the current work, we describe in much greater detail the characteristics of the compartmental model to two distinct audiences: physician-scientists and biokineticists. For physician-scientists, we describe through examples the types of questions the model can and cannot answer, as well as correct some misunderstandings of previous kinetic analyses applied to this type of isotope labeling data. For biokineticists, we perform a system identifiability analysis and a sensitivity analysis of the kinetic model to explore the global and local properties of the model. Combined, these analyses motivate simplifications from a more comprehensive physiological model to the final model that was previously presented. The analyses clearly demonstrate that the current dataset and compartmental model allow determination with confidence a single ‘turnover’ parameter, a single ‘exchange’ parameter and a single ‘delay’ parameter. When combined with CSF concentration data for the Aβ peptides, production rates may also be obtained. PMID:25497960
Elbert, Donald L; Patterson, Bruce W; Bateman, Randall J
2015-03-01
Amyloid beta (Aβ) peptides, and in particular Aβ42, are found in senile plaques associated with Alzheimer's disease. A compartmental model of Aβ production, exchange and irreversible loss was recently developed to explain the kinetics of isotope-labeling of Aβ peptides collected in cerebrospinal fluid (CSF) following infusion of stable isotope-labeled leucine in humans. The compartmental model allowed calculation of the rates of production, irreversible loss (or turnover) and short-term exchange of Aβ peptides. Exchange of Aβ42 was particularly pronounced in amyloid plaque-bearing participants. In the current work, we describe in much greater detail the characteristics of the compartmental model to two distinct audiences: physician-scientists and biokineticists. For physician-scientists, we describe through examples the types of questions the model can and cannot answer, as well as correct some misunderstandings of previous kinetic analyses applied to this type of isotope labeling data. For biokineticists, we perform a system identifiability analysis and a sensitivity analysis of the kinetic model to explore the global and local properties of the model. Combined, these analyses motivate simplifications from a more comprehensive physiological model to the final model that was previously presented. The analyses clearly demonstrate that the current dataset and compartmental model allow determination with confidence a single 'turnover' parameter, a single 'exchange' parameter and a single 'delay' parameter. When combined with CSF concentration data for the Aβ peptides, production rates may also be obtained. PMID:25497960
Härkänen, Lasse; Halonen, Jari; Selander, Tuomas; Kokki, Hannu
2015-12-01
We have performed a systematic literature review and a meta-analysis investigating the effect of beta-adrenergic antagonist on perioperative pain in randomized clinical trials (RCTs). The search included the CENTRAL, CINAHL, EMBASE, and MEDLINE databases (from inception to 10 February 2015). From the retrieved full texts, we hand-searched the references and PubMed related citations. A total of 11 RCTs consisting data of 701 adult patients were eligible for this systematic review. Esmolol was evaluated in ten trials and propranolol in one. Esmolol decreased the need for rescue analgesics by 32-50%; p < 0.05 (n = 7) and the proportion of patients needing rescue analgesia from 100 to 65%; p < 0.005 (n = 1), and propranolol decreased the need for rescue analgesics by 72%; p < 0.001 (n = 1). The time to the first rescue analgesics was longer (p < 0.05) and pain ratings were lower (p < 0.05) in patients with beta-adrenergic antagonists. However, in two opioid-controlled studies, one in knee arthroscopy and another in tubal ligation patients, the proportion of patients needing rescue analgesia was two-times higher in esmolol-treated patients: 52-57 vs. 23-34%, p < 0.05. Adverse effects were rarely reported, and as reported were mostly cardiovascular alterations. In conclusion, intra-operative beta-adrenergic antagonists' administration may decrease postoperative pain and analgesic consumption when given as an adjuvant to general anesthesia. PMID:26160590
Minasov, George; Wang, Xiaojun; Shoichet, Brian K.
2010-03-08
Although TEM-1 {beta}-lactamase is among the best studied enzymes, its acylation mechanism remains controversial. To investigate this problem, the structure of TEM-1 in complex with an acylation transition-state analogue was determined at ultrahigh resolution (0.85 {angstrom}) by X-ray crystallography. The quality of the data was such as to allow for refinement to an R-factor of 9.1% and an R{sub free} of 11.2%. In the resulting structure, the electron density features were clear enough to differentiate between single and double bonds in carboxylate groups, to identify multiple conformations that are occupied by residues and loops, and to assign 70% of the protons in the protein. Unexpectedly, even at pH 8.0 where the protein was crystallized, the active site residue Glu166 is clearly protonated. This supports the hypothesis that Glu166 is the general base in the acylation half of the reaction cycle. This structure suggests that Glu166 acts through the catalytic water to activate Ser70 for nucleophilic attack on the {beta}-lactam ring of the substrate. The hydrolytic mechanism of class A {beta}-lactamases, such as TEM-1, appears to be symmetrical, as are the serine proteases. Apart from its mechanistic implications, this atomic resolution structure affords an unusually detailed view of the structure, dynamics, and hydrogen-bonding networks of TEM-1, which may be useful for the design of inhibitors against this key antibiotic resistance target.
Sauvonnet, N; Pugsley, A P
1996-10-01
Pullulanase (PulA) is a 116 kDa amylolytic lipoprotein secreted by the Gram-negative bacterium Klebsiella oxytoca via the general secretory pathway. A deletion strategy was used in an attempt to determine the nature and the location of the secretion signal(s) in PulA presumed to be necessary for its specific secretion. The starting material was a gene fusion coding for an efficiently secreted PulA-beta-lactamase hybrid protein. Successive series of exonuclease III-generated deletions were used to remove internal segments of PulA from this hybrid. A simple plate test allowed the identification of truncated hybrids that retained beta-lactamase activity and that were secreted. Two non-adjacent regions, A and B (78 and 80 amino acids, respectively), were together necessary and sufficient to promote beta-lactamase translocation across the outer membrane. Secretion of PulA itself was markedly reduced when either of these regions was deleted, and was completely abolished when both regions were eliminated. PMID:8899703
General topology meets model theory, on and
Malliaris, Maryanthe; Shelah, Saharon
2013-01-01
Cantor proved in 1874 [Cantor G (1874) J Reine Angew Math 77:258–262] that the continuum is uncountable, and Hilbert’s first problem asks whether it is the smallest uncountable cardinal. A program arose to study cardinal invariants of the continuum, which measure the size of the continuum in various ways. By Gödel [Gödel K (1939) Proc Natl Acad Sci USA 25(4):220–224] and Cohen [Cohen P (1963) Proc Natl Acad Sci USA 50(6):1143–1148], Hilbert’s first problem is independent of ZFC (Zermelo-Fraenkel set theory with the axiom of choice). Much work both before and since has been done on inequalities between these cardinal invariants, but some basic questions have remained open despite Cohen’s introduction of forcing. The oldest and perhaps most famous of these is whether “,” which was proved in a special case by Rothberger [Rothberger F (1948) Fund Math 35:29–46], building on Hausdorff [Hausdorff (1936) Fund Math 26:241–255]. In this paper we explain how our work on the structure of Keisler’s order, a large-scale classification problem in model theory, led to the solution of this problem in ZFC as well as of an a priori unrelated open question in model theory. PMID:23836659
Building a generalized distributed system model
NASA Technical Reports Server (NTRS)
Mukkamala, R.
1992-01-01
The key elements in the second year (1991-92) of our project are: (1) implementation of the distributed system prototype; (2) successful passing of the candidacy examination and a PhD proposal acceptance by the funded student; (3) design of storage efficient schemes for replicated distributed systems; and (4) modeling of gracefully degrading reliable computing systems. In the third year of the project (1992-93), we propose to: (1) complete the testing of the prototype; (2) enhance the functionality of the modules by enabling the experimentation with more complex protocols; (3) use the prototype to verify the theoretically predicted performance of locking protocols, etc.; and (4) work on issues related to real-time distributed systems. This should result in efficient protocols for these systems.
ERIC Educational Resources Information Center
Jurow, A. Susan
2004-01-01
Generalizing or making claims that extend beyond particular situations is a central mathematical practice and a focus of classroom mathematics instruction. This study examines how aspects of generality are produced through the situated activities of a group of middle school mathematics students working on an 8-week population-modeling project. The…
Integrated modeling of high poloidal beta scenario for a next-step reactor
NASA Astrophysics Data System (ADS)
McClenaghan, J.; Garofalo, A. M.; Meneghini, O.; Smith, S. P.
2015-11-01
In order to fill the scientific and technological gaps between ITER and a nuclear fusion power plant DEMO, a next-step integrated nuclear test facility is critical. A high poloidal beta tokamak regime investigated in recent DIII-D experiments is a promising candidate for steady state operation in such a next-step device because the large bootstrap current fraction (~ 80 %) reduces the demands on the external current drive. Despite the large values of q95 ~10, the normalized fusion performance observed in the experiments meet the target for an economically attractive fusion power plant such as ARIES-ACT2. In this work, we will project the performance for a conducting and superconducting coil next-step steady state reactor using theory-based 0-D modeling and full 1.5D transport modeling. Work supported by U.S. DOE under DE-FC02-04ER54698.
Model selection in the weighted generalized estimating equations for longitudinal data with dropout.
Gosho, Masahiko
2016-05-01
We propose criteria for variable selection in the mean model and for the selection of a working correlation structure in longitudinal data with dropout missingness using weighted generalized estimating equations. The proposed criteria are based on a weighted quasi-likelihood function and a penalty term. Our simulation results show that the proposed criteria frequently select the correct model in candidate mean models. The proposed criteria also have good performance in selecting the working correlation structure for binary and normal outcomes. We illustrate our approaches using two empirical examples. In the first example, we use data from a randomized double-blind study to test the cancer-preventing effects of beta carotene. In the second example, we use longitudinal CD4 count data from a randomized double-blind study. PMID:26509243
A generalized kinetic model for heterogeneous gas-solid reactions.
Xu, Zhijie; Sun, Xin; Khaleel, Mohammad A
2012-08-21
We present a generalized kinetic model for gas-solid heterogeneous reactions taking place at the interface between two phases. The model studies the reaction kinetics by taking into account the reactions at the interface, as well as the transport process within the product layer. The standard unreacted shrinking core model relies on the assumption of quasi-static diffusion that results in a steady-state concentration profile of gas reactant in the product layer. By relaxing this assumption and resolving the entire problem, general solutions can be obtained for reaction kinetics, including the reaction front velocity and the conversion (volume fraction of reacted solid). The unreacted shrinking core model is shown to be accurate and in agreement with the generalized model for slow reaction (or fast diffusion), low concentration of gas reactant, and small solid size. Otherwise, a generalized kinetic model should be used. PMID:22920132
A generalized kinetic model for heterogeneous gas-solid reactions
NASA Astrophysics Data System (ADS)
Xu, Zhijie; Sun, Xin; Khaleel, Mohammad A.
2012-08-01
We present a generalized kinetic model for gas-solid heterogeneous reactions taking place at the interface between two phases. The model studies the reaction kinetics by taking into account the reactions at the interface, as well as the transport process within the product layer. The standard unreacted shrinking core model relies on the assumption of quasi-static diffusion that results in a steady-state concentration profile of gas reactant in the product layer. By relaxing this assumption and resolving the entire problem, general solutions can be obtained for reaction kinetics, including the reaction front velocity and the conversion (volume fraction of reacted solid). The unreacted shrinking core model is shown to be accurate and in agreement with the generalized model for slow reaction (or fast diffusion), low concentration of gas reactant, and small solid size. Otherwise, a generalized kinetic model should be used.
Biodegradation and cometabolic modeling of selected beta blockers during ammonia oxidation.
Sathyamoorthy, Sandeep; Chandran, Kartik; Ramsburg, C Andrew
2013-11-19
Accurate prediction of pharmaceutical concentrations in wastewater effluents requires that the specific biochemical processes responsible for pharmaceutical biodegradation be elucidated and integrated within any modeling framework. The fate of three selected beta blockers-atenolol, metoprolol, and sotalol-was examined during nitrification using batch experiments to develop and evaluate a new cometabolic process-based (CPB) model. CPB model parameters describe biotransformation during and after ammonia oxidation for specific biomass populations and are designed to be integrated within the Activated Sludge Models framework. Metoprolol and sotalol were not biodegraded by the nitrification enrichment culture employed herein. Biodegradation of atenolol was observed and linked to the activity of ammonia-oxidizing bacteria (AOB) and heterotrophs but not nitrite-oxidizing bacteria. Results suggest that the role of AOB in atenolol degradation may be disproportionately more significant than is otherwise suggested by their lower relative abundance in typical biological treatment processes. Atenolol was observed to competitively inhibit AOB growth in our experiments, though model simulations suggest inhibition is most relevant at atenolol concentrations greater than approximately 200 ng·L(-1). CPB model parameters were found to be relatively insensitive to biokinetic parameter selection suggesting the model approach may hold utility for describing pharmaceutical biodegradation during biological wastewater treatment. PMID:24112027
An in vivo model for the neurodegenerative effects of beta amyloid and protection by substance P.
Kowall, N W; Beal, M F; Busciglio, J; Duffy, L K; Yankner, B A
1991-01-01
Deposition of the beta-amyloid protein in senile plaques is a pathologic hallmark of Alzheimer disease (AD). Focal deposition of beta amyloid in the adult rat cerebral cortex caused profound neurodegenerative changes, including neuronal loss and degenerating neurons and neurites. Chronic induction of the Alz-50 antigen appeared in neurons around focal cortical deposits of beta amyloid. Immunoblot analysis showed that beta amyloid induced Alz-50-immunoreactive proteins in rat cerebral cortex that were very similar to the proteins induced in human cerebral cortex from patients with AD. The neuropeptide substance P prevented beta-amyloid-induced neuronal loss and expression of Alz-50 proteins when coadministered into the cerebral cortex. Systemic administration of substance P also provided protection against the effects of intracerebral beta amyloid. Thus, beta amyloid is a potent neurotoxin in the adult brain in vivo, and its effects can be blocked by substance P. Images PMID:1714596
ECOLOGICAL THEORY. A general consumer-resource population model.
Lafferty, Kevin D; DeLeo, Giulio; Briggs, Cheryl J; Dobson, Andrew P; Gross, Thilo; Kuris, Armand M
2015-08-21
Food-web dynamics arise from predator-prey, parasite-host, and herbivore-plant interactions. Models for such interactions include up to three consumer activity states (questing, attacking, consuming) and up to four resource response states (susceptible, exposed, ingested, resistant). Articulating these states into a general model allows for dissecting, comparing, and deriving consumer-resource models. We specify this general model for 11 generic consumer strategies that group mathematically into predators, parasites, and micropredators and then derive conditions for consumer success, including a universal saturating functional response. We further show how to use this framework to create simple models with a common mathematical lineage and transparent assumptions. Underlying assumptions, missing elements, and composite parameters are revealed when classic consumer-resource models are derived from the general model. PMID:26293960
Adaptive multiscale model reduction with Generalized Multiscale Finite Element Methods
NASA Astrophysics Data System (ADS)
Chung, Eric; Efendiev, Yalchin; Hou, Thomas Y.
2016-09-01
In this paper, we discuss a general multiscale model reduction framework based on multiscale finite element methods. We give a brief overview of related multiscale methods. Due to page limitations, the overview focuses on a few related methods and is not intended to be comprehensive. We present a general adaptive multiscale model reduction framework, the Generalized Multiscale Finite Element Method. Besides the method's basic outline, we discuss some important ingredients needed for the method's success. We also discuss several applications. The proposed method allows performing local model reduction in the presence of high contrast and no scale separation.
Cloud Feedback in Atmospheric General Circulation Models: An Update
NASA Technical Reports Server (NTRS)
Cess, R. D.; Zhang, M. H.; Ingram, W. J.; Potter, G. L.; Alekseev, V.; Barker, H. W.; Cohen-Solal, E.; Colman, R. A.; Dazlich, D. A.; DelGenio, A. D.; Dix, M. R.; Dymnikov, V.; Esch, M.; Fowler, L. D.; Fraser, J. R.; Galin, V.; Gates, W. L.; Hack, J. J.; Kiehl, J. T.; LeTreut, H.
1996-01-01
Six years ago, we compared the climate sensitivity of 19 atmospheric general circulation models and found a roughly threefold variation among the models; most of this variation was attributed to differences in the models' depictions of cloud feedback. In an update of this comparison, current models showed considerably smaller differences in net cloud feedback, with most producing modest values. There are, however, substantial differences in the feedback components, indicating that the models still have physical disagreements.
NASA Technical Reports Server (NTRS)
Hubbard, W. B.; Jokipii, J. R.
1977-01-01
Effects of atmospheric turbulence on stellar-occultation inversion procedures are investigated using a heuristic scattering model that is believed to reproduce the essential features of turbulence. A quantitative estimate is made of the size of the error in deducing the mean refractivity profile of a planetary atmosphere, taking into account constant as well as exponential scattering. It is shown that ordinary turbulence has no important effect on the average intensity profile in a stellar occultation but could have an important instantaneous effect. A critical examination of possible manifestations of turbulent scattering during occultations of Beta Sco by Jupiter indicates that all observed phenomena during these events can be understood in terms of scintillations produced by turbulence.
Equating Parameter Estimates from the Generalized Graded Unfolding Model.
ERIC Educational Resources Information Center
Roberts, James S.
Three common methods for equating parameter estimates from binary item response theory models are extended to the generalized grading unfolding model (GGUM). The GGUM is an item response model in which single-peaked, nonmonotonic expected value functions are implemented for polytomous responses. GGUM parameter estimates are equated using extended…
Calibrating the ECCO ocean general circulation model using Green's functions
NASA Technical Reports Server (NTRS)
Menemenlis, D.; Fu, L. L.; Lee, T.; Fukumori, I.
2002-01-01
Green's functions provide a simple, yet effective, method to test and calibrate General-Circulation-Model(GCM) parameterizations, to study and quantify model and data errors, to correct model biases and trends, and to blend estimates from different solutions and data products.
Deformed shell model results for neutrinoless double beta decay of nuclei in A = 60 - 90 region
NASA Astrophysics Data System (ADS)
Sahu, R.; Kota, V. K. B.
2015-03-01
Nuclear transition matrix elements (NTME) for the neutrinoless double beta decay (Oνββ or OνDBD) of 70Zn, 80Se and 82Se nuclei are calculated within the framework of the deformed shell model (DSM) based on Hartree-Fock (HF) states. For 70Zn, jj44b interaction in 2p3/2, 1f5/2, 2p1/2 and 1g9/2 space with 56Ni as the core is employed. However, for 80Se and 82Se nuclei, a modified Kuo interaction with the above core and model space are employed. Most of our calculations in this region were performed with this effective interaction. However, jj44b interaction has been found to be better for 70Zn. The above model space was used in many recent shell model (SM) and interacting boson model (IBM) calculations for nuclei in this region. After ensuring that DSM gives good description of the spectroscopic properties of low-lying levels in these three nuclei considered, the NTME are calculated. The deduced half-lives with these NTME, assuming neutrino mass is 1 eV, are 1.1 × 1026, 2.3 × 1027 and 2.2 × 1024 yr for 70Zn, 80Se and 82Se, respectively.
Predictability of formation damage: An assessment study and generalized models
Civan, F.
1991-01-01
The project objective is to develop improved generalized predictive models to be used for investigation of reservoir formation damage and control for various fluid and rock conditions and to account for these effects in reservoir simulation. To accomplish its objective the proposed study will first critically study and evaluate the previous modeling efforts and the experimental studies reported in the literature. Then, generalized predictive models will be formulated by combining the previous attempts and by improving and generalizing the modeling approaches to accommodate for a wide variety of conditions encountered in actual field applications. A critical review of the previous work addressing their theoretical basis, assumptions and limitations, and the generalized and improved model developed in this study will be presented in a systematic manner in terms of a standardized definition and nomenclature for direct comparison. Case studies with the generalized model will be presented to demonstrate its capacity and validity. User friendly computer programs implementing the improved modeling approaches will also be supplied. This study will form an assessment of the presently available models and methods for evaluating and predicting formation damage and present improved models. Therefore, it will be an important reference for the petroleum industry. 1 tab.
A crystallographic model for hydrous wadsleyite (Beta-Mg2SiO4)
NASA Technical Reports Server (NTRS)
Smyth, J. R.
1994-01-01
Wadsleyite (beta-Mg2SiO4) is believed to be the most abundant phase in the Earth between depths of 400 and about 525km. Because of the unusual crystal chemistry, Smyth suggested that this phase might be a significant host for hydrogen in the transition zone. Indeed, of the nominally anhydrous phases believed to make up the upper mantle and transition zone none has been reported with a greater H content than wadsleyite. Young et al, report the synthesis of hydrous, Fe-bearing wadsleyite with up to 60,000 H per 10(exp 6) Si. Using ionic constraints and maximal subgroup symmetry, a hypothetical, ordered model for hydrous wadsleyite has been created and examined. The model has formula Mg7Si4O14(OH)2, has space group Pmmb, has an ordered vacancy into one of two non-equivalent M2 sites, and contains two different H positions, one on each of the non-equivalent O1 sites. Electrostatic calculations indicate that hydration would relieve the underbonding of O1 as well as the overbonding of the bridging oxygen, O2, so that the hydrous phase may be more stable than the anhydrous phase. This model makes several predictions that may be of significance for the mechanisms and amounts of H that may be stored in the transition zone of the Earth, and by which the model may be tested experimentally.
A structural model for the nucleotide binding domains of the flavocytochrome b-245 beta-chain.
Taylor, W. R.; Jones, D. T.; Segal, A. W.
1993-01-01
NADPH is a system in phagocytic cells that generates O2- and hydrogen peroxide in the endocytic vacuole, both of which are important for killing of the engulfed microbe. Dysfunction of this oxidase results in the syndrome of chronic granulomatous disease, characterized by a profound predisposition to bacterial and fungal infections. A flavocytochrome b is the site of most of the mutations causing this syndrome. The FAD and NADPH binding sites have been located on the beta subunit of this molecule, the C-terminal half of which showed weak sequence similarity to other reductases, including the ferredoxin-NADP reductase (FNR) of known structure. This enabled us to build a model of the nucleotide binding domains of the flavocytochrome using this structure as a template. The model was built initially using a novel automatic modeling method based on distance-matrix projection and then refined using energy minimization with appropriate side-chain torsional constraints. The resulting model rationalized much of the observed sequence conservation and identified a large insertion as a potential regulatory domain. It confirms the inclusion of the neutrophil flavocytochrome b-245 (Cb-245) as a member of the FNR family of reductases and strongly supports its function as the proximal electron transporting component of the NADPH oxidase. PMID:8251942
Adaptation of a general circulation model to ocean dynamics
NASA Technical Reports Server (NTRS)
Turner, R. E.; Rees, T. H.; Woodbury, G. E.
1976-01-01
A primitive-variable general circulation model of the ocean was formulated in which fast external gravity waves are suppressed with rigid-lid surface constraint pressires which also provide a means for simulating the effects of large-scale free-surface topography. The surface pressure method is simpler to apply than the conventional stream function models, and the resulting model can be applied to both global ocean and limited region situations. Strengths and weaknesses of the model are also presented.
Two field BPS solutions for generalized Lorentz breaking models
Souza Dutra, A. de; Hott, M.; Barone, F. A.
2006-10-15
In this work we present nonlinear models in two-dimensional space-time of two interacting scalar fields in the Lorentz and CPT violating scenarios. We discuss the soliton solutions for these models as well as the question of stability for them. This is done by generalizing a model recently published by Barreto and collaborators and also by getting new solutions for the model introduced by them.
General autocatalytic theory and simple model of financial markets
NASA Astrophysics Data System (ADS)
Thuy Anh, Chu; Lan, Nguyen Tri; Viet, Nguyen Ai
2015-06-01
The concept of autocatalytic theory has become a powerful tool in understanding evolutionary processes in complex systems. A generalization of autocatalytic theory was assumed by considering that the initial element now is being some distribution instead of a constant value as in traditional theory. This initial condition leads to that the final element might have some distribution too. A simple physics model for financial markets is proposed, using this general autocatalytic theory. Some general behaviours of evolution process and risk moment of a financial market also are investigated in framework of this simple model.
A generalized statistical model for the size distribution of wealth
NASA Astrophysics Data System (ADS)
Clementi, F.; Gallegati, M.; Kaniadakis, G.
2012-12-01
In a recent paper in this journal (Clementi et al 2009 J. Stat. Mech. P02037), we proposed a new, physically motivated, distribution function for modeling individual incomes, having its roots in the framework of the κ-generalized statistical mechanics. The performance of the κ-generalized distribution was checked against real data on personal income for the United States in 2003. In this paper we extend our previous model so as to be able to account for the distribution of wealth. Probabilistic functions and inequality measures of this generalized model for wealth distribution are obtained in closed form. In order to check the validity of the proposed model, we analyze the US household wealth distributions from 1984 to 2009 and conclude an excellent agreement with the data that is superior to any other model already known in the literature.
Guisan, A.; Edwards, T.C., Jr.; Hastie, T.
2002-01-01
An important statistical development of the last 30 years has been the advance in regression analysis provided by generalized linear models (GLMs) and generalized additive models (GAMs). Here we introduce a series of papers prepared within the framework of an international workshop entitled: Advances in GLMs/GAMs modeling: from species distribution to environmental management, held in Riederalp, Switzerland, 6-11 August 2001. We first discuss some general uses of statistical models in ecology, as well as provide a short review of several key examples of the use of GLMs and GAMs in ecological modeling efforts. We next present an overview of GLMs and GAMs, and discuss some of their related statistics used for predictor selection, model diagnostics, and evaluation. Included is a discussion of several new approaches applicable to GLMs and GAMs, such as ridge regression, an alternative to stepwise selection of predictors, and methods for the identification of interactions by a combined use of regression trees and several other approaches. We close with an overview of the papers and how we feel they advance our understanding of their application to ecological modeling. ?? 2002 Elsevier Science B.V. All rights reserved.
A note on 'A generalized two-sex logistic model'.
Maxin, D; Sega, L
2015-01-01
We re-visit the recently published paper on a generalization of the two-sex logistic model by Maxin and Sega [A generalized two-sex logistic model, J. Biol. Dyn. 7(1) (2013), pp. 302-318]. We show that the logistic assumption of a non-increasing birth rate can be replaced by a more general assumption of a non-increasing ratio between the female/male birth and mortality rate. In this note we indicate the changes necessary in the proofs of the theorems in [D. Maxin and L. Sega, A generalized two-sex logistic model, J. Biol. Dyn. 7(1) (2013), pp. 302--318] and discuss several situations where this new assumption is useful. PMID:25653171
A generalized model via random walks for information filtering
NASA Astrophysics Data System (ADS)
Ren, Zhuo-Ming; Kong, Yixiu; Shang, Ming-Sheng; Zhang, Yi-Cheng
2016-08-01
There could exist a simple general mechanism lurking beneath collaborative filtering and interdisciplinary physics approaches which have been successfully applied to online E-commerce platforms. Motivated by this idea, we propose a generalized model employing the dynamics of the random walk in the bipartite networks. Taking into account the degree information, the proposed generalized model could deduce the collaborative filtering, interdisciplinary physics approaches and even the enormous expansion of them. Furthermore, we analyze the generalized model with single and hybrid of degree information on the process of random walk in bipartite networks, and propose a possible strategy by using the hybrid degree information for different popular objects to toward promising precision of the recommendation.
Phase-field modeling of the beta to omega phase transformation in Zr-Nb alloys
Yeddu, Hemantha Kumar; Lookman, Turab
2015-03-17
A three-dimensional elastoplastic phase-field model is developed, using the finite element method (FEM), for modeling the athermal beta to omega phase transformation in Zr–Nb alloys by including plastic deformation and strain hardening of the material. The microstructure evolution during athermal transformation as well as under different stress states, e.g. uni-axial tensile and compressive, bi-axial tensile and compressive, shear and tri-axial loadings, is studied. The effects of plasticity, stress states and the stress loading direction on the microstructure evolution as well as on the mechanical properties are studied. The input data corresponding to a Zr – 8 at% Nb alloy are acquired from experimental studies as well as by using the CALPHAD method. Our simulations show that the four different omega variants grow as ellipsoidal shaped particles. Our results show that due to stress relaxation, the athermal phase transformation occurs slightly more readily in the presence of plasticity compared to that in its absence. The evolution of omega phase is different under different stress states, which leads to the differences in the mechanical properties of the material. As a result, the variant selection mechanism, i.e. formation of different variants under different stress loading directions, is also nicely captured by our model.
Ullah, Ghanim; Demuro, Angelo; Parker, Ian; Pearson, John E.
2015-01-01
Amyloid beta (Aβ) oligomers associated with Alzheimer’s disease (AD) form Ca2+-permeable plasma membrane pores, leading to a disruption of the otherwise well-controlled intracellular calcium (Ca2+) homeostasis. The resultant up-regulation of intracellular Ca2+ concentration has detrimental implications for memory formation and cell survival. The gating kinetics and Ca2+ permeability of Aβ pores are not well understood. We have used computational modeling in conjunction with the ability of optical patch-clamping for massively parallel imaging of Ca2+ flux through thousands of pores in the cell membrane of Xenopus oocytes to elucidate the kinetic properties of Aβ pores. The fluorescence time-series data from individual pores were idealized and used to develop data-driven Markov chain models for the kinetics of the Aβ pore at different stages of its evolution. Our study provides the first demonstration of developing Markov chain models for ion channel gating that are driven by optical-patch clamp data with the advantage of experiments being performed under close to physiological conditions. Towards the end, we demonstrate the up-regulation of gating of various Ca2+ release channels due to Aβ pores and show that the extent and spatial range of such up-regulation increases as Aβ pores with low open probability and Ca2+ permeability transition into those with high open probability and Ca2+ permeability. PMID:26348728
Drift wave model for geomagnetic pulsations in a high. beta. plasma
Patel, V.L.; Ng, P.H.; Cahill, L.J. Jr.
1983-07-01
A dispersion relation for the instability of the coupled drift compressional drift mirror, and shear Alven waves in the magnetospheric plasma is analyzed by numerical method. The analysis is suitable for the storm time plasma conditions in the magnetosphere which usually has gradients in plasma density temperature, magnetic field, and anisotropy in temperature. The effect of high ..beta.. which is characteristic of storm time plasma is included in the model. For a given appropriate set of plasma parameters, and wave parameters of a mode relative wave amplitudes are calculated from the model. A comparison is made of model generated and observed relative wave amplitudes by using two sample wave events observed by Explorer 45 during the August 4--6, 1972, magnetic storm. The quantitative analysis shows good agreement between theory and observations for a gradient-driven Alvenlike instability; however, growth rates are veery small for this mode. The anisotropy-driven drift mirror instability has large growth rates but does not show correlation between theory and observations of relative wave amplitudes.
Phase-field modeling of the beta to omega phase transformation in Zr–Nb alloys
Yeddu, Hemantha Kumar; Lookman, Turab
2015-05-01
A three-dimensional elastoplastic phase-field model is developed, using the Finite Element Method (FEM), for modeling the athermal beta to omega phase transformation in Zr–Nb alloys by including plastic deformation and strain hardening of the material. The microstructure evolution during athermal transformation as well as under different stress states, e.g. uni-axial tensile and compressive, bi-axial tensile and compressive, shear and tri-axial loadings, is studied. The effects of plasticity, stress states and the stress loading direction on the microstructure evolution as well as on the mechanical properties are studied. The input data corresponding to a Zr – 8 at.% Nb alloy aremore » acquired from experimental studies as well as by using the CALPHAD method. Our simulations show that the four different omega variants grow as ellipsoidal shaped particles. Our results show that due to stress relaxation, the athermal phase transformation occurs slightly more readily in the presence of plasticity compared to that in its absence. The evolution of omega phase is different under different stress states, which leads to the differences in the mechanical properties of the material. The variant selection mechanism, i.e. formation of different variants under different stress loading directions, is also nicely captured by our model.« less
Phase-field modeling of the beta to omega phase transformation in Zr–Nb alloys
Yeddu, Hemantha Kumar; Lookman, Turab
2015-05-01
A three-dimensional elastoplastic phase-field model is developed, using the Finite Element Method (FEM), for modeling the athermal beta to omega phase transformation in Zr–Nb alloys by including plastic deformation and strain hardening of the material. The microstructure evolution during athermal transformation as well as under different stress states, e.g. uni-axial tensile and compressive, bi-axial tensile and compressive, shear and tri-axial loadings, is studied. The effects of plasticity, stress states and the stress loading direction on the microstructure evolution as well as on the mechanical properties are studied. The input data corresponding to a Zr – 8 at.% Nb alloy are acquired from experimental studies as well as by using the CALPHAD method. Our simulations show that the four different omega variants grow as ellipsoidal shaped particles. Our results show that due to stress relaxation, the athermal phase transformation occurs slightly more readily in the presence of plasticity compared to that in its absence. The evolution of omega phase is different under different stress states, which leads to the differences in the mechanical properties of the material. The variant selection mechanism, i.e. formation of different variants under different stress loading directions, is also nicely captured by our model.
Ullah, Ghanim; Demuro, Angelo; Parker, Ian; Pearson, John E.; Xu, Shang -Zhong
2015-09-08
Amyloid beta (Aβ) oligomers associated with Alzheimer’s disease (AD) form Ca2+-permeable plasma membrane pores, leading to a disruption of the otherwise well-controlled intracellular calcium (Ca2+) homeostasis. The resultant up-regulation of intracellular Ca2+ concentration has detrimental implications for memory formation and cell survival. The gating kinetics and Ca2+ permeability of Aβ pores are not well understood. We have used computational modeling in conjunction with the ability of optical patch-clamping for massively parallel imaging of Ca2+ flux through thousands of pores in the cell membrane of Xenopus oocytes to elucidate the kinetic properties of Aβ pores. The fluorescence time-series data from individualmore » pores were idealized and used to develop data-driven Markov chain models for the kinetics of the Aβ pore at different stages of its evolution. Our study provides the first demonstration of developing Markov chain models for ion channel gating that are driven by optical-patch clamp data with the advantage of experiments being performed under close to physiological conditions. As a result, we demonstrate the up-regulation of gating of various Ca2+ release channels due to Aβ pores and show that the extent and spatial range of such up-regulation increases as Aβ pores with low open probability and Ca2+ permeability transition into those with high open probability and Ca2+ permeability.« less
Modeling of Coupled Degradation, Sorption, and Transport of 17beta-Estradiol in Undisturbed Soil
Technology Transfer Automated Retrieval System (TEKTRAN)
The presence of 17 beta-estradiol in the environment, even at part-per trillion concentrations, may raise significant concern regarding the health of aquatic organisms. Once 17 beta-estradiol is released into the environment from human and animal sources, its fate and transport is controlled by fact...
Estimability of Parameters in the Generalized Graded Unfolding Model.
ERIC Educational Resources Information Center
Roberts, James S.; Donoghue, John R.; Laughlin, James E.
The generalized graded unfolding model (GGUM) (J. Roberts, J. Donoghue, and J. Laughlin, 1998) is an item response theory model designed to analyze binary or graded responses that are based on a proximity relation. The purpose of this study was to assess conditions under which item parameter estimation accuracy increases or decreases, with special…
A Generalized Evaluation Model for Primary Prevention Programs.
ERIC Educational Resources Information Center
Barling, Phillip W.; Cramer, Kathryn D.
A generalized evaluation model (GEM) has been developed to evaluate primary prevention program impact. The GEM model views primary prevention dynamically; delineating four structural components (program, organization, target population, system) and four developmental stages (initiation, establishment, integration, continuation). The interaction of…
Analysis of Radiation Pneumonitis Risk Using a Generalized Lyman Model
Tucker, Susan L. Liu, H. Helen; Liao Zhongxing; Wei Xiong; Wang Shulian; Jin Hekun; Komaki, Ritsuko; Martel, Mary K.; Mohan, Radhe
2008-10-01
Purpose: To introduce a version of the Lyman normal-tissue complication probability (NTCP) model adapted to incorporate censored time-to-toxicity data and clinical risk factors and to apply the generalized model to analysis of radiation pneumonitis (RP) risk. Methods and Materials: Medical records and radiation treatment plans were reviewed retrospectively for 576 patients with non-small cell lung cancer treated with radiotherapy. The time to severe (Grade {>=}3) RP was computed, with event times censored at last follow-up for patients not experiencing this endpoint. The censored time-to-toxicity data were analyzed using the standard and generalized Lyman models with patient smoking status taken into account. Results: The generalized Lyman model with patient smoking status taken into account produced NTCP estimates up to 27 percentage points different from the model based on dose-volume factors alone. The generalized model also predicted that 8% of the expected cases of severe RP were unobserved because of censoring. The estimated volume parameter for lung was not significantly different from n = 1, corresponding to mean lung dose. Conclusions: NTCP models historically have been based solely on dose-volume effects and binary (yes/no) toxicity data. Our results demonstrate that inclusion of nondosimetric risk factors and censored time-to-event data can markedly affect outcome predictions made using NTCP models.
Interaction Strength and a Generalized Bak-Sneppen Evolution Model
NASA Astrophysics Data System (ADS)
Li, Wei; Cai, Xu
2002-10-01
The Bak-Sneppen evolution model is generalized in terms of a new concept and quantity: interaction strength. Based on a quantitative definition, the interaction strength describes the strength of the interaction between the nearest-neighbour individuals in the model. Self-organized criticality is observed for the generalized model with ten different values of interaction strength. The gap equation governing the self-organization is derived. It is also found that the self-organized threshold depends on the value of the interaction strength.
A Generalized Information Theoretical Model for Quantum Secret Sharing
NASA Astrophysics Data System (ADS)
Bai, Chen-Ming; Li, Zhi-Hui; Xu, Ting-Ting; Li, Yong-Ming
2016-07-01
An information theoretical model for quantum secret sharing was introduced by H. Imai et al. (Quantum Inf. Comput. 5(1), 69-80 2005), which was analyzed by quantum information theory. In this paper, we analyze this information theoretical model using the properties of the quantum access structure. By the analysis we propose a generalized model definition for the quantum secret sharing schemes. In our model, there are more quantum access structures which can be realized by our generalized quantum secret sharing schemes than those of the previous one. In addition, we also analyse two kinds of important quantum access structures to illustrate the existence and rationality for the generalized quantum secret sharing schemes and consider the security of the scheme by simple examples.
Daniels, D. L.
2002-01-01
In the canonical Wnt signaling pathway, {beta}-catenin activates target genes through its interactions with Tcf/Lef-family transcription factors and additional transcriptional coactivators. The crystal structure of ICAT, an inhibitor of {beta}-catenin-mediated transcription, bound to the armadillo repeat domain of {beta}-catenin, has been determined. ICAT contains an N-terminal helilical domain that binds to repeats 11 and 12 of {beta}-catenin, and an extended C-terminal region that binds to repeats 5-10 in a manner similar that of Tcfs and other {beta}-catenin ligands. Full-length ICAT dissociates complexes of {beta}-catenin, Lef-1, and the transcriptional coactivator p300, whereas the helical domain alone selectively blocks binding to p300. The C-terminal armadillo repeats of {beta}-catenin may be an attractive target for compounds designed to disrupt aberrant {beta}-catenin-mediated transcription associated with various cancers.
Partially Observed Mixtures of IRT Models: An Extension of the Generalized Partial-Credit Model
ERIC Educational Resources Information Center
Von Davier, Matthias; Yamamoto, Kentaro
2004-01-01
The generalized partial-credit model (GPCM) is used frequently in educational testing and in large-scale assessments for analyzing polytomous data. Special cases of the generalized partial-credit model are the partial-credit model--or Rasch model for ordinal data--and the two parameter logistic (2PL) model. This article extends the GPCM to the…
Physically-Derived Dynamical Cores in Atmospheric General Circulation Models
NASA Technical Reports Server (NTRS)
Rood, Richard B.; Lin, Shian-Kiann
1999-01-01
The algorithm chosen to represent the advection in atmospheric models is often used as the primary attribute to classify the model. Meteorological models are generally classified as spectral or grid point, with the term grid point implying discretization using finite differences. These traditional approaches have a number of shortcomings that render them non-physical. That is, they provide approximate solutions to the conservation equations that do not obey the fundamental laws of physics. The most commonly discussed shortcomings are overshoots and undershoots which manifest themselves most overtly in the constituent continuity equation. For this reason many climate models have special algorithms to model water vapor advection. This talk focuses on the development of an atmospheric general circulation model which uses a consistent physically-based advection algorithm in all aspects of the model formulation. The shallow-water model of Lin and Rood (QJRMS, 1997) is generalized to three dimensions and combined with the physics parameterizations of NCAR's Community Climate Model. The scientific motivation for the development is to increase the integrity of the underlying fluid dynamics so that the physics terms can be more effectively isolated, examined, and improved. The expected benefits of the new model are discussed and results from the initial integrations will be presented.
Physically-Derived Dynamical Cores in Atmospheric General Circulation Models
NASA Technical Reports Server (NTRS)
Rood, Richard B.; Lin, Shian-Jiann
1999-01-01
The algorithm chosen to represent the advection in atmospheric models is often used as the primary attribute to classify the model. Meteorological models are generally classified as spectral or grid point, with the term grid point implying discretization using finite differences. These traditional approaches have a number of shortcomings that render them non-physical. That is, they provide approximate solutions to the conservation equations that do not obey the fundamental laws of physics. The most commonly discussed shortcomings are overshoots and undershoots which manifest themselves most overtly in the constituent continuity equation. For this reason many climate models have special algorithms to model water vapor advection. This talk focuses on the development of an atmospheric general circulation model which uses a consistent physically-based advection algorithm in all aspects of the model formulation. The shallow-water model is generalized to three dimensions and combined with the physics parameterizations of NCAR's Community Climate Model. The scientific motivation for the development is to increase the integrity of the underlying fluid dynamics so that the physics terms can be more effectively isolated, examined, and improved. The expected benefits of the new model are discussed and results from the initial integrations will be presented.
Generalized population models and the nature of genetic drift.
Der, Ricky; Epstein, Charles L; Plotkin, Joshua B
2011-09-01
The Wright-Fisher model of allele dynamics forms the basis for most theoretical and applied research in population genetics. Our understanding of genetic drift, and its role in suppressing the deterministic forces of Darwinian selection has relied on the specific form of sampling inherent to the Wright-Fisher model and its diffusion limit. Here we introduce and analyze a broad class of forward-time population models that share the same mean and variance as the Wright-Fisher model, but may otherwise differ. The proposed class unifies and further generalizes a number of population-genetic processes of recent interest, including the Λ and Cannings processes. Even though these models all have the same variance effective population size, they encode a rich diversity of alternative forms of genetic drift, with significant consequences for allele dynamics. We characterize in detail the behavior of standard population-genetic quantities across this family of generalized models. Some quantities, such as heterozygosity, remain unchanged; but others, such as neutral absorption times and fixation probabilities under selection, deviate by orders of magnitude from the Wright-Fisher model. We show that generalized population models can produce startling phenomena that differ qualitatively from classical behavior - such as assured fixation of a new mutant despite the presence of genetic drift. We derive the forward-time continuum limits of the generalized processes, analogous to Kimura's diffusion limit of the Wright-Fisher process, and we discuss their relationships to the Kingman and non-Kingman coalescents. Finally, we demonstrate that some non-diffusive, generalized models are more likely, in certain respects, than the Wright-Fisher model itself, given empirical data from Drosophila populations. PMID:21718713
Muon capture in a general class of weak models
NASA Astrophysics Data System (ADS)
Botella, F. J.
1985-10-01
We study muon capture by 12C in a general class of weak models. There is always a parameter characteristic of the weak model that can be extracted in a nuclear-model-independent way from the average polarization Pav, the longitudinal polarization PNL and the asymmetry α in the angular distribution of recoils. For a less general class of models the asymmetry α is unnecessary. Using the experimental values of PNL and Pav we get a lower bound for the mass of the right-handed gauge boson of the left-right-symmetric model, MWR>=2.5MWL, in a nuclear-model-independent way. The dependence of this bound on the experimental values is also discussed.
Generalized model for photoinduced surface structure in amorphous thin films.
Lu, Chao; Recht, Daniel; Arnold, Craig
2013-09-01
We present a generalized model to explain the spatial and temporal evolution of photoinduced surface structure in photosensitive amorphous thin films. The model describes these films as an incompressible viscous fluid driven by a photoinduced pressure originating from dipole rearrangement. This derivation requires only the polarizability, viscosity and surface tension of the system. Using values of these physical parameters, we check the validity of the model by fitting to experimental data of As2S3 and demonstrating good agreement. PMID:25166680
Asian Summer Monsoon Intraseasonal Variability in General Circulation Models
Sperber, K R; Annamalai, H
2004-02-24
The goals of this report are: (1) Analyze boreal summer Asian monsoon intraseasonal variability general circulation models--How well do the models represent the eastward and northward propagating components of the convection and how well do the models represent the interactive control that the western tropical Pacific rainfall exerts on the rainfall over India and vice-versa? (2) Role of air-sea interactions--prescribed vs. interactive ocean; and (3) Mean monsoon vs. variability.
Generalization of Richardson-Gaudin models to rank-2 algebras
Errea, B; Lerma, S; Dukelsky, J; Dimitrova, S S; Pittel, S; Van Isacker, P; Gueorguiev, V G
2006-07-20
A generalization of Richardson-Gaudin models to the rank-2 SO(5) and SO(3,2) algebras is used to describe systems of two kinds of fermions or bosons interacting through a pairing force. They are applied to the proton-neutron neutron isovector pairing model and to the Interacting Boson Model 2, in the transition from vibration to gamma-soft nuclei, respectively. In both cases, the integrals of motion and their eigenvalues are obtained.
Banerjee, Atrayee; Lee, Jin-Hyung; Ramaiah, Shashi K
2008-12-01
Previous studies from our laboratory have reported that osteopontin (OPN) mediated higher hepatic neutrophil infiltration makes female rats more susceptible to alcoholic steatohepatitis (ASH) than their male counterparts. The objective of the current work was to investigate the patho-mechanism by which OPN attracts the hepatic neutrophils in ASH. We hypothesized that OPN-mediated hepatic neutrophil infiltration is a result of signaling by N-terminal integrin binding motif (SLAYGLR) of OPN through its receptor {alpha}{sub 9}{beta}{sub 1} (VLA9) and {alpha}{sub 4}{beta}{sub 1} (VLA4) integrins on neutrophils. Compared to the males, females in the ASH group exhibited higher expression of {alpha}{sub 4}{beta}{sub 1} and {alpha}{sub 9}{beta}{sub 1} protein and mRNA and a significant decrease in the expression of these integrins was observed in rats treated with neutralizing OPN antibody. Immunoprecipitation experiments suggested the binding of OPN to {alpha}{sub 4}{beta}{sub 1} and {alpha}{sub 9}{beta}{sub 1} integrins. OPN-mediated neutrophil infiltration was also confirmed using Boyden chamber assays, and antibodies directed against {alpha}{sub 4} and {beta}{sub 1} integrins was found to significantly inhibit neutrophilic migration in vitro. In conclusion, these data suggest that SLAYGLR-mediated {alpha}{sub 4}{beta}{sub 1} and {alpha}{sub 9}{beta}{sub 1} integrin signaling may be responsible for higher hepatic neutrophil infiltration and higher liver injury in the rat ASH model.
Modeling the brain morphology distribution in the general aging population
NASA Astrophysics Data System (ADS)
Huizinga, W.; Poot, D. H. J.; Roshchupkin, G.; Bron, E. E.; Ikram, M. A.; Vernooij, M. W.; Rueckert, D.; Niessen, W. J.; Klein, S.
2016-03-01
Both normal aging and neurodegenerative diseases such as Alzheimer's disease cause morphological changes of the brain. To better distinguish between normal and abnormal cases, it is necessary to model changes in brain morphology owing to normal aging. To this end, we developed a method for analyzing and visualizing these changes for the entire brain morphology distribution in the general aging population. The method is applied to 1000 subjects from a large population imaging study in the elderly, from which 900 were used to train the model and 100 were used for testing. The results of the 100 test subjects show that the model generalizes to subjects outside the model population. Smooth percentile curves showing the brain morphology changes as a function of age and spatiotemporal atlases derived from the model population are publicly available via an interactive web application at agingbrain.bigr.nl.