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Sample records for 3-state potts model

  1. Simulation of the 3-state Potts model with chemical potential

    SciTech Connect

    Mercado, Ydalia Delgado; Gattringer, Christof; Evertz, Hans Gerd

    2011-05-23

    The 3-state Potts model with chemical potential is mapped to a flux representation where the complex action problem is resolved. We perform a Monte Carlo simulation based on a worm algorithm to study the phase diagram of the model. Our results shed light on the role which center symmetry and its breaking play for the QCD phase diagram.

  2. Potts-model critical manifolds revisited

    NASA Astrophysics Data System (ADS)

    Scullard, Christian R.; Lykke Jacobsen, Jesper

    2016-03-01

    We compute critical polynomials for the q-state Potts model on the Archimedean lattices, using a parallel implementation of the algorithm of Jacobsen (2014 J. Phys. A: Math. Theor 47 135001) that gives us access to larger sizes than previously possible. The exact polynomials are computed for bases of size 6 × 6 unit cells, and the root in the temperature variable v={{{e}}}K-1 is determined numerically at q = 1 for bases of size 8 × 8. This leads to improved results for bond percolation thresholds, and for the Potts-model critical manifolds in the real (q, v) plane. In the two most favourable cases, we find now the kagome-lattice threshold to eleven digits and that of the (3,{12}2) lattice to thirteen. Our critical manifolds reveal many interesting features in the antiferromagnetic region of the Potts model, and determine accurately the extent of the Berker-Kadanoff phase for the lattices studied.

  3. Phase transition and surface sublimation of a mobile Potts model.

    PubMed

    Bailly-Reyre, A; Diep, H T; Kaufman, M

    2015-10-01

    We study in this paper the phase transition in a mobile Potts model by the use of Monte Carlo simulation. The mobile Potts model is related to a diluted Potts model, which is also studied here by a mean-field approximation. We consider a lattice where each site is either vacant or occupied by a q-state Potts spin. The Potts spin can move from one site to a nearby vacant site. In order to study the surface sublimation, we consider a system of Potts spins contained in a recipient with a concentration c defined as the ratio of the number of Potts spins N(s) to the total number of lattice sites N(L)=N(x)×N(y)×N(z). Taking into account the attractive interaction between the nearest-neighboring Potts spins, we study the phase transitions as functions of various physical parameters such as the temperature, the shape of the recipient, and the spin concentration. We show that as the temperature increases, surface spins are detached from the solid phase to form a gas in the empty space. Surface order parameters indicate different behaviors depending on the distance to the surface. At high temperatures, if the concentration is high enough, the interior spins undergo a first-order phase transition to an orientationally disordered phase. The mean-field results are shown as functions of temperature, pressure, and chemical potential, which confirm in particular the first-order character of the transition. PMID:26565221

  4. Potts-model grain growth simulations: Parallel algorithms and applications

    SciTech Connect

    Wright, S.A.; Plimpton, S.J.; Swiler, T.P.

    1997-08-01

    Microstructural morphology and grain boundary properties often control the service properties of engineered materials. This report uses the Potts-model to simulate the development of microstructures in realistic materials. Three areas of microstructural morphology simulations were studied. They include the development of massively parallel algorithms for Potts-model grain grow simulations, modeling of mass transport via diffusion in these simulated microstructures, and the development of a gradient-dependent Hamiltonian to simulate columnar grain growth. Potts grain growth models for massively parallel supercomputers were developed for the conventional Potts-model in both two and three dimensions. Simulations using these parallel codes showed self similar grain growth and no finite size effects for previously unapproachable large scale problems. In addition, new enhancements to the conventional Metropolis algorithm used in the Potts-model were developed to accelerate the calculations. These techniques enable both the sequential and parallel algorithms to run faster and use essentially an infinite number of grain orientation values to avoid non-physical grain coalescence events. Mass transport phenomena in polycrystalline materials were studied in two dimensions using numerical diffusion techniques on microstructures generated using the Potts-model. The results of the mass transport modeling showed excellent quantitative agreement with one dimensional diffusion problems, however the results also suggest that transient multi-dimension diffusion effects cannot be parameterized as the product of the grain boundary diffusion coefficient and the grain boundary width. Instead, both properties are required. Gradient-dependent grain growth mechanisms were included in the Potts-model by adding an extra term to the Hamiltonian. Under normal grain growth, the primary driving term is the curvature of the grain boundary, which is included in the standard Potts-model Hamiltonian.

  5. The Potts model on a Bethe lattice with nonmagnetic impurities

    SciTech Connect

    Semkin, S. V. Smagin, V. P.

    2015-10-15

    We have obtained a solution for the Potts model on a Bethe lattice with mobile nonmagnetic impurities. A method is proposed for constructing a “pseudochaotic” impurity distribution by a vanishing correlation in the arrangement of impurity atoms for the nearest sites. For a pseudochaotic impurity distribution, we obtained the phase-transition temperature, magnetization, and spontaneous magnetization jumps at the phase-transition temperature.

  6. The antiferromagnetic transition for the square-lattice Potts model

    NASA Astrophysics Data System (ADS)

    Jacobsen, Jesper L.; Saleur, Hubert

    2006-05-01

    We solve in this paper the problem of the antiferromagnetic transition for the Q-state Potts model (defined geometrically for Q generic using the loop/cluster expansion) on the square lattice. This solution is based on the detailed analysis of the Bethe ansatz equations (which involve staggered source terms of the type "real" and "anti-string") and on extensive numerical diagonalization of transfer matrices. It involves subtle distinctions between the loop/cluster version of the model, and the associated RSOS and (twisted) vertex models. The essential result is that the twisted vertex model on the transition line has a continuum limit described by two bosons, one which is compact and twisted, and the other which is not, with a total central charge c=2-6/t, for √{Q}=2cosπ/t. The non-compact boson contributes a continuum component to the spectrum of critical exponents. For Q generic, these properties are shared by the Potts model. For Q a Beraha number, i.e., Q=4cosπ/n with n integer, and in particular Q integer, the continuum limit is given by a "truncation" of the two boson theory, and coincides essentially with the critical point of parafermions Z. Moreover, the vertex model, and, for Q generic, the Potts model, exhibit a first-order critical point on the transition line—that is, the antiferromagnetic critical point is not only a point where correlations decay algebraically, but is also the locus of level crossings where the derivatives of the free energy are discontinuous. In that sense, the thermal exponent of the Potts model is generically equal to ν=1/2 >. Things are however profoundly different for Q a Beraha number. In this case, the antiferromagnetic transition is second order, with the thermal exponent determined by the dimension of the ψ parafermion, ν=t-2/2. As one enters the adjacent "Berker-Kadanoff" phase, the model flows, for t odd, to a minimal model of CFT with central charge c=1-6/(t-1)t, while for t even it becomes massive. This provides

  7. Yang-Lee zeros of the two- and three-state Potts model defined on phi3 Feynman diagrams.

    PubMed

    de Albuquerque, Luiz C; Dalmazi, D

    2003-06-01

    We present both analytical and numerical results on the position of partition function zeros on the complex magnetic field plane of the q=2 state (Ising) and the q=3 state Potts model defined on phi(3) Feynman diagrams (thin random graphs). Our analytic results are based on the ideas of destructive interference of coexisting phases and low temperature expansions. For the case of the Ising model, an argument based on a symmetry of the saddle point equations leads us to a nonperturbative proof that the Yang-Lee zeros are located on the unit circle, although no circle theorem is known in this case of random graphs. For the q=3 state Potts model, our perturbative results indicate that the Yang-Lee zeros lie outside the unit circle. Both analytic results are confirmed by finite lattice numerical calculations.

  8. Some aspects of the chiral Potts model and the Ising model

    NASA Astrophysics Data System (ADS)

    Jin, Bai-Qi

    Scope and method of study. In this thesis, we study two-dimensional statistical physics models. In the first three chapters, the 3-state chiral Potts model is used to study the question of the existence of a Lifshitz point and its related phase transitions. After an introduction in Chapter 1, the mean-field transfer matrix method with effective field determined by Bogoliubov's variational inequality is used to explore the phase diagram of this model in Chapter 2. In Chapter 3, we study this problem by the mean-field transfer matrix method with Weiss- and Bethe-type mean-field approximations respectively, and analyze the nature of the phase transition with the coherent anomaly method. Chapters 4 and 5 are contributions to the study of the Z-invariant Icing model and the quasi periodic Icing model. In Chapter 6, functional relations are used for the calculation of the exact free energy of the integrable chiral Potts model. Findings and conclusions. Our numerical studies indicate that possibly no Lifshitz point exists at finite chirality in the 3-state chiral Potts model. This result is in contrast with many other numerical studies. Furthermore, the coherent anomaly behaviors are examined in these mean-field transfer matrix approximations. Although the coherent anomaly method does give some interesting indications, we find that either much larger systems or some exact information are necessary for us to make a definite conclusion about the nature of the phase transitions in this model. In Chapter 4, the scaling form of the correlation function in the inhomogeneous Z-invariant Icing model is presented and it is applied to the study of quasi-periodic Icing models in Chapter 5. The results provide evidence that the ferromagnetic quasi-periodic Icing model with different strengths of interactions is not much different from the regular Icing model but significantly different---in its wavevector-dependent susceptibility pattern---from the case with both ferro- and

  9. Parallelizing the Cellular Potts Model on graphics processing units

    NASA Astrophysics Data System (ADS)

    Tapia, José Juan; D'Souza, Roshan M.

    2011-04-01

    The Cellular Potts Model (CPM) is a lattice based modeling technique used for simulating cellular structures in computational biology. The computational complexity of the model means that current serial implementations restrict the size of simulation to a level well below biological relevance. Parallelization on computing clusters enables scaling the size of the simulation but marginally addresses computational speed due to the limited memory bandwidth between nodes. In this paper we present new data-parallel algorithms and data structures for simulating the Cellular Potts Model on graphics processing units. Our implementations handle most terms in the Hamiltonian, including cell-cell adhesion constraint, cell volume constraint, cell surface area constraint, and cell haptotaxis. We use fine level checkerboards with lock mechanisms using atomic operations to enable consistent updates while maintaining a high level of parallelism. A new data-parallel memory allocation algorithm has been developed to handle cell division. Tests show that our implementation enables simulations of >10 cells with lattice sizes of up to 256 3 on a single graphics card. Benchmarks show that our implementation runs ˜80× faster than serial implementations, and ˜5× faster than previous parallel implementations on computing clusters consisting of 25 nodes. The wide availability and economy of graphics cards mean that our techniques will enable simulation of realistically sized models at a fraction of the time and cost of previous implementations and are expected to greatly broaden the scope of CPM applications.

  10. A hybrid parallel framework for the cellular Potts model simulations

    SciTech Connect

    Jiang, Yi; He, Kejing; Dong, Shoubin

    2009-01-01

    The Cellular Potts Model (CPM) has been widely used for biological simulations. However, most current implementations are either sequential or approximated, which can't be used for large scale complex 3D simulation. In this paper we present a hybrid parallel framework for CPM simulations. The time-consuming POE solving, cell division, and cell reaction operation are distributed to clusters using the Message Passing Interface (MPI). The Monte Carlo lattice update is parallelized on shared-memory SMP system using OpenMP. Because the Monte Carlo lattice update is much faster than the POE solving and SMP systems are more and more common, this hybrid approach achieves good performance and high accuracy at the same time. Based on the parallel Cellular Potts Model, we studied the avascular tumor growth using a multiscale model. The application and performance analysis show that the hybrid parallel framework is quite efficient. The hybrid parallel CPM can be used for the large scale simulation ({approx}10{sup 8} sites) of complex collective behavior of numerous cells ({approx}10{sup 6}).

  11. An efficient Cellular Potts Model algorithm that forbids cell fragmentation

    NASA Astrophysics Data System (ADS)

    Durand, Marc; Guesnet, Etienne

    2016-11-01

    The Cellular Potts Model (CPM) is a lattice based modeling technique which is widely used for simulating cellular patterns such as foams or biological tissues. Despite its realism and generality, the standard Monte Carlo algorithm used in the scientific literature to evolve this model preserves connectivity of cells on a limited range of simulation temperature only. We present a new algorithm in which cell fragmentation is forbidden for all simulation temperatures. This allows to significantly enhance realism of the simulated patterns. It also increases the computational efficiency compared with the standard CPM algorithm even at same simulation temperature, thanks to the time spared in not doing unrealistic moves. Moreover, our algorithm restores the detailed balance equation, ensuring that the long-term stage is independent of the chosen acceptance rate and chosen path in the temperature space.

  12. Hexagon and pentagon identities for the Z sub 3 Potts model

    SciTech Connect

    Ryang, S. )

    1991-04-15

    Investigating the transformation properties of the conformal blocks in the {ital Z}{sub 3} Potts model we derive some braid matrices. From the obtained braid matrices we explicitly show how the hexagon and pentagon identities are satisfied.

  13. Computer Simulations of Phase Transitions in Potts Models

    NASA Astrophysics Data System (ADS)

    Challa, Murty S. S.

    Methods are developed to identify and characterize first-order and Kosterlitz-Thouless transitions through computer simulations. Finite-size effects at temperature-driven first -order transitions are analyzed by introducing a double -Gaussian approximation for the probability distribution of the internal energy and predictions are made for various moments of the distribution. It is found that all finite -size effects vary as the volume, L('d). The predictions are tested by simulating the 10-state Potts model in two dimensions which has a known first-order transition in zero-field. Extensive Monte Carlo simulations were performed on the Cyber 205 with L = 18 to 50 and using between 1 x 10('6) and 40 x 10('6) MCS per data point. The results are in good agreement with the Gaussian formalism enabling accurate estimates of various thermodynamic quantities of the model. The analysis is applied to an Ising model with competing interactions on a triangular lattice and the first-order transition in this model is confirmed. The Kosterlitz-Thouless transitions in the 6-state vector Potts model are studied through Monte Carlo simulations on the Cyber 750 using lattices of size 4 x 4 to 72 x 72 and up to 200,000 MCS. Two independent methods--finite -size scaling and a cumulant method--were used to analyze the data. Both methods identify the two Kosterlitz-Thouless transitions separating a low-temperature ordered phase, a high-temperature disordered phase and an intermediate with xy-like phase. The phase transitions occur at kT(,1)/J = 0.68 (+OR-) 0.02 and kT(,2)/J = 0.92 (+OR-) 0.01. The susceptibility is infinite in the intermediate phase and the exponent (eta) varies between 0.100 at T(,1) and 0.275 at T(,2). The results are in good agreement with theoretical predictions and are shown to be more accurate than previous simulational treatments.

  14. A node-based version of the cellular Potts model.

    PubMed

    Scianna, Marco; Preziosi, Luigi

    2016-09-01

    The cellular Potts model (CPM) is a lattice-based Monte Carlo method that uses an energetic formalism to describe the phenomenological mechanisms underlying the biophysical problem of interest. We here propose a CPM-derived framework that relies on a node-based representation of cell-scale elements. This feature has relevant consequences on the overall simulation environment. First, our model can be implemented on any given domain, provided a proper discretization (which can be regular or irregular, fixed or time evolving). Then, it allowed an explicit representation of cell membranes, whose displacements realistically result in cell movement. Finally, our node-based approach can be easily interfaced with continuous mechanics or fluid dynamics models. The proposed computational environment is here applied to some simple biological phenomena, such as cell sorting and chemotactic migration, also in order to achieve an analysis of the performance of the underlying algorithm. This work is finally equipped with a critical comparison between the advantages and disadvantages of our model with respect to the traditional CPM and to some similar vertex-based approaches. PMID:27416549

  15. A generalized Potts model for confocal microscopy images

    NASA Astrophysics Data System (ADS)

    Máté, Gabriell; Heermann, Dieter W.

    2015-01-01

    Much as being among the least invasive mainstream imaging technologies in life sciences, the resolution of confocal microscopy is limited. Imaged structures, e.g., chromatin-fiber loops, have diameters around or beyond the diffraction limit, and microscopy images show seemingly random spatial density distributions only. While such images are important because the organization of the chromosomes influences different cell mechanisms, many interesting questions can also be related to the observed patterns. These concern their spatial aspects, the role of randomness, the possibility of modeling these images with a random generative process, the interaction between the densities of adjacent loci, the length-scales of these influences, etc. We answer these questions by implementing a generalization of the Potts model. We show how to estimate the model parameters, test the performance of the estimation process and numerically prove that the obtained values converge to the ground truth. Finally, we generate images with a trained model and show that they compare well to real cell images.

  16. Nonintersecting string model and graphical approach: equivalence with a Potts model

    SciTech Connect

    Perk, J.H.H.; Wu, F.Y.

    1986-03-01

    Using a graphical method the authors establish the exact equivalence of the partition function of a q-state nonintersecting string (NIS) model on an arbitrary planar, even-valenced lattice with that of a q/sub 2/-state Potts model on a relaxed lattice. The NIS model considered in this paper is one in which the vertex weights are expressible as sums of those of basic vertex types, and the resulting Potts model generally has multispin interactions. For the square and Kagome lattices this leads to the equivalence of a staggered NIS model with Potts models with anisotropic pair interactions, indicating that these NIS models have a first-order transition for q greater than 2. For the triangular lattice the NIS model turns out to be the five-vertex model of Wu and Lin and it relates to a Potts model with two- and three-site interactions. The most general model the authors discuss is an oriented NIS model which contains the six-vertex model and the NIS models of Stroganov and Schultz as special cases.

  17. Nonintersecting string model and graphical approach: Equivalence with a Potts model

    NASA Astrophysics Data System (ADS)

    Perk, J. H. H.; Wu, F. Y.

    1986-03-01

    Using a graphical method we establish the exact equivalence of the partition function of a q-state nonintersecting string (NIS) model on an arbitrary planar, even-valenced, lattice with that of a q2-state Potts model on a related lattice. The NIS model considered in this paper is one in which the vertex weights are expressible as sums of those of basic vertex types, and the resulting Potts model generally has multispin interactions. For the square and Kagomé lattices this leads to the equivalence of a staggered NIS model with Potts models with anisotropic pair interactions, indicating that these NIS models have a first-order transition for q > 2. For the triangular lattice the NIS model turns out to be the five-vertex model of Wu and Lin and it relates to a Potts model with two- and three-site interactions. The most general model we discuss is an oriented NIS model which contains the six-vertex model and the NIS models of Stroganov and Schultz as special cases.

  18. Potts models with magnetic field: Arithmetic, geometry, and computation

    NASA Astrophysics Data System (ADS)

    Dasu, Shival; Marcolli, Matilde

    2015-11-01

    We give a sheaf theoretic interpretation of Potts models with external magnetic field, in terms of constructible sheaves and their Euler characteristics. We show that the polynomial countability question for the hypersurfaces defined by the vanishing of the partition function is affected by changes in the magnetic field: elementary examples suffice to see non-polynomially countable cases that become polynomially countable after a perturbation of the magnetic field. The same recursive formula for the Grothendieck classes, under edge-doubling operations, holds as in the case without magnetic field, but the closed formulae for specific examples like banana graphs differ in the presence of magnetic field. We give examples of computation of the Euler characteristic with compact support, for the set of real zeros, and find a similar exponential growth with the size of the graph. This can be viewed as a measure of topological and algorithmic complexity. We also consider the computational complexity question for evaluations of the polynomial, and show both tractable and NP-hard examples, using dynamic programming.

  19. Verification and Validation Strategy for Implementation of Hybrid Potts-Phase Field Hydride Modeling Capability in MBM

    SciTech Connect

    Jason D. Hales; Veena Tikare

    2014-04-01

    The Used Fuel Disposition (UFD) program has initiated a project to develop a hydride formation modeling tool using a hybrid Potts­phase field approach. The Potts model is incorporated in the SPPARKS code from Sandia National Laboratories. The phase field model is provided through MARMOT from Idaho National Laboratory.

  20. Phase transition of the Potts model with three competing interactions on Cayley tree of order 3

    NASA Astrophysics Data System (ADS)

    Akın, Hasan; Saygılı, Halit

    2015-09-01

    In this paper, we consider the Potts model with competing interactions on the Cayley tree of order three. Also we assume the state space set of the Potts model as Φ = {1,2,3,4} while it has taken as Φ' = {1,2,3} in the previous studies [3, 8, 9]. we construct the Gibbs measures corresponding to the model by using Markov random field method. We calculate the critical curve such that there is a phase transition for the model. We extend the results introduced in the references [3, 8].

  1. Cyclic period-3 window in antiferromagnetic potts and Ising models on recursive lattices

    NASA Astrophysics Data System (ADS)

    Ananikian, N. S.; Ananikyan, L. N.; Chakhmakhchyan, L. A.

    2011-09-01

    The magnetic properties of the antiferromagnetic Potts model with two-site interaction and the antiferromagnetic Ising model with three-site interaction on recursive lattices have been studied. A cyclic period-3 window has been revealed by the recurrence relation method in the antiferromagnetic Q-state Potts model on the Bethe lattice (at Q < 2) and in the antiferromagnetic Ising model with three-site interaction on the Husimi cactus. The Lyapunov exponents have been calculated, modulated phases and a chaotic regime in the cyclic period-3 window have been found for one-dimensional rational mappings determined the properties of these systems.

  2. A Bayesian non-parametric Potts model with application to pre-surgical FMRI data.

    PubMed

    Johnson, Timothy D; Liu, Zhuqing; Bartsch, Andreas J; Nichols, Thomas E

    2013-08-01

    The Potts model has enjoyed much success as a prior model for image segmentation. Given the individual classes in the model, the data are typically modeled as Gaussian random variates or as random variates from some other parametric distribution. In this article, we present a non-parametric Potts model and apply it to a functional magnetic resonance imaging study for the pre-surgical assessment of peritumoral brain activation. In our model, we assume that the Z-score image from a patient can be segmented into activated, deactivated, and null classes, or states. Conditional on the class, or state, the Z-scores are assumed to come from some generic distribution which we model non-parametrically using a mixture of Dirichlet process priors within the Bayesian framework. The posterior distribution of the model parameters is estimated with a Markov chain Monte Carlo algorithm, and Bayesian decision theory is used to make the final classifications. Our Potts prior model includes two parameters, the standard spatial regularization parameter and a parameter that can be interpreted as the a priori probability that each voxel belongs to the null, or background state, conditional on the lack of spatial regularization. We assume that both of these parameters are unknown, and jointly estimate them along with other model parameters. We show through simulation studies that our model performs on par, in terms of posterior expected loss, with parametric Potts models when the parametric model is correctly specified and outperforms parametric models when the parametric model in misspecified. PMID:22627277

  3. Potts model on directed small-world Voronoi-Delaunay lattices

    NASA Astrophysics Data System (ADS)

    Marques, R. M.; Lima, F. W. S.; Costa Filho, Raimundo N.

    2016-06-01

    The critical properties of the Potts model with q = 3 and 4 states in two-dimensions on directed small-world Voronoi-Delaunay random lattices with quenched connectivity disorder are investigated. This disordered system is simulated by applying the Monte Carlo update heat bath algorithm. The Potts model on these directed small-world random lattices presents in fact a second-order phase transition with new critical exponents for q = 3 and value of the rewiring probability p = 0.01, but for q = 4 the system exhibits only a first-order phase transition independent of p (0 < p < 1).

  4. Emergent O(n ) symmetry in a series of three-dimensional Potts models

    NASA Astrophysics Data System (ADS)

    Ding, Chengxiang; Blöte, Henk W. J.; Deng, Youjin

    2016-09-01

    We study the q -state Potts model on a simple cubic lattice with ferromagnetic interactions in one lattice direction, and antiferromagnetic interactions in the other two directions. As the temperature T decreases, the system undergoes a second-order phase transition that fits in the universality class of the three-dimensional O (n ) model with n =q -1 . This conclusion is based on the estimated critical exponents, and histograms of the order parameter. At even smaller T we find, for q =4 and 5, a first-order transition to a phase with a different type of long-range order. This long-range order dissolves at T =0 , and the system effectively reduces to a disordered two-dimensional Potts antiferromagnet. These results are obtained by means of Monte Carlo simulations and finite-size scaling.

  5. Susceptibility amplitude ratio in the two-dimensional three-state Potts model

    NASA Astrophysics Data System (ADS)

    Shchur, L.; Butera, P.; Berche, B.

    2002-01-01

    We analyze Monte Carlo simulation and series-expansion data for the susceptibility of the three-state Potts model in the critical region. The amplitudes of the susceptibility on the high- and the low-temperature sides of the critical point as extracted from the Monte Carlo data are in good agreement with those obtained from the series expansions and their (universal) ratio compares quite well with a recent quantum field theory prediction by Delfino and Cardy.

  6. Lattice models of glasses and Potts models for community detection

    NASA Astrophysics Data System (ADS)

    Darst, Richard K.

    In Part I, we construct a configurationally constrained lattice glass model following the example of Biroli and Mézard (Phys. Rev. Lett., 82, 025501 (2001)), which we denote t154. By examining the relaxation, atomic motion, Stokes-Einstein relationship violation, time-dependent displacement (van Hove function), wavevector-dependent relaxation, and multi-point correlations S4 and χ4 , we can show that this new model satisfies all minimal requirements set by the observed phenomena of dynamical heterogeneity of supercooled liquids, though with a drastically different theoretical basis from existing lattice models of glasses based on kinetic facilitation. We then proceed to perform a more detailed comparison between lattice glass models, including t154 and a model by Ciamarra et. al. (Phys. Rev. E 68 066111 (2003)), with traditional facilitated models. We study two forms of dynamical sensitivity: sensitivity to boundary conditions, and a sensitivity to initial conditions. By comparison to atomistic computer simulation, we find evidence that the lattice glass models better describe glassy behavior. We conclude by discussing the implications of our findings for contrasting theories of the glass transition. In Part II, we change our focus and examine community detection in graphs from a theoretical standpoint. Many disparate community definitions have been proposed, however except for one, few have been analyzed in any great detail. In this work, we, for the first time, formally study a definition based on internal edge density. Using the concept that internal edge density is the fraction of intra-community edges relative to the maximal number of intra-community edges, we produce a rich framework to use as the basis of community detection. We discuss its use in local and global community detection algorithms, and how our methods can extend to overlapping and hierarchical communities, and weighted, directed, and multi-graphs. In order to validate our definition, we use

  7. CSOS models descending from chiral Potts models: degeneracy of the eigenspace and loop algebra

    NASA Astrophysics Data System (ADS)

    Au-Yang, Helen; Perk, Jacques H. H.

    2016-04-01

    Monodromy matrices of the {{\\boldsymbol{τ }}}2\\phantom{^{\\prime }} model are known to satisfy a Yang-Baxter equation with a six-vertex R-matrix as the intertwiner. The commutation relations of the elements of the monodromy matrices are completely determined by this R-matrix. We show the reason why in the superintegrable case the eigenspace is degenerate, but not in the general case. We then show that the eigenspaces of special CSOS models descending from the chiral Potts model are also degenerate. The existence of an L({{sl}}2) quantum loop algebra (or subalgebra) in these models is established by showing that the Serre relations hold for the generators. The highest weight polynomial (or the Drinfeld polynomial) of the representation is obtained by using the method of Baxter for the superintegrable case. As a byproduct, the eigenvalues of all such CSOS models are given explicitly.

  8. Sums of random matrices and the Potts model on random planar maps

    NASA Astrophysics Data System (ADS)

    Atkin, Max R.; Niedner, Benjamin; Wheater, John F.

    2016-05-01

    We compute the partition function of the q-states Potts model on a random planar lattice with p≤slant q allowed, equally weighted colours on a connected boundary. To this end, we employ its matrix model representation in the planar limit, generalising a result by Voiculescu for the addition of random matrices to a situation beyond free probability theory. We show that the partition functions with p and q - p colours on the boundary are related algebraically. Finally, we investigate the phase diagram of the model when 0≤slant q≤slant 4 and comment on the conformal field theory description of the critical points.

  9. Evolution of 2D Potts Model Grain Microstructures from an Initial Hillert Size Distribution

    SciTech Connect

    Battaile, C.C.; Holm E.A.

    1998-10-19

    Grain growth experiments and simulations exhibit self-similar grain size distributions quite different from that derived via a mean field approach by Hillert [ 1]. To test whether this discrepancy is due to insufficient anneal times, two different two-dimensional grain structures with realistic topologies and Hillert grain size distributions are generated and subjected to grain growth via the Monte Carlo Potts Model (MCPM). In both cases, the observed self-similar grain size distributions deviate from the initial Hillert form and conform instead to that observed in MCPM grain growth simulations that start from a random microstructure. This suggests that the Hillert grain size distribution is not an attractor.

  10. Potts model simulation of grain size distributions during final stage sintering

    SciTech Connect

    Zeng, P.; Tikare, V.

    1998-09-01

    The Potts Monte Carlo model was used to simulate microstructural evolution and characterize grain size distribution during the final stages of sintering. Simultaneous grain growth, pore migration and pore shrinkage were simulated in a system with an initial porosity of 10% with varying ratios of grain boundary mobility to pore shrinkage rates. This investigation shows that the presence of pores changes the grain size distribution and the topological characteristics due to pinning of grains by pores. As pores shrink away, their pinning effect decreases. Once pore shrinkage is complete, normal grain growth is achieved.

  11. Dynamics of Cell Shape and Forces on Micropatterned Substrates Predicted by a Cellular Potts Model

    PubMed Central

    Albert, Philipp J.; Schwarz, Ulrich S.

    2014-01-01

    Micropatterned substrates are often used to standardize cell experiments and to quantitatively study the relation between cell shape and function. Moreover, they are increasingly used in combination with traction force microscopy on soft elastic substrates. To predict the dynamics and steady states of cell shape and forces without any a priori knowledge of how the cell will spread on a given micropattern, here we extend earlier formulations of the two-dimensional cellular Potts model. The third dimension is treated as an area reservoir for spreading. To account for local contour reinforcement by peripheral bundles, we augment the cellular Potts model by elements of the tension-elasticity model. We first parameterize our model and show that it accounts for momentum conservation. We then demonstrate that it is in good agreement with experimental data for shape, spreading dynamics, and traction force patterns of cells on micropatterned substrates. We finally predict shapes and forces for micropatterns that have not yet been experimentally studied. PMID:24896113

  12. Structural propensities of kinase family proteins from a Potts model of residue co-variation.

    PubMed

    Haldane, Allan; Flynn, William F; He, Peng; Vijayan, R S K; Levy, Ronald M

    2016-08-01

    Understanding the conformational propensities of proteins is key to solving many problems in structural biology and biophysics. The co-variation of pairs of mutations contained in multiple sequence alignments of protein families can be used to build a Potts Hamiltonian model of the sequence patterns which accurately predicts structural contacts. This observation paves the way to develop deeper connections between evolutionary fitness landscapes of entire protein families and the corresponding free energy landscapes which determine the conformational propensities of individual proteins. Using statistical energies determined from the Potts model and an alignment of 2896 PDB structures, we predict the propensity for particular kinase family proteins to assume a "DFG-out" conformation implicated in the susceptibility of some kinases to type-II inhibitors, and validate the predictions by comparison with the observed structural propensities of the corresponding proteins and experimental binding affinity data. We decompose the statistical energies to investigate which interactions contribute the most to the conformational preference for particular sequences and the corresponding proteins. We find that interactions involving the activation loop and the C-helix and HRD motif are primarily responsible for stabilizing the DFG-in state. This work illustrates how structural free energy landscapes and fitness landscapes of proteins can be used in an integrated way, and in the context of kinase family proteins, can potentially impact therapeutic design strategies. PMID:27241634

  13. The Role of Extracellular Matrix in Glioma Invasion: A Cellular Potts Model Approach

    PubMed Central

    Rubenstein, Brenda M.; Kaufman, Laura J.

    2008-01-01

    In this work, a cellular Potts model based on the differential adhesion hypothesis is employed to analyze the relative importance of select cell-cell and cell-extracellular matrix (ECM) contacts in glioma invasion. To perform these simulations, three types of cells and two ECM components are included. The inclusion of explicit ECM with an inhomogeneous fibrous component and a homogeneously dispersed afibrous component allows exploration of the importance of relative energies of cell-cell and cell-ECM contacts in a variety of environments relevant to in vitro and in vivo experimental investigations of glioma invasion. Simulations performed here focus chiefly on reproducing findings of in vitro experiments on glioma spheroids embedded in collagen I gels. For a given range and set ordering of energies associated with key cell-cell and cell-ECM interactions, our model qualitatively reproduces the dispersed glioma invasion patterns found for most glioma cell lines embedded as spheroids in collagen I gels of moderate concentration. In our model, we find that invasion is maximized at intermediate collagen concentrations, as occurs experimentally. This effect is seen more strongly in model gels composed of short collagen fibers than in those composed of long fibers, which retain significant connectivity even at low density. Additional simulations in aligned model matrices further elucidate how matrix structure dictates invasive patterns. Finally, simulations that allow invading cells to both dissolve and deposit ECM components demonstrate how Q-Potts models may be elaborated to allow active cell alteration of their surroundings. The model employed here provides a quantitative framework with which to bound the relative values of cell-cell and cell-ECM interactions and investigate how varying the magnitude and type of these interactions, as well as ECM structure, could potentially curtail glioma invasion. PMID:18835895

  14. Spanning Forests and the q-State Potts Model in the Limit q →0

    NASA Astrophysics Data System (ADS)

    Jacobsen, Jesper Lykke; Salas, Jesús; Sokal, Alan D.

    2005-06-01

    We study the q-state Potts model with nearest-neighbor coupling v=eβJ-1 in the limit q,v → 0 with the ratio w = v/q held fixed. Combinatorially, this limit gives rise to the generating polynomial of spanning forests; physically, it provides information about the Potts-model phase diagram in the neighborhood of (q,v) = (0,0). We have studied this model on the square and triangular lattices, using a transfer-matrix approach at both real and complex values of w. For both lattices, we have computed the symbolic transfer matrices for cylindrical strips of widths 2≤ L ≤ 10, as well as the limiting curves B of partition-function zeros in the complex w-plane. For real w, we find two distinct phases separated by a transition point w= w 0, where w0 =-1/4 (resp. w0=-0.1753 ± 0.0002) for the square (resp. triangular) lattice. For w>w0 we find a non-critical disordered phase that is compatible with the predicted asymptotic freedom as w → +∞. For w

  15. A parallel implementation of the Cellular Potts Model for simulation of cell-based morphogenesis

    PubMed Central

    Chen, Nan; Glazier, James A.; Izaguirre, Jesús A.; Alber, Mark S.

    2007-01-01

    The Cellular Potts Model (CPM) has been used in a wide variety of biological simulations. However, most current CPM implementations use a sequential modified Metropolis algorithm which restricts the size of simulations. In this paper we present a parallel CPM algorithm for simulations of morphogenesis, which includes cell–cell adhesion, a cell volume constraint, and cell haptotaxis. The algorithm uses appropriate data structures and checkerboard subgrids for parallelization. Communication and updating algorithms synchronize properties of cells simulated on different processor nodes. Tests show that the parallel algorithm has good scalability, permitting large-scale simulations of cell morphogenesis (107 or more cells) and broadening the scope of CPM applications. The new algorithm satisfies the balance condition, which is sufficient for convergence of the underlying Markov chain. PMID:18084624

  16. Transfer matrix computation of critical polynomials for two-dimensional Potts models

    DOE PAGES

    Jacobsen, Jesper Lykke; Scullard, Christian R.

    2013-02-04

    We showed, In our previous work, that critical manifolds of the q-state Potts model can be studied by means of a graph polynomial PB(q, v), henceforth referred to as the critical polynomial. This polynomial may be defined on any periodic two-dimensional lattice. It depends on a finite subgraph B, called the basis, and the manner in which B is tiled to construct the lattice. The real roots v = eK — 1 of PB(q, v) either give the exact critical points for the lattice, or provide approximations that, in principle, can be made arbitrarily accurate by increasing the size ofmore » B in an appropriate way. In earlier work, PB(q, v) was defined by a contraction-deletion identity, similar to that satisfied by the Tutte polynomial. Here, we give a probabilistic definition of PB(q, v), which facilitates its computation, using the transfer matrix, on much larger B than was previously possible.We present results for the critical polynomial on the (4, 82), kagome, and (3, 122) lattices for bases of up to respectively 96, 162, and 243 edges, compared to the limit of 36 edges with contraction-deletion. We discuss in detail the role of the symmetries and the embedding of B. The critical temperatures vc obtained for ferromagnetic (v > 0) Potts models are at least as precise as the best available results from Monte Carlo simulations or series expansions. For instance, with q = 3 we obtain vc(4, 82) = 3.742 489 (4), vc(kagome) = 1.876 459 7 (2), and vc(3, 122) = 5.033 078 49 (4), the precision being comparable or superior to the best simulation results. More generally, we trace the critical manifolds in the real (q, v) plane and discuss the intricate structure of the phase diagram in the antiferromagnetic (v < 0) region.« less

  17. Structural phase transition in perovskite metal-formate frameworks: a Potts-type model with dipolar interactions.

    PubMed

    Šimėnas, Mantas; Balčiūnas, Sergejus; Ma Combining Cedilla Czka, Mirosław; Banys, Jūras; Tornau, Evaldas E

    2016-07-21

    We propose a combined experimental and numerical study to describe an order-disorder structural phase transition in perovskite-based [(CH3)2NH2][M(HCOO)3] (M = Zn(2+), Mn(2+), Fe(2+), Co(2+) and Ni(2+)) dense metal-organic frameworks (MOFs). The three-fold degenerate orientation of the molecular (CH3)2NH2(+) (DMA(+)) cation implies a selection of the statistical three-state model of the Potts type. It is constructed on a simple cubic lattice where each lattice point can be occupied by a DMA(+) cation in one of the available states. In our model the main interaction is the nearest-neighbor Potts-type interaction, which effectively accounts for the H-bonding between DMA(+) cations and M(HCOO)3(-) cages. The model is modified by accounting for the dipolar interactions which are evaluated for the real monoclinic lattice using density functional theory. We employ the Monte Carlo method to numerically study the model. The calculations are supplemented with the experimental measurements of electric polarization. The obtained results indicate that the three-state Potts model correctly describes the phase transition order in these MOFs, while dipolar interactions are necessary to obtain better agreement with the experimental polarization. We show that in our model with substantial dipolar interactions the ground state changes from uniform to the layers with alternating polarization directions. PMID:27341447

  18. Three-state Potts model on triangular lattice with nearest-neighbor and next-nearest-neighbor antiferromagnetic interactions

    NASA Astrophysics Data System (ADS)

    Murtazaev, Akai K.; Babaev, Albert B.; Magomedov, Magomed A.; Kassan-Ogly, Felix A.; Proshkin, Alexey I.

    2016-11-01

    Using Monte Carlo simulations, we investigated phase transitions and frustrations in the three-state Potts model on a triangular lattice with allowance for antiferromagnetic exchange interactions between nearest-neighbors J1 and next-nearest-neighbors J2. The ratio of the next-nearest-neighbor and nearest-neighbor exchange constants r=J2/J1 is chosen within the range of 0≤r≤2. Based on the analysis of the entropy, specific heat, system state density function, and fourth order Binder cumulants, the phase transitions in the Potts model with interactions J1<0 and J2<0 are shown to be found in value ranges of 0≤r<0.2 and 1.25≤r≤2.0. In an intermediate range of 0.2≤r≤1.0 the phase transition fails and the frustrations are revealed.

  19. Fraction of uninfected walkers in the one-dimensional Potts model.

    PubMed

    O'Donoghue, S J; Bray, A J

    2002-05-01

    The dynamics of the one-dimensional q-state Potts model, in the zero-temperature limit, can be formulated through the motion of random walkers which either annihilate (A+A-->Phi) or coalesce (A+A-->A) with a q-dependent probability. We consider all of the walkers in this model to be mutually infectious. Whenever two walkers meet, they experience mutual contamination. Walkers which avoid an encounter with another random walker up to time t remain uninfected. The fraction of uninfected walkers is known to obey a power-law decay U(t) approximately t(-phi(q)), with a nontrivial exponent phi(q) [C. Monthus, Phys. Rev. E 54, 4844 (1996); S. N. Majumdar and S. J. Cornell, ibid. 57, 3757 (1998)]. We probe the numerical values of phi(q) to a higher degree of accuracy than previous simulations and relate the exponent phi(q) to the persistence exponent theta(q) [B. Derrida, V. Hakim, and V. Pasquier, Phys. Rev. Lett. 75, 751 (1995)], through the relation phi(q)=gamma(q)theta(q) where gamma is an exponent introduced in [S. J. O'Donoghue and A. J. Bray, preceding paper, Phys. Rev. E 65, 051113 (2002)]. Our study is extended to include the coupled diffusion-limited reaction A+A-->B, B+B-->A in one dimension with equal initial densities of A and B particles. We find that the density of walkers decays in this model as rho(t) approximately t(-1/2). The fraction of sites unvisited by either an A or a B particle is found to obey a power law, P(t) approximately t(-theta) with theta approximately 1.33. We discuss these exponents within the context of the q-state Potts model and present numerical evidence that the fraction of walkers which remain uninfected decays as U(t) approximately t(-phi), where phi approximately 1.13 when infection occurs between like particles only, and phi approximately 1.93 when we also include cross-species contamination. We find that the relation between phi and theta in this model can also be characterized by an exponent gamma, where similarly, phi

  20. Trigonometrical sums connected with the chiral Potts model, Verlinde dimension formula, two-dimensional resistor network, and number theory

    SciTech Connect

    Chair, Noureddine

    2014-02-15

    We have recently developed methods for obtaining exact two-point resistance of the complete graph minus N edges. We use these methods to obtain closed formulas of certain trigonometrical sums that arise in connection with one-dimensional lattice, in proving Scott’s conjecture on permanent of Cauchy matrix, and in the perturbative chiral Potts model. The generalized trigonometrical sums of the chiral Potts model are shown to satisfy recursion formulas that are transparent and direct, and differ from those of Gervois and Mehta. By making a change of variables in these recursion formulas, the dimension of the space of conformal blocks of SU(2) and SO(3) WZW models may be computed recursively. Our methods are then extended to compute the corner-to-corner resistance, and the Kirchhoff index of the first non-trivial two-dimensional resistor network, 2×N. Finally, we obtain new closed formulas for variant of trigonometrical sums, some of which appear in connection with number theory. -- Highlights: • Alternative derivation of certain trigonometrical sums of the chiral Potts model are given. • Generalization of these trigonometrical sums satisfy recursion formulas. • The dimension of the space of conformal blocks may be computed from these recursions. • Exact corner-to-corner resistance, the Kirchhoff index of 2×N are given.

  1. Nature of phase transitions in Axelrod-like coupled Potts models in two dimensions

    NASA Astrophysics Data System (ADS)

    Gandica, Yerali; Chiacchiera, Silvia

    2016-03-01

    We study F coupled q -state Potts models in a two-dimensional square lattice. The interaction between the different layers is attractive to favor a simultaneous alignment in all of them, and its strength is fixed. The nature of the phase transition for zero field is numerically determined for F =2 ,3 . Using the Lee-Kosterlitz method, we find that it is continuous for F =2 and q =2 , whereas it is abrupt for higher values of q and/or F . When a continuous or a weakly first-order phase transition takes place, we also analyze the properties of the geometrical clusters. This allows us to determine the fractal dimension D of the incipient infinite cluster and to examine the finite-size scaling of the cluster number density via data collapse. A mean-field approximation of the model, from which some general trends can be determined, is presented too. Finally, since this lattice model has been recently considered as a thermodynamic counterpart of the Axelrod model of social dynamics, we discuss our results in connection with this one.

  2. Transfer matrix computation of critical polynomials for two-dimensional Potts models

    SciTech Connect

    Jacobsen, Jesper Lykke; Scullard, Christian R.

    2013-02-04

    We showed, In our previous work, that critical manifolds of the q-state Potts model can be studied by means of a graph polynomial PB(q, v), henceforth referred to as the critical polynomial. This polynomial may be defined on any periodic two-dimensional lattice. It depends on a finite subgraph B, called the basis, and the manner in which B is tiled to construct the lattice. The real roots v = eK — 1 of PB(q, v) either give the exact critical points for the lattice, or provide approximations that, in principle, can be made arbitrarily accurate by increasing the size of B in an appropriate way. In earlier work, PB(q, v) was defined by a contraction-deletion identity, similar to that satisfied by the Tutte polynomial. Here, we give a probabilistic definition of PB(q, v), which facilitates its computation, using the transfer matrix, on much larger B than was previously possible.We present results for the critical polynomial on the (4, 82), kagome, and (3, 122) lattices for bases of up to respectively 96, 162, and 243 edges, compared to the limit of 36 edges with contraction-deletion. We discuss in detail the role of the symmetries and the embedding of B. The critical temperatures vc obtained for ferromagnetic (v > 0) Potts models are at least as precise as the best available results from Monte Carlo simulations or series expansions. For instance, with q = 3 we obtain vc(4, 82) = 3.742 489 (4), vc(kagome) = 1.876 459 7 (2), and vc(3, 122) = 5.033 078 49 (4), the precision being comparable or superior to the best simulation results. More generally, we trace the critical manifolds in the real (q, v) plane and discuss the intricate structure of the phase diagram in the antiferromagnetic (v < 0) region.

  3. Improved contact prediction in proteins: Using pseudolikelihoods to infer Potts models

    NASA Astrophysics Data System (ADS)

    Ekeberg, Magnus; Lövkvist, Cecilia; Lan, Yueheng; Weigt, Martin; Aurell, Erik

    2013-01-01

    Spatially proximate amino acids in a protein tend to coevolve. A protein's three-dimensional (3D) structure hence leaves an echo of correlations in the evolutionary record. Reverse engineering 3D structures from such correlations is an open problem in structural biology, pursued with increasing vigor as more and more protein sequences continue to fill the data banks. Within this task lies a statistical inference problem, rooted in the following: correlation between two sites in a protein sequence can arise from firsthand interaction but can also be network-propagated via intermediate sites; observed correlation is not enough to guarantee proximity. To separate direct from indirect interactions is an instance of the general problem of inverse statistical mechanics, where the task is to learn model parameters (fields, couplings) from observables (magnetizations, correlations, samples) in large systems. In the context of protein sequences, the approach has been referred to as direct-coupling analysis. Here we show that the pseudolikelihood method, applied to 21-state Potts models describing the statistical properties of families of evolutionarily related proteins, significantly outperforms existing approaches to the direct-coupling analysis, the latter being based on standard mean-field techniques. This improved performance also relies on a modified score for the coupling strength. The results are verified using known crystal structures of specific sequence instances of various protein families. Code implementing the new method can be found at http://plmdca.csc.kth.se/.

  4. Reconstruction of a Real World Social Network using the Potts Model and Loopy Belief Propagation

    PubMed Central

    Bisconti, Cristian; Corallo, Angelo; Fortunato, Laura; Gentile, Antonio A.; Massafra, Andrea; Pellè, Piergiuseppe

    2015-01-01

    The scope of this paper is to test the adoption of a statistical model derived from Condensed Matter Physics, for the reconstruction of the structure of a social network. The inverse Potts model, traditionally applied to recursive observations of quantum states in an ensemble of particles, is here addressed to observations of the members' states in an organization and their (anti)correlations, thus inferring interactions as links among the members. Adopting proper (Bethe) approximations, such an inverse problem is showed to be tractable. Within an operational framework, this network-reconstruction method is tested for a small real-world social network, the Italian parliament. In this study case, it is easy to track statuses of the parliament members, using (co)sponsorships of law proposals as the initial dataset. In previous studies of similar activity-based networks, the graph structure was inferred directly from activity co-occurrences: here we compare our statistical reconstruction with such standard methods, outlining discrepancies and advantages. PMID:26617539

  5. Reconstruction of a Real World Social Network using the Potts Model and Loopy Belief Propagation.

    PubMed

    Bisconti, Cristian; Corallo, Angelo; Fortunato, Laura; Gentile, Antonio A; Massafra, Andrea; Pellè, Piergiuseppe

    2015-01-01

    The scope of this paper is to test the adoption of a statistical model derived from Condensed Matter Physics, for the reconstruction of the structure of a social network. The inverse Potts model, traditionally applied to recursive observations of quantum states in an ensemble of particles, is here addressed to observations of the members' states in an organization and their (anti)correlations, thus inferring interactions as links among the members. Adopting proper (Bethe) approximations, such an inverse problem is showed to be tractable. Within an operational framework, this network-reconstruction method is tested for a small real-world social network, the Italian parliament. In this study case, it is easy to track statuses of the parliament members, using (co)sponsorships of law proposals as the initial dataset. In previous studies of similar activity-based networks, the graph structure was inferred directly from activity co-occurrences: here we compare our statistical reconstruction with such standard methods, outlining discrepancies and advantages.

  6. Cellular Potts Modeling of Tumor Growth, Tumor Invasion, and Tumor Evolution

    PubMed Central

    Szabó, András; Merks, Roeland M. H.

    2013-01-01

    Despite a growing wealth of available molecular data, the growth of tumors, invasion of tumors into healthy tissue, and response of tumors to therapies are still poorly understood. Although genetic mutations are in general the first step in the development of a cancer, for the mutated cell to persist in a tissue, it must compete against the other, healthy or diseased cells, for example by becoming more motile, adhesive, or multiplying faster. Thus, the cellular phenotype determines the success of a cancer cell in competition with its neighbors, irrespective of the genetic mutations or physiological alterations that gave rise to the altered phenotype. What phenotypes can make a cell “successful” in an environment of healthy and cancerous cells, and how? A widely used tool for getting more insight into that question is cell-based modeling. Cell-based models constitute a class of computational, agent-based models that mimic biophysical and molecular interactions between cells. One of the most widely used cell-based modeling formalisms is the cellular Potts model (CPM), a lattice-based, multi particle cell-based modeling approach. The CPM has become a popular and accessible method for modeling mechanisms of multicellular processes including cell sorting, gastrulation, or angiogenesis. The CPM accounts for biophysical cellular properties, including cell proliferation, cell motility, and cell adhesion, which play a key role in cancer. Multiscale models are constructed by extending the agents with intracellular processes including metabolism, growth, and signaling. Here we review the use of the CPM for modeling tumor growth, tumor invasion, and tumor progression. We argue that the accessibility and flexibility of the CPM, and its accurate, yet coarse-grained and computationally efficient representation of cell and tissue biophysics, make the CPM the method of choice for modeling cellular processes in tumor development. PMID:23596570

  7. Implications of lack-of-ergodicity in 2D Potts model

    NASA Astrophysics Data System (ADS)

    Ota, Smita

    2015-03-01

    Microcanonical Monte Carlo simulation is used to study two dimensional (2D) q state Potts model. We consider a 2D square lattice having NxN spins with periodic boundary condition and simulated the system with N =15 and q =10. The demon energy distribution is found to be exponential for high system energy and large system size. For smaller system size and above the first order transition the demon energy distribution is found to deviate from exp(- βED) and has the form exp(- βED + γ ED2). Here β = 1/kBT and kB is the Boltzmann constant. It is found that γ is finite at higher temperatures. As the system energy is reduced γ becomes zero near the first order transition. It is found that during cooling γ changes sign from negative to positive and then to negative again near the 1st order transition. Therefore the demon energy distribution becomes exp(- βED) (or ergodic) at two values of system energy near the 1st order transition. Further cooling or at still lower temperatures the system shows lack of ergodicity. However, difference in heating cooling curves are apparent in E vs γ. The system energies for which γ is zero during cooling can represent the 'ergodic' states. This can be related to the two-level systems observed in glasses at low temperatures.

  8. Phase transitions for p-adic Potts model on the Cayley tree of order three

    NASA Astrophysics Data System (ADS)

    Mukhamedov, Farrukh; Akın, Hasan

    2013-07-01

    In the present paper, we study a phase transition problem for the q-state p-adic Potts model over the Cayley tree of order three. We consider a more general notion of p-adic Gibbs measure which depends on parameter ρ∈Qp. Such a measure is called generalized p-adic quasi Gibbs measure. When ρ equals the p-adic exponent, then it coincides with the p-adic Gibbs measure. When ρ = p, then it coincides with the p-adic quasi Gibbs measure. Therefore, we investigate two regimes with respect to the value of |ρ|p. Namely, in the first regime, one takes ρ = expp(J) for some J∈Qp, in the second one |ρ|p < 1. In each regime, we first find conditions for the existence of generalized p-adic quasi Gibbs measures. Furthermore, in the first regime, we establish the existence of the phase transition under some conditions. In the second regime, when |ρ|p,|q|p ≤ p-2 we prove the existence of a quasi phase transition. It turns out that if \\vert \\rho \\vert _{p}\\lt \\vert q-1\\vert _{p}^{2}\\lt 1 and \\sqrt{-3}\\in {{Q}}_{p}, then one finds the existence of the strong phase transition.

  9. Competitive heterogeneous nucleation onto a microscopic impurity in a Potts model

    NASA Astrophysics Data System (ADS)

    Asuquo, Cletus C.; McArthur, Danielle; Bowles, Richard K.

    2016-08-01

    Many metastable systems can nucleate to multiple competing stable or intermediate metastable states. In this work, a Potts model, subject to external fields, is used to study the competitive nucleation of two phases attempting to grow on a microscopic impurity. Monte Carlo simulations are used to calculate the free energy surfaces for the system under different conditions, where the relative stability of the phases is adjusted by changing the interaction parameters, and the nucleation rates obtained using multicomponent transition state theory (TST) are compared with the rates measured using the survival probability method. We find that the two methods predict similar nucleation rates when the free energy barrier used in the transition state theory is defined as the work required to form a critical embryo from the metastable phase. An analysis of the free energy surfaces also reveals that the competition between the nucleating phases leads to an effective drying of the impurity which slows down the nucleation rate compared to the single phase case.

  10. Exact valence bond entanglement entropy and probability distribution in the XXX spin chain and the potts model.

    PubMed

    Jacobsen, J L; Saleur, H

    2008-02-29

    We determine exactly the probability distribution of the number N_(c) of valence bonds connecting a subsystem of length L>1 to the rest of the system in the ground state of the XXX antiferromagnetic spin chain. This provides, in particular, the asymptotic behavior of the valence-bond entanglement entropy S_(VB)=N_(c)ln2=4ln2/pi(2)lnL disproving a recent conjecture that this should be related with the von Neumann entropy, and thus equal to 1/3lnL. Our results generalize to the Q-state Potts model.

  11. Critical frontier of the Potts and percolation models on triangular-type and kagome-type lattices. II. Numerical analysis

    NASA Astrophysics Data System (ADS)

    Ding, Chengxiang; Fu, Zhe; Guo, Wenan; Wu, F. Y.

    2010-06-01

    In the preceding paper, one of us (F. Y. Wu) considered the Potts model and bond and site percolation on two general classes of two-dimensional lattices, the triangular-type and kagome-type lattices, and obtained closed-form expressions for the critical frontier with applications to various lattice models. For the triangular-type lattices Wu’s result is exact, and for the kagome-type lattices Wu’s expression is under a homogeneity assumption. The purpose of the present paper is twofold: First, an essential step in Wu’s analysis is the derivation of lattice-dependent constants A,B,C for various lattice models, a process which can be tedious. We present here a derivation of these constants for subnet networks using a computer algorithm. Second, by means of a finite-size scaling analysis based on numerical transfer matrix calculations, we deduce critical properties and critical thresholds of various models and assess the accuracy of the homogeneity assumption. Specifically, we analyze the q -state Potts model and the bond percolation on the 3-12 and kagome-type subnet lattices (n×n):(n×n) , n≤4 , for which the exact solution is not known. Our numerical determination of critical properties such as conformal anomaly and magnetic correlation length verifies that the universality principle holds. To calibrate the accuracy of the finite-size procedure, we apply the same numerical analysis to models for which the exact critical frontiers are known. The comparison of numerical and exact results shows that our numerical values are correct within errors of our finite-size analysis, which correspond to 7 or 8 significant digits. This in turn infers that the homogeneity assumption determines critical frontiers with an accuracy of 5 decimal places or higher. Finally, we also obtained the exact percolation thresholds for site percolation on kagome-type subnet lattices (1×1):(n×n) for 1≤n≤6 .

  12. Free-energy landscape and nucleation pathway of polymorphic minerals from solution in a Potts lattice-gas model.

    PubMed

    Okamoto, Atsushi; Kuwatani, Tatsu; Omori, Toshiaki; Hukushima, Koji

    2015-10-01

    Metastable minerals commonly form during reactions between water and rock. The nucleation mechanism of polymorphic phases from solution are explored here using a two-dimensional Potts model. The model system is composed of a solvent and three polymorphic solid phases. The local state and position of the solid phase are updated by Metropolis dynamics. Below the critical temperature, a large cluster of the least stable solid phase initially forms in the solution before transitioning into more-stable phases following the Ostwald step rule. The free-energy landscape as a function of the modal abundance of each solid phase clearly reveals that before cluster formation, the least stable phase has an energetic advantage because of its low interfacial energy with the solution, and after cluster formation, phase transformation occurs along the valley of the free-energy landscape, which contains several minima for the regions of three phases. Our results indicate that the solid-solid and solid-liquid interfacial energy contribute to the formation of the complex free-energy landscape and nucleation pathways following the Ostwald step rule. PMID:26565191

  13. Developing a test for random number generators using a simulation of the hierarchical Potts diamond model at the critical point

    NASA Astrophysics Data System (ADS)

    Liberty, Joshua W.

    This dissertation uses the hierarchical q-state Potts model at the critical point to develop a new random number generator test. We start with an exposition of renormalization group approach by means of which one can numerically exactly compute the free energy, specific heat and susceptibility of large, but finite lattices. We then show that generalization of these standard techniques allows one to also compute probability distributions related to the energy and the order parameter. The various computed quantities can be compared with Monte Carlo estimates of the same quantities. We demonstrate that the structure of the hierarchical lattices used allows one to perform the Monte Carlo calculations by direct sampling. This avoids the usual critical slowing down that plagues Monte Carlo calculations at the critical point. As is well known, critical behavior is highly susceptible to perturbations. We expect that flaws of the pseudo random number generator, such as correlations, will cause statistically significant discrepancies between the results of the simulations and the numerically exactly computed results. Details of the computer code generated for these tests are included.

  14. A 3-states magnetic model of binary decisions in sociophysics

    NASA Astrophysics Data System (ADS)

    Fernandez, Miguel A.; Korutcheva, Elka; de la Rubia, F. Javier

    2016-11-01

    We study a diluted Blume-Capel model of 3-states sites as an attempt to understand how some social processes as cooperation or organization happen. For this aim, we study the effect of the complex network topology on the equilibrium properties of the model, by focusing on three different substrates: random graph, Watts-Strogatz and Newman substrates. Our computer simulations are in good agreement with the corresponding analytical results.

  15. A cellular Potts model for the MMP-dependent and -independent cancer cell migration in matrix microtracks of different dimensions

    NASA Astrophysics Data System (ADS)

    Scianna, Marco; Preziosi, Luigi

    2014-03-01

    Cell migration is fundamental in a wide variety of physiological and pathological phenomena, among other in cancer invasion and development. In particular, the migratory/invasive capability of single metastatic cells is fundamental in determining the malignancy of a solid tumor. Specific cell migration phenotypes result for instance from the reciprocal interplay between the biophysical and biochemical properties of both the malignant cells themselves and of the surrounding environment. In particular, the extracellular matrices (ECMs) forming connective tissues can provide both loosely organized zones and densely packed barriers, which may impact cell invasion mode and efficiency. The critical processes involved in cell movement within confined spaces are (i) the proteolytic activity of matrix metalloproteinases (MMPs) and (ii) the deformation of the entire cell body, and in particular of the nucleus. We here present an extended cellular Potts model (CPM) to simulate a bio-engineered matrix system, which tests the active motile behavior of a single cancer cell into narrow channels of different widths. As distinct features of our approach, the cell is modeled as a compartmentalized discrete element, differentiated in the nucleus and in the cytosolic region, while a directional shape-dependent movement is explicitly driven by the evolution of its polarity vector. As outcomes, we find that, in a large track, the tumor cell is not able to maintain a directional movement. On the contrary, a structure of subcellular width behaves as a contact guidance sustaining cell persistent locomotion. In particular, a MMP-deprived cell is able to repolarize and follow the micropattern geometry, while a full MMP activity leads to a secondary track expansion by degrading the matrix structure. Finally, we confirm that cell movement within a subnuclear structure can be achieved either by pericellular proteolysis or by a significant deformation of cell nucleus.

  16. Percivall Pott: tuberculous spondylitis.

    PubMed

    Sternbach, G

    1996-01-01

    Tuberculous spondylitis, also known as Pott's disease, is an entity that produces a characteristic kyphotic deformity, and was described by Sir Percivall Pott in 1779 and 1782. The majority of his patients were infants and young children. Although the incidence of tuberculosis in the industrialized world has since declined dramatically, the number of cases of extrapulmonary disease, though small, has remained relatively unchanged. In developing countries, spondylitis is still generally a disease of children, but in Europe and North America, it more commonly involves older adults. Pott's spondylitis represents a reactivation of latent disease, frequently years after the initial infection. Clinical findings include complaints of back pain and symptoms of fever, chills, weight loss, malaise, and fatigue. Characteristically a late finding, paraplegia is occasionally the initial indicator of spinal involvement. There is an average delay of a year between the onset of symptoms and patient presentation. Plain spinal radiographs usually are the initial diagnostic modality utilized. Computed tomography scanning and magnetic resonance imaging can be used to further define the process. The differential diagnosis includes neoplasm, pyogenic or disseminated fungal infection, and sarcoid arthritis. PMID:8655942

  17. 3-state Hamiltonians associated to solvable 33-vertex models

    NASA Astrophysics Data System (ADS)

    Crampé, N.; Frappat, L.; Ragoucy, E.; Vanicat, M.

    2016-09-01

    Using the nested coordinate Bethe ansatz, we study 3-state Hamiltonians with 33 non-vanishing entries, or 33-vertex models, where only one global charge with degenerate eigenvalues exists and each site possesses three internal degrees of freedom. In the context of Markovian processes, they correspond to diffusing particles with two possible internal states which may be exchanged during the diffusion (transmutation). The first step of the nested coordinate Bethe ansatz is performed providing the eigenvalues in terms of rapidities. We give the constraints ensuring the consistency of the computations. These rapidities also satisfy Bethe equations involving 4 × 4 R-matrices, solutions of the Yang-Baxter equation which implies new constraints on the models. We solve them allowing us to list all the solvable 33-vertex models.

  18. CUDA programs for the GPU computing of the Swendsen-Wang multi-cluster spin flip algorithm: 2D and 3D Ising, Potts, and XY models

    NASA Astrophysics Data System (ADS)

    Komura, Yukihiro; Okabe, Yutaka

    2014-03-01

    We present sample CUDA programs for the GPU computing of the Swendsen-Wang multi-cluster spin flip algorithm. We deal with the classical spin models; the Ising model, the q-state Potts model, and the classical XY model. As for the lattice, both the 2D (square) lattice and the 3D (simple cubic) lattice are treated. We already reported the idea of the GPU implementation for 2D models (Komura and Okabe, 2012). We here explain the details of sample programs, and discuss the performance of the present GPU implementation for the 3D Ising and XY models. We also show the calculated results of the moment ratio for these models, and discuss phase transitions. Catalogue identifier: AERM_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AERM_v1_0.html Program obtainable from: CPC Program Library, Queen’s University, Belfast, N. Ireland Licensing provisions: Standard CPC licence, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 5632 No. of bytes in distributed program, including test data, etc.: 14688 Distribution format: tar.gz Programming language: C, CUDA. Computer: System with an NVIDIA CUDA enabled GPU. Operating system: System with an NVIDIA CUDA enabled GPU. Classification: 23. External routines: NVIDIA CUDA Toolkit 3.0 or newer Nature of problem: Monte Carlo simulation of classical spin systems. Ising, q-state Potts model, and the classical XY model are treated for both two-dimensional and three-dimensional lattices. Solution method: GPU-based Swendsen-Wang multi-cluster spin flip Monte Carlo method. The CUDA implementation for the cluster-labeling is based on the work by Hawick et al. [1] and that by Kalentev et al. [2]. Restrictions: The system size is limited depending on the memory of a GPU. Running time: For the parameters used in the sample programs, it takes about a minute for each program. Of course, it depends on the system size, the number of Monte Carlo steps, etc. References: [1] K

  19. Dynamic metastability in the two-dimensional Potts ferromagnet.

    PubMed

    Ibáñez Berganza, Miguel; Petri, Alberto; Coletti, Pietro

    2014-05-01

    We investigate the nonequilibrium dynamics of the two-dimensional (2D) Potts model on the square lattice after a quench below the discontinuous transition point. By means of numerical simulations of systems with q=12, 24, and 48, we observe the onset of a stationary regime below the temperature-driven transition, in a temperature interval decreasing with the system size and increasing with q. These results obtained dynamically agree with those obtained from the analytical continuation of the free energy [J. L. Meunier and A. Morel, Eur. Phys. J. B 13, 341 (2000)], from which metastability in the 2D Potts model results to be a finite-size effect. PMID:25353747

  20. Neural evidence for a 3-state model of visual short-term memory.

    PubMed

    Nee, Derek Evan; Jonides, John

    2013-07-01

    Recent research has suggested that short-term memory (STM) can be partitioned into three distinct states. By this model, a single item is held in the focus of attention making it available for immediate processing (focus of attention), a capacity-limited set of additional items is actively maintained for future processing (direct access region), and other recently presented information is passively active, but can nevertheless influence ongoing cognition (activated portion of long-term memory). While there is both behavioral and neural support for this 3-state model in verbal STM, it is unclear whether the model generalizes to non-verbal STM. Here, we tested a 3-state model of visual STM using fMRI. We found a triple dissociation of regions involved in the access of each hypothesized state. The inferior parietal cortex mediated access to the focus of attention, the medial temporal lobe (MTL) including the hippocampus mediated access to the direct access region, and the left ventrolateral prefrontal cortex (VLPFC) mediated access to the activated portion of long-term memory. Direct comparison with previously collected verbal STM data revealed overlapping neural activations involved in the access of each state across different forms of content suggesting that mechanisms of access are domain general. These data support a 3-state model of STM.

  1. Chiral Potts spin glass in d =2 and 3 dimensions

    NASA Astrophysics Data System (ADS)

    Ćaǧlar, Tolga; Berker, A. Nihat

    2016-09-01

    The chiral spin-glass Potts system with q =3 states is studied in d =2 and 3 spatial dimensions by renormalization-group theory and the global phase diagrams are calculated in temperature, chirality concentration p , and chirality-breaking concentration c , with determination of phase chaos and phase-boundary chaos. In d =3 , the system has ferromagnetic, left-chiral, right-chiral, chiral spin-glass, and disordered phases. The phase boundaries to the ferromagnetic, left- and right-chiral phases show, differently, an unusual, fibrous patchwork (microreentrances) of all four (ferromagnetic, left-chiral, right-chiral, chiral spin-glass) ordered phases, especially in the multicritical region. The chaotic behavior of the interactions, under scale change, are determined in the chiral spin-glass phase and on the boundary between the chiral spin-glass and disordered phases, showing Lyapunov exponents in magnitudes reversed from the usual ferromagnetic-antiferromagnetic spin-glass systems. At low temperatures, the boundaries of the left- and right-chiral phases become thresholded in p and c . In d =2 , the chiral spin-glass Potts system does not have a spin-glass phase, consistently with the lower-critical dimension of ferromagnetic-antiferromagnetic spin glasses. The left- and right-chirally ordered phases show reentrance in chirality concentration p .

  2. Connectivities of Potts Fortuin-Kasteleyn clusters and time-like Liouville correlator

    NASA Astrophysics Data System (ADS)

    Picco, M.; Santachiara, R.; Viti, J.; Delfino, G.

    2013-10-01

    Recently, two of us argued that the probability that an FK cluster in the Q-state Potts model connects three given points is related to the time-like Liouville three-point correlation function (Delfino and Viti, 2011) [1]. Moreover, they predicted that the FK three-point connectivity has a prefactor which unveils the effects of a discrete symmetry, reminiscent of the SQ permutation symmetry of the Q=2,3,4 Potts model. We revisit the derivation of the time-like Liouville correlator (Zamolodchikov, 2005) [2] and show that this is the only consistent analytic continuation of the minimal model structure constants. We then present strong numerical tests of the relation between the time-like Liouville correlator and percolative properties of the FK clusters for real values of Q.

  3. Local Autoencoding for Parameter Estimation in a Hidden Potts-Markov Random Field.

    PubMed

    Song, Sanming; Si, Bailu; Herrmann, J Michael; Feng, Xisheng

    2016-05-01

    A local-autoencoding (LAE) method is proposed for the parameter estimation in a Hidden Potts-Markov random field model. Due to sampling cost, Markov chain Monte Carlo methods are rarely used in real-time applications. Like other heuristic methods, LAE is based on a conditional independence assumption. It adapts, however, the parameters in a block-by-block style with a simple Hebbian learning rule. Experiments with given label fields show that the LAE is able to converge in far less time than required for a scan. It is also possible to derive an estimate for LAE based on a Cramer–Rao bound that is similar to the classical maximum pseudolikelihood method. As a general algorithm, LAE can be used to estimate the parameters in anisotropic label fields. Furthermore, LAE is not limited to the classical Potts model and can be applied to other types of Potts models by simple label field transformations and straightforward learning rule extensions. Experimental results on image segmentations demonstrate the efficiency and generality of the LAE algorithm.

  4. Local Autoencoding for Parameter Estimation in a Hidden Potts-Markov Random Field.

    PubMed

    Song, Sanming; Si, Bailu; Herrmann, J Michael; Feng, Xisheng

    2016-05-01

    A local-autoencoding (LAE) method is proposed for the parameter estimation in a Hidden Potts-Markov random field model. Due to sampling cost, Markov chain Monte Carlo methods are rarely used in real-time applications. Like other heuristic methods, LAE is based on a conditional independence assumption. It adapts, however, the parameters in a block-by-block style with a simple Hebbian learning rule. Experiments with given label fields show that the LAE is able to converge in far less time than required for a scan. It is also possible to derive an estimate for LAE based on a Cramer–Rao bound that is similar to the classical maximum pseudolikelihood method. As a general algorithm, LAE can be used to estimate the parameters in anisotropic label fields. Furthermore, LAE is not limited to the classical Potts model and can be applied to other types of Potts models by simple label field transformations and straightforward learning rule extensions. Experimental results on image segmentations demonstrate the efficiency and generality of the LAE algorithm. PMID:27019491

  5. Prognosis of conservatively treated patients with Pott's paraplegia: logistic regression analysis

    PubMed Central

    Kalita, J; Misra, U; Mandal, S; Srivastava, M

    2005-01-01

    Methods: The study included 43 patients with Pott's paraplegia, managed conservatively. The diagnosis of Pott's spine was based on clinical, magnetic resonance imaging, and computed tomography or ultrasound guided aspiration biopsy. All patients were examined clinically, and motor evoked potentials (MEPs) to lower limbs and tibial somatosensory evoked potentials (SEP) were recorded. Outcome at six months was defined as good or poor. For evaluating predictors of outcome, 15 clinical, investigative, and evoked potential variables were analysed, using multiple logistic regression analysis. Results: The age range of the patients was 16–70 years, and 22 were female. Mild spasticity with hyperreflexia only was seen in 13 patients. In the remaining, weakness was severe in eight, and moderate and mild in 11 patients each. Twenty patients had loss of joint position sensation. MEP and SEP were abnormal in 19 and 18 patients, respectively. On multiple regression analysis, the best model predicting six month outcome included power, paraplegia score, SEP, and MEP. Conclusion: Patients with Pott's paraplegia are likely to recover completely by six months if they have mild weakness, lower paraplegia score and normal SEPs and MEPs. PMID:15897514

  6. Estimating the granularity coefficient of a Potts-Markov random field within a Markov chain Monte Carlo algorithm.

    PubMed

    Pereyra, Marcelo; Dobigeon, Nicolas; Batatia, Hadj; Tourneret, Jean-Yves

    2013-06-01

    This paper addresses the problem of estimating the Potts parameter β jointly with the unknown parameters of a Bayesian model within a Markov chain Monte Carlo (MCMC) algorithm. Standard MCMC methods cannot be applied to this problem because performing inference on β requires computing the intractable normalizing constant of the Potts model. In the proposed MCMC method, the estimation of β is conducted using a likelihood-free Metropolis-Hastings algorithm. Experimental results obtained for synthetic data show that estimating β jointly with the other unknown parameters leads to estimation results that are as good as those obtained with the actual value of β. On the other hand, choosing an incorrect value of β can degrade estimation performance significantly. To illustrate the interest of this method, the proposed algorithm is successfully applied to real bidimensional SAR and tridimensional ultrasound images.

  7. Chemical Equilibrium Models for the S3 State of the Oxygen-Evolving Complex of Photosystem II.

    PubMed

    Isobe, Hiroshi; Shoji, Mitsuo; Shen, Jian-Ren; Yamaguchi, Kizashi

    2016-01-19

    We have performed hybrid density functional theory (DFT) calculations to investigate how chemical equilibria can be described in the S3 state of the oxygen-evolving complex in photosystem II. For a chosen 340-atom model, 1 stable and 11 metastable intermediates have been identified within the range of 13 kcal mol(-1) that differ in protonation, charge, spin, and conformational states. The results imply that reversible interconversion of these intermediates gives rise to dynamic equilibria that involve processes with relocations of protons and electrons residing in the Mn4CaO5 cluster, as well as bound water ligands, with concomitant large changes in the cluster geometry. Such proton tautomerism and redox isomerism are responsible for reversible activation/deactivation processes of substrate oxygen species, through which Mn-O and O-O bonds are transiently ruptured and formed. These results may allow for a tentative interpretation of kinetic data on substrate water exchange on the order of seconds at room temperature, as measured by time-resolved mass spectrometry. The reliability of the hybrid DFT method for the multielectron redox reaction in such an intricate system is also addressed.

  8. [Pott's puffy tumor: a rare complication of frontal sinusitis].

    PubMed

    Aínsa Laguna, D; Pons Morales, S; Muñoz Tormo-Figueres, A; Vega Senra, M I; Otero Reigada, M C

    2014-05-01

    Pott's puffy tumor is a rare complication of frontal sinusitis characterized by swelling and edema in the brow due to a subperiosteal abscess associated with frontal osteomyelitis. Added complications are cellulitis by extension to the orbit and intracranial infection by posterior extension, with high risk of meningitis, intracranial abscess, and venous sinus thrombosis. Early diagnosis and aggressive medical or surgical treatment are essential for optimal recovery of affected patients. In the antibiotic age it is extremely rare, with very few cases described in the recent literature. A case is presented of a Pott inflammatory tumor in a 7 year-old boy, as a complication of acute pansinusitis who presented with front preseptal swelling and intracranial involvement with thrombosis of ophthalmic and superior orbital veins and frontal epidural abscess extending to the subarachnoid space.

  9. Simultaneous Esophageal and Tracheal Fistulization Resulting From Pott's Abscess.

    PubMed

    Eroglu, Atilla; Aydin, Yener; Ogul, Hayri; Altuntas, Bayram

    2016-10-01

    We describe a case of a 30-year-old woman who presented with a complaint of coughing while drinking water, which began 2 months earlier and was treated with surgical repair of esophageal and tracheal fistulization that resulted from a Pott's abscess. The patient had been diagnosed with pulmonary tuberculosis 4 years previously and had been treated for 6 months. Esophageal and tracheal fistulization of the abscess cavity was observed both radiologically and intraoperatively. The fistulas were closed through separate operations for the trachea and the esophagus. Simultaneous esophageal and tracheal fistulization of a Pott's abscess is a serious complication of spinal tuberculosis that has not been previously reported in the literature. PMID:27645978

  10. A teenage girl with a sternal mass: an unusual presentation of Pott disease.

    PubMed

    Posner, Kari R; Mittal, Manoj K

    2010-11-01

    Bone and joint infection complicating tuberculosis is most likely to involve vertebrae. Pott disease, or tuberculous spondylitis, represents a small proportion of tuberculosis cases, but it can be associated with significant morbidity and mortality. Our case report details Pott disease in a teenage girl, which presented with a sternal mass. We also present a review of the subject.

  11. Unstable network fragmentation in co-evolution of Potts spins and system topology

    NASA Astrophysics Data System (ADS)

    Toruniewska, Joanna; Suchecki, Krzysztof; Hołyst, Janusz A.

    2016-10-01

    We investigate co-evolution of discrete q-state Potts model and the underlying network topology, where spin changes and link re-wiring follow the same canonical ensemble dynamics in a constant temperature. It means that there are no absorbing, frozen states present in our model. Depending on the temperature T and probability of link dynamics p the system can exist in one of three states: ordered, disordered and ordered clusters (fragmented network), with the last being unstable and slowly relaxing into ordered state. The transition from ordered clusters to globally ordered system is characterized by non-exponential, slow growth of the order parameter. We investigate this process analytically and explain the transition characteristics as the result of the dominance of activity of "surface" nodes in each ordered cluster, as opposed to "bulk" nodes that are inactive.

  12. Pott's puffy tumour: still not an eradicated entity.

    PubMed

    Guillén, A; Brell, M; Cardona, E; Claramunt, E; Costa, J M

    2001-05-01

    Pott's puffy tumour is an infrequent entity characterised by one or more subperiosteal abscesses associated with frontal bone osteomyelitis. Although cases in patients of all ages have been reported, teenagers are the most frequently affected. Early diagnosis and aggressive treatment are essential because of the high risk of severe neurological complications, such as epidural abscess, subdural empyema, and secondary septic thrombosis of the dural sinuses. This paper describes the case of a patient with a subperiosteal abscess resulting from sinusitis, with orbital and intracranial extension, and subsequent neurological complications. Despite modern methods of diagnosis and treatment, 13 new cases have been published in the last 5 years; in at least 3 (23%) of these cases there were serious neurological complications. Upper respiratory infections and sinusitis are leading causes of visits to the emergency department in the paediatric age group; however, no risk factors for poor outcome have so far been identified in any of these patients.

  13. Pott's puffy tumour: the usefulness of MRI in complicated sinusitis

    PubMed Central

    Bhalla, Vishal; Khan, Nadir; Isles, Matthew

    2016-01-01

    The sinuses are common sites of infection in children, and if clinical presentation is delayed, there is a high risk of complications including intracranial spread. We present a case of a 5-year-old boy who presented with non-specific symptoms of sinusitis. He went on to develop osteomyelitis of the frontal bone and a subperiosteal abscess known as Pott's puffy tumour. Whilst computed tomography provides an excellent initial imaging, this case report emphasizes the advantages of magnetic resonance imaging, especially when there is extensive involvement of the sinuses with an absence of ionizing radiation. Prompt surgical treatment is imperative as there is a potential for significant morbidity if not quickly diagnosed and treated. PMID:27001196

  14. Une localisation exceptionnelle de la tuberculose vertébrale Mal de Pott sous-occipital

    PubMed Central

    Yahyaoui, Sana; Majdoub, Senda; Zaghouani, Houneida; Fradj, Hosni Ben; Bakir, Dejla; Bouajina, Elyes; Kraiem, Chakib

    2013-01-01

    Le mal de Pott est la forme la plus commune de la tuberculose osseuse touchant essentiellement le rachis dorso-lombaire. La localisation sous-occipitale reste exceptionnelle. Le diagnostic de cette entité est le plus souvent tardif ce qui expose à des complications graves. Les radiographies standard ne sont parlantes qu’à un stade tardif de la maladie, d'où l'intérêt de l'imagerie moderne notamment la tomodensitométrie (TDM) et l'imagerie par résonance magnétique (IRM) qui permettent un diagnostic précoce. Nous rapportons un nouveau cas de tuberculose sous-occipitale. Le diagnostic était posé sur l'imagerie en coupe et confirmé histologiquement à la biopsie transorale. Sont rappelés les aspects en imagerie de cette localisation particulière du mal de Pott. PMID:23819005

  15. q-state Potts-glass neural network based on pseudoinverse rule

    SciTech Connect

    Xiong Daxing; Zhao Hong

    2010-08-15

    We study the q-state Potts-glass neural network with the pseudoinverse (PI) rule. Its performance is investigated and compared with that of the counterpart network with the Hebbian rule instead. We find that there exists a critical point of q, i.e., q{sub cr}=14, below which the storage capacity and the retrieval quality can be greatly improved by introducing the PI rule. We show that the dynamics of the neural networks constructed with the two learning rules respectively are quite different; but however, regardless of the learning rules, in the q-state Potts-glass neural networks with q{>=}3 there is a common novel dynamical phase in which the spurious memories are completely suppressed. This property has never been noticed in the symmetric feedback neural networks. Free from the spurious memories implies that the multistate Potts-glass neural networks would not be trapped in the metastable states, which is a favorable property for their applications.

  16. Monte Carlo Potts Investigation of the Role of Sparse Recrystallization in Dynamic Abnormal Grain Growth

    NASA Astrophysics Data System (ADS)

    Williamson, Alan Scott

    Dynamic Abnormal Grain Growth (DAGG) is a type of abnormal grain growth discovered in Molybdenum that occurs during dynamic straining at medium homologous temperatures. Specifics about DAGG initiation and propagation are dependent on the processing conditions experienced by the material. The mechanism responsible for DAGG has yet to be identified. Proposed is a theory is for explaining DAGG, through the nucleation and growth of a sparse number of recrystallized grains DAGG is achieved. These recrystallized grains could grow abnormally using their strain energy driving force advantage. This theory is investigated numerically by modeling dynamic recrystallization using the Monte Carlo Potts method. Dynamic recrystallization is modeled using a combination of dynamic straining, nucleation of recrystallized grains and grain growth. Dynamic recrystallization is studied to answer whether sparse recrystallization is possible, if sparse recrystallization can cause abnormal grain growth and under what conditions sparse recrystallization is accomplished. Viable sparse recrystallization can be achieved and will cause DAGG-like behavior through the nucleation and rapid growth of a single recrystallized grain. The conditions to achieve sparse recrystallization are examined using the relationship recrystallization has with strain energy and microstructure parameters. Results show that a critical strain energy is needed to allow viable nucleation of recrystallized grains. The value of the critical strain energy is the equivalent of 6 grain boundary segments of non-dimensional (n.d.) energy. The inclusion of external solid-vapor surfaces can reduce the critical strain energy to 5 n.d. Strain energy also directly influences the rate of nucleation. By minimizing strain energy, while keeping it is above the critical value, nucleation can be suppressed enough to allow sparse recrystallization. The microstructure will also influence recrystallization. The grain size of the

  17. Pott's puffy tumor: a rare complication of acute otitis media in child: a case report.

    PubMed

    Urík, Milan; Machač, Josef; Šlapák, Ivo; Hošnová, Dagmar

    2015-09-01

    To describe a rare case of Potts' puffy tumor (PPT) in the zygomatic area, which developed as a complication of acute otitis media in a 6-year-old child. To date, only one case of PPT has been described in the literature as a complication of latent mastoiditis in an adult, and one case of PPT as a complication of acute mastoiditis in a 10-year-old child. Urgent surgical intervention, including evacuation of the purulent lesion, removal of inflamed soft tissue and osteolysis of the involved bone, and antromastoidectomy, intravenous treatment with broad-spectrum antibiotics, including G+, G-, anaerobes and fungi, and local therapy.

  18. {lambda}(1405) as a resonance in the baryon-meson scattering coupled to the q{sup 3} state in a quark model

    SciTech Connect

    Takeuchi, Sachiko; Shimizu, Kiyotaka

    2007-09-15

    To describe {lambda}(1405) as a resonance in baryon-meson scattering, we have investigated the q{sup 3}-qq scattering system with the flavor-singlet q{sup 3}(0s){sup 2}(0p) state (the {lambda}{sup 1} pole). The scattering is treated by the quark cluster model (QCM). The {lambda}{sup 1} pole is treated as a bound state embedded in the continuum. We have found that a peak appears below the NK threshold in the spin-(1/2), isospin-0 channel even if the mass of the {lambda}{sup 1} pole is above the threshold. This peak disappears when the coupling to the {lambda}{sup 1} pole is switched off. Using the observed hadron mass in the kinetic part of QCM is also found to be important in reproducing a peak just below the NK threshold.

  19. 38 CFR 13.3 - State legislation.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 38 Pensions, Bonuses, and Veterans' Relief 1 2013-07-01 2013-07-01 false State legislation. 13.3... ADMINISTRATION, FIDUCIARY ACTIVITIES § 13.3 State legislation. Field facility Directors are authorized to... local and State bar associations, to the end that deficiencies of the State laws relating to...

  20. 38 CFR 13.3 - State legislation.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 38 Pensions, Bonuses, and Veterans' Relief 1 2014-07-01 2014-07-01 false State legislation. 13.3... ADMINISTRATION, FIDUCIARY ACTIVITIES § 13.3 State legislation. Field facility Directors are authorized to... local and State bar associations, to the end that deficiencies of the State laws relating to...

  1. Quantum cryptography with 3-state systems.

    PubMed

    Bechmann-Pasquinucci, H; Peres, A

    2000-10-01

    We consider quantum cryptographic schemes where the carriers of information are 3-state particles. One protocol uses four mutually unbiased bases and appears to provide better security than obtainable with 2-state carriers. Another possible method allows quantum states to belong to more than one basis. Security is not better, but many curious features arise.

  2. 38 CFR 13.3 - State legislation.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 38 Pensions, Bonuses, and Veterans' Relief 1 2010-07-01 2010-07-01 false State legislation. 13.3... ADMINISTRATION, FIDUCIARY ACTIVITIES § 13.3 State legislation. Field facility Directors are authorized to... local and State bar associations, to the end that deficiencies of the State laws relating to...

  3. The course of spinal tuberculosis (Pott disease): results of the multinational, multicentre Backbone-2 study.

    PubMed

    Batirel, A; Erdem, H; Sengoz, G; Pehlivanoglu, F; Ramosaco, E; Gülsün, S; Tekin, R; Mete, B; Balkan, I I; Sevgi, D Y; Giannitsioti, E; Fragou, A; Kaya, S; Cetin, B; Oktenoglu, T; Celik, A D; Karaca, B; Horasan, E S; Ulug, M; Senbayrak, S; Kaya, S; Arslanalp, E; Hasbun, R; Ates-Guler, S; Willke, A; Senol, S; Inan, D; Güclü, E; Ertem, G T; Koc, M M; Tasbakan, M; Ocal, G; Kocagoz, S; Kusoglu, H; Güven, T; Baran, A I; Dede, B; Karadag, F Y; Yilmaz, H; Aslan, G; Al-Gallad, D A; Cesur, S; El-Sokkary, R; Sirmatel, F; Savasci, U; Karaahmetoglu, G; Vahaboglu, H

    2015-11-01

    We aimed to describe clinical, laboratory, diagnostic and therapeutic features of spinal tuberculosis (ST), also known as Pott disease. A total of 314 patients with ST from 35 centres in Turkey, Egypt, Albania and Greece were included. Median duration from initial symptoms to the time of diagnosis was 78 days. The most common complications presented before diagnosis were abscesses (69%), neurologic deficits (40%), spinal instability (21%) and spinal deformity (16%). Lumbar (56%), thoracic (49%) and thoracolumbar (13%) vertebrae were the most commonly involved sites of infection. Although 51% of the patients had multiple levels of vertebral involvement, 8% had noncontiguous involvement of multiple vertebral bodies. The causative agent was identified in 41% of cases. Histopathologic examination was performed in 200 patients (64%), and 74% were consistent with tuberculosis. Medical treatment alone was implemented in 103 patients (33%), while 211 patients (67%) underwent diagnostic and/or therapeutic surgical intervention. Ten percent of the patients required more than one surgical intervention. Mortality occurred in 7 patients (2%), and 77 (25%) developed sequelae. The distribution of the posttreatment sequelae were as follows: 11% kyphosis, 6% Gibbus deformity, 5% scoliosis, 5% paraparesis, 5% paraplegia and 4% loss of sensation. Older age, presence of neurologic deficit and spinal deformity were predictors of unfavourable outcome. ST results in significant morbidity as a result of its insidious course and delayed diagnosis because of diagnostic and therapeutic challenges. ST should be considered in the differential diagnosis of patients with vertebral osteomyelitis, especially in tuberculosis-endemic regions. Early establishment of definitive aetiologic diagnosis and appropriate treatment are of paramount importance to prevent development of sequelae. PMID:26232534

  4. Tuberculose ostéoarticulaire (mal de Pott exclu): à propos de 120 cas à Abidjan

    PubMed Central

    Gbané-Koné, Mariam; Koné, Samba; Ouali, Boubacar; Djaha, Kouassi Jean -Mermoz; Akoli, Ekoya Ondzala; Nseng, Ingrid Nseng; Eti, Edmond; Daboiko, Jean Claude; Touré, Stanislas André; Kouakou, N'zué Marcel

    2015-01-01

    Introduction La tuberculose ostéoarticulaire (TOA) représente 2 à 5% de l'ensemble des tuberculoses. Elle demeure d'actualité surtout dans les pays à forte endémicité tuberculeuse. L'objectif était de déterminer la prévalence, les aspects topographiques, radiologiques de la TOA en milieu hospitalier ivoirien. Méthodes Les auteurs rapportent une expérience de 11 ans, à travers une étude rétrospective de 120 dossiers de patients atteints de la tuberculose ostéoarticulaire (le mal de Pott est exclu de cette étude). N'ont pas été inclus dans l’étude les dossiers ne comportant pas d'imagerie. Résultats L'atteinte extra vertébrale représentait 09,2% de la tuberculose ostéoarticulaire. Il s'agissait de 54 hommes et 66 femmes, l’âge moyen était de 43,13 ans. On notait 123 cas d'ostéoarthrites, et 8 cas d'ostéites des os plats. L'atteinte des membres inférieurs prédominait dans 91,87% des cas. La hanche était la première localisation (45,04%), suivie du genou (25,19%). Les atteintes étaient multifocales dans 20% des cas. L'atteinte osseuse était associée à une tuberculose pulmonaire dans 05,83% des cas. Des localisations inhabituelles ont été rapportées: poignet (n = 2), branches ischiopubiennes (n = 4), atteinte sternoclaviculaire (n = 4), médiopieds (n = 2). Les lésions radiologiques étaient avancées (stades III et IV) dans 55,73% des cas. A la TDM, la prévalence des abcès était de 77%. Un geste chirurgical a été réalisé sur 16 articulations (2 épaules, 13 genoux, une cheville). Conclusion La TOA des membres est peu fréquente contrairement à l'atteinte vertébrale. La hanche est la principale localisation. Le retard au diagnostic explique l’étendue des lésions anatomoradiologiques. PMID:26587129

  5. Benchmarking Inverse Statistical Approaches for Protein Structure and Design with Exactly Solvable Models

    PubMed Central

    Jacquin, Hugo; Shakhnovich, Eugene; Cocco, Simona; Monasson, Rémi

    2016-01-01

    Inverse statistical approaches to determine protein structure and function from Multiple Sequence Alignments (MSA) are emerging as powerful tools in computational biology. However the underlying assumptions of the relationship between the inferred effective Potts Hamiltonian and real protein structure and energetics remain untested so far. Here we use lattice protein model (LP) to benchmark those inverse statistical approaches. We build MSA of highly stable sequences in target LP structures, and infer the effective pairwise Potts Hamiltonians from those MSA. We find that inferred Potts Hamiltonians reproduce many important aspects of ‘true’ LP structures and energetics. Careful analysis reveals that effective pairwise couplings in inferred Potts Hamiltonians depend not only on the energetics of the native structure but also on competing folds; in particular, the coupling values reflect both positive design (stabilization of native conformation) and negative design (destabilization of competing folds). In addition to providing detailed structural information, the inferred Potts models used as protein Hamiltonian for design of new sequences are able to generate with high probability completely new sequences with the desired folds, which is not possible using independent-site models. Those are remarkable results as the effective LP Hamiltonians used to generate MSA are not simple pairwise models due to the competition between the folds. Our findings elucidate the reasons for the success of inverse approaches to the modelling of proteins from sequence data, and their limitations. PMID:27177270

  6. Representation and Poly-time Approximation for Pressure of {Z}^2 Lattice Models in the Non-uniqueness Region

    NASA Astrophysics Data System (ADS)

    Adams, Stefan; Briceño, Raimundo; Marcus, Brian; Pavlov, Ronnie

    2016-02-01

    We develop a new pressure representation theorem for nearest-neighbour Gibbs interactions and apply this to obtain the existence of efficient algorithms for approximating the pressure in the 2-dimensional ferromagnetic Potts, multi-type Widom-Rowlinson and hard-core models. For Potts model, our results apply to every inverse temperature but the critical. For Widom-Rowlinson and hard-core models, they apply to certain subsets of both the subcritical and supercritical regions. The main novelty of our work is in the latter.

  7. Simulated Tempering and Swapping on Mean-Field Models

    NASA Astrophysics Data System (ADS)

    Bhatnagar, Nayantara; Randall, Dana

    2016-08-01

    Simulated and parallel tempering are families of Markov Chain Monte Carlo algorithms where a temperature parameter is varied during the simulation to overcome bottlenecks to convergence due to multimodality. In this work we introduce and analyze the convergence for a set of new tempering distributions which we call entropy dampening. For asymmetric exponential distributions and the mean field Ising model with an external field simulated tempering is known to converge slowly. We show that tempering with entropy dampening distributions mixes in polynomial time for these models. Examining slow mixing times of tempering more closely, we show that for the mean-field 3-state ferromagnetic Potts model, tempering converges slowly regardless of the temperature schedule chosen. On the other hand, tempering with entropy dampening distributions converges in polynomial time to stationarity. Finally we show that the slow mixing can be very expensive practically. In particular, the mixing time of simulated tempering is an exponential factor longer than the mixing time at the fixed temperature.

  8. 32 CFR 1903.3 - State law applicable.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY CONDUCT ON AGENCY INSTALLATIONS § 1903.3 State law applicable. (a) Unless specifically addressed by the regulations in this part, traffic safety and the permissible use and operation of vehicles within an...

  9. 32 CFR 1903.3 - State law applicable.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY CONDUCT ON AGENCY INSTALLATIONS § 1903.3 State law applicable. (a) Unless specifically addressed by the regulations in this part, traffic safety and the permissible use and operation of vehicles within an...

  10. 32 CFR 1903.3 - State law applicable.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY CONDUCT ON AGENCY INSTALLATIONS § 1903.3 State law applicable. (a) Unless specifically addressed by the regulations in this part, traffic safety and the permissible use and operation of vehicles within an...

  11. 32 CFR 1903.3 - State law applicable.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY CONDUCT ON AGENCY INSTALLATIONS § 1903.3 State law applicable. (a) Unless specifically addressed by the regulations in this part, traffic safety and the permissible use and operation of vehicles within an...

  12. 32 CFR 1903.3 - State law applicable.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 32 National Defense 6 2010-07-01 2010-07-01 false State law applicable. 1903.3 Section 1903.3 National Defense Other Regulations Relating to National Defense CENTRAL INTELLIGENCE AGENCY CONDUCT ON AGENCY INSTALLATIONS § 1903.3 State law applicable. (a) Unless specifically addressed by the...

  13. Phase transitions of boron carbide: Pair interaction model of high carbon limit

    NASA Astrophysics Data System (ADS)

    Yao, Sanxi; Huhn, W. P.; Widom, M.

    2015-09-01

    Boron Carbide exhibits a broad composition range, implying a degree of intrinsic substitutional disorder. While the observed phase has rhombohedral symmetry (space group R 3 bar m), the enthalpy minimizing structure has lower, monoclinic, symmetry (space group Cm). The crystallographic primitive cell consists of a 12-atom icosahedron placed at the vertex of a rhombohedral lattice, together with a 3-atom chain along the 3-fold axis. In the limit of high carbon content, approaching 20% carbon, the icosahedra are usually of type B11 Cp, where the p indicates the carbon resides on a polar site, while the chains are of type C-B-C. We establish an atomic interaction model for this composition limit, fit to density functional theory total energies, that allows us to investigate the substitutional disorder using Monte Carlo simulations augmented by multiple histogram analysis. We find that the low temperature monoclinic Cm structure disorders through a pair of phase transitions, first via a 3-state Potts-like transition to space group R3m, then via an Ising-like transition to the experimentally observed R 3 bar m symmetry. The R3m and Cm phases are electrically polarized, while the high temperature R 3 bar m phase is nonpolar.

  14. Correlation function of four spins in the percolation model

    NASA Astrophysics Data System (ADS)

    Dotsenko, Vladimir S.

    2016-10-01

    By using the Coulomb gas technics we calculate the four-spin correlation function in the percolation q → 1 limit of the Potts model. It is known that the four-point functions define the actual fusion rules of a particular model. In this respect, we find that fusion of two spins, of dimension Δσ =5/96, produce a new channel, in the 4-point function, which is due to the operator with dimension Δ = 5 / 8.

  15. On the nature of a supposed water model

    SciTech Connect

    Heckmann, Lotta Drossel, Barbara

    2014-08-15

    A cell model that has been proposed by Stanley and Franzese in 2002 for modeling water is based on Potts variables that represent the possible orientations of bonds between water molecules. We show that in the liquid phase, where all cells are occupied by a molecule, the Hamiltonian of the cell model can be rewritten as a Hamiltonian of a conventional Potts model, albeit with two types of coupling constants. We argue that such a model, while having a first-order phase transition, cannot display the critical end point that is postulated for the phase transition between a high- and low-density liquid. A closer look at the mean-field calculations that claim to find such an end point in the cell model reveals that the mean-field theory is constructed such that the symmetry constraints on the order parameter are violated. This is equivalent to introducing an external field. The introduction of such a field can be given a physical justification due to the fact that water does not have the type of long-range order occurring in the Potts model.

  16. Particle-based simulation of ellipse-shaped particle aggregation as a model for vascular network formation

    NASA Astrophysics Data System (ADS)

    Palachanis, Dimitrios; Szabó, András; Merks, Roeland M. H.

    2015-12-01

    Computational modeling is helpful for elucidating the cellular mechanisms driving biological morphogenesis. Previous simulation studies of blood vessel growth based on the cellular Potts model proposed that elongated, adhesive or mutually attractive endothelial cells suffice for the formation of blood vessel sprouts and vascular networks. Because each mathematical representation of a model introduces potential artifacts, it is important that model results are reproduced using alternative modeling paradigms. Here, we present a lattice-free, particle-based simulation of the cell elongation model of vasculogenesis. The new, particle-based simulations confirm the results obtained from the previous cellular Potts simulations. Furthermore, our current findings suggest that the emergence of order is possible with the application of a high enough attractive force or, alternatively, a longer attraction radius. The methodology will be applicable to a range of problems in morphogenesis and noisy particle aggregation in which cell shape is a key determining factor.

  17. A novel dynamics combination model reveals the hidden information of community structure

    NASA Astrophysics Data System (ADS)

    Li, Hui-Jia; Li, Huiying; Jia, Chuanliang

    2015-09-01

    The analysis of the dynamic details of community structure is an important question for scientists from many fields. In this paper, we propose a novel Markov-Potts framework to uncover the optimal community structures and their stabilities across multiple timescales. Specifically, we model the Potts dynamics to detect community structure by a Markov process, which has a clear mathematical explanation. Then the local uniform behavior of spin values revealed by our model is shown that can naturally reveal the stability of hierarchical community structure across multiple timescales. To prove the validity, phase transition of stochastic dynamic system is used to indicate that the stability of community structure we proposed is able to describe the significance of community structure based on eigengap theory. Finally, we test our framework on some example networks and find it does not have resolute limitation problem at all. Results have shown the model we proposed is able to uncover hierarchical structure in different scales effectively and efficiently.

  18. Improved CUDA programs for GPU computing of Swendsen-Wang multi-cluster spin flip algorithm: 2D and 3D Ising, Potts, and XY models

    NASA Astrophysics Data System (ADS)

    Komura, Yukihiro; Okabe, Yutaka

    2016-03-01

    We present new versions of sample CUDA programs for the GPU computing of the Swendsen-Wang multi-cluster spin flip algorithm. In this update, we add the method of GPU-based cluster-labeling algorithm without the use of conventional iteration (Komura, 2015) to those programs. For high-precision calculations, we also add a random-number generator in the cuRAND library. Moreover, we fix several bugs and remove the extra usage of shared memory in the kernel functions.

  19. 28 CFR 904.3 - State criminal history record screening standards.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 28 Judicial Administration 2 2012-07-01 2012-07-01 false State criminal history record screening standards. 904.3 Section 904.3 Judicial Administration NATIONAL CRIME PREVENTION AND PRIVACY COMPACT COUNCIL STATE CRIMINAL HISTORY RECORD SCREENING STANDARDS § 904.3 State criminal history record...

  20. 28 CFR 904.3 - State criminal history record screening standards.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 28 Judicial Administration 2 2010-07-01 2010-07-01 false State criminal history record screening standards. 904.3 Section 904.3 Judicial Administration NATIONAL CRIME PREVENTION AND PRIVACY COMPACT COUNCIL STATE CRIMINAL HISTORY RECORD SCREENING STANDARDS § 904.3 State criminal history record...

  1. 28 CFR 904.3 - State criminal history record screening standards.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 28 Judicial Administration 2 2013-07-01 2013-07-01 false State criminal history record screening standards. 904.3 Section 904.3 Judicial Administration NATIONAL CRIME PREVENTION AND PRIVACY COMPACT COUNCIL STATE CRIMINAL HISTORY RECORD SCREENING STANDARDS § 904.3 State criminal history record...

  2. 28 CFR 904.3 - State criminal history record screening standards.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... III System. (a) The State Criminal History Record Repository or an authorized agency in the receiving... 28 Judicial Administration 2 2011-07-01 2011-07-01 false State criminal history record screening... STATE CRIMINAL HISTORY RECORD SCREENING STANDARDS § 904.3 State criminal history record...

  3. 28 CFR 904.3 - State criminal history record screening standards.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... III System. (a) The State Criminal History Record Repository or an authorized agency in the receiving... 28 Judicial Administration 2 2014-07-01 2014-07-01 false State criminal history record screening... STATE CRIMINAL HISTORY RECORD SCREENING STANDARDS § 904.3 State criminal history record...

  4. Gibbosité vertébrale congénitale évoquant un mal de Pott chez un nouveau-né de mère tuberculeuse: à propos d'un cas et revue de la literature

    PubMed Central

    Katamea, Tina; Mukuku, Olivier; Luboya, Oscar Numbi

    2014-01-01

    Les formes latentes de tuberculose chez la femme enceinte sont associées à un risque élevé de passage à une forme active qui augmente le risque de transmission de la mère infectée à l'enfant dans les 3 premières semaines de vie. Nous rapportons un cas de Gibbosité vertébrale congénitale évoquant un mal de Pott chez un nourrisson de mère tuberculeuse, observé à Lubumbashi, en République Démocratique du Congo. PMID:25478046

  5. Low T3 State Is Correlated with Cardiac Mitochondrial Impairments after Ischemia Reperfusion Injury: Evidence from a Proteomic Approach

    PubMed Central

    Forini, Francesca; Ucciferri, Nadia; Kusmic, Claudia; Nicolini, Giuseppina; Cecchettini, Antonella; Rocchiccioli, Silvia; Citti, Lorenzo; Iervasi, Giorgio

    2015-01-01

    Mitochondria are major determinants of cell fate in ischemia/reperfusion injury (IR) and common effectors of cardio-protective strategies in cardiac ischemic disease. Thyroid hormone homeostasis critically affects mitochondrial function and energy production. Since a low T3 state (LT3S) is frequently observed in the post infarction setting, the study was aimed to investigate the relationship between 72 h post IR T3 levels and both the cardiac function and the mitochondrial proteome in a rat model of IR. The low T3 group exhibits the most compromised cardiac performance along with the worst mitochondrial activity. Accordingly, our results show a different remodeling of the mitochondrial proteome in the presence or absence of a LT3S, with alterations in groups of proteins that play a key role in energy metabolism, quality control and regulation of cell death pathways. Overall, our findings highlight a relationship between LT3S in the early post IR and poor cardiac and mitochondrial outcomes, and suggest a potential implication of thyroid hormone in the cardio-protection and tissue remodeling in ischemic disease. PMID:26561807

  6. Modeling cell shape and dynamics on micropatterns

    PubMed Central

    Albert, Philipp J.; Schwarz, Ulrich S.

    2016-01-01

    ABSTRACT Adhesive micropatterns have become a standard tool to study cells under defined conditions. Applications range from controlling the differentiation and fate of single cells to guiding the collective migration of cell sheets. In long-term experiments, single cell normalization is challenged by cell division. For all of these setups, mathematical models predicting cell shape and dynamics can guide pattern design. Here we review recent advances in predicting and explaining cell shape, traction forces and dynamics on micropatterns. Starting with contour models as the simplest approach to explain concave cell shapes, we move on to network and continuum descriptions as examples for static models. To describe dynamic processes, cellular Potts, vertex and phase field models can be used. Different types of model are appropriate to address different biological questions and together, they provide a versatile tool box to predict cell behavior on micropatterns. PMID:26838278

  7. The Fitness Landscape of HIV-1 Gag: Advanced Modeling Approaches and Validation of Model Predictions by In Vitro Testing

    PubMed Central

    Omarjee, Saleha; Walker, Bruce D.; Chakraborty, Arup; Ndung'u, Thumbi

    2014-01-01

    Viral immune evasion by sequence variation is a major hindrance to HIV-1 vaccine design. To address this challenge, our group has developed a computational model, rooted in physics, that aims to predict the fitness landscape of HIV-1 proteins in order to design vaccine immunogens that lead to impaired viral fitness, thus blocking viable escape routes. Here, we advance the computational models to address previous limitations, and directly test model predictions against in vitro fitness measurements of HIV-1 strains containing multiple Gag mutations. We incorporated regularization into the model fitting procedure to address finite sampling. Further, we developed a model that accounts for the specific identity of mutant amino acids (Potts model), generalizing our previous approach (Ising model) that is unable to distinguish between different mutant amino acids. Gag mutation combinations (17 pairs, 1 triple and 25 single mutations within these) predicted to be either harmful to HIV-1 viability or fitness-neutral were introduced into HIV-1 NL4-3 by site-directed mutagenesis and replication capacities of these mutants were assayed in vitro. The predicted and measured fitness of the corresponding mutants for the original Ising model (r = −0.74, p = 3.6×10−6) are strongly correlated, and this was further strengthened in the regularized Ising model (r = −0.83, p = 3.7×10−12). Performance of the Potts model (r = −0.73, p = 9.7×10−9) was similar to that of the Ising model, indicating that the binary approximation is sufficient for capturing fitness effects of common mutants at sites of low amino acid diversity. However, we show that the Potts model is expected to improve predictive power for more variable proteins. Overall, our results support the ability of the computational models to robustly predict the relative fitness of mutant viral strains, and indicate the potential value of this approach for understanding viral immune evasion

  8. The S3 state of photosystem II: differences between the structure of the manganese complex in the S2 and S3 states determined by X-ray absorption spectroscopy.

    PubMed

    Guiles, R D; Zimmermann, J L; McDermott, A E; Yachandra, V K; Cole, J L; Dexheimer, S L; Britt, R D; Wieghardt, K; Bossek, U; Sauer, K

    1990-01-16

    O2-evolving photosystem II (PSII) membranes from spinach have been cryogenically stabilized in the S3 state of the oxygen-evolving complex. The cryogenic trapping of the S3 state was achieved using a double-turnover illumination of dark-adapted PSII preparations maintained at 240 K. A double turnover of PSII was accomplished using the high-potential acceptor, Q400, which is the high-spin iron of the iron-quinone acceptor complex. EPR spectroscopy was the principal tool establishing the S-state composition and defining the electron-transfer events associated with a double turnover of PSII. The inflection point energy of the Mn X-ray absorption K-edge of PSII preparations poised in the S3 state is the same as for those poised in the S2 state. This is surprising in light of the loss of the multiline EPR signal upon advancing to the S3 state. This indicates that the oxidative equivalent stored within the oxygen-evolving complex (OEC) during this transition resides on another intermediate donor which must be very close to the manganese complex. An analysis of the Mn extended X-ray absorption fine structure (EXAFS) of PSII preparations poised in the S2 and S3 states indicates that a small structural rearrangement occurs during this photoinduced transition. A detailed comparison of the Mn EXAFS of these two S states with the EXAFS of four multinuclear mu-oxo-bridged manganese compounds indicates that the photosynthetic manganese site most probably consists of a pair of binuclear di-mu-oxo-bridged manganese structures. However, we cannot rule out, on the basis of the EXAFS analysis alone, a complex containing a mononuclear center and a linear trinuclear complex. The subtle differences observed between the S states are best explained by an increase in the spread of Mn-Mn distances occurring during the S2----S3 state transition. This increased disorder in the manganese distances suggests the presence of two inequivalent di-mu-oxo-bridged binuclear structures in the S3 state.

  9. The S sub 3 state of photosystem II: Differences between the structure of the manganese complex in the S sub 2 and S sub 3 states determined by X-ray absorption spectroscopy

    SciTech Connect

    Guiles, R.D.; Zimmermann, J.L.; McDermott, A.E.; Yachandra, V.K.; Cole, J.L.; Dexheimer, S.L.; Britt, R.D.; Sauer, K.; Klein, M.P. ); Wieghardt, K.; Bossek, U. )

    1990-01-16

    O{sub 2}-evolving photosystem II (PSII) membranes from spinach have been cryogenically stabilized in the S{sub 3} state of the oxygen-evolving complex. The cryogenic trapping of the S{sub 3} state was achieved using a double-turnover illumination of dark-adapted PSII preparations maintained at 240 K. A double turnover of PSII was accomplished using the high-potential acceptor, Q{sub 400}, which is the high-spin iron of the iron-quinone acceptor complex. EPR spectroscopy was the principal tool establishing the S-state composition and defining the electron-transfer events associated with a double turnover of PSII. The inflection point energy of the Mn X-ray absorption K-edge of PSII preparations poised in the S{sub 3} state is the same as for those poised in the S{sub 2} state. This is surprising in light of the loss of the multiline EPR signal upon advancing to the S{sub 3} state. This indicates that the oxidative equivalent stored within the oxygen-evolving complex (OEC) during this transition resides on another intermediate donor which must be very close to the manganese complex. An analysis of the Mn extended x-ray absorption fine structure (EXAFS) of PSII preparations poised in the S{sub 2} and S{sub 3} states indicates that a small structural rearrangement occurs during this photoinduced transition. A detailed comparison of the Mn EXAFS of these two S states with the EXAFS of four multinuclear {mu}-oxo-bridged manganese compounds indicates that the photosynthetic manganese site most probably consists of a pair of binuclear di-{mu}-oxo-bridged manganese structures.

  10. app_hybridPotts-phasefield.cpp

    2012-09-12

    This application simulates microstructural and compositional evolution in two-phase, two-component systems. It is designed to run within the SPPARKS solver and combines the kMC with solution to the Cahn-Hilliard Eq. for phase field.

  11. On multiscale approaches to three-dimensional modelling of morphogenesis

    PubMed Central

    Chaturvedi, R; Huang, C; Kazmierczak, B; Schneider, T; Izaguirre, J.A; Glimm, T; Hentschel, H.G.E; Glazier, J.A; Newman, S.A; Alber, M.S

    2005-01-01

    In this paper we present the foundation of a unified, object-oriented, three-dimensional biomodelling environment, which allows us to integrate multiple submodels at scales from subcellular to those of tissues and organs. Our current implementation combines a modified discrete model from statistical mechanics, the Cellular Potts Model, with a continuum reaction–diffusion model and a state automaton with well-defined conditions for cell differentiation transitions to model genetic regulation. This environment allows us to rapidly and compactly create computational models of a class of complex-developmental phenomena. To illustrate model development, we simulate a simplified version of the formation of the skeletal pattern in a growing embryonic vertebrate limb. PMID:16849182

  12. Draft of M2 Report on Integration of the Hybrid Hydride Model into INL's MBM Framework for Review

    SciTech Connect

    Tikare, Veena; Weck, Philippe F.; Schultz, Peter A.; Clark, Blythe; Glazoff, Michael; Homer, Eric

    2014-07-01

    This report documents the development, demonstration and validation of a mesoscale, microstructural evolution model for simulation of zirconium hydride {delta}-ZrH{sub 1.5} precipitation in the cladding of used nuclear fuels that may occur during long-term dry storage. While the Zr-based claddings are manufactured free of any hydrogen, they absorb hydrogen during service, in the reactor by a process commonly termed ‘hydrogen pick-up’. The precipitation and growth of zirconium hydrides during dry storage is one of the most likely fuel rod integrity failure mechanisms either by embrittlement or delayed hydride cracking of the cladding. While the phenomenon is well documented and identified as a potential key failure mechanism during long-term dry storage (NUREG/CR-7116), the ability to actually predict the formation of hydrides is poor. The model being documented in this work is a computational capability for the prediction of hydride formation in different claddings of used nuclear fuels. This work supports the Used Fuel Disposition Research and Development Campaign in assessing the structural engineering performance of the cladding during and after long-term dry storage. This document demonstrates a basic hydride precipitation model that is built on a recently developed hybrid Potts-phase field model that combines elements of Potts-Monte Carlo and the phase-field models. The model capabilities are demonstrated along with the incorporation of the starting microstructure, thermodynamics of the Zr-H system and the hydride formation mechanism.

  13. Star-triangle relation for a three-dimensional model

    SciTech Connect

    Bazhanov, V.V. Institute for High Eenrgy Physics, Protvino, Moscow Region ); Baxter, R.J. Australian National Univ., Canberra )

    1993-06-01

    The solvable sl(n)-chiral Potts model can be interpreted as a three-dimensional lattice model with local interactions. To within a minor modification of the boundary conditions it is an Ising-type model on the body-centered cubic lattice with two- and three-spin interactions. The corresponding local Boltzmann weights obey a number of simple relations, including a restricted star-triangle relation, which is a modified version of the well-known star-triangle relation appearing in two-dimensional models. It is shown that these relations lead to remarkable symmetry properties of the Boltzmann weight function of an elementary cube of the lattice, related to the spatial symmetry group of the cubic lattice. These symmetry properties allow one to prove the commutativity of the row-to-row transfer matrices, bypassing the tetrahedron relation. The partition function per site for the infinite lattice is calculated exactly. 20 refs., 4 figs.

  14. Prediabetes in rural and urban children in 3 states in Mexico.

    PubMed

    Aradillas-García, Celia; Malacara, Juan M; Garay-Sevilla, Ma Eugenia; Guízar, Juan M; Camacho, Nicolás; De la Cruz-Mendoza, Esperanza; Quemada, Leticia; Sierra, Juan Francisco Hernández

    2007-01-01

    The authors studied the frequency, distribution, and factors associated with prediabetes (fasting glucose, 100-125 mg/dL) in rural and urban children from San Luis Potosí, León, and Querétaro in central Mexico. Family history, somatometry, and levels of fasting insulin, glucose, and lipids were collected in 1238 children 6 to 13 years of age. The authors found no cases of type 2 diabetes and a 5.7% frequency of prediabetes. The group with prediabetes had higher homeostasis model assessment of insulin resistance scores and total cholesterol and high-density lipoprotein cholesterol levels. Prediabetes was more frequent in León, with similar distribution in rural and urban children. The frequency of insulin resistance was 24.1%, with higher figures in urban groups and in San Luis Potosí. In multivariate analysis, prediabetes was associated with insulin resistance and residence in León. The authors concluded that in central Mexico the frequency of prediabetes is significant, and it is associated with insulin resistance and a geographic location, but not with obesity or urban vs rural dwelling.

  15. The n-component cubic model and flows: Subgraph break-collapse method

    NASA Astrophysics Data System (ADS)

    de Magalhães, A. C. N.; Essam, J. W.

    1990-03-01

    We specialize to the n-component cubic model the subgraph break-collapse method which we recently developed for the Z(λ) model. The cubic model has less symmetry than the Potts model, for which the method was originally developed, but nevertheless it is still possible to reduce considerably the computational complexity of the general Z(λ) model. Our recursive algorithm is similar, for n=2, to the break-collapse method for the Z(4) model proposed by Mariz and co-workers. It allows the exact calculation for the partition function and correlation functions for n-component cubic clusters, with n as a variable, without the need to examine all of the spin configurations. An important application is therefore in real-space renormalization-group calculations.

  16. Super-Resolution Using Hidden Markov Model and Bayesian Detection Estimation Framework

    NASA Astrophysics Data System (ADS)

    Humblot, Fabrice; Mohammad-Djafari, Ali

    2006-12-01

    This paper presents a new method for super-resolution (SR) reconstruction of a high-resolution (HR) image from several low-resolution (LR) images. The HR image is assumed to be composed of homogeneous regions. Thus, the a priori distribution of the pixels is modeled by a finite mixture model (FMM) and a Potts Markov model (PMM) for the labels. The whole a priori model is then a hierarchical Markov model. The LR images are assumed to be obtained from the HR image by lowpass filtering, arbitrarily translation, decimation, and finally corruption by a random noise. The problem is then put in a Bayesian detection and estimation framework, and appropriate algorithms are developed based on Markov chain Monte Carlo (MCMC) Gibbs sampling. At the end, we have not only an estimate of the HR image but also an estimate of the classification labels which leads to a segmentation result.

  17. An approach to collective behavior in cell cultures: modeling and analysis of ECIS data

    NASA Astrophysics Data System (ADS)

    Rabson, David; Lafalce, Evan; Lovelady, Douglas; Lo, Chun-Min

    2011-03-01

    We review recent results in which statistical measures of noise in ECIS data distinguished healthy cell cultures from cancerous or poisoned ones: after subtracting the ``signal,'' the 1 /fα noise in the healthy cultures shows longer short-time and long-time correlations. We discuss application of an artificial neural network to detect the cancer signal, and we demonstrate a computational model of cell-cell communication that produces signals similar to those of the experimental data. The simulation is based on the q -state Potts model with inspiration from the Bak-Tang-Wiesenfeld sand-pile model. We view the level of organization larger than cells but smaller than organs or tissues as a kind of ``mesoscopic'' biological physics, in which few-body interactions dominate, and the experiments and computational model as ways of exploring this regime.

  18. Hybrid models for the simulation of microstructural evolution influenced by coupled, multiple physical processes.

    SciTech Connect

    Tikare, Veena; Hernandez-Rivera, Efrain; Madison, Jonathan D.; Holm, Elizabeth Ann; Patterson, Burton R.; Homer, Eric R.

    2013-09-01

    Most materials microstructural evolution processes progress with multiple processes occurring simultaneously. In this work, we have concentrated on the processes that are active in nuclear materials, in particular, nuclear fuels. These processes are coarsening, nucleation, differential diffusion, phase transformation, radiation-induced defect formation and swelling, often with temperature gradients present. All these couple and contribute to evolution that is unique to nuclear fuels and materials. Hybrid model that combines elements from the Potts Monte Carlo, phase-field models and others have been developed to address these multiple physical processes. These models are described and applied to several processes in this report. An important feature of the models developed are that they are coded as applications within SPPARKS, a Sandiadeveloped framework for simulation at the mesoscale of microstructural evolution processes by kinetic Monte Carlo methods. This makes these codes readily accessible and adaptable for future applications.

  19. Crawling and Gliding: A Computational Model for Shape-Driven Cell Migration

    PubMed Central

    Niculescu, Ioana; Textor, Johannes; de Boer, Rob J.

    2015-01-01

    Cell migration is a complex process involving many intracellular and extracellular factors, with different cell types adopting sometimes strikingly different morphologies. Modeling realistically behaving cells in tissues is computationally challenging because it implies dealing with multiple levels of complexity. We extend the Cellular Potts Model with an actin-inspired feedback mechanism that allows small stochastic cell rufflings to expand to cell protrusions. This simple phenomenological model produces realistically crawling and deforming amoeboid cells, and gliding half-moon shaped keratocyte-like cells. Both cell types can migrate randomly or follow directional cues. They can squeeze in between other cells in densely populated environments or migrate collectively. The model is computationally light, which allows the study of large, dense and heterogeneous tissues containing cells with realistic shapes and migratory properties. PMID:26488304

  20. Turnover control of photosystem II: Use of redox-active herbicides to form the S[sub 3] state

    SciTech Connect

    Bocarsly, J.R.; Brudvig, G.W. )

    1992-12-02

    The O[sub 2]-evolving center of photosystem II, which contains an active-site tetramanganese-oxo cluster, catalyzes the four-electron oxidation of two water molecules to dioxygen, with the concomitant production of four H[sup +] and four electrons. During catalytic turnover, the manganese-oxo cluster steps through five intermediate oxidation states, which are known as the S[sub i] states (i = 0-4). While methods have been found to manipulate the system into S[sub 1] and S[sub 2] in high yields, efficient production of the S[sub 3] state in good yield at high concentration has not yet been achieved. Previous methods have suffered from the requirement of low protein concentration so that actinic flashes are saturating; the use of temperature to control S-state advancement under continuous illumination, which can lead to S-state scrambling; or the use of herbicides that bind to the Q[sub B] site and restrict the system to one turnover. The authors describe here a method for the high-yield production of the S[sub 3] state in highly-concentrated samples of photosystem II, through the use of electron-accepting herbicides which bind to the Q[sub B] site. Redox-active herbicides can be used, in principle, to limit S-state cycling to any desired number of turnovers, given the appropriate herbicide. This work has fundamental methodological implications not only for the study of photosystem II but also for other multistate redox protein systems.

  1. Random field Ising model and community structure in complex networks

    NASA Astrophysics Data System (ADS)

    Son, S.-W.; Jeong, H.; Noh, J. D.

    2006-04-01

    We propose a method to determine the community structure of a complex network. In this method the ground state problem of a ferromagnetic random field Ising model is considered on the network with the magnetic field Bs = +∞, Bt = -∞, and Bi≠s,t=0 for a node pair s and t. The ground state problem is equivalent to the so-called maximum flow problem, which can be solved exactly numerically with the help of a combinatorial optimization algorithm. The community structure is then identified from the ground state Ising spin domains for all pairs of s and t. Our method provides a criterion for the existence of the community structure, and is applicable equally well to unweighted and weighted networks. We demonstrate the performance of the method by applying it to the Barabási-Albert network, Zachary karate club network, the scientific collaboration network, and the stock price correlation network. (Ising, Potts, etc.)

  2. Bayesian approaches to spatial inference: Modelling and computational challenges and solutions

    NASA Astrophysics Data System (ADS)

    Moores, Matthew; Mengersen, Kerrie

    2014-12-01

    We discuss a range of Bayesian modelling approaches for spatial data and investigate some of the associated computational challenges. This paper commences with a brief review of Bayesian mixture models and Markov random fields, with enabling computational algorithms including Markov chain Monte Carlo (MCMC) and integrated nested Laplace approximation (INLA). Following this, we focus on the Potts model as a canonical approach, and discuss the challenge of estimating the inverse temperature parameter that controls the degree of spatial smoothing. We compare three approaches to addressing the doubly intractable nature of the likelihood, namely pseudo-likelihood, path sampling and the exchange algorithm. These techniques are applied to satellite data used to analyse water quality in the Great Barrier Reef.

  3. An agent based multi-optional model for the diffusion of innovations

    NASA Astrophysics Data System (ADS)

    Laciana, Carlos E.; Oteiza-Aguirre, Nicolás

    2014-01-01

    We propose a model for the diffusion of several products competing in a common market based on the generalization of the Ising model of statistical mechanics (Potts model). Using an agent based implementation we analyze two problems: (i) a three options case, i.e. to adopt a product A, a product B, or non-adoption and (ii) a four option case, i.e. the adoption of product A, product B, both, or none. In the first case we analyze a launching strategy for one of the two products, which delays its launching with the objective of competing with improvements. Market shares reached by each product are then estimated at market saturation. Finally, simulations are carried out with varying degrees of social network topology, uncertainty, and population homogeneity.

  4. Multiscale dynamics of biological cells with chemotactic interactions: From a discrete stochastic model to a continuous description

    NASA Astrophysics Data System (ADS)

    Alber, Mark; Chen, Nan; Glimm, Tilmann; Lushnikov, Pavel M.

    2006-05-01

    The cellular Potts model (CPM) has been used for simulating various biological phenomena such as differential adhesion, fruiting body formation of the slime mold Dictyostelium discoideum, angiogenesis, cancer invasion, chondrogenesis in embryonic vertebrate limbs, and many others. We derive a continuous limit of a discrete one-dimensional CPM with the chemotactic interactions between cells in the form of a Fokker-Planck equation for the evolution of the cell probability density function. This equation is then reduced to the classical macroscopic Keller-Segel model. In particular, all coefficients of the Keller-Segel model are obtained from parameters of the CPM. Theoretical results are verified numerically by comparing Monte Carlo simulations for the CPM with numerics for the Keller-Segel model.

  5. Generalized approximate spin projection calculations of effective exchange integrals of the CaMn4O5 cluster in the S1 and S3 states of the oxygen evolving complex of photosystem II.

    PubMed

    Isobe, H; Shoji, M; Yamanaka, S; Mino, H; Umena, Y; Kawakami, K; Kamiya, N; Shen, J-R; Yamaguchi, K

    2014-06-28

    Full geometry optimizations followed by the vibrational analysis were performed for eight spin configurations of the CaMn4O4X(H2O)3Y (X = O, OH; Y = H2O, OH) cluster in the S1 and S3 states of the oxygen evolution complex (OEC) of photosystem II (PSII). The energy gaps among these configurations obtained by vertical, adiabatic and adiabatic plus zero-point-energy (ZPE) correction procedures have been used for computation of the effective exchange integrals (J) in the spin Hamiltonian model. The J values are calculated by the (1) analytical method and the (2) generalized approximate spin projection (AP) method that eliminates the spin contamination errors of UB3LYP solutions. Using J values derived from these methods, exact diagonalization of the spin Hamiltonian matrix was carried out, yielding excitation energies and spin densities of the ground and lower-excited states of the cluster. The obtained results for the right (R)- and left (L)-opened structures in the S1 and S3 states are found to be consistent with available optical and magnetic experimental results. Implications of the computational results are discussed in relation to (a) the necessity of the exact diagonalization for computations of reliable energy levels, (b) magneto-structural correlations in the CaMn4O5 cluster of the OEC of PSII, (c) structural symmetry breaking in the S1 and S3 states, and (d) the right- and left-handed scenarios for the O-O bond formation for water oxidation.

  6. Generalized approximate spin projection calculations of effective exchange integrals of the CaMn4O5 cluster in the S1 and S3 states of the oxygen evolving complex of photosystem II.

    PubMed

    Isobe, H; Shoji, M; Yamanaka, S; Mino, H; Umena, Y; Kawakami, K; Kamiya, N; Shen, J-R; Yamaguchi, K

    2014-06-28

    Full geometry optimizations followed by the vibrational analysis were performed for eight spin configurations of the CaMn4O4X(H2O)3Y (X = O, OH; Y = H2O, OH) cluster in the S1 and S3 states of the oxygen evolution complex (OEC) of photosystem II (PSII). The energy gaps among these configurations obtained by vertical, adiabatic and adiabatic plus zero-point-energy (ZPE) correction procedures have been used for computation of the effective exchange integrals (J) in the spin Hamiltonian model. The J values are calculated by the (1) analytical method and the (2) generalized approximate spin projection (AP) method that eliminates the spin contamination errors of UB3LYP solutions. Using J values derived from these methods, exact diagonalization of the spin Hamiltonian matrix was carried out, yielding excitation energies and spin densities of the ground and lower-excited states of the cluster. The obtained results for the right (R)- and left (L)-opened structures in the S1 and S3 states are found to be consistent with available optical and magnetic experimental results. Implications of the computational results are discussed in relation to (a) the necessity of the exact diagonalization for computations of reliable energy levels, (b) magneto-structural correlations in the CaMn4O5 cluster of the OEC of PSII, (c) structural symmetry breaking in the S1 and S3 states, and (d) the right- and left-handed scenarios for the O-O bond formation for water oxidation. PMID:24632787

  7. Coexistence of interacting opinions in a generalized Sznajd model

    NASA Astrophysics Data System (ADS)

    Timpanaro, André M.; Prado, Carmen P. C.

    2011-08-01

    The Sznajd model is a sociophysics model that mimics the propagation of opinions in a closed society, where the interactions favor groups of agreeing people. It is based in the Ising and Potts ferromagnetic models and, although the original model used only linear chains, it has since been adapted to general networks. This model has a very rich transient, which has been used to model several aspects of elections, but its stationary states are always consensus states. In order to model more complex behaviors, we have, in a recent work, introduced the idea of biases and prejudices to the Sznajd model by generalizing the bounded confidence rule, which is common to many continuous opinion models, to what we called confidence rules. In that work we have found that the mean field version of this model (corresponding to a complete network) allows for stationary states where noninteracting opinions survive, but never for the coexistence of interacting opinions. In the present work, we provide networks that allow for the coexistence of interacting opinions for certain confidence rules. Moreover, we show that the model does not become inactive; that is, the opinions keep changing, even in the stationary regime. This is an important result in the context of understanding how a rule that breeds local conformity is still able to sustain global diversity while avoiding a frozen stationary state. We also provide results that give some insights on how this behavior approaches the mean field behavior as the networks are changed.

  8. Hierarchical max-flow segmentation framework for multi-atlas segmentation with Kohonen self-organizing map based Gaussian mixture modeling.

    PubMed

    Rajchl, Martin; Baxter, John S H; McLeod, A Jonathan; Yuan, Jing; Qiu, Wu; Peters, Terry M; Khan, Ali R

    2016-01-01

    The incorporation of intensity, spatial, and topological information into large-scale multi-region segmentation has been a topic of ongoing research in medical image analysis. Multi-region segmentation problems, such as segmentation of brain structures, pose unique challenges in image segmentation in which regions may not have a defined intensity, spatial, or topological distinction, but rely on a combination of the three. We propose a novel framework within the Advanced segmentation tools (ASETS)(2), which combines large-scale Gaussian mixture models trained via Kohonen self-organizing maps, with deformable registration, and a convex max-flow optimization algorithm incorporating region topology as a hierarchy or tree. Our framework is validated on two publicly available neuroimaging datasets, the OASIS and MRBrainS13 databases, against the more conventional Potts model, achieving more accurate segmentations. Each component is accelerated using general-purpose programming on graphics processing Units to ensure computational feasibility. PMID:26072170

  9. A MULTISCALE, CELL-BASED FRAMEWORK FOR MODELING CANCER DEVELOPMENT

    SciTech Connect

    JIANG, YI

    2007-01-16

    Cancer remains to be one of the leading causes of death due to diseases. We use a systems approach that combines mathematical modeling, numerical simulation, in vivo and in vitro experiments, to develop a predictive model that medical researchers can use to study and treat cancerous tumors. The multiscale, cell-based model includes intracellular regulations, cellular level dynamics and intercellular interactions, and extracellular level chemical dynamics. The intracellular level protein regulations and signaling pathways are described by Boolean networks. The cellular level growth and division dynamics, cellular adhesion and interaction with the extracellular matrix is described by a lattice Monte Carlo model (the Cellular Potts Model). The extracellular dynamics of the signaling molecules and metabolites are described by a system of reaction-diffusion equations. All three levels of the model are integrated through a hybrid parallel scheme into a high-performance simulation tool. The simulation results reproduce experimental data in both avasular tumors and tumor angiogenesis. By combining the model with experimental data to construct biologically accurate simulations of tumors and their vascular systems, this model will enable medical researchers to gain a deeper understanding of the cellular and molecular interactions associated with cancer progression and treatment.

  10. Study of the attractor structure of an agent-based sociological model

    NASA Astrophysics Data System (ADS)

    Timpanaro, André M.; Prado, Carmen P. C.

    2011-03-01

    The Sznajd model is a sociophysics model that is based in the Potts model, and used for describing opinion propagation in a society. It employs an agent-based approach and interaction rules favouring pairs of agreeing agents. It has been successfully employed in modeling some properties and scale features of both proportional and majority elections (see for instance the works of A. T. Bernardes and R. N. Costa Filho), but its stationary states are always consensus states. In order to explain more complicated behaviours, we have modified the bounded confidence idea (introduced before in other opinion models, like the Deffuant model), with the introduction of prejudices and biases (we called this modification confidence rules), and have adapted it to the discrete Sznajd model. This generalized Sznajd model is able to reproduce almost all of the previous versions of the Sznajd model, by using appropriate choices of parameters. We solved the attractor structure of the resulting model in a mean-field approach and made Monte Carlo simulations in a Barabási-Albert network. These simulations show great similarities with the mean-field, for the tested cases of 3 and 4 opinions. The dynamical systems approach that we devised allows for a deeper understanding of the potential of the Sznajd model as an opinion propagation model and can be easily extended to other models, like the voter model. Our modification of the bounded confidence rule can also be readily applied to other opinion propagation models.

  11. Substrate water exchange for the oxygen evolving complex in PSII in the S1, S2, and S3 states.

    PubMed

    Siegbahn, Per E M

    2013-06-26

    Detailed mechanisms for substrate water exchange in the oxygen evolving complex in photosystem II have been determined with DFT methods for large models. Existing interpretations of the experimental water exchange results have been quite different. By many groups, these results have been the main argument against the water oxidation mechanism suggested by DFT, in which the oxygen molecule is formed between a bridging oxo and an oxyl radical ligand in the center of the OEC. That mechanism is otherwise in line with most experiments. The problem has been that the mechanism requires a rather fast exchange of a bridging oxo ligand, which is not a common finding for smaller Mn-containing model systems. However, other groups have actually favored a substrate derived oxo ligand partly based on the same experiments. In the present study, three S-states have been studied, and the rates have been well reproduced by the calculations. The surprising experimental finding that water exchange in S1 is slower than the one in S2 is reproduced and explained. The key to this rate difference is the ease by which one of the manganese centers (Mn3) is reduced. This reduction has to occur to release the substrate water from Mn3. The similar rate of the slow exchange in S2 and S3 has been rationalized on the basis of earlier experiments combined with the present calculations. The results strongly support the previous DFT-suggested water oxidation mechanism.

  12. SiO masers from AGB stars in the vibrationally excited v = 1, v = 2, and v = 3 states

    NASA Astrophysics Data System (ADS)

    Desmurs, J.-F.; Bujarrabal, V.; Lindqvist, M.; Alcolea, J.; Soria-Ruiz, R.; Bergman, P.

    2014-05-01

    Context. The v = 1 and v = 2 J = 1-0 (43 GHz), and v = 1 J = 2-1 (86 GHz) SiO masers are intense in asymptotic giant branch (AGB) stars and have been mapped using very long baseline interferometry (VLBI) showing ring-like distributions. Those of the v = 1, v = 2 J = 1-0 masers are similar, but the spots are rarely coincident, while the v = 1 J = 2-1 maser arises from a well-separated region farther out. These relative locations can be explained by models tools that include the overlap of two IR lines of SiO and H2O. The v = 3 J = 1-0 line is not directly affected by any line overlap and its spot structure and position, relative to the other lines, is a good test to the standard pumping models. Aims: The aim of this project are to gain insight into the properties and the general theoretical considerations of the different SiO masers that can help to understand them. Methods: We present single-dish and simultaneous VLBI observations of the v = 1, v = 2, and v = 3 J = 1-0 maser transitions of 28SiO in several AGB stars. The results are compared to the predictions of radiative models of SiO masers that both include and not include the effect of IR line overlap. Results: The spatial distribution of the SiO maser emission in the v = 3 J = 1-0 transition from AGB stars is systematically composed of a series of spots that occupy a ring-like structure (as often found in SiO masers). The overall ring structure is extremely similar to that found in the other 43 GHz transitions and is very different from the structure of the v = 1 J = 2-1 maser. The positions of the individual spots of the different 43 GHz lines are, however, very rarely coincident, which in general is separated by about 0.3 AU (between 1 and 5 mas). These results are very difficult to reconcile with standard pumping models, which predict that the masers of rotational transitions within a given vibrational state require very similar excitation conditions (since the levels are placed practically at the same

  13. Simple model for multiple-choice collective decision making.

    PubMed

    Lee, Ching Hua; Lucas, Andrew

    2014-11-01

    We describe a simple model of heterogeneous, interacting agents making decisions between n≥2 discrete choices. For a special class of interactions, our model is the mean field description of random field Potts-like models and is effectively solved by finding the extrema of the average energy E per agent. In these cases, by studying the propagation of decision changes via avalanches, we argue that macroscopic dynamics is well captured by a gradient flow along E. We focus on the permutation symmetric case, where all n choices are (on average) the same, and spontaneous symmetry breaking (SSB) arises purely from cooperative social interactions. As examples, we show that bimodal heterogeneity naturally provides a mechanism for the spontaneous formation of hierarchies between decisions and that SSB is a preferred instability to discontinuous phase transitions between two symmetric points. Beyond the mean field limit, exponentially many stable equilibria emerge when we place this model on a graph of finite mean degree. We conclude with speculation on decision making with persistent collective oscillations. Throughout the paper, we emphasize analogies between methods of solution to our model and common intuition from diverse areas of physics, including statistical physics and electromagnetism. PMID:25493831

  14. Simple model for multiple-choice collective decision making.

    PubMed

    Lee, Ching Hua; Lucas, Andrew

    2014-11-01

    We describe a simple model of heterogeneous, interacting agents making decisions between n≥2 discrete choices. For a special class of interactions, our model is the mean field description of random field Potts-like models and is effectively solved by finding the extrema of the average energy E per agent. In these cases, by studying the propagation of decision changes via avalanches, we argue that macroscopic dynamics is well captured by a gradient flow along E. We focus on the permutation symmetric case, where all n choices are (on average) the same, and spontaneous symmetry breaking (SSB) arises purely from cooperative social interactions. As examples, we show that bimodal heterogeneity naturally provides a mechanism for the spontaneous formation of hierarchies between decisions and that SSB is a preferred instability to discontinuous phase transitions between two symmetric points. Beyond the mean field limit, exponentially many stable equilibria emerge when we place this model on a graph of finite mean degree. We conclude with speculation on decision making with persistent collective oscillations. Throughout the paper, we emphasize analogies between methods of solution to our model and common intuition from diverse areas of physics, including statistical physics and electromagnetism.

  15. Criticality in self-dual sine-Gordon models

    NASA Astrophysics Data System (ADS)

    Lecheminant, P.; Gogolin, Alexander O.; Nersesyan, Alexander A.

    2002-09-01

    We discuss the nature of criticality in the β2=2 πN self-dual extension of the sine-Gordon model. This field theory is related to the two-dimensional classical XY model with a N-fold degenerate symmetry-breaking field. We briefly overview the already studied cases N=2,4 and analyze in detail the case N=3 where a single phase transition in the three-state Potts universality class is expected to occur. The Z3 infrared critical properties of the β2=6 π self-dual sine-Gordon model are derived using two non-perturbative approaches. On one hand, we map the model onto an integrable deformation of the Z4 parafermion theory. The latter is known to flow to a massless Z3 infrared fixed point. Another route is based on the connection with a chirally asymmetric, su(2) 4⊗su(2) 1 Wess-Zumino-Novikov-Witten model with anisotropic current-current interaction, where we explore the existence of a decoupling (Toulouse) point.

  16. Infrared and Microwave Spectra and Force Field of DBO: The Coriolis Interaction between the nu1 and nu2 + nu3 States.

    PubMed

    Kawashima; Colarusso; Zhang; Bernath; Hirota

    1998-11-01

    The nu1 and nu3 bands of D11BO and the nu1 band of D10BO were observed by using an infrared diode laser spectrometer. The DBO molecule was generated by an ac discharge in a mixture of BCl3, D2, O2, and He. As inferred previously, a strong Coriolis interaction was in fact found to take place between the nu1 and nu2 + nu3 states, and an analysis of the observed nu1 spectra, which explicitly took into account this Coriolis interaction, predicted the pure rotational transition frequencies of DBO in the nu1 state. Pure rotational lines were then detected by microwave spectroscopy, confirming the validity of the infrared assignment. In the microwave experiment DBO molecules were generated by a discharge in a mixture of B2D6 and O2. The three fundamental bands and a hot band of D11BO, as well as the nu1 and nu3 bands of D10BO, were subsequently recorded in emission with a Fourier transform infrared spectrometer. DBO molecules were generated by the reaction of D2 with HBO at temperatures above 800 degreesC in a ceramic tube furnace. All of the observed spectra were simultaneously subjected to a least-squares analysis to obtain molecular parameters in the ground, nu1, nu2, nu3, and nu2 + nu3 states. The results thus obtained improved the force field and molecular structure of the HBO/DBO molecules reported in a previous study (Y. Kawashima, Y. Endo, and E. Hirota, 1989, J. Mol. Spectrosc. 133, 116-127). Copyright 1998 Academic Press.

  17. Completely packed O (n ) loop models and their relation with exactly solved coloring models

    NASA Astrophysics Data System (ADS)

    Wang, Yougang; Guo, Wenan; Blöte, Henk W. J.

    2015-03-01

    We investigate the completely packed O (n ) loop model on the square lattice, and its generalization to an Eulerian graph model, which follows by including cubic vertices which connect the four incoming loop segments. This model includes crossing bonds as well. Our study was inspired by existing exact solutions of the so-called coloring model due to Schultz and Perk [Phys. Rev. Lett. 46, 629 (1981), 10.1103/PhysRevLett.46.629], which is shown to be equivalent with our generalized loop model. We explore the physical properties and the phase diagram of this model by means of transfer-matrix calculations and finite-size scaling. The exact results, which include seven one-dimensional branches in the parameter space of our generalized loop model, are compared to our numerical results. The results for the phase behavior also extend to parts of the parameter space beyond the exactly solved subspaces. One of the exactly solved branches describes the case of nonintersecting loops and was already known to correspond with the ordering transition of the Potts model. Another exactly solved branch, describing a model with nonintersecting loops and cubic vertices, corresponds with a first-order, Ising-like phase transition for n >2 . For 1 2 this branch is the locus of a first-order phase boundary between a phase with a hard-square, lattice-gas-like ordering and a phase dominated by cubic vertices. A mean-field argument explains the first-order nature of this transition.

  18. Duality methods in networks, computer science models, and disordered condensed matter systems

    NASA Astrophysics Data System (ADS)

    Mitchell, Joseph Dan

    In this thesis, I explore lattice independent duality and systems to which it can be applied. I first demonstrate classical duality on models in an external field, including the Ising, Potts, and x -- y models, showing in particular how this modifies duality to be lattice independent and applicable to networks. I then present a novel application of duality on the boolean satsifiability problem, one of the most important problems in computational complexity, through mapping to a low temperature Ising model. This establishes the equivalence between boolean satisfiability and a problem of enumerating the positive solutions to a Diophantine system of equations. I continue by combining duality with a prominent tool for models on networks, belief propagation, deriving a new message passing procedure, dual belief propagation. In the final part of my thesis, I shift to propose and examine a semiclassical model, the two-component Coulomb glass model, which can explain the giant magnetoresistance peak present in disordered films near a superconductor-insulator transition as the effect of competition between single particle and localized pair transport. I numerically analyze the density of states and transport properties of this model.

  19. Geometric entanglement and quantum phase transitions in two-dimensional quantum lattice models

    NASA Astrophysics Data System (ADS)

    Shi, Qian-Qian; Wang, Hong-Lei; Li, Sheng-Hao; Cho, Sam Young; Batchelor, Murray T.; Zhou, Huan-Qiang

    2016-06-01

    Geometric entanglement (GE), as a measure of multipartite entanglement, has been investigated as a universal tool to detect phase transitions in quantum many-body lattice models. In this paper we outline a systematic method to compute GE for two-dimensional (2D) quantum many-body lattice models based on the translational invariant structure of infinite projected entangled pair state (iPEPS) representations. By employing this method, the q -state quantum Potts model on the square lattice with q ∈{2 ,3 ,4 ,5 } is investigated as a prototypical example. Further, we have explored three 2D Heisenberg models: the antiferromagnetic spin-1/2 X X X and anisotropic X Y X models in an external magnetic field, and the antiferromagnetic spin-1 X X Z model. We find that continuous GE does not guarantee a continuous phase transition across a phase transition point. We observe and thus classify three different types of continuous GE across a phase transition point: (i) GE is continuous with maximum value at the transition point and the phase transition is continuous, (ii) GE is continuous with maximum value at the transition point but the phase transition is discontinuous, and (iii) GE is continuous with nonmaximum value at the transition point and the phase transition is continuous. For the models under consideration, we find that the second and the third types are related to a point of dual symmetry and a fully polarized phase, respectively.

  20. Dynamical systems approach to the study of a sociophysics agent-based model

    SciTech Connect

    Timpanaro, Andre M.; Prado, Carmen P. C.

    2011-03-24

    The Sznajd model is a Potts-like model that has been studied in the context of sociophysics [1,2](where spins are interpreted as opinions). In a recent work [3], we generalized the Sznajd model to include assymetric interactions between the spins (interpreted as biases towards opinions) and used dynamical systems techniques to tackle its mean-field version, given by the flow: {eta}{sub {sigma}} = {Sigma}{sub {sigma}}'{sup M} = 1{eta}{sub {sigma}}{eta}{sigma}'({eta}{sub {sigma}}{rho}{sigma}'{yields}{sigma}-{sigma}'{rho}{sigma}{yields}{sigma}').Where hs is the proportion of agents with opinion (spin){sigma}', M is the number of opinions and {sigma}'{yields}{sigma}' is the probability weight for an agent with opinion {sigma} being convinced by another agent with opinion {sigma}'. We made Monte Carlo simulations of the model in a complex network (using Barabasi-Albert networks [4]) and they displayed the same attractors than the mean-field. Using linear stability analysis, we were able to determine the mean-field attractor structure analytically and to show that it has connections with well known graph theory problems (maximal independent sets and positive fluxes in directed graphs). Our dynamical systems approach is quite simple and can be used also in other models, like the voter model.

  1. Ashkin-Teller model and diverse opinion phase transitions on multiplex networks

    NASA Astrophysics Data System (ADS)

    Jang, S.; Lee, J. S.; Hwang, S.; Kahng, B.

    2015-08-01

    Multiplex networks (MNs) have become a platform of recent research in network sciences because networks in many real-world systems interact and function together. One of the main scientific issues in MNs is how the interdependence changes the emerging patterns or phase transitions. Until now, studies of such an issue have concentrated on cluster-breakdown phenomena, aiming to understand the resilience of the system under random failures of edges. These studies have revealed that various phase transition (PT) types emerge in MNs. However, such studies are rather limited to percolation-related problems, i.e., the limit q →1 of the q -state Potts model. Thus, a systematic study of opinion formation in social networks with the effect of interdependence between different social communities, which may be seen as the study of the emerging pattern of the Ising model on MNs, is needed. Here we study a well-known spin model called the Ashkin-Teller (AT) model in scale-free networks. The AT model can be regarded as a model for interacting systems between two species of Ising spins placed on respective layers in double-layer networks. Our study shows that, depending on the interlayer coupling strength and a network topology, unconventional PT patterns can also emerge in interaction-based phenomena: continuous, discontinuous, successive, and mixed-order PTs and a continuous PT not satisfying the scaling relation. The origins of such rich PT patterns are elucidated in the framework of Landau-Ginzburg theory.

  2. Ashkin-Teller model and diverse opinion phase transitions on multiplex networks.

    PubMed

    Jang, S; Lee, J S; Hwang, S; Kahng, B

    2015-08-01

    Multiplex networks (MNs) have become a platform of recent research in network sciences because networks in many real-world systems interact and function together. One of the main scientific issues in MNs is how the interdependence changes the emerging patterns or phase transitions. Until now, studies of such an issue have concentrated on cluster-breakdown phenomena, aiming to understand the resilience of the system under random failures of edges. These studies have revealed that various phase transition (PT) types emerge in MNs. However, such studies are rather limited to percolation-related problems, i.e., the limit q→1 of the q-state Potts model. Thus, a systematic study of opinion formation in social networks with the effect of interdependence between different social communities, which may be seen as the study of the emerging pattern of the Ising model on MNs, is needed. Here we study a well-known spin model called the Ashkin-Teller (AT) model in scale-free networks. The AT model can be regarded as a model for interacting systems between two species of Ising spins placed on respective layers in double-layer networks. Our study shows that, depending on the interlayer coupling strength and a network topology, unconventional PT patterns can also emerge in interaction-based phenomena: continuous, discontinuous, successive, and mixed-order PTs and a continuous PT not satisfying the scaling relation. The origins of such rich PT patterns are elucidated in the framework of Landau-Ginzburg theory. PMID:26382347

  3. Phase transition in a spatial Lotka-Volterra model.

    PubMed

    Szabó, G; Czárán, T

    2001-06-01

    Spatial evolution is investigated in a simulated system of nine competing and mutating bacterium strains, which mimics the biochemical war among bacteria capable of producing two different bacteriocins (toxins) at most. Random sequential dynamics on a square lattice is governed by very symmetrical transition rules for neighborhood invasions of sensitive strains by killers, killers by resistants, and resistants by sensitives. The community of the nine possible toxicity/resistance types undergoes a critical phase transition as the uniform transmutation rates between the types decreases below a critical value P(c) above that all the nine types of strains coexist with equal frequencies. Passing the critical mutation rate from above, the system collapses into one of three topologically identical (degenerated) states, each consisting of three strain types. Of the three possible final states each accrues with equal probability and all three maintain themselves in a self-organizing polydomain structure via cyclic invasions. Our Monte Carlo simulations support that this symmetry-breaking transition belongs to the universality class of the three-state Potts model.

  4. Phase transition in a spatial Lotka-Volterra model

    NASA Astrophysics Data System (ADS)

    Szabó, György; Czárán, Tamás

    2001-06-01

    Spatial evolution is investigated in a simulated system of nine competing and mutating bacterium strains, which mimics the biochemical war among bacteria capable of producing two different bacteriocins (toxins) at most. Random sequential dynamics on a square lattice is governed by very symmetrical transition rules for neighborhood invasions of sensitive strains by killers, killers by resistants, and resistants by sensitives. The community of the nine possible toxicity/resistance types undergoes a critical phase transition as the uniform transmutation rates between the types decreases below a critical value Pc above that all the nine types of strains coexist with equal frequencies. Passing the critical mutation rate from above, the system collapses into one of three topologically identical (degenerated) states, each consisting of three strain types. Of the three possible final states each accrues with equal probability and all three maintain themselves in a self-organizing polydomain structure via cyclic invasions. Our Monte Carlo simulations support that this symmetry-breaking transition belongs to the universality class of the three-state Potts model.

  5. Markov random field driven region-based active contour model (MaRACel): application to medical image segmentation.

    PubMed

    Xu, Jun; Monaco, James P; Madabhushi, Anant

    2010-01-01

    In this paper we present a Markov random field (MRF) driven region-based active contour model (MaRACel) for medical image segmentation. State-of-the-art region-based active contour (RAC) models assume that every spatial location in the image is statistically independent of the others, thereby ignoring valuable contextual information. To address this shortcoming we incorporate a MRF prior into the AC model, further generalizing Chan & Vese's (CV) and Rousson and Deriche's (RD) AC models. This incorporation requires a Markov prior that is consistent with the continuous variational framework characteristic of active contours; consequently, we introduce a continuous analogue to the discrete Potts model. To demonstrate the effectiveness of MaRACel, we compare its performance to those of the CV and RD AC models in the following scenarios: (1) the qualitative segmentation of a cancerous lesion in a breast DCE-MR image and (2) the qualitative and quantitative segmentations of prostatic acini (glands) in 200 histopathology images. Across the 200 prostate needle core biopsy histology images, MaRACel yielded an average sensitivity, specificity, and positive predictive value of 71%, 95%, 74% with respect to the segmented gland boundaries; the CV and RD models have corresponding values of 19%, 81%, 20% and 53%, 88%, 56%, respectively.

  6. Modeling Of Microstructure Evolution Of BCC Metals Subjected To Severe Plastic Deformation

    NASA Astrophysics Data System (ADS)

    Svyetlichnyy, Dmytro; Majta, Janusz; Muszka, Krzysztof; Łach, Łukasz

    2011-01-01

    Prediction of microstructure evolution and properties of ultrafine-grained materials is one of the most significant, current problems in materials science. Several advanced methods of analysis can be applied for this issue: vertex models, phase field models, Monte Carlo Potts, finite element method (FEM) discrete element method (DEM) and finally cellular automata (CA). The main asset of the CA is ability for a close correlation of the microstructure with the mechanical properties in micro- and meso-scale simulation. Joining CA with the DEM undoubtedly improves accuracy of modeling of coupled phenomena during the innovative forming processes in both micro- and macro-scale. Deformation in micro-scale shows anisotropy, which connected with that the polycrystalline material contains grains with different crystallographic orientation, and grain deformation is depended from configuration of directions of main stresses and axis of grain. Then, CA and DEM must be joint solutions of crystal plasticity theory. In the present model, deformation in macro-scale is transferred to meso-sale, where a block contains several, score or hundreds grains, and then is applied in micro-scale to each grain. Creation of low-angle boundaries and their development into high-angle boundaries are simulated by the cellular automata on the base of calculations using finite element method and crystal plasticity theory. The idea proposed in this study and particular solutions are discussed for the case of ultrafine-grained low-carbon steel.

  7. Genetic demixing and evolution in linear stepping stone models

    NASA Astrophysics Data System (ADS)

    Korolev, K. S.; Avlund, Mikkel; Hallatschek, Oskar; Nelson, David R.

    2010-04-01

    Results for mutation, selection, genetic drift, and migration in a one-dimensional continuous population are reviewed and extended. The population is described by a continuous limit of the stepping stone model, which leads to the stochastic Fisher-Kolmogorov-Petrovsky-Piscounov equation with additional terms describing mutations. Although the stepping stone model was first proposed for population genetics, it is closely related to “voter models” of interest in nonequilibrium statistical mechanics. The stepping stone model can also be regarded as an approximation to the dynamics of a thin layer of actively growing pioneers at the frontier of a colony of micro-organisms undergoing a range expansion on a Petri dish. The population tends to segregate into monoallelic domains. This segregation slows down genetic drift and selection because these two evolutionary forces can only act at the boundaries between the domains; the effects of mutation, however, are not significantly affected by the segregation. Although fixation in the neutral well-mixed (or “zero-dimensional”) model occurs exponentially in time, it occurs only algebraically fast in the one-dimensional model. An unusual sublinear increase is also found in the variance of the spatially averaged allele frequency with time. If selection is weak, selective sweeps occur exponentially fast in both well-mixed and one-dimensional populations, but the time constants are different. The relatively unexplored problem of evolutionary dynamics at the edge of an expanding circular colony is studied as well. Also reviewed are how the observed patterns of genetic diversity can be used for statistical inference and the differences are highlighted between the well-mixed and one-dimensional models. Although the focus is on two alleles or variants, q -allele Potts-like models of gene segregation are considered as well. Most of the analytical results are checked with simulations and could be tested against recent spatial

  8. Spatial Modeling of Drug Delivery Routes for Treatment of Disseminated Ovarian Cancer.

    PubMed

    Winner, Kimberly R Kanigel; Steinkamp, Mara P; Lee, Rebecca J; Swat, Maciej; Muller, Carolyn Y; Moses, Melanie E; Jiang, Yi; Wilson, Bridget S

    2016-03-15

    In ovarian cancer, metastasis is typically confined to the peritoneum. Surgical removal of the primary tumor and macroscopic secondary tumors is a common practice, but more effective strategies are needed to target microscopic spheroids persisting in the peritoneal fluid after debulking surgery. To treat this residual disease, therapeutic agents can be administered by either intravenous or intraperitoneal infusion. Here, we describe the use of a cellular Potts model to compare tumor penetration of two classes of drugs (cisplatin and pertuzumab) when delivered by these two alternative routes. The model considers the primary route when the drug is administered either intravenously or intraperitoneally, as well as the subsequent exchange into the other delivery volume as a secondary route. By accounting for these dynamics, the model revealed that intraperitoneal infusion is the markedly superior route for delivery of both small-molecule and antibody therapies into microscopic, avascular tumors typical of patients with ascites. Small tumors attached to peritoneal organs, with vascularity ranging from 2% to 10%, also show enhanced drug delivery via the intraperitoneal route, even though tumor vessels can act as sinks during the dissemination of small molecules. Furthermore, we assessed the ability of the antibody to enter the tumor by in silico and in vivo methods and suggest that optimization of antibody delivery is an important criterion underlying the efficacy of these and other biologics. The use of both delivery routes may provide the best total coverage of tumors, depending on their size and vascularity. PMID:26719526

  9. Spatially regularized mixture model for lesion segmentation with application to stroke patients.

    PubMed

    Ozenne, Brice; Subtil, Fabien; Østergaard, Leif; Maucort-Boulch, Delphine

    2015-07-01

    In medical imaging, lesion segmentation (differentiation between lesioned and non-lesioned tissue) is a crucial and difficult task. Automated segmentation algorithms based on intensity analysis have been already proposed and recent developments have shown that integrating spatial information enhances automatic image segmentation. However, spatial modeling is often limited to short-range spatial interactions that deal only with noise or small artifacts. Previous tissue alterations (e.g. white matter disease (WMD)) similar in intensity with the lesion of interest require a broader-scale approach to be corrected. On the other hand, imaging techniques offer now a multiparametric voxel characterization that may help differentiating lesioned from non-lesioned voxels. We developed an unsupervised multivariate segmentation algorithm based on finite mixture modeling that incorporates spatial information. We extended the usual spatial Potts model to the regional scale using a 'multi-order' neighborhood potential, with internal adjustment of the regional scale according to the lesion size. We validate the ability of this new algorithm to deal with noise and artifacts (linear and spherical) using artificial data. We then assess its performance on real magnetic resonance imaging brain scans of stroke patients with history of WMD and show that regional regularization was able to remove large-scale WMD artifacts.

  10. Multilayered 3D Lidar image construction using spatial models in a Bayesian framework.

    PubMed

    Hernandez-Marin, Sergio; Wallace, Andrew M; Gibson, Gavin J

    2008-06-01

    Standard 3D imaging systems process only a single return at each pixel from an assumed single opaque surface. However, there are situations when the laser return consists of multiple peaks due to the footprint of the beam impinging on a target with surfaces distributed in depth or with semi-transparent surfaces. If all these returns are processed, a more informative multi-layered 3D image is created. We propose a unified theory of pixel processing for Lidar data using a Bayesian approach that incorporates spatial constraints through a Markov Random Field with a Potts prior model. This allows us to model uncertainty about the underlying spatial process. To palliate some inherent deficiencies of this prior model, we also introduce two proposal distributions, one based on spatial mode jumping, the other on a spatial birth/death process. The different parameters of the several returns are estimated using reversible jump Markov chain Monte Carlo (RJMCMC) techniques in combination with an adaptive strategy of delayed rejection to improve the estimates of the parameters. PMID:18421108

  11. A multiphase microscopic diffusion model for stratum corneum permeability. II. Estimation of physicochemical parameters, and application to a large permeability database.

    PubMed

    Wang, Tsuo-Feng; Kasting, Gerald B; Nitsche, Johannes M

    2007-11-01

    The full parameterization for the stratum corneum biphasic microtransport model presented previously in this Journal [95:620-648 (2006)] is developed through a combination of fundamental transport theory and calibration with existing data. Of the five microscopic transport properties, four (D(cor), K(cor/w), D(lip), K(lip/w)) are developed from sources independent of the existing steady-state permeability database. The fifth parameter, k(trans) (the mass transfer coefficient for transbilayer hopping), is derived from a fit of the model to the permeability data according to a modified free surface area function of the form log(10) k(trans) = A-B x (MW)(1/3). Examination of the experimental data in terms of the two dimensionless groups, R and sigma, arising from the analysis leads to the conclusion that SC permeation for most compounds is dominated by the transcellular pathway regardless of their lipophilicity, a striking departure from recent skin permeability models. Overall fit of the developed model(s) to the permeability data is somewhat better than for the Potts-Guy equation and variants thereof; however, marked improvement is seen in the estimation of lag times and the related potential for predicting skin hydration effects and transient skin permeation profiles. Simple approximations to the full numerical solution are presented that allow the developed model(s) to be implemented on a spreadsheet.

  12. Organizing boundary RG flows

    NASA Astrophysics Data System (ADS)

    Fredenhagen, Stefan

    2003-06-01

    We show how a large class of boundary RG flows in two-dimensional conformal field theories can be summarized in a single rule. This rule is a generalization of the 'absorption of the boundary spin'-principle of Affleck and Ludwig and applies to all theories which have a description as a coset model. We give a formulation for coset models with arbitrary modular invariant partition function and present evidence for the conjectured rule. The second half of the article contains an illustrated section of examples where the rule is applied to unitary minimal models of the A- and D-series, in particular, the 3-state Potts model, and to parafermion theories. We demonstrate how the rule can be used to compute brane charge groups in the example of N=2 minimal models.

  13. Role of further-neighbor interactions in modulating the critical behavior of the Ising model with frustration.

    PubMed

    Liu, R M; Zhuo, W Z; Dong, S; Lu, X B; Gao, X S; Qin, M H; Liu, J-M

    2016-03-01

    In this work, we investigate the phase transitions and critical behaviors of the frustrated J(1)-J(2)-J(3) Ising model on the square lattice using Monte Carlo simulations, and particular attention goes to the effect of the second-next-nearest-neighbor interaction J(3) on the phase transition from a disordered state to the single stripe antiferromagnetic state. A continuous Ashkin-Teller-like transition behavior in a certain range of J(3) is identified, while the four-state Potts-critical end point [J(3)/J(1)](C) is estimated based on the analytic method reported in earlier work [Jin, Sen, and Sandvik, Phys. Rev. Lett. 108, 045702 (2012)]. It is suggested that the interaction J(3) can tune the transition temperature and in turn modulate the critical behaviors of the frustrated model. Furthermore, it is revealed that an antiferromagnetic J(3) can stabilize the staggered dimer state via a phase transition of strong first-order character. PMID:27078299

  14. Computer simulation of topological evolution in 2-d grain growth using a continuum diffuse-interface field model

    SciTech Connect

    Fan, D.; Geng, C.; Chen, L.Q.

    1997-03-01

    The local kinetics and topological phenomena during normal grain growth were studied in two dimensions by computer simulations employing a continuum diffuse-interface field model. The relationships between topological class and individual grain growth kinetics were examined, and compared with results obtained previously from analytical theories, experimental results and Monte Carlo simulations. It was shown that both the grain-size and grain-shape (side) distributions are time-invariant and the linear relationship between the mean radii of individual grains and topological class n was reproduced. The moments of the shape distribution were determined, and the differences among the data from soap froth. Potts model and the present simulation were discussed. In the limit when the grain size goes to zero, the average number of grain edges per grain is shown to be between 4 and 5, implying the direct vanishing of 4- and 5-sided grains, which seems to be consistent with recent experimental observations on thin films. Based on the simulation results, the conditions for the applicability of the familiar Mullins-Von Neumann law and the Hillert`s equation were discussed.

  15. Extended Kalman filtering for battery management systems of LiPB-based HEV battery packs. Part 3. State and parameter estimation

    NASA Astrophysics Data System (ADS)

    Plett, Gregory L.

    Battery management systems in hybrid-electric-vehicle battery packs must estimate values descriptive of the pack's present operating condition. These include: battery state-of-charge, power fade, capacity fade, and instantaneous available power. The estimation mechanism must adapt to changing cell characteristics as cells age and therefore provide accurate estimates over the lifetime of the pack. In a series of three papers, we propose methods, based on extended Kalman filtering (EKF), that are able to accomplish these goals for a lithium ion polymer battery pack. We expect that they will also work well on other battery chemistries. These papers cover the required mathematical background, cell modeling and system identification requirements, and the final solution, together with results. This third paper concludes the series by presenting five additional applications where either an EKF or results from EKF may be used in typical BMS algorithms: initializing state estimates after the vehicle has been idle for some time; estimating state-of-charge with dynamic error bounds on the estimate; estimating pack available dis/charge power; tracking changing pack parameters (including power fade and capacity fade) as the pack ages, and therefore providing a quantitative estimate of state-of-health; and determining which cells must be equalized. Results from pack tests are presented.

  16. Modeling

    SciTech Connect

    Loth, E.; Tryggvason, G.; Tsuji, Y.; Elghobashi, S. E.; Crowe, Clayton T.; Berlemont, A.; Reeks, M.; Simonin, O.; Frank, Th; Onishi, Yasuo; Van Wachem, B.

    2005-09-01

    Slurry flows occur in many circumstances, including chemical manufacturing processes, pipeline transfer of coal, sand, and minerals; mud flows; and disposal of dredged materials. In this section we discuss slurry flow applications related to radioactive waste management. The Hanford tank waste solids and interstitial liquids will be mixed to form a slurry so it can be pumped out for retrieval and treatment. The waste is very complex chemically and physically. The ARIEL code is used to model the chemical interactions and fluid dynamics of the waste.

  17. A BAYESIAN HIERARCHICAL SPATIAL MODEL FOR DENTAL CARIES ASSESSMENT USING NON-GAUSSIAN MARKOV RANDOM FIELDS

    PubMed Central

    Jin, Ick Hoon; Yuan, Ying; Bandyopadhyay, Dipankar

    2016-01-01

    Research in dental caries generates data with two levels of hierarchy: that of a tooth overall and that of the different surfaces of the tooth. The outcomes often exhibit spatial referencing among neighboring teeth and surfaces, i.e., the disease status of a tooth or surface might be influenced by the status of a set of proximal teeth/surfaces. Assessments of dental caries (tooth decay) at the tooth level yield binary outcomes indicating the presence/absence of teeth, and trinary outcomes at the surface level indicating healthy, decayed, or filled surfaces. The presence of these mixed discrete responses complicates the data analysis under a unified framework. To mitigate complications, we develop a Bayesian two-level hierarchical model under suitable (spatial) Markov random field assumptions that accommodates the natural hierarchy within the mixed responses. At the first level, we utilize an autologistic model to accommodate the spatial dependence for the tooth-level binary outcomes. For the second level and conditioned on a tooth being non-missing, we utilize a Potts model to accommodate the spatial referencing for the surface-level trinary outcomes. The regression models at both levels were controlled for plausible covariates (risk factors) of caries, and remain connected through shared parameters. To tackle the computational challenges in our Bayesian estimation scheme caused due to the doubly-intractable normalizing constant, we employ a double Metropolis-Hastings sampler. We compare and contrast our model performances to the standard non-spatial (naive) model using a small simulation study, and illustrate via an application to a clinical dataset on dental caries. PMID:27807470

  18. Electron transfer pathways from the S2-states to the S3-states either after a Ca2+/Sr2+ or a Cl-/I- exchange in Photosystem II from Thermosynechococcus elongatus.

    PubMed

    Boussac, Alain; Rutherford, A William; Sugiura, Miwa

    2015-01-01

    The site for water oxidation in Photosystem II (PSII) goes through five sequential oxidation states (S0 to S4) before O2 is evolved. It consists of a Mn4CaO5-cluster close to a redox-active tyrosine residue (YZ). Cl- is also required for enzyme activity. By using EPR spectroscopy it has been shown that both Ca2+/Sr2+ exchange and Cl-/I- exchange perturb the proportions of centers showing high (S=5/2) and low spin (S=1/2) forms of the S2-state. The S3-state was also found to be heterogeneous with: i) a S=3 form that is detectable by EPR and not sensitive to near-infrared light; and ii) a form that is not EPR visible but in which Mn photochemistry occurs resulting in the formation of a (S2YZ)' split EPR signal upon near-infrared illumination. In Sr/Cl-PSII, the high spin (S=5/2) form of S2 shows a marked heterogeneity with a g=4.3 form generated at low temperature that converts to a relaxed form at g=4.9 at higher temperatures. The high spin g=4.9 form can then progress to the EPR detectable form of S3 at temperatures as low as 180K whereas the low spin (S=1/2) S2-state can only advance to the S3 state at temperatures≥235 K. Both of the two S2 configurations and the two S3 configurations are each shown to be in equilibrium at ≥235 K but not at 198 K. Since both S2 configurations are formed at 198 K, they likely arise from two specific populations of S1. The existence of heterogeneous populations in S1, S2 and S3 states may be related to the structural flexibility associated with the positioning of the oxygen O5 within the cluster highlighted in computational approaches and which has been linked to substrate exchange. These data are discussed in the context of recent in silico studies of the electron transfer pathways between the S2-state(s) and the S3-state(s). PMID:25843552

  19. Electron transfer pathways from the S2-states to the S3-states either after a Ca2+/Sr2+ or a Cl-/I- exchange in Photosystem II from Thermosynechococcus elongatus.

    PubMed

    Boussac, Alain; Rutherford, A William; Sugiura, Miwa

    2015-01-01

    The site for water oxidation in Photosystem II (PSII) goes through five sequential oxidation states (S0 to S4) before O2 is evolved. It consists of a Mn4CaO5-cluster close to a redox-active tyrosine residue (YZ). Cl- is also required for enzyme activity. By using EPR spectroscopy it has been shown that both Ca2+/Sr2+ exchange and Cl-/I- exchange perturb the proportions of centers showing high (S=5/2) and low spin (S=1/2) forms of the S2-state. The S3-state was also found to be heterogeneous with: i) a S=3 form that is detectable by EPR and not sensitive to near-infrared light; and ii) a form that is not EPR visible but in which Mn photochemistry occurs resulting in the formation of a (S2YZ)' split EPR signal upon near-infrared illumination. In Sr/Cl-PSII, the high spin (S=5/2) form of S2 shows a marked heterogeneity with a g=4.3 form generated at low temperature that converts to a relaxed form at g=4.9 at higher temperatures. The high spin g=4.9 form can then progress to the EPR detectable form of S3 at temperatures as low as 180K whereas the low spin (S=1/2) S2-state can only advance to the S3 state at temperatures≥235 K. Both of the two S2 configurations and the two S3 configurations are each shown to be in equilibrium at ≥235 K but not at 198 K. Since both S2 configurations are formed at 198 K, they likely arise from two specific populations of S1. The existence of heterogeneous populations in S1, S2 and S3 states may be related to the structural flexibility associated with the positioning of the oxygen O5 within the cluster highlighted in computational approaches and which has been linked to substrate exchange. These data are discussed in the context of recent in silico studies of the electron transfer pathways between the S2-state(s) and the S3-state(s).

  20. Stepwise positional-orientational order and the multicritical-multistructural global phase diagram of the s =3 /2 Ising model from renormalization-group theory

    NASA Astrophysics Data System (ADS)

    Yunus, ćaǧın; Renklioǧlu, Başak; Keskin, Mustafa; Berker, A. Nihat

    2016-06-01

    The spin-3/2 Ising model, with nearest-neighbor interactions only, is the prototypical system with two different ordering species, with concentrations regulated by a chemical potential. Its global phase diagram, obtained in d =3 by renormalization-group theory in the Migdal-Kadanoff approximation or equivalently as an exact solution of a d =3 hierarchical lattice, with flows subtended by 40 different fixed points, presents a very rich structure containing eight different ordered and disordered phases, with more than 14 different types of phase diagrams in temperature and chemical potential. It exhibits phases with orientational and/or positional order. It also exhibits quintuple phase transition reentrances. Universality of critical exponents is conserved across different renormalization-group flow basins via redundant fixed points. One of the phase diagrams contains a plastic crystal sequence, with positional and orientational ordering encountered consecutively as temperature is lowered. The global phase diagram also contains double critical points, first-order and critical lines between two ordered phases, critical end points, usual and unusual (inverted) bicritical points, tricritical points, multiple tetracritical points, and zero-temperature criticality and bicriticality. The four-state Potts permutation-symmetric subspace is contained in this model.

  1. 18 CFR 740.3 - State applications.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 18 Conservation of Power and Water Resources 2 2014-04-01 2014-04-01 false State applications. 740.3 Section 740.3 Conservation of Power and Water Resources WATER RESOURCES COUNCIL STATE WATER... for completing the application; (2) The criteria to be used by the Council in assessing need for...

  2. 18 CFR 740.3 - State applications.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 18 Conservation of Power and Water Resources 2 2010-04-01 2010-04-01 false State applications. 740.3 Section 740.3 Conservation of Power and Water Resources WATER RESOURCES COUNCIL STATE WATER... for completing the application; (2) The criteria to be used by the Council in assessing need for...

  3. 18 CFR 740.3 - State applications.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 18 Conservation of Power and Water Resources 2 2011-04-01 2011-04-01 false State applications. 740.3 Section 740.3 Conservation of Power and Water Resources WATER RESOURCES COUNCIL STATE WATER... for completing the application; (2) The criteria to be used by the Council in assessing need for...

  4. 18 CFR 740.3 - State applications.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 18 Conservation of Power and Water Resources 2 2012-04-01 2012-04-01 false State applications. 740.3 Section 740.3 Conservation of Power and Water Resources WATER RESOURCES COUNCIL STATE WATER... for completing the application; (2) The criteria to be used by the Council in assessing need for...

  5. 18 CFR 740.3 - State applications.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 18 Conservation of Power and Water Resources 2 2013-04-01 2012-04-01 true State applications. 740.3 Section 740.3 Conservation of Power and Water Resources WATER RESOURCES COUNCIL STATE WATER... for completing the application; (2) The criteria to be used by the Council in assessing need for...

  6. A Framework for Efficient Structured Max-Margin Learning of High-Order MRF Models.

    PubMed

    Komodakis, Nikos; Xiang, Bo; Paragios, Nikos

    2015-07-01

    We present a very general algorithm for structured prediction learning that is able to efficiently handle discrete MRFs/CRFs (including both pairwise and higher-order models) so long as they can admit a decomposition into tractable subproblems. At its core, it relies on a dual decomposition principle that has been recently employed in the task of MRF optimization. By properly combining such an approach with a max-margin learning method, the proposed framework manages to reduce the training of a complex high-order MRF to the parallel training of a series of simple slave MRFs that are much easier to handle. This leads to a very efficient and general learning scheme that relies on solid mathematical principles. We thoroughly analyze its theoretical properties, and also show that it can yield learning algorithms of increasing accuracy since it naturally allows a hierarchy of convex relaxations to be used for loss-augmented MAP-MRF inference within a max-margin learning approach. Furthermore, it can be easily adapted to take advantage of the special structure that may be present in a given class of MRFs. We demonstrate the generality and flexibility of our approach by testing it on a variety of scenarios, including training of pairwise and higher-order MRFs, training by using different types of regularizers and/or different types of dissimilarity loss functions, as well as by learning of appropriate models for a variety of vision tasks (including high-order models for compact pose-invariant shape priors, knowledge-based segmentation, image denoising, stereo matching as well as high-order Potts MRFs). PMID:26352450

  7. Lattice models and integrability: a special issue in honour of F Y Wu

    NASA Astrophysics Data System (ADS)

    Guttmann, A. J.; Jacobsen, J. L.

    2012-12-01

    published in the April issue of Physical Review Letters (PRL) of the same year [4], and in September 1967, Wu moved to Northeastern University to join Lieb's group. Wu taught at Northeastern for 39 years until his retirement in 2006 as the Matthews Distinguished University Professor of Physics. Over the years, Wu has published more than 230 papers and monographs, and he continues to publish after retirement. Most of his research since 1967 is in exact and rigorous analyses of lattice models and integrable systems, which is the theme of this special issue. In 1968, after Wu's arrival at Northeastern, Lieb and Wu obtained the exact solution of the ground state of the one-dimensional Hubbard model and published the result in PRL [5], a work which has since become highly important after the advent of high-temperature superconductivity. This Lieb-Wu paper and Wu's 1982 review of the Potts model in Reviews of Modern Physics [37] are among the most cited papers in condensed matter physics. Later in 1968 Lieb departed Northeastern for MIT. As a result, the full version of the solution was not published until 34 years later [38] when Lieb and Wu collaborated to work on the manuscript on the occasion of Wu's 70th birthday. Wu spent the summer of 1968 at Stony Brook as the guest of C N Yang. Working with Yang's student, C Fan, he extended the Pfaffian solution of the Ising model to general lattices and termed such models 'free-fermion', a term now in common use [6]. In 1972, Wu visited R J Baxter, whom he had met earlier in 1968 at MIT, in Canberra, Australia, with the support of a Fulbright grant. They solved the triangular-lattice Ising model with 3-spin interactions [7], a model now known as the Baxter-Wu model. It was an ideal collaboration. While Baxter derived the solution algebraically, Wu used graphical methods to reduce the problem to an Ashkin-Teller model, which greatly simplifies the presentation. While in Canberra, Wu also studied the 8-vertex model on the honeycomb

  8. Ovarian Tumor Attachment, Invasion, and Vascularization Reflect Unique Microenvironments in the Peritoneum: Insights from Xenograft and Mathematical Models

    PubMed Central

    Steinkamp, Mara P.; Winner, Kimberly Kanigel; Davies, Suzy; Muller, Carolyn; Zhang, Yong; Hoffman, Robert M.; Shirinifard, Abbas; Moses, Melanie; Jiang, Yi; Wilson, Bridget S.

    2013-01-01

    Ovarian cancer relapse is often characterized by metastatic spread throughout the peritoneal cavity with tumors attached to multiple organs. In this study, interaction of ovarian cancer cells with the peritoneal tumor microenvironment was evaluated in a xenograft model based on intraperitoneal injection of fluorescent SKOV3.ip1 ovarian cancer cells. Intra-vital microscopy of mixed GFP-red fluorescent protein (RFP) cell populations injected into the peritoneum demonstrated that cancer cells aggregate and attach as mixed spheroids, emphasizing the importance of homotypic adhesion in tumor formation. Electron microscopy provided high resolution structural information about local attachment sites. Experimental measurements from the mouse model were used to build a three-dimensional cellular Potts ovarian tumor model (OvTM) that examines ovarian cancer cell attachment, chemotaxis, growth, and vascularization. OvTM simulations provide insight into the relative influence of cancer cell–cell adhesion, oxygen availability, and local architecture on tumor growth and morphology. Notably, tumors on the mesentery, omentum, or spleen readily invade the “open” architecture, while tumors attached to the gut encounter barriers that restrict invasion and instead rapidly expand into the peritoneal space. Simulations suggest that rapid neovascularization of SKOV3.ip1 tumors is triggered by constitutive release of angiogenic factors in the absence of hypoxia. This research highlights the importance of cellular adhesion and tumor microenvironment in the seeding of secondary ovarian tumors on diverse organs within the peritoneal cavity. Results of the OvTM simulations indicate that invasion is strongly influenced by features underlying the mesothelial lining at different sites, but is also affected by local production of chemotactic factors. The integrated in vivo mouse model and computer simulations provide a unique platform for evaluating targeted therapies for ovarian cancer

  9. Modeling the viscoplastic micromechanical response of two-phase materials using fast Fourier transforms

    SciTech Connect

    Lebensohn, Ricardo A; Lee, Sukbin; Rollett, Anthony D

    2009-01-01

    A viscoplastic approach using the Fast Fourier Transform (FFT) method for obtaining local mechanical response is utilized to study microstructure-property relationships in composite materials. Specifically, three-dimensional, two-phase digital materials containing isotropically coarsened particles surrounded by a matrix phase, generated through a Kinetic Monte Carlo Potts model for Ostwald ripening, are used as instantiations in order to calculate the stress and strain rate fields under uniaxial tension. The effects of the morphology of the matrix phase, the volume fraction and the contiguity of particles, and the polycrystallinity of matrix phase, on the stress and strain rate fields under uniaxial tension are examined. It is found that the first moments of the stress and strain rate fields have a different dependence on the particle volume fraction and the particle contiguity from their second moments. The average stresses and average strain rates of both phases and of the overall composite have rather simple relationships with the particle volume fraction whereas their standard deviations vary strongly, especially when the particle volume fraction is high, and the contiguity of particles has a noticeable effect on the mechanical response. It is also found that the shape of stress distribution in the BCC hard particle phase evolves as the volume fraction of particles in the composite varies, such that it agrees with the stress field in the BCC polycrystal as the volume of particles approaches unity. Finally, it is observed that the stress and strain rate fields in the microstructures with a polycrystalline matrix are less sensitive to changes in volume fraction and contiguity of particles.

  10. The occurrence of the freshwater bryozoan Pottsiella erecta (Potts) 1884 (Gymnolaemata: Paludicellidae) in Lake Erie

    USGS Publications Warehouse

    Maciorowski, Anthony F.

    1974-01-01

    The collection of Pottsiella erecta in western Lake Erie in August 1972 represents the first reported occurrence of this species in the Great Lakes and a 110 km northward extension of its known range.

  11. Pott's Disease? AIDS-Associated Mycobacterium heckeshornense Spinal Osteomyelitis and Diskitis

    PubMed Central

    Graf, Paul C. F.

    2014-01-01

    Acid-fast bacillus (AFB) spinal osteomyelitis in a patient with AIDS is often presumed to be caused by reactivated Mycobacterium tuberculosis. However, other AFB pathogens can mimic M. tuberculosis and, to ensure appropriate and adequate therapy, should be considered by clinicians. We present a case of aggressive spinal osteomyelitis caused by Mycobacterium heckeshornense in an AIDS patient; a review of the literature is also included. PMID:25428153

  12. A code for analysis of the fine structure in near-rigid weakly-bonded open-shell complexes that consist of a diatomic radical in a Σ3 state and a closed-shell molecule

    NASA Astrophysics Data System (ADS)

    Fawzy, Wafaa M.

    2010-10-01

    applied to analysis and fitting the observed high resolution infrared spectra of the O 2sbnd HF/O 2sbnd DF and O 2sbnd N 2O complexes. Test input file for simulation and fitting the high resolution infrared spectrum of the O 2sbnd DF complex is provided. Program summaryProgram title: TSIG_COMP Catalogue identifier: AEGM_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEGM_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: Standard CPC licence, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 10 030 No. of bytes in distributed program, including test data, etc.: 51 663 Distribution format: tar.gz Programming language: Fortran 90, free format Computer: SGI Origin 3400, workstations and PCs Operating system: Linux, UNIX and Windows (see Restrictions below) RAM: Case dependent Classification: 16.2 Nature of problem: TSIG_COMP calculates frequencies, relative intensities, and expectation values of the various quantum numbers and parities of bound states involved in allowed ro-vibrational transitions in semi-rigid planar weakly-bonded open-shell complexes. The complexes of interest contain a free radical in a Σ3 state and a closed-shell partner, where the electron-spin-electron-spin interaction, electron-spin rotation interaction, and centrifugal forces significantly modify the spectral patterns. To date, ab initio methods are incapable of taking these effects into account to provide accurate predictions for the ro-vibrational energy levels of the complexes of interest. In the TSIG_COMP program, the problem is solved by using the proper effective Hamiltonian and molecular basis set. Solution method: The program uses a Hamiltonian operator that takes into account vibration, end-over-end rotation, electron-spin-electron-spin and electron-spin rotation interactions as well as the various centrifugal distortion terms. The Hamiltonian operator

  13. Solicited abstract: Global hydrological modeling and models

    NASA Astrophysics Data System (ADS)

    Xu, Chong-Yu

    2010-05-01

    , (3) state-of-the-art of existing global hydrological models, and (4) challenges. Acknowledgment: Thanks to Lebing Gong, Elin Widén-Nilsson, and Sven Halldin of Uppsala University for the team work in global hydrological models.

  14. Measurements of Excitation Functions and Line Polarizations for Electron Impact Excitation of the n = 2, 3 States of Atomic Hydrogen in the Energy Range 11 - 2000 eV

    NASA Technical Reports Server (NTRS)

    James, G. K.; Ajello, J. M.; Kanik, I.; Slevin, J.; Franklin, B.; Shemansky, D.

    1993-01-01

    The electron-atomic hydrogen scattering system is an important testing ground for theoretical models and has received a great deal of attention from experimentalists and theoreticians alike over the years. A complete description of the excitation process requires a knowledge of many different parameters, and experimental measurements of these parameters have been performed in various laboratories around the world. As far as total cross section data are concerned it has been noted that the discrepancy between the data of Long et al. and Williams for n = 2 excitations needs to be resolved in the interests of any further refinement of theory. We report new measurements of total cross sections and atomic line polarizations for both n=2 and n=3 excitations at energies from threshold to 2000 eV...

  15. Modeling the influence of nucleus elasticity on cell invasion in fiber networks and microchannels.

    PubMed

    Scianna, Marco; Preziosi, Luigi

    2013-01-21

    Cell migration in highly constrained extracellular matrices is exploited in scaffold-based tissue engineering and is fundamental in a wide variety of physiological and pathological phenomena, among others in cancer invasion and development. Research into the critical processes involved in cell migration has mainly focused on cell adhesion and proteolytic degradation of the external environment. However, rising evidence has recently shown that a number of cell-derived biophysical and mechanical parameters, among others nucleus stiffness and cell deformability, plays a major role in cell motility, especially in the ameboid-like migration mode in 3D confined tissue structures. We here present an extended cellular Potts model (CPM) first used to simulate a micro-fabricated migration chip, which tests the active invasive behavior of cancer cells into narrow channels. As distinct features of our approach, cells are modeled as compartmentalized discrete objects, differentiated in the nucleus and in the cytosolic region, while the migration chamber is composed of channels of different widths. We find that cell motile phenotype and velocity in open spaces (i.e., 2D flat surfaces or large channels) are not significantly influenced by cell elastic properties. On the contrary, the migratory behavior of cells within subcellular and subnuclear structures strongly relies on the deformability of the cytosol and of the nuclear cluster, respectively. Further, we characterize two migration dynamics: a stepwise way, characterized by fluctuations in cell length, within channels smaller than nucleus dimensions and a smooth sliding (i.e., maintaining constant cell length) behavior within channels larger than the nuclear cluster. These resulting observations are then extended looking at cell migration in an artificial fiber network, which mimics cell invasion in a 3D extracellular matrix. In particular, in this case, we analyze the effect of variations in elasticity of the nucleus on cell

  16. How the Whole School, Whole Community, Whole Child Model Works: Creating Greater Alignment, Integration, and Collaboration between Health and Education

    ERIC Educational Resources Information Center

    Chiang, Rachelle Johnsson; Meagher, Whitney; Slade, Sean

    2015-01-01

    Background: The Whole School, Whole Community, Whole Child (WSCC) model calls for greater collaboration across the community, school, and health sectors to meet the needs and support the full potential of each child. This article reports on how 3 states and 2 local school districts have implemented aspects of the WSCC model through collaboration,…

  17. Classical Monte Carlo Study for Antiferro Quadrupole Orders in a Diamond Lattice

    NASA Astrophysics Data System (ADS)

    Hattori, Kazumasa; Tsunetsugu, Hirokazu

    2016-09-01

    We investigate antiferro quadrupole orders in a diamond lattice under magnetic fields by Monte Carlo simulations for two types of classical effective models. One is an XY model with Z3 anisotropy, and the other is a two-component ϕ4 model with a third-order anisotropy. We confirm that the universality class of the zero-field transition is that for the three-dimensional XY model. Magnetic field corresponds to a Z3 field in the effective model, and under this field, we find that collinear and canted antiferro-quadrupole orders compete. Each phase is characterized by symmetry breaking in the sector of (sublattice Z2) otimes (reflection Z2 for the order parameter). When Z3 anisotropy and magnetic field vary, it turns out that this system is a good playground for various multicritical points; bicritical and tetracritical points emerge in a finite field. Another important finding is about the scaling of parasitic ferro quadrupole order at the zero-field critical point. This is the secondary order parameter induced by the primary antiferro order, and its critical exponent β' = 0.815 clearly differs from the expected value that is twice the value for the primary order parameter. The corresponding correlation length exponent is also different, ν' = 0.597(12). We also discuss relation of the present effective quadrupole models with the 3-state Potts model as well as implication to understanding of orbital orders in Pr-based 1-2-20 compounds.

  18. REX3DV1.0

    SciTech Connect

    Holm, Elizabeth A.

    2002-03-28

    This code is a FORTRAN code for three-dimensional Monte Carol Potts Model (MCPM) Recrystallization and grain growth. A continuum grain structure is mapped onto a three-dimensional lattice. The mapping procedure is analogous to color bitmapping the grain structure; grains are clusters of pixels (sites) of the same color (spin). The total system energy is given by the Pott Hamiltonian and the kinetics of grain growth are determined through a Monte Carlo technique with a nonconserved order parameter (Glauber dynamics). The code can be compiled and run on UNIX/Linux platforms.

  19. REX3DV1.0

    2002-03-28

    This code is a FORTRAN code for three-dimensional Monte Carol Potts Model (MCPM) Recrystallization and grain growth. A continuum grain structure is mapped onto a three-dimensional lattice. The mapping procedure is analogous to color bitmapping the grain structure; grains are clusters of pixels (sites) of the same color (spin). The total system energy is given by the Pott Hamiltonian and the kinetics of grain growth are determined through a Monte Carlo technique with a nonconservedmore » order parameter (Glauber dynamics). The code can be compiled and run on UNIX/Linux platforms.« less

  20. 7 CFR 718.3 - State committee responsibilities.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... AGRICULTURE FARM MARKETING QUOTAS, ACREAGE ALLOTMENTS, AND PRODUCTION ADJUSTMENT PROVISIONS APPLICABLE TO... digital images. (b) The State committee shall submit to the Deputy Administrator requests to deviate...

  1. 7 CFR 718.3 - State committee responsibilities.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... AGRICULTURE FARM MARKETING QUOTAS, ACREAGE ALLOTMENTS, AND PRODUCTION ADJUSTMENT PROVISIONS APPLICABLE TO... digital images. (b) The State committee shall submit to the Deputy Administrator requests to deviate...

  2. 7 CFR 718.3 - State committee responsibilities.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... AGRICULTURE FARM MARKETING QUOTAS, ACREAGE ALLOTMENTS, AND PRODUCTION ADJUSTMENT PROVISIONS APPLICABLE TO... digital images. (b) The State committee shall submit to the Deputy Administrator requests to deviate...

  3. 7 CFR 718.3 - State committee responsibilities.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... AGRICULTURE FARM MARKETING QUOTAS, ACREAGE ALLOTMENTS, AND PRODUCTION ADJUSTMENT PROVISIONS APPLICABLE TO... digital images. (b) The State committee shall submit to the Deputy Administrator requests to deviate...

  4. 7 CFR 718.3 - State committee responsibilities.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... AGRICULTURE FARM MARKETING QUOTAS, ACREAGE ALLOTMENTS, AND PRODUCTION ADJUSTMENT PROVISIONS APPLICABLE TO... digital images. (b) The State committee shall submit to the Deputy Administrator requests to deviate...

  5. Monte Carlo Study of the Fish-like Patterns of Anthracenes on Cu(111)

    NASA Astrophysics Data System (ADS)

    Kim, Kwangmoo; Einstein, T. L.; Sun, Dezheng; Kim, Dae-Ho; Bartels, Ludwig

    2011-03-01

    Using Monte Carlo calculations of the two-dimensional triangular lattice with a 2-component 3-state Potts model, we demonstrate a mechanism for the spontaneous formation of fish-like patterns of anthracene (AC) molecules on Cu(111) by sputtering and annealing, then cooling to ~ 80 K. The two components are an AC on a hollow site and another on a bridge site of Cu(111). The liquid crystal model with two separate parts, positional and orientational, only explains a part of the fish-like pattern, not the whole regular pattern. Our model fixes the positional order of AC's into the triangular lattice and the orientational order into three angles as observed in the experiments. The variation of the coverages of AC's is reflected in the change of the ratio of two components in our model. We also try to understand the compression of AC's with the introduction of Gaussian dispersion of AC's about their triangular lattice sites. Supported primarily by NSF Grants CHE 07-50334 with a secondary support from NSF-MRSEC at the University of Maryland, DMR05-20471. Work at UCR supported primarily by NSF CHE 07-49949.

  6. Bond percolation in films

    NASA Astrophysics Data System (ADS)

    Korneta, W.; Pytel, Z.

    1988-04-01

    Bond percolation in films with simple cubic structure is considered. It is assumed that the probability of a bond being present between nearest-neighbor sites depends on the distances to surfaces. Based on the relation between the Potts model and the bond percolation model, and using the mean-field approximation, the phase diagram and profiles of the percolation probability have been obtained.

  7. Leadership Models.

    ERIC Educational Resources Information Center

    Freeman, Thomas J.

    This paper discusses six different models of organizational structure and leadership, including the scalar chain or pyramid model, the continuum model, the grid model, the linking pin model, the contingency model, and the circle or democratic model. Each model is examined in a separate section that describes the model and its development, lists…

  8. Models and role models.

    PubMed

    ten Cate, Jacob M

    2015-01-01

    Developing experimental models to understand dental caries has been the theme in our research group. Our first, the pH-cycling model, was developed to investigate the chemical reactions in enamel or dentine, which lead to dental caries. It aimed to leverage our understanding of the fluoride mode of action and was also utilized for the formulation of oral care products. In addition, we made use of intra-oral (in situ) models to study other features of the oral environment that drive the de/remineralization balance in individual patients. This model addressed basic questions, such as how enamel and dentine are affected by challenges in the oral cavity, as well as practical issues related to fluoride toothpaste efficacy. The observation that perhaps fluoride is not sufficiently potent to reduce dental caries in the present-day society triggered us to expand our knowledge in the bacterial aetiology of dental caries. For this we developed the Amsterdam Active Attachment biofilm model. Different from studies on planktonic ('single') bacteria, this biofilm model captures bacteria in a habitat similar to dental plaque. With data from the combination of these models, it should be possible to study separate processes which together may lead to dental caries. Also products and novel agents could be evaluated that interfere with either of the processes. Having these separate models in place, a suggestion is made to design computer models to encompass the available information. Models but also role models are of the utmost importance in bringing and guiding research and researchers. PMID:25871413

  9. Models, Fiction, and Fictional Models

    NASA Astrophysics Data System (ADS)

    Liu, Chuang

    2014-03-01

    The following sections are included: * Introduction * Why Most Models in Science Are Not Fictional * Typically Fictional Models in Science * Modeling the Unobservable * Fictional Models for the Unobservable? * References

  10. Non linear identities between unitary minimal Virasoro characters

    NASA Astrophysics Data System (ADS)

    Taormina, Anne

    Non linear identities between unitary minimal Virasoro characters at low levels (m = 3, 4, 5) are presented as well as a sketch of some proofs. The first identity gives the Ising model characters (m = 3) as bilinears in tricritical Ising model characters (m = 4), while the second one gives the tricritical Ising model characters as bilinears in the Ising model characters and the six combinations of m = 5 Virasoro characters which do not appear in the spectrum of the three state Potts model.

  11. Xtoys: Cellular automata on xwindows

    SciTech Connect

    Creutz, M.

    1995-08-15

    Xtoys is a collection of xwindow programs for demonstrating simulations of various statistical models. Included are xising, for the two dimensional Ising model, xpotts, for the q-state Potts model, xautomalab, for a fairly general class of totalistic cellular automata, xsand, for the Bak-Tang-Wiesenfield model of self organized criticality, and xfires, a simple forest fire simulation. The programs should compile on any machine supporting xwindows.

  12. Generic, hierarchical framework for massively parallel Wang-Landau sampling.

    PubMed

    Vogel, Thomas; Li, Ying Wai; Wüst, Thomas; Landau, David P

    2013-05-24

    We introduce a parallel Wang-Landau method based on the replica-exchange framework for Monte Carlo simulations. To demonstrate its advantages and general applicability for simulations of complex systems, we apply it to different spin models including spin glasses, the Ising model, and the Potts model, lattice protein adsorption, and the self-assembly process in amphiphilic solutions. Without loss of accuracy, the method gives significant speed-up and potentially scales up to petaflop machines.

  13. The scaling state in two-dimensional grain growth

    SciTech Connect

    Mulheran, P.A. . Dept. of Physics)

    1994-11-01

    A new model of normal grain growth in two-dimensional systems is derived from considerations of Potts model simulations. This Randomly Connected Bubble model is based on Hillert's theory and combines the essential topological features of the grain boundary network with the action of capillarity. It successfully predicts what the scaling state of the network should be and explains why the system evolves into this state. The implications for grain growth in real materials are also discussed.

  14. Bayesian segmentation of hyperspectral images

    NASA Astrophysics Data System (ADS)

    Mohammadpour, Adel; Féron, Olivier; Mohammad-Djafari, Ali

    2004-11-01

    In this paper we consider the problem of joint segmentation of hyperspectral images in the Bayesian framework. The proposed approach is based on a Hidden Markov Modeling (HMM) of the images with common segmentation, or equivalently with common hidden classification label variables which is modeled by a Potts Markov Random Field. We introduce an appropriate Markov Chain Monte Carlo (MCMC) algorithm to implement the method and show some simulation results.

  15. Exploring new frontiers in statistical physics with a new, parallel Wang-Landau framework

    SciTech Connect

    Vogel, Thomas; Li, Ying Wai; Wuest, Thomas; Landau, David P

    2014-01-01

    Combining traditional Wang Landau sampling for multiple replica systems with an exchange of densities of states between replicas we describe a general framework for simulations on massively parallel Petaflop supercomputers. The advantages and general applicability of the method for simulations of complex systems are demonstrated for the classical 2D Potts spin model featuring a strong first-order transition and the self-assembly of lipid bilayers in amphiphilic solutions in a continuous model.

  16. Simulating convergent extension by way of anisotropic differential adhesion.

    PubMed

    Zajac, Mark; Jones, Gerald L; Glazier, James A

    2003-05-21

    Simulations using the Extended Potts Model suggest that anisotropic differential adhesion can account for convergent extension, as observed during embryonic development of the frog Xenopus laevis for example. During gastrulation in these frogs, convergent extension produces longitudinal tissue growth from latitudinal elongation and migration of aligned constituent cells. The Extended Potts Model employs clustered points on a grid to represent subdivided cells with probabilistic displacement of cell boundaries such that small changes in energy drive gradual tissue development. For modeling convergent extension, simulations include anisotropic differential adhesion: the degree of attachment between adjacent elongated cells depends on their relative orientation. Without considering additional mechanisms, simulations based on anisotropic differential adhesion reproduce the hallmark stages of convergent extension in the correct sequence, with random fluctuations as sufficient impetus for cell reorganization. PMID:12727459

  17. Models, Part IV: Inquiry Models.

    ERIC Educational Resources Information Center

    Callison, Daniel

    2002-01-01

    Discusses models for information skills that include inquiry-oriented activities. Highlights include WebQuest, which uses Internet resources supplemented with videoconferencing; Minnesota's Inquiry Process based on the Big Six model for information problem-solving; Indiana's Student Inquiry Model; constructivist learning models for inquiry; and…

  18. Finite Element Model of Cardiac Electrical Conduction.

    NASA Astrophysics Data System (ADS)

    Yin, John Zhihao

    1994-01-01

    In this thesis, we develop mathematical models to study electrical conduction of the heart. One important pattern of wave propagation of electrical excitation in the heart is reentry which is believed to be the underlying mechanism of some dangerous cardiac arhythmias such as ventricular tachycardia and ventricular fibrillation. We present in this thesis a new ionic channel model of the ventricular cardiac cell membrane to study the microscopic electrical properties of myocardium. We base our model on recent single channel experiment data and a simple physical diffusion model of the calcium channel. Our ionic channel model of myocardium has simpler differential equations and fewer parameters than previous models. Further more, our ionic channel model achieves better results in simulating the strength-interval curve when we connect the membrane patch model to form a one dimensional cardiac muscle strand. We go on to study a finite element model which uses multiple states and non-nearest neighbor interactions to include curvature and dispersion effects. We create a generalized lattice randomization to overcome the artifacts generated by the interaction between the local dynamics and the regularities of the square lattice. We show that the homogeneous model does not display spontaneous wavefront breakup in a reentrant wave propagation once the lattice artifacts have been smoothed out by lattice randomization with a randomization scale larger than the characteristic length of the interaction. We further develop a finite 3-D 3-state heart model which employs a probability interaction rule. This model is applied to the simulation of Body Surface Laplacian Mapping (BSLM) using a cylindrical volume conductor as the torso model. We show that BSLM has a higher spatial resolution than conventional mapping methods in revealing the underlying electrical activities of the heart. The results of these studies demonstrate that mathematical modeling and computer simulation are very

  19. Critical nonequilibrium relaxation in the Swendsen-Wang algorithm in the Berezinsky-Kosterlitz-Thouless and weak first-order phase transitions

    NASA Astrophysics Data System (ADS)

    Nonomura, Yoshihiko; Tomita, Yusuke

    2015-12-01

    Recently we showed that the critical nonequilibrium relaxation in the Swendsen-Wang algorithm is widely described by the stretched-exponential relaxation of physical quantities in the Ising or Heisenberg models. Here we make a similar analysis in the Berezinsky-Kosterlitz-Thouless phase transition in the two-dimensional (2D) X Y model and in the first-order phase transition in the 2D q =5 Potts model and find that these phase transitions are described by the simple exponential relaxation and power-law relaxation of physical quantities, respectively. We compare the relaxation behaviors of these phase transitions with those of the second-order phase transition in the three- and four-dimensional X Y models and in the 2D q -state Potts models for 2 ≤q ≤4 and show that the species of phase transitions can be clearly characterized by the present analysis. We also compare the size dependence of relaxation behaviors of the first-order phase transition in the 2D q =5 and 6 Potts models and propose a quantitative criterion on "weakness" of the first-order phase transition.

  20. Supermatrix models

    SciTech Connect

    Yost, S.A.

    1991-05-01

    Radom matrix models based on an integral over supermatrices are proposed as a natural extension of bosonic matrix models. The subtle nature of superspace integration allows these models to have very different properties from the analogous bosonic models. Two choices of integration slice are investigated. One leads to a perturbative structure which is reminiscent of, and perhaps identical to, the usual Hermitian matrix models. Another leads to an eigenvalue reduction which can be described by a two component plasma in one dimension. A stationary point of the model is described.

  1. Supermatrix models

    SciTech Connect

    Yost, S.A. . Dept. of Physics and Astronomy)

    1992-09-30

    In this paper, random matrix models based on an integral over supermatrices are proposed as a natural extension of bosonic matrix models. The subtle nature of superspace integration allows these models to have very different properties from the analogous bosonic models. Two choices of integration slice are investigated. One leads to a perturbative structure which is reminiscent of, and perhaps identical to, the usual Hermitian matrix models. Another leads to an eigenvalue reduction which can be described by a two-component plasma in one dimension. A stationary point of the model is described.

  2. Turbulence modeling

    NASA Technical Reports Server (NTRS)

    Rubesin, Morris W.

    1987-01-01

    Recent developments at several levels of statistical turbulence modeling applicable to aerodynamics are briefly surveyed. Emphasis is on examples of model improvements for transonic, two-dimensional flows. Experience with the development of these improved models is cited to suggest methods of accelerating the modeling process necessary to keep abreast of the rapid movement of computational fluid dynamics into the computation of complex three-dimensional flows.

  3. Spin systems and Political Districting Problem

    NASA Astrophysics Data System (ADS)

    Chou, Chung-I.; Li, Sai-Ping

    2007-03-01

    The aim of the Political Districting Problem is to partition a territory into electoral districts subject to some constraints such as contiguity, population equality, etc. In this paper, we apply statistical physics methods to Political Districting Problem. We will show how to transform the political problem to a spin system, and how to write down a q-state Potts model-like energy function in which the political constraints can be written as interactions between sites or external fields acting on the system. Districting into q voter districts is equivalent to finding the ground state of this q-state Potts model. Searching for the ground state becomes an optimization problem, where optimization algorithms such as the simulated annealing method and Genetic Algorithm can be employed here.

  4. Architectural Models

    ERIC Educational Resources Information Center

    Levenson, Harold E.; Hurni, Andre

    1978-01-01

    Suggests building models as a way to reinforce and enhance related subjects such as architectural drafting, structural carpentry, etc., and discusses time, materials, scales, tools or equipment needed, how to achieve realistic special effects, and the types of projects that can be built (model of complete building, a panoramic model, and model…

  5. Radiation Models

    ERIC Educational Resources Information Center

    James, W. G. G.

    1970-01-01

    Discusses the historical development of both the wave and the corpuscular photon model of light. Suggests that students should be informed that the two models are complementary and that each model successfully describes a wide range of radiation phenomena. Cites 19 references which might be of interest to physics teachers and students. (LC)

  6. Hydrological models are mediating models

    NASA Astrophysics Data System (ADS)

    Babel, L. V.; Karssenberg, D.

    2013-08-01

    Despite the increasing role of models in hydrological research and decision-making processes, only few accounts of the nature and function of models exist in hydrology. Earlier considerations have traditionally been conducted while making a clear distinction between physically-based and conceptual models. A new philosophical account, primarily based on the fields of physics and economics, transcends classes of models and scientific disciplines by considering models as "mediators" between theory and observations. The core of this approach lies in identifying models as (1) being only partially dependent on theory and observations, (2) integrating non-deductive elements in their construction, and (3) carrying the role of instruments of scientific enquiry about both theory and the world. The applicability of this approach to hydrology is evaluated in the present article. Three widely used hydrological models, each showing a different degree of apparent physicality, are confronted to the main characteristics of the "mediating models" concept. We argue that irrespective of their kind, hydrological models depend on both theory and observations, rather than merely on one of these two domains. Their construction is additionally involving a large number of miscellaneous, external ingredients, such as past experiences, model objectives, knowledge and preferences of the modeller, as well as hardware and software resources. We show that hydrological models convey the role of instruments in scientific practice by mediating between theory and the world. It results from these considerations that the traditional distinction between physically-based and conceptual models is necessarily too simplistic and refers at best to the stage at which theory and observations are steering model construction. The large variety of ingredients involved in model construction would deserve closer attention, for being rarely explicitly presented in peer-reviewed literature. We believe that devoting

  7. Model Experiments and Model Descriptions

    NASA Technical Reports Server (NTRS)

    Jackman, Charles H.; Ko, Malcolm K. W.; Weisenstein, Debra; Scott, Courtney J.; Shia, Run-Lie; Rodriguez, Jose; Sze, N. D.; Vohralik, Peter; Randeniya, Lakshman; Plumb, Ian

    1999-01-01

    The Second Workshop on Stratospheric Models and Measurements Workshop (M&M II) is the continuation of the effort previously started in the first Workshop (M&M I, Prather and Remsberg [1993]) held in 1992. As originally stated, the aim of M&M is to provide a foundation for establishing the credibility of stratospheric models used in environmental assessments of the ozone response to chlorofluorocarbons, aircraft emissions, and other climate-chemistry interactions. To accomplish this, a set of measurements of the present day atmosphere was selected. The intent was that successful simulations of the set of measurements should become the prerequisite for the acceptance of these models as having a reliable prediction for future ozone behavior. This section is divided into two: model experiment and model descriptions. In the model experiment, participant were given the charge to design a number of experiments that would use observations to test whether models are using the correct mechanisms to simulate the distributions of ozone and other trace gases in the atmosphere. The purpose is closely tied to the needs to reduce the uncertainties in the model predicted responses of stratospheric ozone to perturbations. The specifications for the experiments were sent out to the modeling community in June 1997. Twenty eight modeling groups responded to the requests for input. The first part of this section discusses the different modeling group, along with the experiments performed. Part two of this section, gives brief descriptions of each model as provided by the individual modeling groups.

  8. Analytical Models

    NASA Technical Reports Server (NTRS)

    1984-01-01

    A system-level design and analysis model was developed. This model was conceived to have several key elements: a solar pond thermodynamic performance model, a power generation subsystem model, and an economic analysis element. The basic approach was to create these elements or modules and refine them on an individual basis yet retain the capability to easily couple them into a full system design model. This building block approach allows for maximum flexibility and substitution of refined descriptions as the technology develops. A general overview of interconnecting these subsystem models is presented. The primary program control element will perform the administrative functions of data input, data output, information storage and transfer, and sequential calling of the subsystem models. From the point of view of the requirements of a system design model, a power conversion subsystem model was developed. The goal of the effort was a preliminary subsystem model compatible with the solar pond subsystem model so that a first order system simulation analysis could be performed.

  9. Modeling Pharmacokinetics.

    PubMed

    Bois, Frederic Y; Brochot, Céline

    2016-01-01

    Pharmacokinetics is the study of the fate of xenobiotics in a living organism. Physiologically based pharmacokinetic (PBPK) models provide realistic descriptions of xenobiotics' absorption, distribution, metabolism, and excretion processes. They model the body as a set of homogeneous compartments representing organs, and their parameters refer to anatomical, physiological, biochemical, and physicochemical entities. They offer a quantitative mechanistic framework to understand and simulate the time-course of the concentration of a substance in various organs and body fluids. These models are well suited for performing extrapolations inherent to toxicology and pharmacology (e.g., between species or doses) and for integrating data obtained from various sources (e.g., in vitro or in vivo experiments, structure-activity models). In this chapter, we describe the practical development and basic use of a PBPK model from model building to model simulations, through implementation with an easily accessible free software. PMID:27311461

  10. ICRF modelling

    SciTech Connect

    Phillips, C.K.

    1985-12-01

    This lecture provides a survey of the methods used to model fast magnetosonic wave coupling, propagation, and absorption in tokamaks. The validity and limitations of three distinct types of modelling codes, which will be contrasted, include discrete models which utilize ray tracing techniques, approximate continuous field models based on a parabolic approximation of the wave equation, and full field models derived using finite difference techniques. Inclusion of mode conversion effects in these models and modification of the minority distribution function will also be discussed. The lecture will conclude with a presentation of time-dependent global transport simulations of ICRF-heated tokamak discharges obtained in conjunction with the ICRF modelling codes. 52 refs., 15 figs.

  11. Statistical mechanics of human resource allocation

    NASA Astrophysics Data System (ADS)

    Inoue, Jun-Ichi; Chen, He

    2014-03-01

    We provide a mathematical platform to investigate the network topology of agents, say, university graduates who are looking for their positions in labor markets. The basic model is described by the so-called Potts spin glass which is well-known in the research field of statistical physics. In the model, each Potts spin (a tiny magnet in atomic scale length) represents the action of each student, and it takes a discrete variable corresponding to the company he/she applies for. We construct the energy to include three distinct effects on the students' behavior, namely, collective effect, market history and international ranking of companies. In this model system, the correlations (the adjacent matrix) between students are taken into account through the pairwise spin-spin interactions. We carry out computer simulations to examine the efficiency of the model. We also show that some chiral representation of the Potts spin enables us to obtain some analytical insights into our labor markets. This work was financially supported by Grant-in-Aid for Scientific Research (C) of Japan Society for the Promotion of Science No. 25330278.

  12. Transmission of order in some unusual dilute systems

    NASA Technical Reports Server (NTRS)

    Adler, Joan; Palmer, R. G.; Meyer, H.

    1987-01-01

    As a system is diluted, the critical temperature T may fall to zero at a concentration X sub c greater than the percolation concentration, because mere connectivity does not guarantee the transmission of order even at T = 0. Detailed results, including bounds on X sub c, are presented for the three-state Potts antiferromagnet on a triangular lattice and for quadrupolar models of (o-H2)x(p-H2)1-x mixtures on fcc and triangular lattices.

  13. Ventilation Model

    SciTech Connect

    H. Yang

    1999-11-04

    The purpose of this analysis and model report (AMR) for the Ventilation Model is to analyze the effects of pre-closure continuous ventilation in the Engineered Barrier System (EBS) emplacement drifts and provide heat removal data to support EBS design. It will also provide input data (initial conditions, and time varying boundary conditions) for the EBS post-closure performance assessment and the EBS Water Distribution and Removal Process Model. The objective of the analysis is to develop, describe, and apply calculation methods and models that can be used to predict thermal conditions within emplacement drifts under forced ventilation during the pre-closure period. The scope of this analysis includes: (1) Provide a general description of effects and heat transfer process of emplacement drift ventilation. (2) Develop a modeling approach to simulate the impacts of pre-closure ventilation on the thermal conditions in emplacement drifts. (3) Identify and document inputs to be used for modeling emplacement ventilation. (4) Perform calculations of temperatures and heat removal in the emplacement drift. (5) Address general considerations of the effect of water/moisture removal by ventilation on the repository thermal conditions. The numerical modeling in this document will be limited to heat-only modeling and calculations. Only a preliminary assessment of the heat/moisture ventilation effects and modeling method will be performed in this revision. Modeling of moisture effects on heat removal and emplacement drift temperature may be performed in the future.

  14. Climate Models

    NASA Technical Reports Server (NTRS)

    Druyan, Leonard M.

    2012-01-01

    Climate models is a very broad topic, so a single volume can only offer a small sampling of relevant research activities. This volume of 14 chapters includes descriptions of a variety of modeling studies for a variety of geographic regions by an international roster of authors. The climate research community generally uses the rubric climate models to refer to organized sets of computer instructions that produce simulations of climate evolution. The code is based on physical relationships that describe the shared variability of meteorological parameters such as temperature, humidity, precipitation rate, circulation, radiation fluxes, etc. Three-dimensional climate models are integrated over time in order to compute the temporal and spatial variations of these parameters. Model domains can be global or regional and the horizontal and vertical resolutions of the computational grid vary from model to model. Considering the entire climate system requires accounting for interactions between solar insolation, atmospheric, oceanic and continental processes, the latter including land hydrology and vegetation. Model simulations may concentrate on one or more of these components, but the most sophisticated models will estimate the mutual interactions of all of these environments. Advances in computer technology have prompted investments in more complex model configurations that consider more phenomena interactions than were possible with yesterday s computers. However, not every attempt to add to the computational layers is rewarded by better model performance. Extensive research is required to test and document any advantages gained by greater sophistication in model formulation. One purpose for publishing climate model research results is to present purported advances for evaluation by the scientific community.

  15. Phenomenological models

    SciTech Connect

    Braby, L.A.

    1990-09-01

    The biological effects of ionizing radiation exposure are the result of a complex sequence of physical, chemical, biochemical, and physiological interactions. One way to begin a search for an understanding of health effects of radiation is through the development of phenomenological models of the response. Many models have been presented and tested in the slowly evolving process of characterizing cellular response. A range of models covering different endpoints and phenomena has developed in parallel. Many of these models employ similar assumptions about some underlying processes while differing about the nature of others. An attempt is made to organize many of the models into groups with similar features and to compare the consequences of those features with the actual experimental observations. It is assumed that by showing that some assumptions are inconsistent with experimental observations, the job of devising and testing mechanistic models can be simplified. 43 refs., 13 figs.

  16. Building models

    SciTech Connect

    Burr, M.T.

    1995-04-01

    As developers make progress on independent power projects around the world, models for success are beginning to emerge. Different models are evolving to create ownership structures that accomoate a complex system of regulatory requirements. Other frameworks make use of previously untapped fuel resources, or establish new sources of financing; however, not all models may be applied to a given project. This article explores how developers are finding new alternatives for overcoming development challenges that are common to projects in many countries.

  17. Calorimetry modeling

    SciTech Connect

    Robinson, C.E.

    1990-01-01

    A heat-flow calorimeter has been modeled on a Compaq PC, using the Algor Heat Transfer Modeling and Analysis Program, Algor Interactive Systems, Inc., Pittsburgh, PA. Employed in this application of the Algor finite element analysis program are two-dimensional axisymmetric thermal conductivity elements. The development of a computer calorimeter modeling program allows for the testing of new materials and techniques without actual fabrication of the calorimeter. 2 figs.

  18. Cloud Modeling

    NASA Technical Reports Server (NTRS)

    Tao, Wei-Kuo; Moncrieff, Mitchell; Einaud, Franco (Technical Monitor)

    2001-01-01

    Numerical cloud models have been developed and applied extensively to study cloud-scale and mesoscale processes during the past four decades. The distinctive aspect of these cloud models is their ability to treat explicitly (or resolve) cloud-scale dynamics. This requires the cloud models to be formulated from the non-hydrostatic equations of motion that explicitly include the vertical acceleration terms since the vertical and horizontal scales of convection are similar. Such models are also necessary in order to allow gravity waves, such as those triggered by clouds, to be resolved explicitly. In contrast, the hydrostatic approximation, usually applied in global or regional models, does allow the presence of gravity waves. In addition, the availability of exponentially increasing computer capabilities has resulted in time integrations increasing from hours to days, domain grids boxes (points) increasing from less than 2000 to more than 2,500,000 grid points with 500 to 1000 m resolution, and 3-D models becoming increasingly prevalent. The cloud resolving model is now at a stage where it can provide reasonably accurate statistical information of the sub-grid, cloud-resolving processes poorly parameterized in climate models and numerical prediction models.

  19. Ventilation Model

    SciTech Connect

    V. Chipman

    2002-10-05

    The purpose of the Ventilation Model is to simulate the heat transfer processes in and around waste emplacement drifts during periods of forced ventilation. The model evaluates the effects of emplacement drift ventilation on the thermal conditions in the emplacement drifts and surrounding rock mass, and calculates the heat removal by ventilation as a measure of the viability of ventilation to delay the onset of peak repository temperature and reduce its magnitude. The heat removal by ventilation is temporally and spatially dependent, and is expressed as the fraction of heat carried away by the ventilation air compared to the fraction of heat produced by radionuclide decay. One minus the heat removal is called the wall heat fraction, or the remaining amount of heat that is transferred via conduction to the surrounding rock mass. Downstream models, such as the ''Multiscale Thermohydrologic Model'' (BSC 2001), use the wall heat fractions as outputted from the Ventilation Model to initialize their post-closure analyses. The Ventilation Model report was initially developed to analyze the effects of preclosure continuous ventilation in the Engineered Barrier System (EBS) emplacement drifts, and to provide heat removal data to support EBS design. Revision 00 of the Ventilation Model included documentation of the modeling results from the ANSYS-based heat transfer model. The purposes of Revision 01 of the Ventilation Model are: (1) To validate the conceptual model for preclosure ventilation of emplacement drifts and verify its numerical application in accordance with new procedural requirements as outlined in AP-SIII-10Q, Models (Section 7.0). (2) To satisfy technical issues posed in KTI agreement RDTME 3.14 (Reamer and Williams 2001a). Specifically to demonstrate, with respect to the ANSYS ventilation model, the adequacy of the discretization (Section 6.2.3.1), and the downstream applicability of the model results (i.e. wall heat fractions) to initialize post

  20. Regarding the sources of data analyzed with quantitative structure-skin permeability relationship methods (commentary on 'Investigation of the mechanism of flux across human skin in vitro by quantitative structure-permeability relationships').

    PubMed

    Frasch, H Frederick; Landsittel, Douglas P

    2002-06-01

    We investigated the sources of data used in recently published predictive models of skin permeability. It was found that skin permeability coefficients for 63 compounds are poorly documented. We hypothesized that these coefficients were calculated using the simple two variable, three parameter 'Potts and Guy' regression equation and hence were not derived from experimental measurements. We therefore examined the distribution of residuals of these reported coefficients compared with the Potts and Guy predictions. The residuals cannot be described by a normal distribution. A substantial (51%) number of residuals equaled 0.00. Further analysis demonstrated that 89% (56 out of 63) of the skin permeability coefficients can be explained as being calculated by the Potts and Guy equation using different documented octanol-water partition coefficients, and/or transcription errors. The results strongly suggest that these 63 skin permeability coefficients are calculated and not experimentally determined-a conclusion subsequently confirmed by one of the developers of the data set. Continued use of these data would lead to biased model selection, underestimation of experimental variability, and overestimation of model predictive ability.

  1. Bayesian inversion for optical diffraction tomography

    NASA Astrophysics Data System (ADS)

    Ayasso, H.; Duchêne, B.; Mohammad-Djafari, A.

    2010-05-01

    In this paper, optical diffraction tomography is considered as a non-linear inverse scattering problem and tackled within the Bayesian estimation framework. The object under test is a man-made object known to be composed of compact regions made of a finite number of different homogeneous materials. This a priori knowledge is appropriately translated by a Gauss-Markov-Potts prior. Hence, a Gauss-Markov random field is used to model the contrast distribution whereas a hidden Potts-Markov field accounts for the compactness of the regions. First, we express the a posteriori distributions of all the unknowns and then a Gibbs sampling algorithm is used to generate samples and estimate the posterior mean of the unknowns. Some preliminary results, obtained by applying the inversion algorithm to laboratory controlled data, are presented.

  2. Conformally invariant fractals and potential theory

    PubMed

    Duplantier

    2000-02-14

    The multifractal (MF) distribution of the electrostatic potential near any conformally invariant fractal boundary, like a critical O(N) loop or a Q-state Potts cluster, is solved in two dimensions. The dimension &fcirc;(straight theta) of the boundary set with local wedge angle straight theta is &fcirc;(straight theta) = pi / straight theta-25-c / 12 (pi-straight theta)(2) / straight theta(2pi-straight theta), with c the central charge of the model. As a corollary, the dimensions D(EP) of the external perimeter and D(H) of the hull of a Potts cluster obey the duality equation (D(EP)-1) (D(H)-1) = 1 / 4. A related covariant MF spectrum is obtained for self-avoiding walks anchored at cluster boundaries.

  3. INTERDISCIPLINARY PHYSICS AND RELATED AREAS OF SCIENCE AND TECHNOLOGY: Coexistence and Extinction Pattern of Asymmetric Cyclic Game Species in a Square Lattice

    NASA Astrophysics Data System (ADS)

    Dong, Lin-Rong; Li, Yong-Ming; Yang, Guang-Can

    2010-06-01

    The co-evolutionary dynamics of a cyclic game system is investigated in a two-dimensional square lattice with the asymmetrical rates for three species. Different with the well-mixed system, coexistence and extinction emerge alternately in the system, where a “zero-one" behavior is robust for a small population size, whereas, the system is predominated by coexistence for a big population one. We study in detail the influence about the fluctuation to the change of the state, and find that the difference between the maximal amplitude about the fluctuation and the average intensity determines which state the system is ultimately. In addition, we introduce Potts energy to explain the reason of the “zero-one" behavior. It is shown that the average Potts energy per site is the distance to the “zero-one" behavior in the model.

  4. Model Selection for Geostatistical Models

    SciTech Connect

    Hoeting, Jennifer A.; Davis, Richard A.; Merton, Andrew A.; Thompson, Sandra E.

    2006-02-01

    We consider the problem of model selection for geospatial data. Spatial correlation is typically ignored in the selection of explanatory variables and this can influence model selection results. For example, the inclusion or exclusion of particular explanatory variables may not be apparent when spatial correlation is ignored. To address this problem, we consider the Akaike Information Criterion (AIC) as applied to a geostatistical model. We offer a heuristic derivation of the AIC in this context and provide simulation results that show that using AIC for a geostatistical model is superior to the often used approach of ignoring spatial correlation in the selection of explanatory variables. These ideas are further demonstrated via a model for lizard abundance. We also employ the principle of minimum description length (MDL) to variable selection for the geostatistical model. The effect of sampling design on the selection of explanatory covariates is also explored.

  5. Turbulence modeling

    NASA Technical Reports Server (NTRS)

    Bardina, Jorge E.

    1995-01-01

    The objective of this work is to develop, verify, and incorporate the baseline two-equation turbulence models which account for the effects of compressibility into the three-dimensional Reynolds averaged Navier-Stokes (RANS) code and to provide documented descriptions of the models and their numerical procedures so that they can be implemented into 3-D CFD codes for engineering applications.

  6. Dispersion Modeling.

    ERIC Educational Resources Information Center

    Budiansky, Stephen

    1980-01-01

    This article discusses the need for more accurate and complete input data and field verification of the various models of air pollutant dispension. Consideration should be given to changing the form of air quality standards based on enhanced dispersion modeling techniques. (Author/RE)

  7. Modeling Sunspots

    ERIC Educational Resources Information Center

    Oh, Phil Seok; Oh, Sung Jin

    2013-01-01

    Modeling in science has been studied by education researchers for decades and is now being applied broadly in school. It is among the scientific practices featured in the "Next Generation Science Standards" ("NGSS") (Achieve Inc. 2013). This article describes modeling activities in an extracurricular science club in a high…

  8. Phonological Models.

    ERIC Educational Resources Information Center

    Ballard, W.L.

    1968-01-01

    The article discusses models of synchronic and diachronic phonology and suggests changes in them. The basic generative model of phonology is outlined with the author's reinterpretations. The systematic phonemic level is questioned in terms of its unreality with respect to linguistic performance and its lack of validity with respect to historical…

  9. Student Modelers.

    ERIC Educational Resources Information Center

    Confrey, Jere; Doerr, Helen M.

    1994-01-01

    Presents an argument for learner-centered modeling tools and approaches that take into account students' conceptions. Based on a theoretical argument for the interplay of grounded activity and systematic inquiry, the article reports on a study of an integrated science and mathematics high school class that investigated modeling activities.…

  10. Protein structure modeling with MODELLER.

    PubMed

    Webb, Benjamin; Sali, Andrej

    2014-01-01

    Genome sequencing projects have resulted in a rapid increase in the number of known protein sequences. In contrast, only about one-hundredth of these sequences have been characterized at atomic resolution using experimental structure determination methods. Computational protein structure modeling techniques have the potential to bridge this sequence-structure gap. In this chapter, we present an example that illustrates the use of MODELLER to construct a comparative model for a protein with unknown structure. Automation of a similar protocol has resulted in models of useful accuracy for domains in more than half of all known protein sequences.

  11. Linguistic models and linguistic modeling.

    PubMed

    Pedryez, W; Vasilakos, A V

    1999-01-01

    The study is concerned with a linguistic approach to the design of a new category of fuzzy (granular) models. In contrast to numerically driven identification techniques, we concentrate on budding meaningful linguistic labels (granules) in the space of experimental data and forming the ensuing model as a web of associations between such granules. As such models are designed at the level of information granules and generate results in the same granular rather than pure numeric format, we refer to them as linguistic models. Furthermore, as there are no detailed numeric estimation procedures involved in the construction of the linguistic models carried out in this way, their design mode can be viewed as that of a rapid prototyping. The underlying algorithm used in the development of the models utilizes an augmented version of the clustering technique (context-based clustering) that is centered around a notion of linguistic contexts-a collection of fuzzy sets or fuzzy relations defined in the data space (more precisely a space of input variables). The detailed design algorithm is provided and contrasted with the standard modeling approaches commonly encountered in the literature. The usefulness of the linguistic mode of system modeling is discussed and illustrated with the aid of numeric studies including both synthetic data as well as some time series dealing with modeling traffic intensity over a broadband telecommunication network.

  12. OSPREY Model

    SciTech Connect

    Veronica J. Rutledge

    2013-01-01

    The absence of industrial scale nuclear fuel reprocessing in the U.S. has precluded the necessary driver for developing the advanced simulation capability now prevalent in so many other countries. Thus, it is essential to model complex series of unit operations to simulate, understand, and predict inherent transient behavior and feedback loops. A capability of accurately simulating the dynamic behavior of advanced fuel cycle separation processes will provide substantial cost savings and many technical benefits. The specific fuel cycle separation process discussed in this report is the off-gas treatment system. The off-gas separation consists of a series of scrubbers and adsorption beds to capture constituents of interest. Dynamic models are being developed to simulate each unit operation involved so each unit operation can be used as a stand-alone model and in series with multiple others. Currently, an adsorption model has been developed within Multi-physics Object Oriented Simulation Environment (MOOSE) developed at the Idaho National Laboratory (INL). Off-gas Separation and REcoverY (OSPREY) models the adsorption of off-gas constituents for dispersed plug flow in a packed bed under non-isothermal and non-isobaric conditions. Inputs to the model include gas, sorbent, and column properties, equilibrium and kinetic data, and inlet conditions. The simulation outputs component concentrations along the column length as a function of time from which breakthrough data is obtained. The breakthrough data can be used to determine bed capacity, which in turn can be used to size columns. It also outputs temperature along the column length as a function of time and pressure drop along the column length. Experimental data and parameters were input into the adsorption model to develop models specific for krypton adsorption. The same can be done for iodine, xenon, and tritium. The model will be validated with experimental breakthrough curves. Customers will be given access to

  13. Model hydrographs

    USGS Publications Warehouse

    Mitchell, W.D.

    1972-01-01

    Model hydrographs are composed of pairs of dimensionless ratios, arrayed in tabular form, which, when modified by the appropriate values of rainfall exceed and by the time and areal characteristics of the drainage basin, satisfactorily represent the flood hydrograph for the basin. Model bydrographs are developed from a dimensionless translation hydrograph, having a time base of T hours and appropriately modified for storm duration by routing through reservoir storage, S=kOx. Models fall into two distinct classes: (1) those for which the value of x is unity and which have all the characteristics of true unit hydrographs and (2) those for which the value of x is other than unity and to which the unit-hydrograph principles of proportionality and superposition do not apply. Twenty-six families of linear models and eight families of nonlinear models in tabular form from the principal subject of this report. Supplemental discussions describe the development of the models and illustrate their application. Other sections of the report, supplemental to the tables, describe methods of determining the hydrograph characteristics, T, k, and x, both from observed hydrograph and from the physical characteristics of the drainage basin. Five illustrative examples of use show that the models, when properly converted to incorporate actual rainfall excess and the time and areal characteristics of the drainage basins, do indeed satisfactorily represent the observed flood hydrographs for the basins.

  14. Stereometric Modelling

    NASA Astrophysics Data System (ADS)

    Grimaldi, P.

    2012-07-01

    These mandatory guidelines are provided for preparation of papers accepted for publication in the series of Volumes of The The stereometric modelling means modelling achieved with : - the use of a pair of virtual cameras, with parallel axes and positioned at a mutual distance average of 1/10 of the distance camera-object (in practice the realization and use of a stereometric camera in the modeling program); - the shot visualization in two distinct windows - the stereoscopic viewing of the shot while modelling. Since the definition of "3D vision" is inaccurately referred to as the simple perspective of an object, it is required to add the word stereo so that "3D stereo vision " shall stand for "three-dimensional view" and ,therefore, measure the width, height and depth of the surveyed image. Thanks to the development of a stereo metric model , either real or virtual, through the "materialization", either real or virtual, of the optical-stereo metric model made visible with a stereoscope. It is feasible a continuous on line updating of the cultural heritage with the help of photogrammetry and stereometric modelling. The catalogue of the Architectonic Photogrammetry Laboratory of Politecnico di Bari is available on line at: http://rappresentazione.stereofot.it:591/StereoFot/FMPro?-db=StereoFot.fp5&-lay=Scheda&-format=cerca.htm&-view

  15. Phenomenological models.

    PubMed

    Braby, L A

    1991-01-01

    The biological effects of ionizing radiation exposure are the result of a complex sequence of physical, chemical, biochemical, and physiological interactions which are modified by characteristics of the radiation, the timing of its administration, the chemical and physical environment, and the nature of the biological system. However, it is generally agreed that the health effects in animals originate from changes in individual cells, or possibly small groups of cells, and that these cellular changes are initiated by ionizations and excitations produced by the passage of charged particles through the cells. One way to begin a search for an understanding of health effects of radiation is through the development of phenomenological models of the response. Many models have been presented and tested in the slowly evolving process of characterizing cellular response. Different phenomena (LET dependence, dose rate effect, oxygen effect etc.) and different end points (cell survival, aberration formation, transformation, etc.) have been observed, and no single model has been developed to cover all of them. Instead, a range of models covering different end points and phenomena have developed in parallel. Many of these models employ similar assumptions about some underlying processes while differing about the nature of others. An attempt is made to organize many of the models into groups with similar features and to compare the consequences of those features with the actual experimental observations. It is assumed that by showing that some assumptions are inconsistent with experimental observations, the job of devising and testing mechanistic models can be simplified. PMID:1811477

  16. Phenomenological models.

    PubMed

    Braby, L A

    1991-01-01

    The biological effects of ionizing radiation exposure are the result of a complex sequence of physical, chemical, biochemical, and physiological interactions which are modified by characteristics of the radiation, the timing of its administration, the chemical and physical environment, and the nature of the biological system. However, it is generally agreed that the health effects in animals originate from changes in individual cells, or possibly small groups of cells, and that these cellular changes are initiated by ionizations and excitations produced by the passage of charged particles through the cells. One way to begin a search for an understanding of health effects of radiation is through the development of phenomenological models of the response. Many models have been presented and tested in the slowly evolving process of characterizing cellular response. Different phenomena (LET dependence, dose rate effect, oxygen effect etc.) and different end points (cell survival, aberration formation, transformation, etc.) have been observed, and no single model has been developed to cover all of them. Instead, a range of models covering different end points and phenomena have developed in parallel. Many of these models employ similar assumptions about some underlying processes while differing about the nature of others. An attempt is made to organize many of the models into groups with similar features and to compare the consequences of those features with the actual experimental observations. It is assumed that by showing that some assumptions are inconsistent with experimental observations, the job of devising and testing mechanistic models can be simplified.

  17. Modular Modeling System Model Builder

    SciTech Connect

    McKim, C.S.; Matthews, M.T.

    1996-12-31

    The latest release of the Modular Modeling System (MMS) Model Builder adds still more time-saving features to an already powerful MMS dynamic-simulation tool set. The Model Builder takes advantage of 32-bit architecture within the Microsoft Windows 95/NT{trademark} Operating Systems to better integrate a mature library of power-plant components. In addition, the MMS Library of components can now be modified and extended with a new tool named MMS CompGen{trademark}. The MMS Model Builder allows the user to quickly build a graphical schematic representation for a plant by selecting from a library of predefined power plant components to dynamically simulate their operation. In addition, each component has a calculation subroutine stored in a dynamic-link library (DLL), which facilitates the determination of a steady-state condition and performance of routine calculations for the component. These calculations, termed auto-parameterization, help avoid repetitive and often tedious hand calculations for model initialization. In striving to meet the needs for large models and increase user productivity, the MMS Model Builder has been completely revamped to make power plant model creation and maintainability easier and more efficient.

  18. A Model for Math Modeling

    ERIC Educational Resources Information Center

    Lin, Tony; Erfan, Sasan

    2016-01-01

    Mathematical modeling is an open-ended research subject where no definite answers exist for any problem. Math modeling enables thinking outside the box to connect different fields of studies together including statistics, algebra, calculus, matrices, programming and scientific writing. As an integral part of society, it is the foundation for many…

  19. Energy Models

    EPA Science Inventory

    Energy models characterize the energy system, its evolution, and its interactions with the broader economy. The energy system consists of primary resources, including both fossil fuels and renewables; power plants, refineries, and other technologies to process and convert these r...

  20. Modeling Arcs

    SciTech Connect

    Insepov, Z.; Norem, J.; Vetizer, S.; Mahalingam, S.

    2011-12-23

    Although vacuum arcs were first identified over 110 years ago, they are not yet well understood. We have since developed a model of breakdown and gradient limits that tries to explain, in a self-consistent way: arc triggering, plasma initiation, plasma evolution, surface damage and gradient limits. We use simple PIC codes for modeling plasmas, molecular dynamics for modeling surface breakdown, and surface damage, and mesoscale surface thermodynamics and finite element electrostatic codes for to evaluate surface properties. Since any given experiment seems to have more variables than data points, we have tried to consider a wide variety of arcing (rf structures, e beam welding, laser ablation, etc.) to help constrain the problem, and concentrate on common mechanisms. While the mechanisms can be comparatively simple, modeling can be challenging.

  1. Programming models

    SciTech Connect

    Daniel, David J; Mc Pherson, Allen; Thorp, John R; Barrett, Richard; Clay, Robert; De Supinski, Bronis; Dube, Evi; Heroux, Mike; Janssen, Curtis; Langer, Steve; Laros, Jim

    2011-01-14

    A programming model is a set of software technologies that support the expression of algorithms and provide applications with an abstract representation of the capabilities of the underlying hardware architecture. The primary goals are productivity, portability and performance.

  2. PREDICTIVE MODELS

    SciTech Connect

    Ray, R.M. )

    1986-12-01

    PREDICTIVE MODELS is a collection of five models - CFPM, CO2PM, ICPM, PFPM, and SFPM - used in the 1982-1984 National Petroleum Council study of enhanced oil recovery (EOR) potential. Each pertains to a specific EOR process designed to squeeze additional oil from aging or spent oil fields. The processes are: 1) chemical flooding, where soap-like surfactants are injected into the reservoir to wash out the oil; 2) carbon dioxide miscible flooding, where carbon dioxide mixes with the lighter hydrocarbons making the oil easier to displace; 3) in-situ combustion, which uses the heat from burning some of the underground oil to thin the product; 4) polymer flooding, where thick, cohesive material is pumped into a reservoir to push the oil through the underground rock; and 5) steamflood, where pressurized steam is injected underground to thin the oil. CFPM, the Chemical Flood Predictive Model, models micellar (surfactant)-polymer floods in reservoirs, which have been previously waterflooded to residual oil saturation. Thus, only true tertiary floods are considered. An option allows a rough estimate of oil recovery by caustic or caustic-polymer processes. CO2PM, the Carbon Dioxide miscible flooding Predictive Model, is applicable to both secondary (mobile oil) and tertiary (residual oil) floods, and to either continuous CO2 injection or water-alternating gas processes. ICPM, the In-situ Combustion Predictive Model, computes the recovery and profitability of an in-situ combustion project from generalized performance predictive algorithms. PFPM, the Polymer Flood Predictive Model, is switch-selectable for either polymer or waterflooding, and an option allows the calculation of the incremental oil recovery and economics of polymer relative to waterflooding. SFPM, the Steamflood Predictive Model, is applicable to the steam drive process, but not to cyclic steam injection (steam soak) processes.

  3. Mechanistic models

    SciTech Connect

    Curtis, S.B.

    1990-09-01

    Several models and theories are reviewed that incorporate the idea of radiation-induced lesions (repairable and/or irreparable) that can be related to molecular lesions in the DNA molecule. Usually the DNA double-strand or chromatin break is suggested as the critical lesion. In the models, the shoulder on the low-LET survival curve is hypothesized as being due to one (or more) of the following three mechanisms: (1) interaction'' of lesions produced by statistically independent particle tracks; (2) nonlinear (i.e., linear-quadratic) increase in the yield of initial lesions, and (3) saturation of repair processes at high dose. Comparisons are made between the various approaches. Several significant advances in model development are discussed; in particular, a description of the matrix formulation of the Markov versions of the RMR and LPL models is given. The more advanced theories have incorporated statistical fluctuations in various aspects of the energy-loss and lesion-formation process. An important direction is the inclusion of physical and chemical processes into the formulations by incorporating relevant track structure theory (Monte Carlo track simulations) and chemical reactions of radiation-induced radicals. At the biological end, identification of repair genes and how they operate as well as a better understanding of how DNA misjoinings lead to lethal chromosome aberrations are needed for appropriate inclusion into the theories. More effort is necessary to model the complex end point of radiation-induced carcinogenesis.

  4. Mechanistic models

    SciTech Connect

    Curtis, S.B.

    1990-09-01

    Several models and theories are reviewed that incorporate the idea of radiation-induced lesions (repairable and/or irreparable) that can be related to molecular lesions in the DNA molecule. Usually the DNA double-strand or chromatin break is suggested as the critical lesion. In the models, the shoulder on the low-LET survival curve is hypothesized as being due to one (or more) of the following three mechanisms: (1) ``interaction`` of lesions produced by statistically independent particle tracks; (2) nonlinear (i.e., linear-quadratic) increase in the yield of initial lesions, and (3) saturation of repair processes at high dose. Comparisons are made between the various approaches. Several significant advances in model development are discussed; in particular, a description of the matrix formulation of the Markov versions of the RMR and LPL models is given. The more advanced theories have incorporated statistical fluctuations in various aspects of the energy-loss and lesion-formation process. An important direction is the inclusion of physical and chemical processes into the formulations by incorporating relevant track structure theory (Monte Carlo track simulations) and chemical reactions of radiation-induced radicals. At the biological end, identification of repair genes and how they operate as well as a better understanding of how DNA misjoinings lead to lethal chromosome aberrations are needed for appropriate inclusion into the theories. More effort is necessary to model the complex end point of radiation-induced carcinogenesis.

  5. Modeling reality

    NASA Technical Reports Server (NTRS)

    Denning, Peter J.

    1990-01-01

    Although powerful computers have allowed complex physical and manmade hardware systems to be modeled successfully, we have encountered persistent problems with the reliability of computer models for systems involving human learning, human action, and human organizations. This is not a misfortune; unlike physical and manmade systems, human systems do not operate under a fixed set of laws. The rules governing the actions allowable in the system can be changed without warning at any moment, and can evolve over time. That the governing laws are inherently unpredictable raises serious questions about the reliability of models when applied to human situations. In these domains, computers are better used, not for prediction and planning, but for aiding humans. Examples are systems that help humans speculate about possible futures, offer advice about possible actions in a domain, systems that gather information from the networks, and systems that track and support work flows in organizations.

  6. Supernova models

    SciTech Connect

    Woosley, S.E.; Weaver, T.A.

    1980-01-01

    Recent progress in understanding the observed properties of Type I supernovae as a consequence of the thermonuclear detonation of white dwarf stars and the ensuing decay of the /sup 56/Ni produced therein is reviewed. Within the context of this model for Type I explosions and the 1978 model for Type II explosions, the expected nucleosynthesis and gamma-line spectra from both kinds of supernovae are presented. Finally, a qualitatively new approach to the problem of massive star death and Type II supernovae based upon a combination of rotation and thermonuclear burning is discussed.

  7. Painting models

    NASA Astrophysics Data System (ADS)

    Baart, F.; Donchyts, G.; van Dam, A.; Plieger, M.

    2015-12-01

    The emergence of interactive art has blurred the line between electronic, computer graphics and art. Here we apply this art form to numerical models. Here we show how the transformation of a numerical model into an interactive painting can both provide insights and solve real world problems. The cases that are used as an example include forensic reconstructions, dredging optimization, barrier design. The system can be fed using any source of time varying vector fields, such as hydrodynamic models. The cases used here, the Indian Ocean (HYCOM), the Wadden Sea (Delft3D Curvilinear), San Francisco Bay (3Di subgrid and Delft3D Flexible Mesh), show that the method used is suitable for different time and spatial scales. High resolution numerical models become interactive paintings by exchanging their velocity fields with a high resolution (>=1M cells) image based flow visualization that runs in a html5 compatible web browser. The image based flow visualization combines three images into a new image: the current image, a drawing, and a uv + mask field. The advection scheme that computes the resultant image is executed in the graphics card using WebGL, allowing for 1M grid cells at 60Hz performance on mediocre graphic cards. The software is provided as open source software. By using different sources for a drawing one can gain insight into several aspects of the velocity fields. These aspects include not only the commonly represented magnitude and direction, but also divergence, topology and turbulence .

  8. Atmospheric Modeling

    EPA Science Inventory

    Although air quality models have been applied historically to address issues specific to ambient air quality standards (i.e., one criteria pollutant at a time) or welfare (e.g.. acid deposition or visibility impairment). they are inherently multipollutant based. Therefore. in pri...

  9. Modeling Muscles

    ERIC Educational Resources Information Center

    Goodwyn, Lauren; Salm, Sarah

    2007-01-01

    Teaching the anatomy of the muscle system to high school students can be challenging. Students often learn about muscle anatomy by memorizing information from textbooks or by observing plastic, inflexible models. Although these mediums help students learn about muscle placement, the mediums do not facilitate understanding regarding integration of…

  10. Modeling Convection

    ERIC Educational Resources Information Center

    Ebert, James R.; Elliott, Nancy A.; Hurteau, Laura; Schulz, Amanda

    2004-01-01

    Students must understand the fundamental process of convection before they can grasp a wide variety of Earth processes, many of which may seem abstract because of the scales on which they operate. Presentation of a very visual, concrete model prior to instruction on these topics may facilitate students' understanding of processes that are largely…

  11. Ensemble Models

    EPA Science Inventory

    Ensemble forecasting has been used for operational numerical weather prediction in the United States and Europe since the early 1990s. An ensemble of weather or climate forecasts is used to characterize the two main sources of uncertainty in computer models of physical systems: ...

  12. Criticality Model

    SciTech Connect

    A. Alsaed

    2004-09-14

    The ''Disposal Criticality Analysis Methodology Topical Report'' (YMP 2003) presents the methodology for evaluating potential criticality situations in the monitored geologic repository. As stated in the referenced Topical Report, the detailed methodology for performing the disposal criticality analyses will be documented in model reports. Many of the models developed in support of the Topical Report differ from the definition of models as given in the Office of Civilian Radioactive Waste Management procedure AP-SIII.10Q, ''Models'', in that they are procedural, rather than mathematical. These model reports document the detailed methodology necessary to implement the approach presented in the Disposal Criticality Analysis Methodology Topical Report and provide calculations utilizing the methodology. Thus, the governing procedure for this type of report is AP-3.12Q, ''Design Calculations and Analyses''. The ''Criticality Model'' is of this latter type, providing a process evaluating the criticality potential of in-package and external configurations. The purpose of this analysis is to layout the process for calculating the criticality potential for various in-package and external configurations and to calculate lower-bound tolerance limit (LBTL) values and determine range of applicability (ROA) parameters. The LBTL calculations and the ROA determinations are performed using selected benchmark experiments that are applicable to various waste forms and various in-package and external configurations. The waste forms considered in this calculation are pressurized water reactor (PWR), boiling water reactor (BWR), Fast Flux Test Facility (FFTF), Training Research Isotope General Atomic (TRIGA), Enrico Fermi, Shippingport pressurized water reactor, Shippingport light water breeder reactor (LWBR), N-Reactor, Melt and Dilute, and Fort Saint Vrain Reactor spent nuclear fuel (SNF). The scope of this analysis is to document the criticality computational method. The criticality

  13. Impact of Smoke-Free Residence Hall Policies: The Views of Administrators at 3 State Universities

    ERIC Educational Resources Information Center

    Gerson, Megan

    2005-01-01

    Nationwide efforts to protect the public against the health effects of secondhand smoke have prompted college and university administrators to adopt more restrictive smoking policies. Some campus officials are concerned that new policies will lead to student backlash, increased staff workloads, and an increased economic burden. To understand the…

  14. 50 CFR 70.3 - State cooperation in national fish hatchery area management.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 50 Wildlife and Fisheries 9 2014-10-01 2014-10-01 false State cooperation in national fish hatchery area management. 70.3 Section 70.3 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE INTERIOR (CONTINUED) MANAGEMENT OF FISHERIES CONSERVATION AREAS NATIONAL FISH...

  15. 50 CFR 70.3 - State cooperation in national fish hatchery area management.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 50 Wildlife and Fisheries 6 2010-10-01 2010-10-01 false State cooperation in national fish hatchery area management. 70.3 Section 70.3 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE INTERIOR (CONTINUED) MANAGEMENT OF FISHERIES CONSERVATION AREAS NATIONAL FISH...

  16. 50 CFR 70.3 - State cooperation in national fish hatchery area management.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 50 Wildlife and Fisheries 9 2012-10-01 2012-10-01 false State cooperation in national fish hatchery area management. 70.3 Section 70.3 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE INTERIOR (CONTINUED) MANAGEMENT OF FISHERIES CONSERVATION AREAS NATIONAL FISH...

  17. 50 CFR 70.3 - State cooperation in national fish hatchery area management.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 50 Wildlife and Fisheries 8 2011-10-01 2011-10-01 false State cooperation in national fish hatchery area management. 70.3 Section 70.3 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE INTERIOR (CONTINUED) MANAGEMENT OF FISHERIES CONSERVATION AREAS NATIONAL FISH...

  18. 50 CFR 70.3 - State cooperation in national fish hatchery area management.

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 50 Wildlife and Fisheries 9 2013-10-01 2013-10-01 false State cooperation in national fish hatchery area management. 70.3 Section 70.3 Wildlife and Fisheries UNITED STATES FISH AND WILDLIFE SERVICE, DEPARTMENT OF THE INTERIOR (CONTINUED) MANAGEMENT OF FISHERIES CONSERVATION AREAS NATIONAL FISH...

  19. Higher Education Spending and the State Fiscal Stabilization Fund, Part 3: State Case Studies

    ERIC Educational Resources Information Center

    Cohen, Jennifer

    2011-01-01

    By late 2008, the United States was in the midst of its most severe economic recession since the 1930s, brought on by a collapse in real estate prices and exacerbated by the failure of many large banks and financial institutions. Heeding calls from economists, Congress and the Obama administration passed an historic law in early 2009 to stimulate…

  20. 49 CFR 397.3 - State and local laws, ordinances, and regulations.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... laws, ordinances, and regulations. Every motor vehicle containing hazardous materials must be driven and parked in compliance with the laws, ordinances, and regulations of the jurisdiction in which it is... Transportation which are applicable to the operation of that vehicle and which impose a more stringent...

  1. 49 CFR 397.3 - State and local laws, ordinances, and regulations.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... laws, ordinances, and regulations. Every motor vehicle containing hazardous materials must be driven and parked in compliance with the laws, ordinances, and regulations of the jurisdiction in which it is... Transportation which are applicable to the operation of that vehicle and which impose a more stringent...

  2. Trends in Energy Management Technology - Part 3: State of Practiceof Energy Management, Control, and Information Systems

    SciTech Connect

    Yee, Gaymond; Webster, Tom

    2004-02-01

    In this report, the third in a series, we provide an evaluation of several products that exemplify the current state of practice of Energy Management, Control, and Information Systems (EMCIS). The available features for these products are summarized and analyzed with regard to emerging trends in EMCIS and potential benefits to the federal sector. The first report [1] covered enabling technologies for emerging energy management systems. The second report [2] serves as a basic reference for building control system (BCS) networking fundamentals and includes an assessment of current approaches to open communications. Part 4 of this series will discuss applications software from a user's perspective. It is important for energy managers in the Federal sector to have a high level of knowledge and understanding of these complex energy management systems. This series of reports provides energy practitioners with some basic informational and educational tools to help make decisions relative to energy management systems design, specification, procurement, and energy savings potential.

  3. A Description and Evaluation of Chapter 3, State Compensatory Education Programs in Michigan, 1973-1974.

    ERIC Educational Resources Information Center

    Michigan State Dept. of Education, Lansing. Research, Evaluation, and Assessment Services.

    Chapter 3 of the State School Aid Act was enacted to improve achievement in the basic cognitive skills of low-achieving puPils in Michigan. The program provided funds and considerable program discretion for local school districts with high concentration of low achieving children in the grades K-6. These districts received funds for a three-year…

  4. Models, Part V: Composition Models.

    ERIC Educational Resources Information Center

    Callison, Daniel

    2003-01-01

    Describes four models: The Authoring Cycle, a whole language approach that reflects the inquiry process; I-Search, an approach to research that uses the power of student interests; Cultural Celebration, using local heritage topics; and Science Lab Report, for the composition of a lab report. (LRW)

  5. Modeling Molecules

    NASA Technical Reports Server (NTRS)

    2000-01-01

    The molecule modeling method known as Multibody Order (N) Dynamics, or MBO(N)D, was developed by Moldyn, Inc. at Goddard Space Flight Center through funding provided by the SBIR program. The software can model the dynamics of molecules through technology which stimulates low-frequency molecular motions and properties, such as movements among a molecule's constituent parts. With MBO(N)D, a molecule is substructured into a set of interconnected rigid and flexible bodies. These bodies replace the computation burden of mapping individual atoms. Moldyn's technology cuts computation time while increasing accuracy. The MBO(N)D technology is available as Insight II 97.0 from Molecular Simulations, Inc. Currently the technology is used to account for forces on spacecraft parts and to perform molecular analyses for pharmaceutical purposes. It permits the solution of molecular dynamics problems on a moderate workstation, as opposed to on a supercomputer.

  6. Dendrite Model

    NASA Technical Reports Server (NTRS)

    1999-01-01

    Dr. Donald Gilles, the Discipline Scientist for Materials Science in NASA's Microgravity Materials Science and Applications Department, demonstrates to Carl Dohrman a model of dendrites, the branch-like structures found in many metals and alloys. Dohrman was recently selected by the American Society for Metals International as their 1999 ASM International Foundation National Merit Scholar. The University of Illinois at Urbana-Champaign freshman recently toured NASA's materials science facilities at the Marshall Space Flight Center.

  7. Modeling biomembranes.

    SciTech Connect

    Plimpton, Steven James; Heffernan, Julieanne; Sasaki, Darryl Yoshio; Frischknecht, Amalie Lucile; Stevens, Mark Jackson; Frink, Laura J. Douglas

    2005-11-01

    Understanding the properties and behavior of biomembranes is fundamental to many biological processes and technologies. Microdomains in biomembranes or ''lipid rafts'' are now known to be an integral part of cell signaling, vesicle formation, fusion processes, protein trafficking, and viral and toxin infection processes. Understanding how microdomains form, how they depend on membrane constituents, and how they act not only has biological implications, but also will impact Sandia's effort in development of membranes that structurally adapt to their environment in a controlled manner. To provide such understanding, we created physically-based models of biomembranes. Molecular dynamics (MD) simulations and classical density functional theory (DFT) calculations using these models were applied to phenomena such as microdomain formation, membrane fusion, pattern formation, and protein insertion. Because lipid dynamics and self-organization in membranes occur on length and time scales beyond atomistic MD, we used coarse-grained models of double tail lipid molecules that spontaneously self-assemble into bilayers. DFT provided equilibrium information on membrane structure. Experimental work was performed to further help elucidate the fundamental membrane organization principles.

  8. Model checking

    NASA Technical Reports Server (NTRS)

    Dill, David L.

    1995-01-01

    Automatic formal verification methods for finite-state systems, also known as model-checking, successfully reduce labor costs since they are mostly automatic. Model checkers explicitly or implicitly enumerate the reachable state space of a system, whose behavior is described implicitly, perhaps by a program or a collection of finite automata. Simple properties, such as mutual exclusion or absence of deadlock, can be checked by inspecting individual states. More complex properties, such as lack of starvation, require search for cycles in the state graph with particular properties. Specifications to be checked may consist of built-in properties, such as deadlock or 'unspecified receptions' of messages, another program or implicit description, to be compared with a simulation, bisimulation, or language inclusion relation, or an assertion in one of several temporal logics. Finite-state verification tools are beginning to have a significant impact in commercial designs. There are many success stories of verification tools finding bugs in protocols or hardware controllers. In some cases, these tools have been incorporated into design methodology. Research in finite-state verification has been advancing rapidly, and is showing no signs of slowing down. Recent results include probabilistic algorithms for verification, exploitation of symmetry and independent events, and the use symbolic representations for Boolean functions and systems of linear inequalities. One of the most exciting areas for further research is the combination of model-checking with theorem-proving methods.

  9. Modeling of Instabilities and Self-organization at the Frictional Interface

    NASA Astrophysics Data System (ADS)

    Mortazavi, Vahid

    results show how interfacial patterns form, how the transition between stick and slip zones occurs, and which parameters affect them. In chapter 6, we use Cellular Potts Model to study contact angle (CA) hysteresis as a measure of solid-liquid energy dissipation. We simulate CA hysteresis for a droplet over the tilted patterned surface, and a bubble placed under the surface immersed in liquid. We discuss the dependency of CA hysteresis on the surface structure and other parameters. This analysis allows decoupling of the 1D (pinning of the triple line) and 2D effects (adhesion hysteresis in the contact area) and obtain new insights on the nature of CA hysteresis. To summarize, we examine different cases in frictional interface and observe similar trends. We investigate and discus how these trends could be beneficial in design, synthesis and characterization of different materials and tribosystems. Furthermore, we describe how to utilize fundamental concepts for specific engineering applications. Finally, the main theme of this research is to find new applications of concept of self-organization to tribology and the role played by different physical and chemical interactions in modifying and controlling friction and wear. (Abstract shortened by UMI.)

  10. Molecular Modeling

    NASA Astrophysics Data System (ADS)

    Holmes, Jon L.

    1999-06-01

    Molecular modeling has trickled down from the realm of pharmaceutical and research laboratories into the realm of undergraduate chemistry instruction. It has opened avenues for the visualization of chemical concepts that previously were difficult or impossible to convey. I am sure that many of you have developed exercises using the various molecular modeling tools. It is the desire of this Journal to become an avenue for you to share these exercises among your colleagues. It is to this end that Ron Starkey has agreed to edit such a column and to publish not only the description of such exercises, but also the software documents they use. The WWW is the obvious medium to distribute this combination and so accepted submissions will appear online as a feature of JCE Internet. Typical molecular modeling exercise: finding conformation energies. Molecular Modeling Exercises and Experiments is the latest feature column of JCE Internet, joining Conceptual Questions and Challenge Problems, Hal's Picks, and Mathcad in the Chemistry Curriculum. JCE Internet continues to seek submissions in these areas of interest and submissions of general interest. If you have developed materials and would like to submit them, please see our Guide to Submissions for more information. The Chemical Education Resource Shelf, Equipment Buyers Guide, and WWW Site Review would also like to hear about chemistry textbooks and software, equipment, and WWW sites, respectively. Please consult JCE Internet Features to learn more about these resources at JCE Online. Email Announcements Would you like to be informed by email when the latest issue of the Journal is available online? when a new JCE Software title is shipping? when a new JCE Internet article has been published or is available for Open Review? when your subscription is about to expire? A new feature of JCE Online makes this possible. Visit our Guestbook to learn how. When

  11. Students' Models of Curve Fitting: A Models and Modeling Perspective

    ERIC Educational Resources Information Center

    Gupta, Shweta

    2010-01-01

    The Models and Modeling Perspectives (MMP) has evolved out of research that began 26 years ago. MMP researchers use Model Eliciting Activities (MEAs) to elicit students' mental models. In this study MMP was used as the conceptual framework to investigate the nature of students' models of curve fitting in a problem-solving environment consisting of…

  12. 10. MOVABLE BED SEDIMENTATION MODELS. DOGTOOTH BEND MODEL (MODEL SCALE: ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    10. MOVABLE BED SEDIMENTATION MODELS. DOGTOOTH BEND MODEL (MODEL SCALE: 1' = 400' HORIZONTAL, 1' = 100' VERTICAL), AND GREENVILLE BRIDGE MODEL (MODEL SCALE: 1' = 360' HORIZONTAL, 1' = 100' VERTICAL). - Waterways Experiment Station, Hydraulics Laboratory, Halls Ferry Road, 2 miles south of I-20, Vicksburg, Warren County, MS

  13. Biomimetic modelling.

    PubMed Central

    Vincent, Julian F V

    2003-01-01

    Biomimetics is seen as a path from biology to engineering. The only path from engineering to biology in current use is the application of engineering concepts and models to biological systems. However, there is another pathway: the verification of biological mechanisms by manufacture, leading to an iterative process between biology and engineering in which the new understanding that the engineering implementation of a biological system can bring is fed back into biology, allowing a more complete and certain understanding and the possibility of further revelations for application in engineering. This is a pathway as yet unformalized, and one that offers the possibility that engineers can also be scientists. PMID:14561351

  14. Fault models

    NASA Astrophysics Data System (ADS)

    Sayah, H. R.; Buehler, M. G.

    1985-06-01

    A major problem in the qualification of integrated circuit cells and in the development of adequate tests for the circuits is to lack of information on the nature and density of fault models. Some of this information is being obtained from the test structures. In particular, the Pinhole Array Capacitor is providing values for the resistance of gate oxide shorts, and the Addressable Inverter Matrix is providing values for parameter distributions such as noise margins. Another CMOS fault mode, that of the open-gated transistor, is examined and the state of the transistors assessed. Preliminary results are described for a number of open-gated structures such as transistors, inverters, and NAND gates. Resistor faults are applied to various CMOS gates and the time responses are noted. The critical value for the resistive short to upset the gate response was determined.

  15. Noise-induced absorbing phase transition in a model of opinion formation

    NASA Astrophysics Data System (ADS)

    Vieira, Allan R.; Crokidakis, Nuno

    2016-08-01

    In this work we study a 3-state (+1, -1, 0) opinion model in the presence of noise and disorder. We consider pairwise competitive interactions, with a fraction p of those interactions being negative (disorder). Moreover, there is a noise q that represents the probability of an individual spontaneously change his opinion to the neutral state. Our aim is to study how the increase/decrease of the fraction of neutral agents affects the critical behavior of the system and the evolution of opinions. We derive analytical expressions for the order parameter of the model, as well as for the stationary fraction of each opinion, and we show that there are distinct phase transitions. One is the usual ferro-paramagnetic transition, that is in the Ising universality class. In addition, there are para-absorbing and ferro-absorbing transitions, presenting the directed percolation universality class. Our results are complemented by numerical simulations.

  16. Modeling uncertainty: quicksand for water temperature modeling

    USGS Publications Warehouse

    Bartholow, John M.

    2003-01-01

    Uncertainty has been a hot topic relative to science generally, and modeling specifically. Modeling uncertainty comes in various forms: measured data, limited model domain, model parameter estimation, model structure, sensitivity to inputs, modelers themselves, and users of the results. This paper will address important components of uncertainty in modeling water temperatures, and discuss several areas that need attention as the modeling community grapples with how to incorporate uncertainty into modeling without getting stuck in the quicksand that prevents constructive contributions to policy making. The material, and in particular the reference, are meant to supplement the presentation given at this conference.

  17. Pre-Modeling Ensures Accurate Solid Models

    ERIC Educational Resources Information Center

    Gow, George

    2010-01-01

    Successful solid modeling requires a well-organized design tree. The design tree is a list of all the object's features and the sequential order in which they are modeled. The solid-modeling process is faster and less prone to modeling errors when the design tree is a simple and geometrically logical definition of the modeled object. Few high…

  18. Direct handling of sharp interfacial energy for microstructural evolution

    SciTech Connect

    Hernández–Rivera, Efraín; Tikare, Veena; Noirot, Laurence; Wang, Lumin

    2014-08-24

    In this study, we introduce a simplification to the previously demonstrated hybrid Potts–phase field (hPPF), which relates interfacial energies to microstructural sharp interfaces. The model defines interfacial energy by a Potts-like discrete interface approach of counting unlike neighbors, which we use to compute local curvature. The model is compared to the hPPF by studying interfacial characteristics and grain growth behavior. The models give virtually identical results, while the new model allows the simulator more direct control of interfacial energy.

  19. Using Avatars to Model Weight Loss Behaviors: Participant Attitudes and Technology Development

    PubMed Central

    Napolitano, Melissa A.; Hayes, Sharon; Russo, Giuseppe; Muresu, Debora; Giordano, Antonio; Foster, Gary D.

    2013-01-01

    Background: Virtual reality and other avatar-based technologies are potential methods for demonstrating and modeling weight loss behaviors. This study examined avatar-based technology as a tool for modeling weight loss behaviors. Methods: This study consisted of two phases: (1) an online survey to obtain feedback about using avatars for modeling weight loss behaviors and (2) technology development and usability testing to create an avatar-based technology program for modeling weight loss behaviors. Results: Results of phase 1 (n = 128) revealed that interest was high, with 88.3% stating that they would participate in a program that used an avatar to help practice weight loss skills in a virtual environment. In phase 2, avatars and modules to model weight loss skills were developed. Eight women were recruited to participate in a 4-week usability test, with 100% reporting they would recommend the program and that it influenced their diet/exercise behavior. Most women (87.5%) indicated that the virtual models were helpful. After 4 weeks, average weight loss was 1.6 kg (standard deviation = 1.7). Conclusion: This investigation revealed a high level of interest in an avatar-based program, with formative work indicating promise. Given the high costs associated with in vivo exposure and practice, this study demonstrates the potential use of avatar-based technology as a tool for modeling weight loss behaviors. PMID:23911189

  20. CISNET lung models: Comparison of model assumptions and model structures

    PubMed Central

    McMahon, Pamela M.; Hazelton, William; Kimmel, Marek; Clarke, Lauren

    2012-01-01

    Sophisticated modeling techniques can be powerful tools to help us understand the effects of cancer control interventions on population trends in cancer incidence and mortality. Readers of journal articles are however rarely supplied with modeling details. Six modeling groups collaborated as part of the National Cancer Institute’s Cancer Intervention and Surveillance Modeling Network (CISNET) to investigate the contribution of US tobacco control efforts towards reducing lung cancer deaths over the period 1975 to 2000. The models included in this monograph were developed independently and use distinct, complementary approaches towards modeling the natural history of lung cancer. The models used the same data for inputs and agreed on the design of the analysis and the outcome measures. This article highlights aspects of the models that are most relevant to similarities of or differences between the results. Structured comparisons can increase the transparency of these complex models. PMID:22882887

  1. Does measurement noise increase as a phase transition is approached?

    NASA Astrophysics Data System (ADS)

    Chen, Zhi; Yu, Clare C.

    2007-06-01

    We study the energy and magnetization noise spectra associated with first and second order phase transitions by using Monte Carlo simulations of the Ising model and 5-state Potts model in 2D. For a finite size system, the total noise power and the low frequency white noise S(f < f knee) increase as T c is approached. In the thermodynamic limit S(f < f knee) diverges but f knee --> 0 and the total noise power vanishes. f -1 knee is approximately the equilibration time. At high frequencies S(f > f knee) ~ f -μ. For the Ising model, we relate μ to the critical exponents.

  2. Building Mental Models by Dissecting Physical Models

    ERIC Educational Resources Information Center

    Srivastava, Anveshna

    2016-01-01

    When students build physical models from prefabricated components to learn about model systems, there is an implicit trade-off between the physical degrees of freedom in building the model and the intensity of instructor supervision needed. Models that are too flexible, permitting multiple possible constructions require greater supervision to…

  3. I&C Modeling in SPAR Models

    SciTech Connect

    John A. Schroeder

    2012-06-01

    The Standardized Plant Analysis Risk (SPAR) models for the U.S. commercial nuclear power plants currently have very limited instrumentation and control (I&C) modeling [1]. Most of the I&C components in the operating plant SPAR models are related to the reactor protection system. This was identified as a finding during the industry peer review of SPAR models. While the Emergency Safeguard Features (ESF) actuation and control system was incorporated into the Peach Bottom Unit 2 SPAR model in a recent effort [2], various approaches to expend resources for detailed I&C modeling in other SPAR models are investigated.

  4. Comparative Protein Structure Modeling Using MODELLER.

    PubMed

    Webb, Benjamin; Sali, Andrej

    2014-09-08

    Functional characterization of a protein sequence is one of the most frequent problems in biology. This task is usually facilitated by accurate three-dimensional (3-D) structure of the studied protein. In the absence of an experimentally determined structure, comparative or homology modeling can sometimes provide a useful 3-D model for a protein that is related to at least one known protein structure. Comparative modeling predicts the 3-D structure of a given protein sequence (target) based primarily on its alignment to one or more proteins of known structure (templates). The prediction process consists of fold assignment, target-template alignment, model building, and model evaluation. This unit describes how to calculate comparative models using the program MODELLER and discusses all four steps of comparative modeling, frequently observed errors, and some applications. Modeling lactate dehydrogenase from Trichomonas vaginalis (TvLDH) is described as an example. The download and installation of the MODELLER software is also described.

  5. 12C+12C fusion in a multichannel folding model

    NASA Astrophysics Data System (ADS)

    Assunção, M.; Descouvemont, P.

    2016-01-01

    The 12C+12C fusion reaction is investigated using a folding potential in a multichannel approach involving the 12C(0+1, 2+, 0+2, 3-) states. The 12C densities (including transition densities) are taken from the RGM calculation of Kamimura. For the nucleon-nucleon interaction, we use the DDM3Y density-dependent interaction. Owing to the explicit presence of inelastic channels, the imaginary part of the optical potential only contains a short-range fusion contribution. The S-factor is then virtually insensitive to the precise value, and the model is free of any fitting parameter. From the coupled-channel system, we determine the elastic and fusion cross sections simultaneously. As elastic data are available around the Coulomb barrier, this simultaneous treatment offers a good test for the reliability of the model. In the fusion cross section, the role of the inelastic channels and, in particular of the 12C(0+1)+12C(0+2) channel involving the Hoyle state, is discussed.

  6. Comparative Protein Structure Modeling Using MODELLER.

    PubMed

    Webb, Benjamin; Sali, Andrej

    2016-01-01

    Comparative protein structure modeling predicts the three-dimensional structure of a given protein sequence (target) based primarily on its alignment to one or more proteins of known structure (templates). The prediction process consists of fold assignment, target-template alignment, model building, and model evaluation. This unit describes how to calculate comparative models using the program MODELLER and how to use the ModBase database of such models, and discusses all four steps of comparative modeling, frequently observed errors, and some applications. Modeling lactate dehydrogenase from Trichomonas vaginalis (TvLDH) is described as an example. The download and installation of the MODELLER software is also described. © 2016 by John Wiley & Sons, Inc. PMID:27322406

  7. Comparative Protein Structure Modeling Using MODELLER.

    PubMed

    Webb, Benjamin; Sali, Andrej

    2016-06-20

    Comparative protein structure modeling predicts the three-dimensional structure of a given protein sequence (target) based primarily on its alignment to one or more proteins of known structure (templates). The prediction process consists of fold assignment, target-template alignment, model building, and model evaluation. This unit describes how to calculate comparative models using the program MODELLER and how to use the ModBase database of such models, and discusses all four steps of comparative modeling, frequently observed errors, and some applications. Modeling lactate dehydrogenase from Trichomonas vaginalis (TvLDH) is described as an example. The download and installation of the MODELLER software is also described. © 2016 by John Wiley & Sons, Inc.

  8. An extended cure model and model selection.

    PubMed

    Peng, Yingwei; Xu, Jianfeng

    2012-04-01

    We propose a novel interpretation for a recently proposed Box-Cox transformation cure model, which leads to a natural extension of the cure model. Based on the extended model, we consider an important issue of model selection between the mixture cure model and the bounded cumulative hazard cure model via the likelihood ratio test, score test and Akaike's Information Criterion (AIC). Our empirical study shows that AIC is informative and both the score test and the likelihood ratio test have adequate power to differentiate between the mixture cure model and the bounded cumulative hazard cure model when the sample size is large. We apply the tests and AIC methods to leukemia and colon cancer data to examine the appropriateness of the cure models considered for them in the literature.

  9. Mesoscale Benchmark Demonstration Problem 1: Mesoscale Simulations of Intra-granular Fission Gas Bubbles in UO2 under Post-irradiation Thermal Annealing

    SciTech Connect

    Li, Yulan; Hu, Shenyang Y.; Montgomery, Robert; Gao, Fei; Sun, Xin; Tonks, Michael; Biner, Bullent; Millet, Paul; Tikare, Veena; Radhakrishnan, Balasubramaniam; Andersson , David

    2012-04-11

    A study was conducted to evaluate the capabilities of different numerical methods used to represent microstructure behavior at the mesoscale for irradiated material using an idealized benchmark problem. The purpose of the mesoscale benchmark problem was to provide a common basis to assess several mesoscale methods with the objective of identifying the strengths and areas of improvement in the predictive modeling of microstructure evolution. In this work, mesoscale models (phase-field, Potts, and kinetic Monte Carlo) developed by PNNL, INL, SNL, and ORNL were used to calculate the evolution kinetics of intra-granular fission gas bubbles in UO2 fuel under post-irradiation thermal annealing conditions. The benchmark problem was constructed to include important microstructural evolution mechanisms on the kinetics of intra-granular fission gas bubble behavior such as the atomic diffusion of Xe atoms, U vacancies, and O vacancies, the effect of vacancy capture and emission from defects, and the elastic interaction of non-equilibrium gas bubbles. An idealized set of assumptions was imposed on the benchmark problem to simplify the mechanisms considered. The capability and numerical efficiency of different models are compared against selected experimental and simulation results. These comparisons find that the phase-field methods, by the nature of the free energy formulation, are able to represent a larger subset of the mechanisms influencing the intra-granular bubble growth and coarsening mechanisms in the idealized benchmark problem as compared to the Potts and kinetic Monte Carlo methods. It is recognized that the mesoscale benchmark problem as formulated does not specifically highlight the strengths of the discrete particle modeling used in the Potts and kinetic Monte Carlo methods. Future efforts are recommended to construct increasingly more complex mesoscale benchmark problems to further verify and validate the predictive capabilities of the mesoscale modeling

  10. Measurement-Noise Maximum as a Signature of a Phase Transition

    NASA Astrophysics Data System (ADS)

    Chen, Zhi; Yu, Clare C.

    2007-02-01

    We propose that a maximum in measurement noise can be used as a signature of a phase transition. As an example, we study the energy and magnetization noise spectra associated with first- and second-order phase transitions by using Monte Carlo simulations of the Ising model and 5-state Potts model in two dimensions. For a finite size system, the total noise power and the low frequency white noise S(f

  11. Collective firm bankruptcies and phase transition in rating dynamics

    NASA Astrophysics Data System (ADS)

    Sieczka, P.; Hołyst, J. A.

    2009-10-01

    We present a simple model of firm rating evolution. We consider two sources of defaults: individual dynamics of economic development and Potts-like interactions between firms. We show that such a defined model leads to phase transition, which results in collective defaults. The existence of the collective phase depends on the mean interaction strength. For small interaction strength parameters, there are many independent bankruptcies of individual companies. For large parameters, there are giant collective defaults of firm clusters. In the case when the individual firm dynamics favors dumping of rating changes, there is an optimal strength of the firm's interactions from the systemic risk point of view. in here

  12. Chiral phase from three-spin interactions in an optical lattice

    SciTech Connect

    D'Cruz, Christian; Pachos, Jiannis K.

    2005-10-15

    A spin-1/2 chain model that includes three-spin interactions can effectively describe the dynamics of two species of bosons trapped in an optical lattice with a triangular-ladder configuration. A perturbative theoretical approach and numerical study of its ground state is performed that reveals a rich variety of phases and criticalities. We identify phases with periodicity one, two, or three, as well as critical points that belong in the same universality class as the Ising or the three-state Potts model. We establish a range of parameters, corresponding to a large degeneracy present between phases with period 2 and 3, that nests a gapless incommensurate chiral phase.

  13. The free energy in a class of quantum spin systems and interchange processes

    NASA Astrophysics Data System (ADS)

    Björnberg, J. E.

    2016-07-01

    We study a class of quantum spin systems in the mean-field setting of the complete graph. For spin S = 1/2, the model is the Heisenberg ferromagnet, and for general spin S ∈ 1/2 N, it has a probabilistic representation as a cycle-weighted interchange process. We determine the free energy and the critical temperature (recovering results by Tóth and by Penrose when S = 1/2). The critical temperature is shown to coincide (as a function of S) with that of the q = 2S + 1 state classical Potts model, and the phase transition is discontinuous when S ≥ 1.

  14. Towards a Model of Stewardship and Accountability in Support of Innovation and "Good" Failure.

    PubMed

    Denny, Keith; Veillard, Jeremy

    2015-01-01

    From an evolutionary perspective, failures of imagination and missed opportunities to learn from experimentation are as potentially harmful for the health system as failures of practice. The conundrum is encapsulated in the fact that while commentators are steadfast about the need on the part of the stewards of the health system to avoid any waste of public dollars, they are also insistent about the need for innovation. There is tension between these two imperatives that is often unrecognized: the pursuit of efficiency, narrowly defined, can crowd out the goal of innovation by insisting on the elimination of "good waste" (the costs of experimentation) as well as "bad waste" (the costs of inefficiency) (Potts 2009). This tension is mirrored in the two broad drivers of performance reporting in health systems: public accountability and quality improvement. Health organizations, predominantly funded by public funds, are necessarily accountable for the ways in which those funds are used and outcomes achieved. This paper reviews how accountability relationships should be re-examined to create room for "good failure" and to ensure that system accountability does not become a barrier to performance improvement. PMID:26853610

  15. Dynamic Stark control: model studies based on the photodissociation of IBr.

    PubMed

    Sanz-Sanz, Cristina; Richings, Gareth W; Worth, Graham A

    2011-01-01

    The Stark effect is produced when a static field alters molecular states. When the field applied is time dependent, the process is known as the dynamic Stark effect. Of particular interest for the control of molecular dynamics is the Non-Resonant Dynamic Stark Effect (NRDSE), in which the time dependent field is unable to effect a one-photon excitation. The intermediate strength laser pulse instead shapes the potential energy surfaces (PES) and so guides the evolution of the system. A prototype control scheme uses the NRDSE to change the topography of PES in regions where they intersect, thus providing control over photochemistry. Following earlier experimental work, in this paper we study the NRDSE on a new 3 state model of the IBr molecule to gain insight into the mechanism of control at the avoided crossing that governs the branching ratio of the photodissociation.

  16. Model selection for logistic regression models

    NASA Astrophysics Data System (ADS)

    Duller, Christine

    2012-09-01

    Model selection for logistic regression models decides which of some given potential regressors have an effect and hence should be included in the final model. The second interesting question is whether a certain factor is heterogeneous among some subsets, i.e. whether the model should include a random intercept or not. In this paper these questions will be answered with classical as well as with Bayesian methods. The application show some results of recent research projects in medicine and business administration.

  17. Multilevel Model Prediction

    ERIC Educational Resources Information Center

    Frees, Edward W.; Kim, Jee-Seon

    2006-01-01

    Multilevel models are proven tools in social research for modeling complex, hierarchical systems. In multilevel modeling, statistical inference is based largely on quantification of random variables. This paper distinguishes among three types of random variables in multilevel modeling--model disturbances, random coefficients, and future response…

  18. "Bohr's Atomic Model."

    ERIC Educational Resources Information Center

    Willden, Jeff

    2001-01-01

    "Bohr's Atomic Model" is a small interactive multimedia program that introduces the viewer to a simplified model of the atom. This interactive simulation lets students build an atom using an atomic construction set. The underlying design methodology for "Bohr's Atomic Model" is model-centered instruction, which means the central model of the…

  19. Sand-box modelling

    SciTech Connect

    Avery, P.

    1983-01-01

    As the result of an enquiry into BHRA's physical-reservoir-modelling experience, the use of sand box models was investigated. The type of model was considered a possible means of confirmation of a numerical model. The problem facing the numerical model user was comparing the performance of inclined or horizontal oil wells with that of the conventional vertical well.

  20. Bohr model as an algebraic collective model

    SciTech Connect

    Rowe, D. J.; Welsh, T. A.; Caprio, M. A.

    2009-05-15

    Developments and applications are presented of an algebraic version of Bohr's collective model. Illustrative examples show that fully converged calculations can be performed quickly and easily for a large range of Hamiltonians. As a result, the Bohr model becomes an effective tool in the analysis of experimental data. The examples are chosen both to confirm the reliability of the algebraic collective model and to show the diversity of results that can be obtained by its use. The focus of the paper is to facilitate identification of the limitations of the Bohr model with a view to developing more realistic, computationally tractable models.

  1. Building mental models by dissecting physical models.

    PubMed

    Srivastava, Anveshna

    2016-01-01

    When students build physical models from prefabricated components to learn about model systems, there is an implicit trade-off between the physical degrees of freedom in building the model and the intensity of instructor supervision needed. Models that are too flexible, permitting multiple possible constructions require greater supervision to ensure focused learning; models that are too constrained require less supervision, but can be constructed mechanically, with little to no conceptual engagement. We propose "model-dissection" as an alternative to "model-building," whereby instructors could make efficient use of supervisory resources, while simultaneously promoting focused learning. We report empirical results from a study conducted with biology undergraduate students, where we demonstrate that asking them to "dissect" out specific conceptual structures from an already built 3D physical model leads to a significant improvement in performance than asking them to build the 3D model from simpler components. Using questionnaires to measure understanding both before and after model-based interventions for two cohorts of students, we find that both the "builders" and the "dissectors" improve in the post-test, but it is the latter group who show statistically significant improvement. These results, in addition to the intrinsic time-efficiency of "model dissection," suggest that it could be a valuable pedagogical tool. PMID:26712513

  2. Geologic Framework Model Analysis Model Report

    SciTech Connect

    R. Clayton

    2000-12-19

    The purpose of this report is to document the Geologic Framework Model (GFM), Version 3.1 (GFM3.1) with regard to data input, modeling methods, assumptions, uncertainties, limitations, and validation of the model results, qualification status of the model, and the differences between Version 3.1 and previous versions. The GFM represents a three-dimensional interpretation of the stratigraphy and structural features of the location of the potential Yucca Mountain radioactive waste repository. The GFM encompasses an area of 65 square miles (170 square kilometers) and a volume of 185 cubic miles (771 cubic kilometers). The boundaries of the GFM were chosen to encompass the most widely distributed set of exploratory boreholes (the Water Table or WT series) and to provide a geologic framework over the area of interest for hydrologic flow and radionuclide transport modeling through the unsaturated zone (UZ). The depth of the model is constrained by the inferred depth of the Tertiary-Paleozoic unconformity. The GFM was constructed from geologic map and borehole data. Additional information from measured stratigraphy sections, gravity profiles, and seismic profiles was also considered. This interim change notice (ICN) was prepared in accordance with the Technical Work Plan for the Integrated Site Model Process Model Report Revision 01 (CRWMS M&O 2000). The constraints, caveats, and limitations associated with this model are discussed in the appropriate text sections that follow. The GFM is one component of the Integrated Site Model (ISM) (Figure l), which has been developed to provide a consistent volumetric portrayal of the rock layers, rock properties, and mineralogy of the Yucca Mountain site. The ISM consists of three components: (1) Geologic Framework Model (GFM); (2) Rock Properties Model (RPM); and (3) Mineralogic Model (MM). The ISM merges the detailed project stratigraphy into model stratigraphic units that are most useful for the primary downstream models and the

  3. Models of Magnetism.

    ERIC Educational Resources Information Center

    Borges, A. Tarciso; Gilbert, John K.

    1998-01-01

    Investigates the mental models that people construct about magnetic phenomena. Involves students, physics teachers, engineers, and practitioners. Proposes five models following a progression from simple description to a field model. Contains 28 references. (DDR)

  4. Educating with Aircraft Models

    ERIC Educational Resources Information Center

    Steele, Hobie

    1976-01-01

    Described is utilization of aircraft models, model aircraft clubs, and model aircraft magazines to promote student interest in aerospace education. The addresses for clubs and magazines are included. (SL)

  5. Forest succession models

    SciTech Connect

    Shugart, H.H. Jr.; West, D.C.

    1980-05-01

    Studies in succession attempt to determine the changes in species composition and other ecosystem attributes expected to occur over periods of time. Mathematical models developed in forestry and ecology to study ecological succession are reviewed. Tree models, gap models and forest models are discussed. Model validation or testing procedures are described. Model applications can involve evaluating large-scale and long-term changes in the ambient levels of pollutants and assessing the effects of climate change on the environment. (RJC)

  6. Modeling of geothermal systems

    SciTech Connect

    Bodvarsson, G.S.; Pruess, K.; Lippmann, M.J.

    1985-03-01

    During the last decade the use of numerical modeling for geothermal resource evaluation has grown significantly, and new modeling approaches have been developed. In this paper we present a summary of the present status in numerical modeling of geothermal systems, emphasizing recent developments. Different modeling approaches are described and their applicability discussed. The various modeling tasks, including natural-state, exploitation, injection, multi-component and subsidence modeling, are illustrated with geothermal field examples. 99 refs., 14 figs.

  7. Generalized smooth models

    SciTech Connect

    Glosup, J.

    1992-07-23

    The class of gene linear models is extended to develop a class of nonparametric regression models known as generalized smooth models. The technique of local scoring is used to estimate a generalized smooth model and the estimation procedure based on locally weighted regression is shown to produce local likelihood estimates. The asymptotically correct distribution of the deviance difference is derived and its use in comparing the fits of generalized linear models and generalized smooth models is illustrated. The relationship between generalized smooth models and generalized additive models is discussed, also.

  8. ROCK PROPERTIES MODEL ANALYSIS MODEL REPORT

    SciTech Connect

    Clinton Lum

    2002-02-04

    The purpose of this Analysis and Model Report (AMR) is to document Rock Properties Model (RPM) 3.1 with regard to input data, model methods, assumptions, uncertainties and limitations of model results, and qualification status of the model. The report also documents the differences between the current and previous versions and validation of the model. The rock properties models are intended principally for use as input to numerical physical-process modeling, such as of ground-water flow and/or radionuclide transport. The constraints, caveats, and limitations associated with this model are discussed in the appropriate text sections that follow. This work was conducted in accordance with the following planning documents: WA-0344, ''3-D Rock Properties Modeling for FY 1998'' (SNL 1997, WA-0358), ''3-D Rock Properties Modeling for FY 1999'' (SNL 1999), and the technical development plan, Rock Properties Model Version 3.1, (CRWMS M&O 1999c). The Interim Change Notice (ICNs), ICN 02 and ICN 03, of this AMR were prepared as part of activities being conducted under the Technical Work Plan, TWP-NBS-GS-000003, ''Technical Work Plan for the Integrated Site Model, Process Model Report, Revision 01'' (CRWMS M&O 2000b). The purpose of ICN 03 is to record changes in data input status due to data qualification and verification activities. These work plans describe the scope, objectives, tasks, methodology, and implementing procedures for model construction. The constraints, caveats, and limitations associated with this model are discussed in the appropriate text sections that follow. The work scope for this activity consists of the following: (1) Conversion of the input data (laboratory measured porosity data, x-ray diffraction mineralogy, petrophysical calculations of bound water, and petrophysical calculations of porosity) for each borehole into stratigraphic coordinates; (2) Re-sampling and merging of data sets; (3) Development of geostatistical simulations of porosity; (4

  9. Scaled models, scaled frequencies, and model fitting

    NASA Astrophysics Data System (ADS)

    Roxburgh, Ian W.

    2015-12-01

    I show that given a model star of mass M, radius R, and density profile ρ(x) [x = r/R], there exists a two parameter family of models with masses Mk, radii Rk, density profile ρk(x) = λρ(x) and frequencies νknℓ = λ1/2νnℓ, where λ,Rk/RA are scaling factors. These models have different internal structures, but all have the same value of separation ratios calculated at given radial orders n, and all exactly satisfy a frequency matching algorithm with an offset function determined as part of the fitting procedure. But they do not satisfy ratio matching at given frequencies nor phase shift matching. This illustrates that erroneous results may be obtained when model fitting with ratios at given n values or frequency matching. I give examples from scaled models and from non scaled evolutionary models.

  10. Better models are more effectively connected models

    NASA Astrophysics Data System (ADS)

    Nunes, João Pedro; Bielders, Charles; Darboux, Frederic; Fiener, Peter; Finger, David; Turnbull-Lloyd, Laura; Wainwright, John

    2016-04-01

    The concept of hydrologic and geomorphologic connectivity describes the processes and pathways which link sources (e.g. rainfall, snow and ice melt, springs, eroded areas and barren lands) to accumulation areas (e.g. foot slopes, streams, aquifers, reservoirs), and the spatial variations thereof. There are many examples of hydrological and sediment connectivity on a watershed scale; in consequence, a process-based understanding of connectivity is crucial to help managers understand their systems and adopt adequate measures for flood prevention, pollution mitigation and soil protection, among others. Modelling is often used as a tool to understand and predict fluxes within a catchment by complementing observations with model results. Catchment models should therefore be able to reproduce the linkages, and thus the connectivity of water and sediment fluxes within the systems under simulation. In modelling, a high level of spatial and temporal detail is desirable to ensure taking into account a maximum number of components, which then enables connectivity to emerge from the simulated structures and functions. However, computational constraints and, in many cases, lack of data prevent the representation of all relevant processes and spatial/temporal variability in most models. In most cases, therefore, the level of detail selected for modelling is too coarse to represent the system in a way in which connectivity can emerge; a problem which can be circumvented by representing fine-scale structures and processes within coarser scale models using a variety of approaches. This poster focuses on the results of ongoing discussions on modelling connectivity held during several workshops within COST Action Connecteur. It assesses the current state of the art of incorporating the concept of connectivity in hydrological and sediment models, as well as the attitudes of modellers towards this issue. The discussion will focus on the different approaches through which connectivity

  11. Adhesion between cells, diffusion of growth factors, and elasticity of the AER produce the paddle shape of the chick limb

    PubMed Central

    Popławski, Nikodem J.; Swat, Maciej; Gens, J. Scott; Glazier, James A.

    2007-01-01

    A central question in developmental biology is how cells interact to organize into tissues? In this paper, we study the role of mesenchyme-ectoderm interaction in the growing chick limb bud using Glazier and Graner's cellular Potts model, a grid-based stochastic framework designed to simulate cell interactions and movement. We simulate cellular mechanisms including cell adhesion, growth, and division and diffusion of morphogens, to show that differential adhesion between the cells, diffusion of growth factors through the extracellular matrix, and the elastic properties of the apical ectodermal ridge together can produce the proper shape of the limb bud. PMID:18167520

  12. The mean cluster size near the surface of a percolating system

    NASA Astrophysics Data System (ADS)

    Korneta, W.; Pytel, Z.

    1989-04-01

    The bond percolation on a three-dimensional semi-infinite simple cubic lattice is considered. It is assumed that the probability of a bond being present in the surface layer may be different from the probability of a bond inside the lattice. The mean size of finite clusters is studied. Using the relation between the Potts model and the bond percolation process, and applying the mean-field approximation, analytical formulae for the mean cluster size near the ordinary, surface-bulk, extraordinary and surface second-order phase transitions are obtained. The effect of the surface on the mean cluster size is discussed.

  13. Nested sampling with demons

    NASA Astrophysics Data System (ADS)

    Habeck, Michael

    2015-01-01

    This article looks at Skilling's nested sampling from a physical perspective and interprets it as a microcanonical demon algorithm. Using key quantities of statistical physics we investigate the performance of nested sampling on complex systems such as Ising, Potts and protein models. We show that releasing multiple demons helps to smooth the truncated prior and eases sampling from it because the demons keep the particle off the constraint boundary. For continuous systems it is straightforward to extend this approach and formulate a phase space version of nested sampling that benefits from correlated explorations guided by Hamiltonian dynamics.

  14. Biosphere Model Report

    SciTech Connect

    D. W. Wu

    2003-07-16

    The purpose of this report is to document the biosphere model, the Environmental Radiation Model for Yucca Mountain, Nevada (ERMYN), which describes radionuclide transport processes in the biosphere and associated human exposure that may arise as the result of radionuclide release from the geologic repository at Yucca Mountain. The biosphere model is one of the process models that support the Yucca Mountain Project (YMP) Total System Performance Assessment (TSPA) for the license application (LA), the TSPA-LA. The ERMYN model provides the capability of performing human radiation dose assessments. This report documents the biosphere model, which includes: (1) Describing the reference biosphere, human receptor, exposure scenarios, and primary radionuclides for each exposure scenario (Section 6.1); (2) Developing a biosphere conceptual model using site-specific features, events, and processes (FEPs), the reference biosphere, the human receptor, and assumptions (Section 6.2 and Section 6.3); (3) Building a mathematical model using the biosphere conceptual model and published biosphere models (Sections 6.4 and 6.5); (4) Summarizing input parameters for the mathematical model, including the uncertainty associated with input values (Section 6.6); (5) Identifying improvements in the ERMYN model compared with the model used in previous biosphere modeling (Section 6.7); (6) Constructing an ERMYN implementation tool (model) based on the biosphere mathematical model using GoldSim stochastic simulation software (Sections 6.8 and 6.9); (7) Verifying the ERMYN model by comparing output from the software with hand calculations to ensure that the GoldSim implementation is correct (Section 6.10); and (8) Validating the ERMYN model by corroborating it with published biosphere models; comparing conceptual models, mathematical models, and numerical results (Section 7).

  15. Biosphere Model Report

    SciTech Connect

    M. A. Wasiolek

    2003-10-27

    The purpose of this report is to document the biosphere model, the Environmental Radiation Model for Yucca Mountain, Nevada (ERMYN), which describes radionuclide transport processes in the biosphere and associated human exposure that may arise as the result of radionuclide release from the geologic repository at Yucca Mountain. The biosphere model is one of the process models that support the Yucca Mountain Project (YMP) Total System Performance Assessment (TSPA) for the license application (LA), the TSPA-LA. The ERMYN model provides the capability of performing human radiation dose assessments. This report documents the biosphere model, which includes: (1) Describing the reference biosphere, human receptor, exposure scenarios, and primary radionuclides for each exposure scenario (Section 6.1); (2) Developing a biosphere conceptual model using site-specific features, events, and processes (FEPs), the reference biosphere, the human receptor, and assumptions (Section 6.2 and Section 6.3); (3) Building a mathematical model using the biosphere conceptual model and published biosphere models (Sections 6.4 and 6.5); (4) Summarizing input parameters for the mathematical model, including the uncertainty associated with input values (Section 6.6); (5) Identifying improvements in the ERMYN model compared with the model used in previous biosphere modeling (Section 6.7); (6) Constructing an ERMYN implementation tool (model) based on the biosphere mathematical model using GoldSim stochastic simulation software (Sections 6.8 and 6.9); (7) Verifying the ERMYN model by comparing output from the software with hand calculations to ensure that the GoldSim implementation is correct (Section 6.10); and (8) Validating the ERMYN model by corroborating it with published biosphere models; comparing conceptual models, mathematical models, and numerical results (Section 7).

  16. Qualitative Student Models.

    ERIC Educational Resources Information Center

    Clancey, William J.

    The concept of a qualitative model is used as the focus of this review of qualitative student models in order to compare alternative computational models and to contrast domain requirements. The report is divided into eight sections: (1) Origins and Goals (adaptive instruction, qualitative models of processes, components of an artificial…

  17. Biomass Scenario Model

    SciTech Connect

    2015-09-01

    The Biomass Scenario Model (BSM) is a unique, carefully validated, state-of-the-art dynamic model of the domestic biofuels supply chain which explicitly focuses on policy issues, their feasibility, and potential side effects. It integrates resource availability, physical/technological/economic constraints, behavior, and policy. The model uses a system dynamics simulation (not optimization) to model dynamic interactions across the supply chain.

  18. The Instrumental Model

    ERIC Educational Resources Information Center

    Yeates, Devin Rodney

    2011-01-01

    The goal of this dissertation is to enable better predictive models by engaging raw experimental data through the Instrumental Model. The Instrumental Model captures the protocols and procedures of experimental data analysis. The approach is formalized by encoding the Instrumental Model in an XML record. Decoupling the raw experimental data from…

  19. AIDS Epidemiological models

    NASA Astrophysics Data System (ADS)

    Rahmani, Fouad Lazhar

    2010-11-01

    The aim of this paper is to present mathematical modelling of the spread of infection in the context of the transmission of the human immunodeficiency virus (HIV) and the acquired immune deficiency syndrome (AIDS). These models are based in part on the models suggested in the field of th AIDS mathematical modelling as reported by ISHAM [6].

  20. Enclosure fire dynamics model

    NASA Technical Reports Server (NTRS)

    Bellan, J.

    1979-01-01

    A practical situation of an enclosure fire is presented and why the need for a fire dynamic model is addressed. The difficulties in establishing a model are discussed, along with a brief review of enclosure fire models available. The approximation of the practical situation and the model developed are presented.

  1. Modeling for Understanding.

    ERIC Educational Resources Information Center

    Klopfer, Eric; Colella, Vanessa

    This paper focuses on one method used to introduce model design and creation using StarLogo to a group of high school teachers. Teachers with model-building skills can easily customize modeling environments for their classes. More importantly, model building can enable teachers to approach their curricula from a more holistic perspective, as well…

  2. Calibrated Properties Model

    SciTech Connect

    C.F. Ahlers, H.H. Liu

    2001-12-18

    The purpose of this Analysis/Model Report (AMR) is to document the Calibrated Properties Model that provides calibrated parameter sets for unsaturated zone (UZ) flow and transport process models for the Yucca Mountain Site Characterization Project (YMP). This work was performed in accordance with the AMR Development Plan for U0035 Calibrated Properties Model REV00 (CRWMS M&O 1999c). These calibrated property sets include matrix and fracture parameters for the UZ Flow and Transport Model (UZ Model), drift seepage models, drift-scale and mountain-scale coupled-processes models, and Total System Performance Assessment (TSPA) models as well as Performance Assessment (PA) and other participating national laboratories and government agencies. These process models provide the necessary framework to test conceptual hypotheses of flow and transport at different scales and predict flow and transport behavior under a variety of climatic and thermal-loading conditions.

  3. Calibrated Properties Model

    SciTech Connect

    C. Ahlers; H. Liu

    2000-03-12

    The purpose of this Analysis/Model Report (AMR) is to document the Calibrated Properties Model that provides calibrated parameter sets for unsaturated zone (UZ) flow and transport process models for the Yucca Mountain Site Characterization Project (YMP). This work was performed in accordance with the ''AMR Development Plan for U0035 Calibrated Properties Model REV00. These calibrated property sets include matrix and fracture parameters for the UZ Flow and Transport Model (UZ Model), drift seepage models, drift-scale and mountain-scale coupled-processes models, and Total System Performance Assessment (TSPA) models as well as Performance Assessment (PA) and other participating national laboratories and government agencies. These process models provide the necessary framework to test conceptual hypotheses of flow and transport at different scales and predict flow and transport behavior under a variety of climatic and thermal-loading conditions.

  4. Introduction to Adjoint Models

    NASA Technical Reports Server (NTRS)

    Errico, Ronald M.

    2015-01-01

    In this lecture, some fundamentals of adjoint models will be described. This includes a basic derivation of tangent linear and corresponding adjoint models from a parent nonlinear model, the interpretation of adjoint-derived sensitivity fields, a description of methods of automatic differentiation, and the use of adjoint models to solve various optimization problems, including singular vectors. Concluding remarks will attempt to correct common misconceptions about adjoint models and their utilization.

  5. Stable models of superacceleration

    SciTech Connect

    Kaplinghat, Manoj; Rajaraman, Arvind

    2007-05-15

    We discuss an instability in a large class of models where dark energy is coupled to matter. In these models the mass of the scalar field is much larger than the expansion rate of the Universe. We find models in which this instability is absent, and show that these models generically predict an apparent equation of state for dark energy smaller than -1, i.e., superacceleration. These models have no acausal behavior or ghosts.

  6. WASP TRANSPORT MODELING AND WASP ECOLOGICAL MODELING

    EPA Science Inventory

    A combination of lectures, demonstrations, and hands-on excercises will be used to introduce pollutant transport modeling with the U.S. EPA's general water quality model, WASP (Water Quality Analysis Simulation Program). WASP features include a user-friendly Windows-based interfa...

  7. Multiple model inference.

    SciTech Connect

    Swiler, Laura Painton; Urbina, Angel

    2010-07-01

    This paper compares three approaches for model selection: classical least squares methods, information theoretic criteria, and Bayesian approaches. Least squares methods are not model selection methods although one can select the model that yields the smallest sum-of-squared error function. Information theoretic approaches balance overfitting with model accuracy by incorporating terms that penalize more parameters with a log-likelihood term to reflect goodness of fit. Bayesian model selection involves calculating the posterior probability that each model is correct, given experimental data and prior probabilities that each model is correct. As part of this calculation, one often calibrates the parameters of each model and this is included in the Bayesian calculations. Our approach is demonstrated on a structural dynamics example with models for energy dissipation and peak force across a bolted joint. The three approaches are compared and the influence of the log-likelihood term in all approaches is discussed.

  8. Model Validation Status Review

    SciTech Connect

    E.L. Hardin

    2001-11-28

    The primary objective for the Model Validation Status Review was to perform a one-time evaluation of model validation associated with the analysis/model reports (AMRs) containing model input to total-system performance assessment (TSPA) for the Yucca Mountain site recommendation (SR). This review was performed in response to Corrective Action Request BSC-01-C-01 (Clark 2001, Krisha 2001) pursuant to Quality Assurance review findings of an adverse trend in model validation deficiency. The review findings in this report provide the following information which defines the extent of model validation deficiency and the corrective action needed: (1) AMRs that contain or support models are identified, and conversely, for each model the supporting documentation is identified. (2) The use for each model is determined based on whether the output is used directly for TSPA-SR, or for screening (exclusion) of features, events, and processes (FEPs), and the nature of the model output. (3) Two approaches are used to evaluate the extent to which the validation for each model is compliant with AP-3.10Q (Analyses and Models). The approaches differ in regard to whether model validation is achieved within individual AMRs as originally intended, or whether model validation could be readily achieved by incorporating information from other sources. (4) Recommendations are presented for changes to the AMRs, and additional model development activities or data collection, that will remedy model validation review findings, in support of licensing activities. The Model Validation Status Review emphasized those AMRs that support TSPA-SR (CRWMS M&O 2000bl and 2000bm). A series of workshops and teleconferences was held to discuss and integrate the review findings. The review encompassed 125 AMRs (Table 1) plus certain other supporting documents and data needed to assess model validity. The AMRs were grouped in 21 model areas representing the modeling of processes affecting the natural and

  9. Trapped Radiation Model Uncertainties: Model-Data and Model-Model Comparisons

    NASA Technical Reports Server (NTRS)

    Armstrong, T. W.; Colborn, B. L.

    2000-01-01

    The standard AP8 and AE8 models for predicting trapped proton and electron environments have been compared with several sets of flight data to evaluate model uncertainties. Model comparisons are made with flux and dose measurements made on various U.S. low-Earth orbit satellites (APEX, CRRES, DMSP, LDEF, NOAA) and Space Shuttle flights, on Russian satellites (Photon-8, Cosmos-1887, Cosmos-2044), and on the Russian Mir Space Station. This report gives the details of the model-data comparisons-summary results in terms of empirical model uncertainty factors that can be applied for spacecraft design applications are given in a combination report. The results of model-model comparisons are also presented from standard AP8 and AE8 model predictions compared with the European Space Agency versions of AP8 and AE8 and with Russian-trapped radiation models.

  10. Trapped Radiation Model Uncertainties: Model-Data and Model-Model Comparisons

    NASA Technical Reports Server (NTRS)

    Armstrong, T. W.; Colborn, B. L.

    2000-01-01

    The standard AP8 and AE8 models for predicting trapped proton and electron environments have been compared with several sets of flight data to evaluate model uncertainties. Model comparisons are made with flux and dose measurements made on various U.S. low-Earth orbit satellites (APEX, CRRES, DMSP. LDEF, NOAA) and Space Shuttle flights, on Russian satellites (Photon-8, Cosmos-1887, Cosmos-2044), and on the Russian Mir space station. This report gives the details of the model-data comparisons -- summary results in terms of empirical model uncertainty factors that can be applied for spacecraft design applications are given in a companion report. The results of model-model comparisons are also presented from standard AP8 and AE8 model predictions compared with the European Space Agency versions of AP8 and AE8 and with Russian trapped radiation models.

  11. Modeling nonstationary longitudinal data.

    PubMed

    Núñez-Antón, V; Zimmerman, D L

    2000-09-01

    An important theme of longitudinal data analysis in the past two decades has been the development and use of explicit parametric models for the data's variance-covariance structure. A variety of these models have been proposed, of which most are second-order stationary. A few are flexible enough to accommodate nonstationarity, i.e., nonconstant variances and/or correlations that are not a function solely of elapsed time between measurements. We review five nonstationary models that we regard as most useful: (1) the unstructured covariance model, (2) unstructured antedependence models, (3) structured antedependence models, (4) autoregressive integrated moving average and similar models, and (5) random coefficients models. We evaluate the relative strengths and limitations of each model, emphasizing when it is inappropriate or unlikely to be useful. We present three examples to illustrate the fitting and comparison of the models and to demonstrate that nonstationary longitudinal data can be modeled effectively and, in some cases, quite parsimoniously. In these examples, the antedependence models generally prove to be superior and the random coefficients models prove to be inferior. We conclude that antedependence models should be given much greater consideration than they have historically received.

  12. Modeling Hydrothermal Mineralization: Fractal or Multifrcatal Models?

    NASA Astrophysics Data System (ADS)

    Cheng, Q.

    2004-05-01

    Hydrothermal mineralization occurs when the natural geo-processes involve the interaction of ore material-carrying hydrothermal fluids with rocks in the earth's crust in a specific geological environment. Mineralization can cause element concentration enrichment or depletion in the country rocks. Local enrichment may form ore body that can be mined for profit at the current economic and technological conditions. To understand the spatial distribution of element concentration enrichment or depletion caused by mineralization in a mineral district is essential for mineral exploration and mineral prediction. Grade-tonnage model and mineral deposits size distribution model are common models used for characterizing mineral deposits. This paper proposes a non-linear mineralization model on the basis of a modified classical igneous differentiation mineralization model to describe the generation of multifractal distribution of element concentration in the country rocks as well as grade-tonnage fractal/multifractal distribution of ore deposits that have been often observed in hydrothermal mineralization. This work may also lead to a singularity model to explain the common properties of mineralization and mineralization-associated geochemical anomaly diversity and the generalized self-similarity of the anomalies. The model has been applied to a case study of mineral deposits prediction and mineral resource assessment in the Abitibi district, northern Ontario, Canada.

  13. Modeling the transition region

    NASA Technical Reports Server (NTRS)

    Singer, Bart A.

    1993-01-01

    The current status of transition-region models is reviewed in this report. To understand modeling problems, various flow features that influence the transition process are discussed first. Then an overview of the different approaches to transition-region modeling is given. This is followed by a detailed discussion of turbulence models and the specific modifications that are needed to predict flows undergoing laminar-turbulent transition. Methods for determining the usefulness of the models are presented, and an outlook for the future of transition-region modeling is suggested.

  14. Ensemble Atmospheric Dispersion Modeling

    SciTech Connect

    Addis, R.P.

    2002-06-24

    Prognostic atmospheric dispersion models are used to generate consequence assessments, which assist decision-makers in the event of a release from a nuclear facility. Differences in the forecast wind fields generated by various meteorological agencies, differences in the transport and diffusion models, as well as differences in the way these models treat the release source term, result in differences in the resulting plumes. Even dispersion models using the same wind fields may produce substantially different plumes. This talk will address how ensemble techniques may be used to enable atmospheric modelers to provide decision-makers with a more realistic understanding of how both the atmosphere and the models behave.

  15. Holographic twin Higgs model.

    PubMed

    Geller, Michael; Telem, Ofri

    2015-05-15

    We present the first realization of a "twin Higgs" model as a holographic composite Higgs model. Uniquely among composite Higgs models, the Higgs potential is protected by a new standard model (SM) singlet elementary "mirror" sector at the sigma model scale f and not by the composite states at m_{KK}, naturally allowing for m_{KK} beyond the LHC reach. As a result, naturalness in our model cannot be constrained by the LHC, but may be probed by precision Higgs measurements at future lepton colliders, and by direct searches for Kaluza-Klein excitations at a 100 TeV collider.

  16. Holographic twin Higgs model.

    PubMed

    Geller, Michael; Telem, Ofri

    2015-05-15

    We present the first realization of a "twin Higgs" model as a holographic composite Higgs model. Uniquely among composite Higgs models, the Higgs potential is protected by a new standard model (SM) singlet elementary "mirror" sector at the sigma model scale f and not by the composite states at m_{KK}, naturally allowing for m_{KK} beyond the LHC reach. As a result, naturalness in our model cannot be constrained by the LHC, but may be probed by precision Higgs measurements at future lepton colliders, and by direct searches for Kaluza-Klein excitations at a 100 TeV collider. PMID:26024160

  17. Modeling worldwide highway networks

    NASA Astrophysics Data System (ADS)

    Villas Boas, Paulino R.; Rodrigues, Francisco A.; da F. Costa, Luciano

    2009-12-01

    This Letter addresses the problem of modeling the highway systems of different countries by using complex networks formalism. More specifically, we compare two traditional geographical models with a modified geometrical network model where paths, rather than edges, are incorporated at each step between the origin and the destination vertices. Optimal configurations of parameters are obtained for each model and used for the comparison. The highway networks of Australia, Brazil, India, and Romania are considered and shown to be properly modeled by the modified geographical model.

  18. Energy-consumption modelling

    SciTech Connect

    Reiter, E.R.

    1980-01-01

    A highly sophisticated and accurate approach is described to compute on an hourly or daily basis the energy consumption for space heating by individual buildings, urban sectors, and whole cities. The need for models and specifically weather-sensitive models, composite models, and space-heating models are discussed. Development of the Colorado State University Model, based on heat-transfer equations and on a heuristic, adaptive, self-organizing computation learning approach, is described. Results of modeling energy consumption by the city of Minneapolis and Cheyenne are given. Some data on energy consumption in individual buildings are included.

  19. Reliability model generator

    NASA Technical Reports Server (NTRS)

    McMann, Catherine M. (Inventor); Cohen, Gerald C. (Inventor)

    1991-01-01

    An improved method and system for automatically generating reliability models for use with a reliability evaluation tool is described. The reliability model generator of the present invention includes means for storing a plurality of low level reliability models which represent the reliability characteristics for low level system components. In addition, the present invention includes means for defining the interconnection of the low level reliability models via a system architecture description. In accordance with the principles of the present invention, a reliability model for the entire system is automatically generated by aggregating the low level reliability models based on the system architecture description.

  20. A future of the model organism model

    PubMed Central

    Rine, Jasper

    2014-01-01

    Changes in technology are fundamentally reframing our concept of what constitutes a model organism. Nevertheless, research advances in the more traditional model organisms have enabled fresh and exciting opportunities for young scientists to establish new careers and offer the hope of comprehensive understanding of fundamental processes in life. New advances in translational research can be expected to heighten the importance of basic research in model organisms and expand opportunities. However, researchers must take special care and implement new resources to enable the newest members of the community to engage fully with the remarkable legacy of information in these fields. PMID:24577733

  1. Develop a Model Component

    NASA Technical Reports Server (NTRS)

    Ensey, Tyler S.

    2013-01-01

    During my internship at NASA, I was a model developer for Ground Support Equipment (GSE). The purpose of a model developer is to develop and unit test model component libraries (fluid, electrical, gas, etc.). The models are designed to simulate software for GSE (Ground Special Power, Crew Access Arm, Cryo, Fire and Leak Detection System, Environmental Control System (ECS), etc. .) before they are implemented into hardware. These models support verifying local control and remote software for End-Item Software Under Test (SUT). The model simulates the physical behavior (function, state, limits and 110) of each end-item and it's dependencies as defined in the Subsystem Interface Table, Software Requirements & Design Specification (SRDS), Ground Integrated Schematic (GIS), and System Mechanical Schematic.(SMS). The software of each specific model component is simulated through MATLAB's Simulink program. The intensiv model development life cycle is a.s follows: Identify source documents; identify model scope; update schedule; preliminary design review; develop model requirements; update model.. scope; update schedule; detailed design review; create/modify library component; implement library components reference; implement subsystem components; develop a test script; run the test script; develop users guide; send model out for peer review; the model is sent out for verifictionlvalidation; if there is empirical data, a validation data package is generated; if there is not empirical data, a verification package is generated; the test results are then reviewed; and finally, the user. requests accreditation, and a statement of accreditation is prepared. Once each component model is reviewed and approved, they are intertwined together into one integrated model. This integrated model is then tested itself, through a test script and autotest, so that it can be concluded that all models work conjointly, for a single purpose. The component I was assigned, specifically, was a

  2. Biosphere Model Report

    SciTech Connect

    D.W. Wu; A.J. Smith

    2004-11-08

    The purpose of this report is to document the biosphere model, the Environmental Radiation Model for Yucca Mountain, Nevada (ERMYN), which describes radionuclide transport processes in the biosphere and associated human exposure that may arise as the result of radionuclide release from the geologic repository at Yucca Mountain. The biosphere model is one of the process models that support the Yucca Mountain Project (YMP) Total System Performance Assessment (TSPA) for the license application (LA), TSPA-LA. The ERMYN provides the capability of performing human radiation dose assessments. This report documents the biosphere model, which includes: (1) Describing the reference biosphere, human receptor, exposure scenarios, and primary radionuclides for each exposure scenario (Section 6.1); (2) Developing a biosphere conceptual model using site-specific features, events, and processes (FEPs) (Section 6.2), the reference biosphere (Section 6.1.1), the human receptor (Section 6.1.2), and approximations (Sections 6.3.1.4 and 6.3.2.4); (3) Building a mathematical model using the biosphere conceptual model (Section 6.3) and published biosphere models (Sections 6.4 and 6.5); (4) Summarizing input parameters for the mathematical model, including the uncertainty associated with input values (Section 6.6); (5) Identifying improvements in the ERMYN compared with the model used in previous biosphere modeling (Section 6.7); (6) Constructing an ERMYN implementation tool (model) based on the biosphere mathematical model using GoldSim stochastic simulation software (Sections 6.8 and 6.9); (7) Verifying the ERMYN by comparing output from the software with hand calculations to ensure that the GoldSim implementation is correct (Section 6.10); (8) Validating the ERMYN by corroborating it with published biosphere models; comparing conceptual models, mathematical models, and numerical results (Section 7).

  3. Multiresolution community detection for megascale networks by information-based replica correlations

    NASA Astrophysics Data System (ADS)

    Ronhovde, Peter; Nussinov, Zohar

    2009-07-01

    We use a Potts model community detection algorithm to accurately and quantitatively evaluate the hierarchical or multiresolution structure of a graph. Our multiresolution algorithm calculates correlations among multiple copies (“replicas”) of the same graph over a range of resolutions. Significant multiresolution structures are identified by strongly correlated replicas. The average normalized mutual information, the variation in information, and other measures, in principle, give a quantitative estimate of the “best” resolutions and indicate the relative strength of the structures in the graph. Because the method is based on information comparisons, it can, in principle, be used with any community detection model that can examine multiple resolutions. Our approach may be extended to other optimization problems. As a local measure, our Potts model avoids the “resolution limit” that affects other popular models. With this model, our community detection algorithm has an accuracy that ranks among the best of currently available methods. Using it, we can examine graphs over 40×106 nodes and more than 1×109 edges. We further report that the multiresolution variant of our algorithm can solve systems of at least 200000 nodes and 10×106 edges on a single processor with exceptionally high accuracy. For typical cases, we find a superlinear scaling O(L1.3) for community detection and O(L1.3logN) for the multiresolution algorithm, where L is the number of edges and N is the number of nodes in the system.

  4. Aerosol Modeling for the Global Model Initiative

    NASA Technical Reports Server (NTRS)

    Weisenstein, Debra K.; Ko, Malcolm K. W.

    2001-01-01

    The goal of this project is to develop an aerosol module to be used within the framework of the Global Modeling Initiative (GMI). The model development work will be preformed jointly by the University of Michigan and AER, using existing aerosol models at the two institutions as starting points. The GMI aerosol model will be tested, evaluated against observations, and then applied to assessment of the effects of aircraft sulfur emissions as needed by the NASA Subsonic Assessment in 2001. The work includes the following tasks: 1. Implementation of the sulfur cycle within GMI, including sources, sinks, and aqueous conversion of sulfur. Aerosol modules will be added as they are developed and the GMI schedule permits. 2. Addition of aerosol types other than sulfate particles, including dust, soot, organic carbon, and black carbon. 3. Development of new and more efficient parameterizations for treating sulfate aerosol nucleation, condensation, and coagulation among different particle sizes and types.

  5. Nonlinear Modeling by Assembling Piecewise Linear Models

    NASA Technical Reports Server (NTRS)

    Yao, Weigang; Liou, Meng-Sing

    2013-01-01

    To preserve nonlinearity of a full order system over a parameters range of interest, we propose a simple modeling approach by assembling a set of piecewise local solutions, including the first-order Taylor series terms expanded about some sampling states. The work by Rewienski and White inspired our use of piecewise linear local solutions. The assembly of these local approximations is accomplished by assigning nonlinear weights, through radial basis functions in this study. The efficacy of the proposed procedure is validated for a two-dimensional airfoil moving at different Mach numbers and pitching motions, under which the flow exhibits prominent nonlinear behaviors. All results confirm that our nonlinear model is accurate and stable for predicting not only aerodynamic forces but also detailed flowfields. Moreover, the model is robustness-accurate for inputs considerably different from the base trajectory in form and magnitude. This modeling preserves nonlinearity of the problems considered in a rather simple and accurate manner.

  6. Aggregation in ecosystem models and model stability

    NASA Astrophysics Data System (ADS)

    Giricheva, Evgeniya

    2015-05-01

    Using a multimodal approach to research ecosystems improves usage of available information on an object. This study presents several models of the Bering Sea ecosystem. The ecosystem is considered as a closed object, that is, the influence of the environment is not provided. We then add the links with the external medium in the models. The models differ in terms of the degree and method of grouping components. Our method is based on the differences in habitat and food source of groups, which allows us to determine the grouping of species with a greater effect on system dynamics. In particular, we determine whether benthic fish aggregation or pelagic fish aggregation can change the consumption structure of some groups of species, and consequently, the behavior of the entire model system.

  7. PREDICTIVE MODELS. Enhanced Oil Recovery Model

    SciTech Connect

    Ray, R.M.

    1992-02-26

    PREDICTIVE MODELS is a collection of five models - CFPM, CO2PM, ICPM, PFPM, and SFPM - used in the 1982-1984 National Petroleum Council study of enhanced oil recovery (EOR) potential. Each pertains to a specific EOR process designed to squeeze additional oil from aging or spent oil fields. The processes are: 1 chemical flooding, where soap-like surfactants are injected into the reservoir to wash out the oil; 2 carbon dioxide miscible flooding, where carbon dioxide mixes with the lighter hydrocarbons making the oil easier to displace; 3 in-situ combustion, which uses the heat from burning some of the underground oil to thin the product; 4 polymer flooding, where thick, cohesive material is pumped into a reservoir to push the oil through the underground rock; and 5 steamflood, where pressurized steam is injected underground to thin the oil. CFPM, the Chemical Flood Predictive Model, models micellar (surfactant)-polymer floods in reservoirs, which have been previously waterflooded to residual oil saturation. Thus, only true tertiary floods are considered. An option allows a rough estimate of oil recovery by caustic or caustic-polymer processes. CO2PM, the Carbon Dioxide miscible flooding Predictive Model, is applicable to both secondary (mobile oil) and tertiary (residual oil) floods, and to either continuous CO2 injection or water-alternating gas processes. ICPM, the In-situ Combustion Predictive Model, computes the recovery and profitability of an in-situ combustion project from generalized performance predictive algorithms. PFPM, the Polymer Flood Predictive Model, is switch-selectable for either polymer or waterflooding, and an option allows the calculation of the incremental oil recovery and economics of polymer relative to waterflooding. SFPM, the Steamflood Predictive Model, is applicable to the steam drive process, but not to cyclic steam injection (steam soak) processes.

  8. Modeling EERE deployment programs

    SciTech Connect

    Cort, K. A.; Hostick, D. J.; Belzer, D. B.; Livingston, O. V.

    2007-11-01

    The purpose of the project was to identify and characterize the modeling of deployment programs within the EERE Technology Development (TD) programs, address possible improvements to the modeling process, and note gaps in knowledge for future research.

  9. Bounding species distribution models

    USGS Publications Warehouse

    Stohlgren, T.J.; Jarnevich, C.S.; Esaias, W.E.; Morisette, J.T.

    2011-01-01

    Species distribution models are increasing in popularity for mapping suitable habitat for species of management concern. Many investigators now recognize that extrapolations of these models with geographic information systems (GIS) might be sensitive to the environmental bounds of the data used in their development, yet there is no recommended best practice for "clamping" model extrapolations. We relied on two commonly used modeling approaches: classification and regression tree (CART) and maximum entropy (Maxent) models, and we tested a simple alteration of the model extrapolations, bounding extrapolations to the maximum and minimum values of primary environmental predictors, to provide a more realistic map of suitable habitat of hybridized Africanized honey bees in the southwestern United States. Findings suggest that multiple models of bounding, and the most conservative bounding of species distribution models, like those presented here, should probably replace the unbounded or loosely bounded techniques currently used. ?? 2011 Current Zoology.

  10. Bounding Species Distribution Models

    NASA Technical Reports Server (NTRS)

    Stohlgren, Thomas J.; Jarnevich, Cahterine S.; Morisette, Jeffrey T.; Esaias, Wayne E.

    2011-01-01

    Species distribution models are increasing in popularity for mapping suitable habitat for species of management concern. Many investigators now recognize that extrapolations of these models with geographic information systems (GIS) might be sensitive to the environmental bounds of the data used in their development, yet there is no recommended best practice for "clamping" model extrapolations. We relied on two commonly used modeling approaches: classification and regression tree (CART) and maximum entropy (Maxent) models, and we tested a simple alteration of the model extrapolations, bounding extrapolations to the maximum and minimum values of primary environmental predictors, to provide a more realistic map of suitable habitat of hybridized Africanized honey bees in the southwestern United States. Findings suggest that multiple models of bounding, and the most conservative bounding of species distribution models, like those presented here, should probably replace the unbounded or loosely bounded techniques currently used [Current Zoology 57 (5): 642-647, 2011].

  11. Communication system modeling

    NASA Technical Reports Server (NTRS)

    Holland, L. D.; Walsh, J. R., Jr.; Wetherington, R. D.

    1971-01-01

    This report presents the results of work on communications systems modeling and covers three different areas of modeling. The first of these deals with the modeling of signals in communication systems in the frequency domain and the calculation of spectra for various modulations. These techniques are applied in determining the frequency spectra produced by a unified carrier system, the down-link portion of the Command and Communications System (CCS). The second modeling area covers the modeling of portions of a communication system on a block basis. A detailed analysis and modeling effort based on control theory is presented along with its application to modeling of the automatic frequency control system of an FM transmitter. A third topic discussed is a method for approximate modeling of stiff systems using state variable techniques.

  12. Protein solubility modeling

    NASA Technical Reports Server (NTRS)

    Agena, S. M.; Pusey, M. L.; Bogle, I. D.

    1999-01-01

    A thermodynamic framework (UNIQUAC model with temperature dependent parameters) is applied to model the salt-induced protein crystallization equilibrium, i.e., protein solubility. The framework introduces a term for the solubility product describing protein transfer between the liquid and solid phase and a term for the solution behavior describing deviation from ideal solution. Protein solubility is modeled as a function of salt concentration and temperature for a four-component system consisting of a protein, pseudo solvent (water and buffer), cation, and anion (salt). Two different systems, lysozyme with sodium chloride and concanavalin A with ammonium sulfate, are investigated. Comparison of the modeled and experimental protein solubility data results in an average root mean square deviation of 5.8%, demonstrating that the model closely follows the experimental behavior. Model calculations and model parameters are reviewed to examine the model and protein crystallization process. Copyright 1999 John Wiley & Sons, Inc.

  13. SEDIMENT GEOCHEMICAL MODEL

    EPA Science Inventory

    Until recently, sediment geochemical models (diagenetic models) have been only able to explain sedimentary flux and concentration profiles for a few simplified geochemical cycles (e.g., nitrogen, carbon and sulfur). However with advances in numerical methods, increased accuracy ...

  14. Mass modeling for bars

    NASA Technical Reports Server (NTRS)

    Butler, Thomas G.

    1987-01-01

    Methods of modeling mass for bars are surveyed. A method for extending John Archer's concept of consistent mass beyond just translational inertia effects is included. Recommendations are given for various types of modeling situations.

  15. Models (Part 1).

    ERIC Educational Resources Information Center

    Callison, Daniel

    2002-01-01

    Defines models and describes information search models that can be helpful to instructional media specialists in meeting users' abilities and information needs. Explains pathfinders and Kuhlthau's information search process, including the pre-writing information search process. (LRW)

  16. Modeling Infectious Diseases

    MedlinePlus

    ... MIDAS models require a breadth of knowledge, the network draws together an interdisciplinary team of researchers with expertise in epidemiology, infectious diseases, computational biology, statistics, social sciences, physics, computer sciences and informatics. In 2006, MIDAS modelers simulated ...

  17. Of Molecules and Models.

    ERIC Educational Resources Information Center

    Brinner, Bonnie

    1992-01-01

    Presents an activity in which models help students visualize both the DNA process and transcription. After constructing DNA, RNA messenger, and RNA transfer molecules; students model cells, protein synthesis, codons, and RNA movement. (MDH)

  18. Consistent model driven architecture

    NASA Astrophysics Data System (ADS)

    Niepostyn, Stanisław J.

    2015-09-01

    The goal of the MDA is to produce software systems from abstract models in a way where human interaction is restricted to a minimum. These abstract models are based on the UML language. However, the semantics of UML models is defined in a natural language. Subsequently the verification of consistency of these diagrams is needed in order to identify errors in requirements at the early stage of the development process. The verification of consistency is difficult due to a semi-formal nature of UML diagrams. We propose automatic verification of consistency of the series of UML diagrams originating from abstract models implemented with our consistency rules. This Consistent Model Driven Architecture approach enables us to generate automatically complete workflow applications from consistent and complete models developed from abstract models (e.g. Business Context Diagram). Therefore, our method can be used to check practicability (feasibility) of software architecture models.

  19. Modeling DNA Replication.

    ERIC Educational Resources Information Center

    Bennett, Joan

    1998-01-01

    Recommends the use of a model of DNA made out of Velcro to help students visualize the steps of DNA replication. Includes a materials list, construction directions, and details of the demonstration using the model parts. (DDR)

  20. System Advisor Model

    2010-03-01

    The System Advisor Model (SAM) is a performance and economic model designed to facilitate decision making for people involved in the renewable energy industry, ranging from project managers and engineers to incentive program designers, technology developers, and researchers.

  1. Future of groundwater modeling

    USGS Publications Warehouse

    Langevin, Christian D.; Panday, Sorab

    2012-01-01

    With an increasing need to better manage water resources, the future of groundwater modeling is bright and exciting. However, while the past can be described and the present is known, the future of groundwater modeling, just like a groundwater model result, is highly uncertain and any prediction is probably not going to be entirely representative. Thus we acknowledge this as we present our vision of where groundwater modeling may be headed.

  2. Mathematical circulatory system model

    NASA Technical Reports Server (NTRS)

    Lakin, William D. (Inventor); Stevens, Scott A. (Inventor)

    2010-01-01

    A system and method of modeling a circulatory system including a regulatory mechanism parameter. In one embodiment, a regulatory mechanism parameter in a lumped parameter model is represented as a logistic function. In another embodiment, the circulatory system model includes a compliant vessel, the model having a parameter representing a change in pressure due to contraction of smooth muscles of a wall of the vessel.

  3. Modeling of spacecraft charging

    NASA Technical Reports Server (NTRS)

    Whipple, E. C., Jr.

    1977-01-01

    Three types of modeling of spacecraft charging are discussed: statistical models, parametric models, and physical models. Local time dependence of circuit upset for DoD and communication satellites, and electron current to a sphere with an assumed Debye potential distribution are presented. Four regions were involved in spacecraft charging: (1) undisturbed plasma, (2) plasma sheath region, (3) spacecraft surface, and (4) spacecraft equivalent circuit.

  4. Hierarchical Bass model

    NASA Astrophysics Data System (ADS)

    Tashiro, Tohru

    2014-03-01

    We propose a new model about diffusion of a product which includes a memory of how many adopters or advertisements a non-adopter met, where (non-)adopters mean people (not) possessing the product. This effect is lacking in the Bass model. As an application, we utilize the model to fit the iPod sales data, and so the better agreement is obtained than the Bass model.

  5. Wonderland climate model

    NASA Astrophysics Data System (ADS)

    Hansen, J.; Ruedy, R.; Lacis, A.; Russell, G.; Sato, M.; Lerner, J.; Rind, D.; Stone, P.

    1997-03-01

    We obtain a highly efficient global climate model by defining a sector version (120° of longitude) of the coarse resolution Goddard Institute for Space Studies model II. The geography of Wonderland is chosen such that the amount of land as a function of latitude is the same as on Earth. We show that the zonal mean climate of the Wonderland model is very similar to that of the parent model II.

  6. Soil moisture modeling review

    NASA Technical Reports Server (NTRS)

    Hildreth, W. W.

    1978-01-01

    A determination of the state of the art in soil moisture transport modeling based on physical or physiological principles was made. It was found that soil moisture models based on physical principles have been under development for more than 10 years. However, these models were shown to represent infiltration and redistribution of soil moisture quite well. Evapotranspiration has not been as adequately incorporated into the models.

  7. Modeling Complex Calorimeters

    NASA Technical Reports Server (NTRS)

    Figueroa-Feliciano, Enectali

    2004-01-01

    We have developed a software suite that models complex calorimeters in the time and frequency domain. These models can reproduce all measurements that we currently do in a lab setting, like IV curves, impedance measurements, noise measurements, and pulse generation. Since all these measurements are modeled from one set of parameters, we can fully describe a detector and characterize its behavior. This leads to a model than can be used effectively for engineering and design of detectors for particular applications.

  8. Updating applied diffusion models

    SciTech Connect

    Weil, J.C.

    1985-11-01

    Most diffusion models currently used in air quality applications are substantially out of date with understanding of turbulence and diffusion in the planetary boundary layer. Under a Cooperative Agreement with the Environmental Protection Agency, the American Meteorological Society organized a workshop to help improve the basis of such models, their physics and hopefuly their performance. Reviews and recommendations were made on models in three areas: diffusion in the convective boundary layer (CBL), diffusion in the stabe boundary layer (SBL), and model uncertainty.

  9. Models of change.

    PubMed

    Reineck, Carol

    2007-09-01

    Implementing change in organizations is a key nursing leadership competency. At the same time, it is a daunting responsibility. Fortunately, models of successful change illustrate useful concepts for leaders. Change concepts embedded in successful models include careful use of power, reason, reeducation, structure, behavior, and technology. This article discusses models of change. Learning from models may help nurse executives avoid perils such as change fatigue and may promote smoother movement toward safer systems of care.

  10. A Model Chemistry Class.

    ERIC Educational Resources Information Center

    Summerlin, Lee; Borgford, Christie

    1989-01-01

    Described is an activity which uses a 96-well reaction plate and soda straws to construct a model of the periodic table of the elements. The model illustrates the ionization energies of the various elements. Construction of the model and related concepts are discussed. (CW)

  11. 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.…

  12. Modern Media Education Models

    ERIC Educational Resources Information Center

    Fedorov, Alexander

    2011-01-01

    The author supposed that media education models can be divided into the following groups: (1) educational-information models (the study of the theory, history, language of media culture, etc.), based on the cultural, aesthetic, semiotic, socio-cultural theories of media education; (2) educational-ethical models (the study of moral, religions,…

  13. Modeling EERE Deployment Programs

    SciTech Connect

    Cort, K. A.; Hostick, D. J.; Belzer, D. B.; Livingston, O. V.

    2007-11-01

    This report compiles information and conclusions gathered as part of the “Modeling EERE Deployment Programs” project. The purpose of the project was to identify and characterize the modeling of deployment programs within the EERE Technology Development (TD) programs, address possible improvements to the modeling process, and note gaps in knowledge in which future research is needed.

  14. Campus Energy Modeling Platform

    SciTech Connect

    Sides, Scott; Kemper, Travis; Larsen, Ross; Graf, Peter

    2014-09-19

    NREL's Campus Energy Modeling project provides a suite of simulation tools for integrated, data driven energy modeling of commercial buildings and campuses using Simulink. The tools enable development of fully interconnected models for commercial campus energy infrastructure, including electrical distribution systems, district heating and cooling, onsite generation (both conventional and renewable), building loads, energy storage, and control systems.

  15. Biophysical and spectral modeling

    NASA Technical Reports Server (NTRS)

    Goel, N. S. (Principal Investigator)

    1982-01-01

    Activities and results of a project to develop strategies for modeling vegetative canopy reflectance are reported. Specific tasks included the inversion of canopy reflectance models to estimate agronomic variables (particularly leaf area index) from in-situ reflectance measurements, and a study of possible uses of ecological models in analyzing temporal profiles of greenness.

  16. Modeling rapidly rotating stars

    NASA Astrophysics Data System (ADS)

    Rieutord, M.

    2006-06-01

    We review the quest of modeling rapidly rotating stars during the past 40 years and detail the challenges to be taken up by models facing new data from interferometry, seismology, spectroscopy... We then present the progress of the ESTER project aimed at giving a physically self-consistent model for the structure and evolution of rapidly rotating stars.

  17. IR DIAL performance modeling

    SciTech Connect

    Sharlemann, E.T.

    1994-07-01

    We are developing a DIAL performance model for CALIOPE at LLNL. The intent of the model is to provide quick and interactive parameter sensitivity calculations with immediate graphical output. A brief overview of the features of the performance model is given, along with an example of performance calculations for a non-CALIOPE application.

  18. Crushed Salt Constitutive Model

    SciTech Connect

    Callahan, G.D.

    1999-02-01

    The constitutive model used to describe the deformation of crushed salt is presented in this report. Two mechanisms -- dislocation creep and grain boundary diffusional pressure solution -- are combined to form the basis for the constitutive model governing the deformation of crushed salt. The constitutive model is generalized to represent three-dimensional states of stress. Upon complete consolidation, the crushed-salt model reproduces the Multimechanism Deformation (M-D) model typically used for the Waste Isolation Pilot Plant (WIPP) host geological formation salt. New shear consolidation tests are combined with an existing database that includes hydrostatic consolidation and shear consolidation tests conducted on WIPP and southeastern New Mexico salt. Nonlinear least-squares model fitting to the database produced two sets of material parameter values for the model -- one for the shear consolidation tests and one for a combination of the shear and hydrostatic consolidation tests. Using the parameter values determined from the fitted database, the constitutive model is validated against constant strain-rate tests. Shaft seal problems are analyzed to demonstrate model-predicted consolidation of the shaft seal crushed-salt component. Based on the fitting statistics, the ability of the model to predict the test data, and the ability of the model to predict load paths and test data outside of the fitted database, the model appears to capture the creep consolidation behavior of crushed salt reasonably well.

  19. A Model Performance

    ERIC Educational Resources Information Center

    Thornton, Bradley D.; Smalley, Robert A.

    2008-01-01

    Building information modeling (BIM) uses three-dimensional modeling concepts, information technology and interoperable software to design, construct and operate a facility. However, BIM can be more than a tool for virtual modeling--it can provide schools with a 3-D walkthrough of a project while it still is on the electronic drawing board. BIM can…

  20. Modeling Natural Selection

    ERIC Educational Resources Information Center

    Bogiages, Christopher A.; Lotter, Christine

    2011-01-01

    In their research, scientists generate, test, and modify scientific models. These models can be shared with others and demonstrate a scientist's understanding of how the natural world works. Similarly, students can generate and modify models to gain a better understanding of the content, process, and nature of science (Kenyon, Schwarz, and Hug…

  1. Progress in mix modeling

    SciTech Connect

    Harrison, A.K.

    1997-03-14

    We have identified the Cranfill multifluid turbulence model (Cranfill, 1992) as a starting point for development of subgrid models of instability, turbulent and mixing processes. We have differenced the closed system of equations in conservation form, and coded them in the object-oriented hydrodynamics code FLAG, which is to be used as a testbed for such models.

  2. Modelling a Suspension Bridge.

    ERIC Educational Resources Information Center

    Rawlins, Phil

    1991-01-01

    The quadratic function can be modeled in real life by a suspension bridge that supports a uniform weight. This activity uses concrete models and computer generated graphs to discover the mathematical model of the shape of the main cable of a suspension bridge. (MDH)

  3. Tests of Rating Models

    ERIC Educational Resources Information Center

    Masin, Sergio Cesare; Busetto, Martina

    2010-01-01

    The study reports empirical tests of Anderson's, Haubensak's, Helson's, and Parducci's rating models when two end anchors are used for rating. The results show that these models cannot predict the judgment effect called here the Dai Pra effect. It is shown that an extension of Anderson's model is consistent with this effect. The results confirm…

  4. Molecular Models in Biology

    ERIC Educational Resources Information Center

    Goodman, Richard E.

    1970-01-01

    Describes types of molecular models (ball-and-stick, framework, and space-filling) and evaluates commercially available kits. Gives instructions for constructive models from polystyrene balls and pipe-cleaners. Models are useful for class demonstrations although not sufficiently accurate for research use. Illustrations show biologically important…

  5. Open Source Molecular Modeling

    PubMed Central

    Pirhadi, Somayeh; Sunseri, Jocelyn; Koes, David Ryan

    2016-01-01

    The success of molecular modeling and computational chemistry efforts are, by definition, dependent on quality software applications. Open source software development provides many advantages to users of modeling applications, not the least of which is that the software is free and completely extendable. In this review we categorize, enumerate, and describe available open source software packages for molecular modeling and computational chemistry. PMID:27631126

  6. Impact-GMI Model

    2007-03-22

    IMPACT-GMI is an atmospheric chemical transport model designed to run on massively parallel computers. It is designed to model trace pollutants in the atmosphere. It includes models for emission, chemistry and deposition of pollutants. It can be used to assess air quality and its impact on future climate change.

  7. Modeling Climate Dynamically

    ERIC Educational Resources Information Center

    Walsh, Jim; McGehee, Richard

    2013-01-01

    A dynamical systems approach to energy balance models of climate is presented, focusing on low order, or conceptual, models. Included are global average and latitude-dependent, surface temperature models. The development and analysis of the differential equations and corresponding bifurcation diagrams provides a host of appropriate material for…

  8. Elementary Teacher Training Models.

    ERIC Educational Resources Information Center

    Blewett, Evelyn J., Ed.

    This collection of articles contains descriptions of nine elementary teacher training program models conducted at universities throughout the United States. The articles include the following: (a) "The University of Toledo Model Program," by George E. Dickson; (b) "The Florida State University Model Program," by G. Wesley Sowards; (c) "The…

  9. Model Breaking Points Conceptualized

    ERIC Educational Resources Information Center

    Vig, Rozy; Murray, Eileen; Star, Jon R.

    2014-01-01

    Current curriculum initiatives (e.g., National Governors Association Center for Best Practices and Council of Chief State School Officers 2010) advocate that models be used in the mathematics classroom. However, despite their apparent promise, there comes a point when models break, a point in the mathematical problem space where the model cannot,…

  10. Rock Properties Model

    SciTech Connect

    C. Lum

    2004-09-16

    The purpose of this model report is to document the Rock Properties Model version 3.1 with regard to input data, model methods, assumptions, uncertainties and limitations of model results, and qualification status of the model. The report also documents the differences between the current and previous versions and validation of the model. The rock properties model provides mean matrix and lithophysae porosity, and the cross-correlated mean bulk density as direct input to the ''Saturated Zone Flow and Transport Model Abstraction'', MDL-NBS-HS-000021, REV 02 (BSC 2004 [DIRS 170042]). The constraints, caveats, and limitations associated with this model are discussed in Section 6.6 and 8.2. Model validation accomplished by corroboration with data not cited as direct input is discussed in Section 7. The revision of this model report was performed as part of activities being conducted under the ''Technical Work Plan for: The Integrated Site Model, Revision 05'' (BSC 2004 [DIRS 169635]). The purpose of this revision is to bring the report up to current procedural requirements and address the Regulatory Integration Team evaluation comments. The work plan describes the scope, objectives, tasks, methodology, and procedures for this process.

  11. Modeling and Remodeling Writing

    ERIC Educational Resources Information Center

    Hayes, John R.

    2012-01-01

    In Section 1 of this article, the author discusses the succession of models of adult writing that he and his colleagues have proposed from 1980 to the present. He notes the most important changes that differentiate earlier and later models and discusses reasons for the changes. In Section 2, he describes his recent efforts to model young…

  12. Models, Norms and Sharing.

    ERIC Educational Resources Information Center

    Harris, Mary B.

    To investigate the effect of modeling on altruism, 156 third and fifth grade children were exposed to a model who either shared with them, gave to a charity, or refused to share. The test apparatus, identified as a game, consisted of a box with signal lights and a chute through which marbles were dispensed. Subjects and the model played the game…

  13. Models for Products

    ERIC Educational Resources Information Center

    Speiser, Bob; Walter, Chuck

    2011-01-01

    This paper explores how models can support productive thinking. For us a model is a "thing", a tool to help make sense of something. We restrict attention to specific models for whole-number multiplication, hence the wording of the title. They support evolving thinking in large measure through the ways their users redesign them. They assume new…

  14. Model Rockets and Microchips.

    ERIC Educational Resources Information Center

    Fitzsimmons, Charles P.

    1986-01-01

    Points out the instructional applications and program possibilities of a unit on model rocketry. Describes the ways that microcomputers can assist in model rocket design and in problem calculations. Provides a descriptive listing of model rocket software for the Apple II microcomputer. (ML)

  15. New Directions for Modeling?

    ERIC Educational Resources Information Center

    Mason, Thomas R.

    1976-01-01

    Noting the disappointing results of past experimentation with computer modeling technology in higher education, the author discusses developments which promise potential: communication between model builders and users, interaction between large- and small-scale models, interface with operating data systems, emphasis on outcomes, and continued…

  16. Surface complexation modeling

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Adsorption-desorption reactions are important processes that affect the transport of contaminants in the environment. Surface complexation models are chemical models that can account for the effects of variable chemical conditions, such as pH, on adsorption reactions. These models define specific ...

  17. Modelling Vocabulary Loss

    ERIC Educational Resources Information Center

    Meara, Paul

    2004-01-01

    This paper describes some simple simulation models of vocabulary attrition. The attrition process is modelled using a random autonomous Boolean network model, and some parallels with real attrition data are drawn. The paper argues that applying a complex systems approach to attrition can provide some important insights, which suggest that real…

  18. Modelling MIZ dynamics in a global model

    NASA Astrophysics Data System (ADS)

    Rynders, Stefanie; Aksenov, Yevgeny; Feltham, Daniel; Nurser, George; Naveira Garabato, Alberto

    2016-04-01

    Exposure of large, previously ice-covered areas of the Arctic Ocean to the wind and surface ocean waves results in the Arctic pack ice cover becoming more fragmented and mobile, with large regions of ice cover evolving into the Marginal Ice Zone (MIZ). The need for better climate predictions, along with growing economic activity in the Polar Oceans, necessitates climate and forecasting models that can simulate fragmented sea ice with a greater fidelity. Current models are not fully fit for the purpose, since they neither model surface ocean waves in the MIZ, nor account for the effect of floe fragmentation on drag, nor include sea ice rheology that represents both the now thinner pack ice and MIZ ice dynamics. All these processes affect the momentum transfer to the ocean. We present initial results from a global ocean model NEMO (Nucleus for European Modelling of the Ocean) coupled to the Los Alamos sea ice model CICE. The model setup implements a novel rheological formulation for sea ice dynamics, accounting for ice floe collisions, thus offering a seamless framework for pack ice and MIZ simulations. The effect of surface waves on ice motion is included through wave pressure and the turbulent kinetic energy of ice floes. In the multidecadal model integrations we examine MIZ and basin scale sea ice and oceanic responses to the changes in ice dynamics. We analyse model sensitivities and attribute them to key sea ice and ocean dynamical mechanisms. The results suggest that the effect of the new ice rheology is confined to the MIZ. However with the current increase in summer MIZ area, which is projected to continue and may become the dominant type of sea ice in the Arctic, we argue that the effects of the combined sea ice rheology will be noticeable in large areas of the Arctic Ocean, affecting sea ice and ocean. With this study we assert that to make more accurate sea ice predictions in the changing Arctic, models need to include MIZ dynamics and physics.

  19. Advances in Watershed Models and Modeling

    NASA Astrophysics Data System (ADS)

    Yeh, G. T.; Zhang, F.

    2015-12-01

    The development of watershed models and their applications to real-world problems has evolved significantly since 1960's. Watershed models can be classified based on what media are included, what processes are dealt with, and what approaches are taken. In term of media, a watershed may include segregated overland regime, river-canal-open channel networks, ponds-reservoirs-small lakes, and subsurface media. It may also include integrated media of all these or a partial set of these as well as man-made control structures. In term of processes, a watershed model may deal with coupled or decoupled hydrological and biogeochemical cycles. These processes include fluid flow, thermal transport, salinity transport, sediment transport, reactive transport, and biota and microbe kinetics. In terms of approaches, either parametric or physics-based approach can be taken. This talk discusses the evolution of watershed models in the past sixty years. The advances of watershed models center around their increasing design capability to foster these segregated or integrated media and coupled or decoupled processes. Widely used models developed by academia, research institutes, government agencies, and private industries will be reviewed in terms of the media and processes included as well as approaches taken. Many types of potential benchmark problems in general can be proposed and will be discussed. This presentation will focus on three benchmark problems of biogeochemical cycles. These three problems, dealing with water quality transport, will be formulated in terms of reactive transport. Simulation results will be illustrated using WASH123D, a watershed model developed and continuously updated by the author and his PhD graduates. Keywords: Hydrological Cycles, Biogeochemical Cycles, Biota Kinetics, Parametric Approach, Physics-based Approach, Reactive Transport.

  20. Improving Contact Prediction along Three Dimensions

    PubMed Central

    Pagnani, Andrea; Aurell, Erik

    2014-01-01

    Correlation patterns in multiple sequence alignments of homologous proteins can be exploited to infer information on the three-dimensional structure of their members. The typical pipeline to address this task, which we in this paper refer to as the three dimensions of contact prediction, is to (i) filter and align the raw sequence data representing the evolutionarily related proteins; (ii) choose a predictive model to describe a sequence alignment; (iii) infer the model parameters and interpret them in terms of structural properties, such as an accurate contact map. We show here that all three dimensions are important for overall prediction success. In particular, we show that it is possible to improve significantly along the second dimension by going beyond the pair-wise Potts models from statistical physics, which have hitherto been the focus of the field. These (simple) extensions are motivated by multiple sequence alignments often containing long stretches of gaps which, as a data feature, would be rather untypical for independent samples drawn from a Potts model. Using a large test set of proteins we show that the combined improvements along the three dimensions are as large as any reported to date. PMID:25299132

  1. Transgenesis for pig models

    PubMed Central

    Yum, Soo-Young; Yoon, Ki-Young; Lee, Choong-Il; Lee, Byeong-Chun

    2016-01-01

    Animal models, particularly pigs, have come to play an important role in translational biomedical research. There have been many pig models with genetically modifications via somatic cell nuclear transfer (SCNT). However, because most transgenic pigs have been produced by random integration to date, the necessity for more exact gene-mutated models using recombinase based conditional gene expression like mice has been raised. Currently, advanced genome-editing technologies enable us to generate specific gene-deleted and -inserted pig models. In the future, the development of pig models with gene editing technologies could be a valuable resource for biomedical research. PMID:27030199

  2. The FREZCHEM Model

    NASA Astrophysics Data System (ADS)

    Marion, Giles M.; Kargel, Jeffrey S.

    Implementation of the Pitzer approach is through the FREZCHEM (FREEZING CHEMISTRY) model, which is at the core of this work. This model was originally designed to simulate salt chemistries and freezing processes at low temperatures (-54 to 25°C) and 1 atm pressure. Over the years, this model has been broadened to include more chemistries (from 16 to 58 solid phases), a broader temperature range for some chemistries (to 113°C), and incorporation of a pressure dependence (1 to 1000 bars) into the model. Implementation, parameterization, validation, and limitations of the FREZCHEM model are extensively discussed in Chapter 3.

  3. Mechanics of materials model

    NASA Technical Reports Server (NTRS)

    Meister, Jeffrey P.

    1987-01-01

    The Mechanics of Materials Model (MOMM) is a three-dimensional inelastic structural analysis code for use as an early design stage tool for hot section components. MOMM is a stiffness method finite element code that uses a network of beams to characterize component behavior. The MOMM contains three material models to account for inelastic material behavior. These include the simplified material model, which assumes a bilinear stress-strain response; the state-of-the-art model, which utilizes the classical elastic-plastic-creep strain decomposition; and Walker's viscoplastic model, which accounts for the interaction between creep and plasticity that occurs under cyclic loading conditions.

  4. Models of Goldstone gauginos

    NASA Astrophysics Data System (ADS)

    Alves, Daniele S. M.; Galloway, Jamison; McCullough, Matthew; Weiner, Neal

    2016-04-01

    Models with Dirac gauginos are appealing scenarios for physics beyond the Standard Model. They have smaller radiative corrections to scalar soft masses, a suppression of certain supersymmetry (SUSY) production processes at the LHC, and ameliorated flavor constraints. Unfortunately, they are generically plagued by tachyons charged under the Standard Model, and attempts to eliminate such states typically spoil the positive features. The recently proposed "Goldstone gaugino" mechanism provides a simple realization of Dirac gauginos that is automatically free of dangerous tachyonic states. We provide details on this mechanism and explore models for its origin. In particular, we find SUSY QCD models that realize this idea simply and discuss scenarios for unification.

  5. UZ Colloid Transport Model

    SciTech Connect

    M. McGraw

    2000-04-13

    The UZ Colloid Transport model development plan states that the objective of this Analysis/Model Report (AMR) is to document the development of a model for simulating unsaturated colloid transport. This objective includes the following: (1) use of a process level model to evaluate the potential mechanisms for colloid transport at Yucca Mountain; (2) Provide ranges of parameters for significant colloid transport processes to Performance Assessment (PA) for the unsaturated zone (UZ); (3) Provide a basis for development of an abstracted model for use in PA calculations.

  6. CRAC2 model description

    SciTech Connect

    Ritchie, L.T.; Alpert, D.J.; Burke, R.P.; Johnson, J.D.; Ostmeyer, R.M.; Aldrich, D.C.; Blond, R.M.

    1984-03-01

    The CRAC2 computer code is a revised version of CRAC (Calculation of Reactor Accident Consequences) which was developed for the Reactor Safety Study. This document provides an overview of the CRAC2 code and a description of each of the models used. Significant improvements incorporated into CRAC2 include an improved weather sequence sampling technique, a new evacuation model, and new output capabilities. In addition, refinements have been made to the atmospheric transport and deposition model. Details of the modeling differences between CRAC2 and CRAC are emphasized in the model descriptions.

  7. Influence of satellite-derived photolysis rates and NOx emissions on Texas ozone modeling

    NASA Astrophysics Data System (ADS)

    Tang, W.; Cohan, D. S.; Pour-Biazar, A.; Lamsal, L. N.; White, A. T.; Xiao, X.; Zhou, W.; Henderson, B. H.; Lash, B. F.

    2015-02-01

    Uncertain photolysis rates and emission inventory impair the accuracy of state-level ozone (O3) regulatory modeling. Past studies have separately used satellite-observed clouds to correct the model-predicted photolysis rates, or satellite-constrained top-down NOx emissions to identify and reduce uncertainties in bottom-up NOx emissions. However, the joint application of multiple satellite-derived model inputs to improve O3 state implementation plan (SIP) modeling has rarely been explored. In this study, Geostationary Operational Environmental Satellite (GOES) observations of clouds are applied to derive the photolysis rates, replacing those used in Texas SIP modeling. This changes modeled O3 concentrations by up to 80 ppb and improves O3 simulations by reducing modeled normalized mean bias (NMB) and normalized mean error (NME) by up to 0.1. A sector-based discrete Kalman filter (DKF) inversion approach is incorporated with the Comprehensive Air Quality Model with extensions (CAMx)-decoupled direct method (DDM) model to adjust Texas NOx emissions using a high-resolution Ozone Monitoring Instrument (OMI) NO2 product. The discrepancy between OMI and CAMx NO2 vertical column densities (VCDs) is further reduced by increasing modeled NOx lifetime and adding an artificial amount of NO2 in the upper troposphere. The region-based DKF inversion suggests increasing NOx emissions by 10-50% in most regions, deteriorating the model performance in predicting ground NO2 and O3, while the sector-based DKF inversion tends to scale down area and nonroad NOx emissions by 50%, leading to a 2-5 ppb decrease in ground 8 h O3 predictions. Model performance in simulating ground NO2 and O3 are improved using sector-based inversion-constrained NOx emissions, with 0.25 and 0.04 reductions in NMBs and 0.13 and 0.04 reductions in NMEs, respectively. Using both GOES-derived photolysis rates and OMI-constrained NOx emissions together reduces modeled NMB and NME by 0.05, increases the model

  8. TEAMS Model Analyzer

    NASA Technical Reports Server (NTRS)

    Tijidjian, Raffi P.

    2010-01-01

    The TEAMS model analyzer is a supporting tool developed to work with models created with TEAMS (Testability, Engineering, and Maintenance System), which was developed by QSI. In an effort to reduce the time spent in the manual process that each TEAMS modeler must perform in the preparation of reporting for model reviews, a new tool has been developed as an aid to models developed in TEAMS. The software allows for the viewing, reporting, and checking of TEAMS models that are checked into the TEAMS model database. The software allows the user to selectively model in a hierarchical tree outline view that displays the components, failure modes, and ports. The reporting features allow the user to quickly gather statistics about the model, and generate an input/output report pertaining to all of the components. Rules can be automatically validated against the model, with a report generated containing resulting inconsistencies. In addition to reducing manual effort, this software also provides an automated process framework for the Verification and Validation (V&V) effort that will follow development of these models. The aid of such an automated tool would have a significant impact on the V&V process.

  9. A model of strength

    USGS Publications Warehouse

    Johnson, Douglas H.; Cook, R.D.

    2013-01-01

    In her AAAS News & Notes piece "Can the Southwest manage its thirst?" (26 July, p. 362), K. Wren quotes Ajay Kalra, who advocates a particular method for predicting Colorado River streamflow "because it eschews complex physical climate models for a statistical data-driven modeling approach." A preference for data-driven models may be appropriate in this individual situation, but it is not so generally, Data-driven models often come with a warning against extrapolating beyond the range of the data used to develop the models. When the future is like the past, data-driven models can work well for prediction, but it is easy to over-model local or transient phenomena, often leading to predictive inaccuracy (1). Mechanistic models are built on established knowledge of the process that connects the response variables with the predictors, using information obtained outside of an extant data set. One may shy away from a mechanistic approach when the underlying process is judged to be too complicated, but good predictive models can be constructed with statistical components that account for ingredients missing in the mechanistic analysis. Models with sound mechanistic components are more generally applicable and robust than data-driven models.

  10. Calibrated Properties Model

    SciTech Connect

    T. Ghezzehej

    2004-10-04

    The purpose of this model report is to document the calibrated properties model that provides calibrated property sets for unsaturated zone (UZ) flow and transport process models (UZ models). The calibration of the property sets is performed through inverse modeling. This work followed, and was planned in, ''Technical Work Plan (TWP) for: Unsaturated Zone Flow Analysis and Model Report Integration'' (BSC 2004 [DIRS 169654], Sections 1.2.6 and 2.1.1.6). Direct inputs to this model report were derived from the following upstream analysis and model reports: ''Analysis of Hydrologic Properties Data'' (BSC 2004 [DIRS 170038]); ''Development of Numerical Grids for UZ Flow and Transport Modeling'' (BSC 2004 [DIRS 169855]); ''Simulation of Net Infiltration for Present-Day and Potential Future Climates'' (BSC 2004 [DIRS 170007]); ''Geologic Framework Model'' (GFM2000) (BSC 2004 [DIRS 170029]). Additionally, this model report incorporates errata of the previous version and closure of the Key Technical Issue agreement TSPAI 3.26 (Section 6.2.2 and Appendix B), and it is revised for improved transparency.

  11. Distributed fuzzy system modeling

    SciTech Connect

    Pedrycz, W.; Chi Fung Lam, P.; Rocha, A.F.

    1995-05-01

    The paper introduces and studies an idea of distributed modeling treating it as a new paradigm of fuzzy system modeling and analysis. This form of modeling is oriented towards developing individual (local) fuzzy models for specific modeling landmarks (expressed as fuzzy sets) and determining the essential logical relationships between these local models. The models themselves are implemented in the form of logic processors being regarded as specialized fuzzy neural networks. The interaction between the processors is developed either in an inhibitory or excitatory way. In more descriptive way, the distributed model can be sought as a collection of fuzzy finite state machines with their individual local first or higher order memories. It is also clarified how the concept of distributed modeling narrows down a gap between purely numerical (quantitative) models and the qualitative ones originated within the realm of Artificial Intelligence. The overall architecture of distributed modeling is discussed along with the detailed learning schemes. The results of extensive simulation experiments are provided as well. 17 refs.

  12. Modelling Farm Animal Welfare

    PubMed Central

    Collins, Lisa M.; Part, Chérie E.

    2013-01-01

    Simple Summary In this review paper we discuss the different modeling techniques that have been used in animal welfare research to date. We look at what questions they have been used to answer, the advantages and pitfalls of the methods, and how future research can best use these approaches to answer some of the most important upcoming questions in farm animal welfare. Abstract The use of models in the life sciences has greatly expanded in scope and advanced in technique in recent decades. However, the range, type and complexity of models used in farm animal welfare is comparatively poor, despite the great scope for use of modeling in this field of research. In this paper, we review the different modeling approaches used in farm animal welfare science to date, discussing the types of questions they have been used to answer, the merits and problems associated with the method, and possible future applications of each technique. We find that the most frequently published types of model used in farm animal welfare are conceptual and assessment models; two types of model that are frequently (though not exclusively) based on expert opinion. Simulation, optimization, scenario, and systems modeling approaches are rarer in animal welfare, despite being commonly used in other related fields. Finally, common issues such as a lack of quantitative data to parameterize models, and model selection and validation are discussed throughout the review, with possible solutions and alternative approaches suggested. PMID:26487411

  13. Modelling structured data with Probabilistic Graphical Models

    NASA Astrophysics Data System (ADS)

    Forbes, F.

    2016-05-01

    Most clustering and classification methods are based on the assumption that the objects to be clustered are independent. However, in more and more modern applications, data are structured in a way that makes this assumption not realistic and potentially misleading. A typical example that can be viewed as a clustering task is image segmentation where the objects are the pixels on a regular grid and depend on neighbouring pixels on this grid. Also, when data are geographically located, it is of interest to cluster data with an underlying dependence structure accounting for some spatial localisation. These spatial interactions can be naturally encoded via a graph not necessarily regular as a grid. Data sets can then be modelled via Markov random fields and mixture models (e.g. the so-called MRF and Hidden MRF). More generally, probabilistic graphical models are tools that can be used to represent and manipulate data in a structured way while modeling uncertainty. This chapter introduces the basic concepts. The two main classes of probabilistic graphical models are considered: Bayesian networks and Markov networks. The key concept of conditional independence and its link to Markov properties is presented. The main problems that can be solved with such tools are described. Some illustrations are given associated with some practical work.

  14. Toward Scientific Numerical Modeling

    NASA Technical Reports Server (NTRS)

    Kleb, Bil

    2007-01-01

    Ultimately, scientific numerical models need quantified output uncertainties so that modeling can evolve to better match reality. Documenting model input uncertainties and verifying that numerical models are translated into code correctly, however, are necessary first steps toward that goal. Without known input parameter uncertainties, model sensitivities are all one can determine, and without code verification, output uncertainties are simply not reliable. To address these two shortcomings, two proposals are offered: (1) an unobtrusive mechanism to document input parameter uncertainties in situ and (2) an adaptation of the Scientific Method to numerical model development and deployment. Because these two steps require changes in the computational simulation community to bear fruit, they are presented in terms of the Beckhard-Harris-Gleicher change model.

  15. Foam process models.

    SciTech Connect

    Moffat, Harry K.; Noble, David R.; Baer, Thomas A.; Adolf, Douglas Brian; Rao, Rekha Ranjana; Mondy, Lisa Ann

    2008-09-01

    In this report, we summarize our work on developing a production level foam processing computational model suitable for predicting the self-expansion of foam in complex geometries. The model is based on a finite element representation of the equations of motion, with the movement of the free surface represented using the level set method, and has been implemented in SIERRA/ARIA. An empirically based time- and temperature-dependent density model is used to encapsulate the complex physics of foam nucleation and growth in a numerically tractable model. The change in density with time is at the heart of the foam self-expansion as it creates the motion of the foam. This continuum-level model uses an homogenized description of foam, which does not include the gas explicitly. Results from the model are compared to temperature-instrumented flow visualization experiments giving the location of the foam front as a function of time for our EFAR model system.

  16. Physical modelling in biomechanics.

    PubMed Central

    Koehl, M A R

    2003-01-01

    Physical models, like mathematical models, are useful tools in biomechanical research. Physical models enable investigators to explore parameter space in a way that is not possible using a comparative approach with living organisms: parameters can be varied one at a time to measure the performance consequences of each, while values and combinations not found in nature can be tested. Experiments using physical models in the laboratory or field can circumvent problems posed by uncooperative or endangered organisms. Physical models also permit some aspects of the biomechanical performance of extinct organisms to be measured. Use of properly scaled physical models allows detailed physical measurements to be made for organisms that are too small or fast to be easily studied directly. The process of physical modelling and the advantages and limitations of this approach are illustrated using examples from our research on hydrodynamic forces on sessile organisms, mechanics of hydraulic skeletons, food capture by zooplankton and odour interception by olfactory antennules. PMID:14561350

  17. How the Whole School, Whole Community, Whole Child Model Works: Creating Greater Alignment, Integration, and Collaboration Between Health and Education

    PubMed Central

    Chiang, Rachelle Johnsson; Meagher, Whitney; Slade, Sean

    2015-01-01

    BACKGROUND The Whole School, Whole Community, Whole Child (WSCC) model calls for greater collaboration across the community, school, and health sectors to meet the needs and support the full potential of each child. This article reports on how 3 states and 2 local school districts have implemented aspects of the WSCC model through collaboration, leadership and policy creation, alignment, and implementation. METHODS We searched state health and education department websites, local school district websites, state legislative databases, and sources of peer-reviewed and gray literature to identify materials demonstrating adoption and implementation of coordinated school health, the WSCC model, and associated policies and practices in identified states and districts. We conducted informal interviews in each state and district to reinforce the document review. RESULTS States and local school districts have been able to strategically increase collaboration, integration, and alignment of health and education through the adoption and implementation of policy and practice supporting the WSCC model. Successful utilization of the WSCC model has led to substantial positive changes in school health environments, policies, and practices. CONCLUSIONS Collaboration among health and education sectors to integrate and align services may lead to improved efficiencies and better health and education outcomes for students. PMID:26440819

  18. 43 CFR 2623.3 - States not permitted to dispose of lands except with reservation of minerals.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... Public Lands (Continued) BUREAU OF LAND MANAGEMENT, DEPARTMENT OF THE INTERIOR LAND RESOURCE MANAGEMENT (2000) STATE GRANTS School Land Grants to Certain States Extended To Include Mineral Sections § 2623.3... aid of the common or public schools: Provided, That any lands or minerals disposed of contrary to...

  19. 9 CFR 331.3 - States designated under paragraph 301(c) of the Act; application of regulations.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ...) Sections 416.2(c), (d), (e), (f), and (h) of this chapter shall apply to such establishments. (d) Section... subchapter must be destroyed or removed from the official establishment. (f) Sections 320.1, 320.2, 320.3, 320.4, 320.5, 325.20, and 325.21 apply to operations and transactions not in or for commerce in...

  20. 9 CFR 331.3 - States designated under paragraph 301(c) of the Act; application of regulations.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 9 Animals and Animal Products 2 2010-01-01 2010-01-01 false States designated under paragraph 301(c) of the Act; application of regulations. 331.3 Section 331.3 Animals and Animal Products FOOD... DESIGNATED STATES AND TERRITORIES; AND FOR DESIGNATION OF ESTABLISHMENTS WHICH ENDANGER PUBLIC HEALTH AND...

  1. The appearance of Ti3+ states in solution-processed TiOx buffer layers in inverted organic photovoltaics

    NASA Astrophysics Data System (ADS)

    Zhidkov, Ivan S.; McLeod, John A.; Kurmaev, Ernst Z.; Korotin, Michael A.; Kukharenko, Andrey I.; Savva, Achilleas; Choulis, Stelios A.; Korotin, Danila M.; Cholakh, Seif O.

    2016-07-01

    We study the low-temperature solution processed TiOx films and device structures using core level and valence X-ray photoelectron spectroscopy (XPS) and electronic structure calculations. We are able to correlate the fraction of Ti3+ present as obtained from Ti 2p core level XPS with the intensity of the defect states that appear within the band gap as observed with our valence XPS. Constructing an operating inverted organic photovoltaic (OPV) using the TiOx film as an electron selective contact may increase the fraction of Ti3+ present. We provide evidence that the number of charge carriers in TiOx can be significantly varied and this might influence the performance of inverted OPVs.

  2. 9 CFR 331.3 - States designated under paragraph 301(c) of the Act; application of regulations.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ...(c) of the Act; application of regulations. 331.3 Section 331.3 Animals and Animal Products FOOD... circuit supervisor (showing any modifications required by the circuit supervisor) to the Labels and Packaging Staff, Meat and Poultry Inspection, Food Safety and Inspection Service, USDA, Washington, DC...

  3. 9 CFR 331.3 - States designated under paragraph 301(c) of the Act; application of regulations.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ...(c) of the Act; application of regulations. 331.3 Section 331.3 Animals and Animal Products FOOD... circuit supervisor (showing any modifications required by the circuit supervisor) to the Labels and Packaging Staff, Meat and Poultry Inspection, Food Safety and Inspection Service, USDA, Washington, DC...

  4. Phyloclimatic modeling: combining phylogenetics and bioclimatic modeling.

    PubMed

    Yesson, C; Culham, A

    2006-10-01

    We investigate the impact of past climates on plant diversification by tracking the "footprint" of climate change on a phylogenetic tree. Diversity within the cosmopolitan carnivorous plant genus Drosera (Droseraceae) is focused within Mediterranean climate regions. We explore whether this diversity is temporally linked to Mediterranean-type climatic shifts of the mid-Miocene and whether climate preferences are conservative over phylogenetic timescales. Phyloclimatic modeling combines environmental niche (bioclimatic) modeling with phylogenetics in order to study evolutionary patterns in relation to climate change. We present the largest and most complete such example to date using Drosera. The bioclimatic models of extant species demonstrate clear phylogenetic patterns; this is particularly evident for the tuberous sundews from southwestern Australia (subgenus Ergaleium). We employ a method for establishing confidence intervals of node ages on a phylogeny using replicates from a Bayesian phylogenetic analysis. This chronogram shows that many clades, including subgenus Ergaleium and section Bryastrum, diversified during the establishment of the Mediterranean-type climate. Ancestral reconstructions of bioclimatic models demonstrate a pattern of preference for this climate type within these groups. Ancestral bioclimatic models are projected into palaeo-climate reconstructions for the time periods indicated by the chronogram. We present two such examples that each generate plausible estimates of ancestral lineage distribution, which are similar to their current distributions. This is the first study to attempt bioclimatic projections on evolutionary time scales. The sundews appear to have diversified in response to local climate development. Some groups are specialized for Mediterranean climates, others show wide-ranging generalism. This demonstrates that Phyloclimatic modeling could be repeated for other plant groups and is fundamental to the understanding of

  5. Phyloclimatic modeling: combining phylogenetics and bioclimatic modeling.

    PubMed

    Yesson, C; Culham, A

    2006-10-01

    We investigate the impact of past climates on plant diversification by tracking the "footprint" of climate change on a phylogenetic tree. Diversity within the cosmopolitan carnivorous plant genus Drosera (Droseraceae) is focused within Mediterranean climate regions. We explore whether this diversity is temporally linked to Mediterranean-type climatic shifts of the mid-Miocene and whether climate preferences are conservative over phylogenetic timescales. Phyloclimatic modeling combines environmental niche (bioclimatic) modeling with phylogenetics in order to study evolutionary patterns in relation to climate change. We present the largest and most complete such example to date using Drosera. The bioclimatic models of extant species demonstrate clear phylogenetic patterns; this is particularly evident for the tuberous sundews from southwestern Australia (subgenus Ergaleium). We employ a method for establishing confidence intervals of node ages on a phylogeny using replicates from a Bayesian phylogenetic analysis. This chronogram shows that many clades, including subgenus Ergaleium and section Bryastrum, diversified during the establishment of the Mediterranean-type climate. Ancestral reconstructions of bioclimatic models demonstrate a pattern of preference for this climate type within these groups. Ancestral bioclimatic models are projected into palaeo-climate reconstructions for the time periods indicated by the chronogram. We present two such examples that each generate plausible estimates of ancestral lineage distribution, which are similar to their current distributions. This is the first study to attempt bioclimatic projections on evolutionary time scales. The sundews appear to have diversified in response to local climate development. Some groups are specialized for Mediterranean climates, others show wide-ranging generalism. This demonstrates that Phyloclimatic modeling could be repeated for other plant groups and is fundamental to the understanding of

  6. Loehlin's original models and model contributions.

    PubMed

    McArdle, John J

    2014-11-01

    This is a short story about John C. Loehlin who is now at the University of Texas at Austin, dealing with his original simulation models and developments, which led to his current latent variable models. This talk was initially presented at a special meeting for John before the BGA in Rhode Island, and I was very pleased to contribute. It probably goes without saying, but John helped create this important society, has been a key contributor to this journal for several decades, and he deserves a lot for this leadership.

  7. Constitutive models in LAME.

    SciTech Connect

    Hammerand, Daniel Carl; Scherzinger, William Mark

    2007-09-01

    The Library of Advanced Materials for Engineering (LAME) provides a common repository for constitutive models that can be used in computational solid mechanics codes. A number of models including both hypoelastic (rate) and hyperelastic (total strain) constitutive forms have been implemented in LAME. The structure and testing of LAME is described in Scherzinger and Hammerand ([3] and [4]). The purpose of the present report is to describe the material models which have already been implemented into LAME. The descriptions are designed to give useful information to both analysts and code developers. Thus far, 33 non-ITAR/non-CRADA protected material models have been incorporated. These include everything from the simple isotropic linear elastic models to a number of elastic-plastic models for metals to models for honeycomb, foams, potting epoxies and rubber. A complete description of each model is outside the scope of the current report. Rather, the aim here is to delineate the properties, state variables, functions, and methods for each model. However, a brief description of some of the constitutive details is provided for a number of the material models. Where appropriate, the SAND reports available for each model have been cited. Many models have state variable aliases for some or all of their state variables. These alias names can be used for outputting desired quantities. The state variable aliases available for results output have been listed in this report. However, not all models use these aliases. For those models, no state variable names are listed. Nevertheless, the number of state variables employed by each model is always given. Currently, there are four possible functions for a material model. This report lists which of these four methods are employed in each material model. As far as analysts are concerned, this information is included only for the awareness purposes. The analyst can take confidence in the fact that model has been properly implemented

  8. Preliminary DIAL model

    SciTech Connect

    Gentry, S.; Taylor, J.; Stephenson, D.

    1994-06-01

    A unique end-to-end LIDAR sensor model has been developed supporting the concept development stage of the CALIOPE UV DIAL and UV laser-induced-fluorescence (LIF) efforts. The model focuses on preserving the temporal and spectral nature of signals as they pass through the atmosphere, are collected by the optics, detected by the sensor, and processed by the sensor electronics and algorithms. This is done by developing accurate component sub-models with realistic inputs and outputs, as well as internal noise sources and operating parameters. These sub-models are then configured using data-flow diagrams to operate together to reflect the performance of the entire DIAL system. This modeling philosophy allows the developer to have a realistic indication of the nature of signals throughout the system and to design components and processing in a realistic environment. Current component models include atmospheric absorption and scattering losses, plume absorption and scattering losses, background, telescope and optical filter models, PMT (photomultiplier tube) with realistic noise sources, amplifier operation and noise, A/D converter operation, noise and distortion, pulse averaging, and DIAL computation. Preliminary results of the model will be presented indicating the expected model operation depicting the October field test at the NTS spill test facility. Indications will be given concerning near-term upgrades to the model.

  9. Differential Topic Models.

    PubMed

    Chen, Changyou; Buntine, Wray; Ding, Nan; Xie, Lexing; Du, Lan

    2015-02-01

    In applications we may want to compare different document collections: they could have shared content but also different and unique aspects in particular collections. This task has been called comparative text mining or cross-collection modeling. We present a differential topic model for this application that models both topic differences and similarities. For this we use hierarchical Bayesian nonparametric models. Moreover, we found it was important to properly model power-law phenomena in topic-word distributions and thus we used the full Pitman-Yor process rather than just a Dirichlet process. Furthermore, we propose the transformed Pitman-Yor process (TPYP) to incorporate prior knowledge such as vocabulary variations in different collections into the model. To deal with the non-conjugate issue between model prior and likelihood in the TPYP, we thus propose an efficient sampling algorithm using a data augmentation technique based on the multinomial theorem. Experimental results show the model discovers interesting aspects of different collections. We also show the proposed MCMC based algorithm achieves a dramatically reduced test perplexity compared to some existing topic models. Finally, we show our model outperforms the state-of-the-art for document classification/ideology prediction on a number of text collections. PMID:26353238

  10. Quantitative Rheological Model Selection

    NASA Astrophysics Data System (ADS)

    Freund, Jonathan; Ewoldt, Randy

    2014-11-01

    The more parameters in a rheological the better it will reproduce available data, though this does not mean that it is necessarily a better justified model. Good fits are only part of model selection. We employ a Bayesian inference approach that quantifies model suitability by balancing closeness to data against both the number of model parameters and their a priori uncertainty. The penalty depends upon prior-to-calibration expectation of the viable range of values that model parameters might take, which we discuss as an essential aspect of the selection criterion. Models that are physically grounded are usually accompanied by tighter physical constraints on their respective parameters. The analysis reflects a basic principle: models grounded in physics can be expected to enjoy greater generality and perform better away from where they are calibrated. In contrast, purely empirical models can provide comparable fits, but the model selection framework penalizes their a priori uncertainty. We demonstrate the approach by selecting the best-justified number of modes in a Multi-mode Maxwell description of PVA-Borax. We also quantify relative merits of the Maxwell model relative to powerlaw fits and purely empirical fits for PVA-Borax, a viscoelastic liquid, and gluten.

  11. Geochemical modeling: a review

    SciTech Connect

    Jenne, E.A.

    1981-06-01

    Two general families of geochemical models presently exist. The ion speciation-solubility group of geochemical models contain submodels to first calculate a distribution of aqueous species and to secondly test the hypothesis that the water is near equilibrium with particular solid phases. These models may or may not calculate the adsorption of dissolved constituents and simulate the dissolution and precipitation (mass transfer) of solid phases. Another family of geochemical models, the reaction path models, simulates the stepwise precipitation of solid phases as a result of reacting specified amounts of water and rock. Reaction path models first perform an aqueous speciation of the dissolved constituents of the water, test solubility hypotheses, then perform the reaction path modeling. Certain improvements in the present versions of these models would enhance their value and usefulness to applications in nuclear-waste isolation, etc. Mass-transfer calculations of limited extent are certainly within the capabilities of state-of-the-art models. However, the reaction path models require an expansion of their thermodynamic data bases and systematic validation before they are generally accepted.

  12. A reductionist mechanistic model for bioconcentration of neutral and weakly polar organic compounds in fish.

    PubMed

    Kuo, Dave T F; Di Toro, Dominic M

    2013-09-01

    The bioconcentration factor (BCF) of neutral and weakly polar organic chemicals in fish is modeled using independently calibrated models of chemical partitioning (freely dissolved fraction of chemical in the aqueous phase [φsys ] and wet-weight fish-water partition coefficient [KFW ]), respiratory exchange (respiratory update rate constant [k1 ], and respiratory elimination rate constant [k2  = k1 /KFW ]), and biotransformation (whole-body biotransformation rate constant [kM ]) as BCF = φsys KFW /(1 + kM /k2 ). Existing k1 models tend to overestimate for chemicals with log KOW  < 3.5, which constituted 30% to 50% of the examined chemicals. A revised k1 model covering a wider log KOW range (0-8.5) is presented k1  = (5.46 × 10(-6) MW + 0.261/KOW )(-1) , where MW is the molecular weight. The biotransformation rate constant kM is modeled using biota internal partitioning and Abraham parameters as reactivity descriptors. The reductionist model was tested using 3 different BCF data sets (US Environmental Protection Agency's Estimation Programs Interface [EPI], n = 548; Hertfordshire, n = 210; Arnot-Gobas, n = 1855) and compared with the following 3 state-of-the-art models: 1) the EPI Suite BCFBAF module, 2) the European Commision's Computer Assisted Evaluation of industrial chemical Substances According to Regulations (CAESAR), and 3) the EPI/Arnot mechanistic kinetic model. The reductionist model performed comparably with the alternative models (root mean square errors [RMSEs] = 0.72-0.77), with only 5 fitting parameters and no training against experimental BCFs. Respiratory elimination and biotransformation dominate the total depuration (i.e., [k2  + kM ]/kT  ≥ 0.8) for approximately 98% of the data entries, thus validating the reductionist approximation. Mechanistic models provide greater insights into bioaccumulation and are more sensitive to biological variation. All three BCF data sets and relevant

  13. 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…

  14. A Rasch Hierarchical Measurement Model.

    ERIC Educational Resources Information Center

    Maier, Kimberly S.

    This paper describes a model that integrates an item response theory (IRT) Rasch model and a hierarchical linear model and presents a method of estimating model parameter values that does not rely on large-sample theory and normal approximations. The model resulting from the integration of a hierarchical linear model and the Rasch model allows one…

  15. Modeling Imports in a Keynesian Expenditure Model

    ERIC Educational Resources Information Center

    Findlay, David W.

    2010-01-01

    The author discusses several issues that instructors of introductory macroeconomics courses should consider when introducing imports in the Keynesian expenditure model. The analysis suggests that the specification of the import function should partially, if not completely, be the result of a simple discussion about the spending and import…

  16. Energy balance climate models

    NASA Technical Reports Server (NTRS)

    North, G. R.; Cahalan, R. F.; Coakley, J. A., Jr.

    1981-01-01

    An introductory survey of the global energy balance climate models is presented with an emphasis on analytical results. A sequence of increasingly complicated models involving ice cap and radiative feedback processes are solved, and the solutions and parameter sensitivities are studied. The model parameterizations are examined critically in light of many current uncertainties. A simple seasonal model is used to study the effects of changes in orbital elements on the temperature field. A linear stability theorem and a complete nonlinear stability analysis for the models are developed. Analytical solutions are also obtained for the linearized models driven by stochastic forcing elements. In this context the relation between natural fluctuation statistics and climate sensitivity is stressed.

  17. Extended frequency turbofan model

    NASA Technical Reports Server (NTRS)

    Mason, J. R.; Park, J. W.; Jaekel, R. F.

    1980-01-01

    The fan model was developed using two dimensional modeling techniques to add dynamic radial coupling between the core stream and the bypass stream of the fan. When incorporated into a complete TF-30 engine simulation, the fan model greatly improved compression system frequency response to planar inlet pressure disturbances up to 100 Hz. The improved simulation also matched engine stability limits at 15 Hz, whereas the one dimensional fan model required twice the inlet pressure amplitude to stall the simulation. With verification of the two dimensional fan model, this program formulated a high frequency F-100(3) engine simulation using row by row compression system characteristics. In addition to the F-100(3) remote splitter fan, the program modified the model fan characteristics to simulate a proximate splitter version of the F-100(3) engine.

  18. Load Model Data Tool

    2013-04-30

    The LMDT software automates the process of the load composite model data preparation in the format supported by the major power system software vendors (GE and Siemens). Proper representation of the load composite model in power system dynamic analysis is very important. Software tools for power system simulation like GE PSLF and Siemens PSSE already include algorithms for the load composite modeling. However, these tools require that the input information on composite load to bemore » provided in custom formats. Preparation of this data is time consuming and requires multiple manual operations. The LMDT software enables to automate this process. Software is designed to generate composite load model data. It uses the default load composition data, motor information, and bus information as an input. Software processes the input information and produces load composition model. Generated model can be stored in .dyd format supported by GE PSLF package or .dyr format supported by Siemens PSSE package.« less

  19. Carcinogenesis models: An overview

    SciTech Connect

    Moolgavkar, S.H.

    1992-12-31

    Biologically based mathematical models of carcinogenesis are not only an essential part of a rational approach to quantitative cancer risk assessment but also raise fundamental questions about the nature of the events leading to malignancy. In this paper two such models are reviewed. The first is the multistage model proposed by Armitage and Doll in the 1950s; most of the paper is devoted to a discussion of the two-mutation model proposed by the author and his colleagues. This model is a generalization of the idea of recessive oncogenesis proposed by Knudson and has been shown to be consistent with a large body of epidemiologic and experimental data. The usefulness of the model is illustrated by analyzing a large experimental data set in which rats exposed to radon developed malignant lung tumors.

  20. Load Model Data Tool

    SciTech Connect

    David Chassin, Pavel Etingov

    2013-04-30

    The LMDT software automates the process of the load composite model data preparation in the format supported by the major power system software vendors (GE and Siemens). Proper representation of the load composite model in power system dynamic analysis is very important. Software tools for power system simulation like GE PSLF and Siemens PSSE already include algorithms for the load composite modeling. However, these tools require that the input information on composite load to be provided in custom formats. Preparation of this data is time consuming and requires multiple manual operations. The LMDT software enables to automate this process. Software is designed to generate composite load model data. It uses the default load composition data, motor information, and bus information as an input. Software processes the input information and produces load composition model. Generated model can be stored in .dyd format supported by GE PSLF package or .dyr format supported by Siemens PSSE package.

  1. Modelling of biofilm reactors

    SciTech Connect

    Rodrigues, A.; Grasmick, A.; Elmaleh, S.

    1982-10-01

    Comprehensive models of biofilm reactors are developed. Model I assumes a zero-order reaction of a limiting substrate and a diffusional mass transport through the biofilm; in the diffusion-controlled regime the model is fully characterized by one parameter alpha. From this model the conversion of substrate or reactor efficiency can be calculated, for continuously stirred tank reactors (CSTRs) and plug flow reactors respectively, as follows: EA = )alpha(alpha + 2)) 1/2 - alpha; and Ep = (2 alpha) 1/2 - alpha/2: Validation of the model is tested for different experimental systems. Model II includes liquid film mass transfer resistance. The conversion gap between plug flow reactors and CSTRs is always lower than 25% and, as a first approximation, the biofilm reactor design does not then require accurate residence time distribution measurements. (Refs. 23).

  2. Multiscale Cancer Modeling

    PubMed Central

    Macklin, Paul; Cristini, Vittorio

    2013-01-01

    Simulating cancer behavior across multiple biological scales in space and time, i.e., multiscale cancer modeling, is increasingly being recognized as a powerful tool to refine hypotheses, focus experiments, and enable more accurate predictions. A growing number of examples illustrate the value of this approach in providing quantitative insight on the initiation, progression, and treatment of cancer. In this review, we introduce the most recent and important multiscale cancer modeling works that have successfully established a mechanistic link between different biological scales. Biophysical, biochemical, and biomechanical factors are considered in these models. We also discuss innovative, cutting-edge modeling methods that are moving predictive multiscale cancer modeling toward clinical application. Furthermore, because the development of multiscale cancer models requires a new level of collaboration among scientists from a variety of fields such as biology, medicine, physics, mathematics, engineering, and computer science, an innovative Web-based infrastructure is needed to support this growing community. PMID:21529163

  3. Cloud model bat algorithm.

    PubMed

    Zhou, Yongquan; Xie, Jian; Li, Liangliang; Ma, Mingzhi

    2014-01-01

    Bat algorithm (BA) is a novel stochastic global optimization algorithm. Cloud model is an effective tool in transforming between qualitative concepts and their quantitative representation. Based on the bat echolocation mechanism and excellent characteristics of cloud model on uncertainty knowledge representation, a new cloud model bat algorithm (CBA) is proposed. This paper focuses on remodeling echolocation model based on living and preying characteristics of bats, utilizing the transformation theory of cloud model to depict the qualitative concept: "bats approach their prey." Furthermore, Lévy flight mode and population information communication mechanism of bats are introduced to balance the advantage between exploration and exploitation. The simulation results show that the cloud model bat algorithm has good performance on functions optimization. PMID:24967425

  4. Probabilistic Mesomechanical Fatigue Model

    NASA Technical Reports Server (NTRS)

    Tryon, Robert G.

    1997-01-01

    A probabilistic mesomechanical fatigue life model is proposed to link the microstructural material heterogeneities to the statistical scatter in the macrostructural response. The macrostructure is modeled as an ensemble of microelements. Cracks nucleation within the microelements and grow from the microelements to final fracture. Variations of the microelement properties are defined using statistical parameters. A micromechanical slip band decohesion model is used to determine the crack nucleation life and size. A crack tip opening displacement model is used to determine the small crack growth life and size. Paris law is used to determine the long crack growth life. The models are combined in a Monte Carlo simulation to determine the statistical distribution of total fatigue life for the macrostructure. The modeled response is compared to trends in experimental observations from the literature.

  5. Animal models of scoliosis.

    PubMed

    Bobyn, Justin D; Little, David G; Gray, Randolph; Schindeler, Aaron

    2015-04-01

    Multiple techniques designed to induce scoliotic deformity have been applied across many animal species. We have undertaken a review of the literature regarding experimental models of scoliosis in animals to discuss their utility in comprehending disease aetiology and treatment. Models of scoliosis in animals can be broadly divided into quadrupedal and bipedal experiments. Quadrupedal models, in the absence of axial gravitation force, depend upon development of a mechanical asymmetry along the spine to initiate a scoliotic deformity. Bipedal models more accurately mimic human posture and consequently are subject to similar forces due to gravity, which have been long appreciated to be a contributing factor to the development of scoliosis. Many effective models of scoliosis in smaller animals have not been successfully translated to primates and humans. Though these models may not clarify the aetiology of human scoliosis, by providing a reliable and reproducible deformity in the spine they are a useful means with which to test interventions designed to correct and prevent deformity.

  6. Outside users payload model

    NASA Technical Reports Server (NTRS)

    1985-01-01

    The outside users payload model which is a continuation of documents and replaces and supersedes the July 1984 edition is presented. The time period covered by this model is 1985 through 2000. The following sections are included: (1) definition of the scope of the model; (2) discussion of the methodology used; (3) overview of total demand; (4) summary of the estimated market segmentation by launch vehicle; (5) summary of the estimated market segmentation by user type; (6) details of the STS market forecast; (7) summary of transponder trends; (8) model overview by mission category; and (9) detailed mission models. All known non-NASA, non-DOD reimbursable payloads forecast to be flown by non-Soviet-block countries are included in this model with the exception of Spacelab payloads and small self contained payloads. Certain DOD-sponsored or cosponsored payloads are included if they are reimbursable launches.

  7. Teaching macromolecular modeling.

    PubMed

    Harvey, S C; Tan, R K

    1992-12-01

    Training newcomers to the field of macromolecular modeling is as difficult as is training beginners in x-ray crystallography, nuclear magnetic resonance, or other methods in structural biology. In one or two lectures, the most that can be conveyed is a general sense of the relationship between modeling and other structural methods. If a full semester is available, then students can be taught how molecular structures are built, manipulated, refined, and analyzed on a computer. Here we describe a one-semester modeling course that combines lectures, discussions, and a laboratory using a commercial modeling package. In the laboratory, students carry out prescribed exercises that are coordinated to the lectures, and they complete a term project on a modeling problem of their choice. The goal is to give students an understanding of what kinds of problems can be attacked by molecular modeling methods and which problems are beyond the current capabilities of those methods.

  8. Open source molecular modeling.

    PubMed

    Pirhadi, Somayeh; Sunseri, Jocelyn; Koes, David Ryan

    2016-09-01

    The success of molecular modeling and computational chemistry efforts are, by definition, dependent on quality software applications. Open source software development provides many advantages to users of modeling applications, not the least of which is that the software is free and completely extendable. In this review we categorize, enumerate, and describe available open source software packages for molecular modeling and computational chemistry. An updated online version of this catalog can be found at https://opensourcemolecularmodeling.github.io.

  9. F-14 modeling study

    NASA Technical Reports Server (NTRS)

    Levison, W. H.; Baron, S.

    1984-01-01

    Preliminary results in the application of a closed loop pilot/simulator model to the analysis of some simulator fidelity issues are discussed in the context of an air to air target tracking task. The closed loop model is described briefly. Then, problem simplifications that are employed to reduce computational costs are discussed. Finally, model results showing sensitivity of performance to various assumptions concerning the simulator and/or the pilot are presented.

  10. Acid rain: Mesoscale model

    NASA Technical Reports Server (NTRS)

    Hsu, H. M.

    1980-01-01

    A mesoscale numerical model of the Florida peninsula was formulated and applied to a dry, neutral atmosphere. The prospective use of the STAR-100 computer for the submesoscale model is discussed. The numerical model presented is tested under synoptically undisturbed conditions. Two cases, differing only in the direction of the prevailing geostrophic wind, are examined: a prevailing southwest wind and a prevailing southeast wind, both 6 m/sec at all levels initially.

  11. Computer Models of Proteins

    NASA Technical Reports Server (NTRS)

    2000-01-01

    Dr. Marc Pusey (seated) and Dr. Craig Kundrot use computers to analyze x-ray maps and generate three-dimensional models of protein structures. With this information, scientists at Marshall Space Flight Center can learn how proteins are made and how they work. The computer screen depicts a proten structure as a ball-and-stick model. Other models depict the actual volume occupied by the atoms, or the ribbon-like structures that are crucial to a protein's function.

  12. Modeling Frequency Comb Sources

    NASA Astrophysics Data System (ADS)

    Li, Feng; Yuan, Jinhui; Kang, Zhe; Li, Qian; Wai, P. K. A.

    2016-06-01

    Frequency comb sources have revolutionized metrology and spectroscopy and found applications in many fields. Stable, low-cost, high-quality frequency comb sources are important to these applications. Modeling of the frequency comb sources will help the understanding of the operation mechanism and optimization of the design of such sources. In this paper,we review the theoretical models used and recent progress of the modeling of frequency comb sources.

  13. The Integrated Medical Model

    NASA Technical Reports Server (NTRS)

    Kerstman, Eric; Minard, Charles; Saile, Lynn; Freiere deCarvalho, Mary; Myers, Jerry; Walton, Marlei; Butler, Douglas; Iyengar, Sriram; Johnson-Throop, Kathy; Baumann, David

    2010-01-01

    The goals of the Integrated Medical Model (IMM) are to develop an integrated, quantified, evidence-based decision support tool useful to crew health and mission planners and to help align science, technology, and operational activities intended to optimize crew health, safety, and mission success. Presentation slides address scope and approach, beneficiaries of IMM capabilities, history, risk components, conceptual models, development steps, and the evidence base. Space adaptation syndrome is used to demonstrate the model's capabilities.

  14. Atmospheric prediction model survey

    NASA Technical Reports Server (NTRS)

    Wellck, R. E.

    1976-01-01

    As part of the SEASAT Satellite program of NASA, a survey of representative primitive equation atmospheric prediction models that exist in the world today was written for the Jet Propulsion Laboratory. Seventeen models developed by eleven different operational and research centers throughout the world are included in the survey. The surveys are tutorial in nature describing the features of the various models in a systematic manner.

  15. Open source molecular modeling.

    PubMed

    Pirhadi, Somayeh; Sunseri, Jocelyn; Koes, David Ryan

    2016-09-01

    The success of molecular modeling and computational chemistry efforts are, by definition, dependent on quality software applications. Open source software development provides many advantages to users of modeling applications, not the least of which is that the software is free and completely extendable. In this review we categorize, enumerate, and describe available open source software packages for molecular modeling and computational chemistry. An updated online version of this catalog can be found at https://opensourcemolecularmodeling.github.io. PMID:27631126

  16. AREST model description

    SciTech Connect

    Engel, D.W.; McGrail, B.P.

    1993-11-01

    The Office of Civilian Radioactive Waste Management and the Power Reactor and Nuclear Fuel Development Corporation of Japan (PNC) have supported the development of the Analytical Repository Source-Term (AREST) at Pacific Northwest Laboratory. AREST is a computer model developed to evaluate radionuclide release from an underground geologic repository. The AREST code can be used to calculate/estimate the amount and rate of each radionuclide that is released from the engineered barrier system (EBS) of the repository. The EBS is the man-made or disrupted area of the repository. AREST was designed as a system-level models to simulate the behavior of the total repository by combining process-level models for the release from an individual waste package or container. AREST contains primarily analytical models for calculating the release/transport of radionuclides to the lost rock that surrounds each waste package. Analytical models were used because of the small computational overhead that allows all the input parameters to be derived from a statistical distribution. Recently, a one-dimensional numerical model was also incorporated into AREST, to allow for more detailed modeling of the transport process with arbitrary length decay chains. The next step in modeling the EBS, is to develop a model that couples the probabilistic capabilities of AREST with a more detailed process model. This model will need to look at the reactive coupling of the processes that are involved with the release process. Such coupling would include: (1) the dissolution of the waste form, (2) the geochemical modeling of the groundwater, (3) the corrosion of the container overpacking, and (4) the backfill material, just to name a few. Several of these coupled processes are already incorporated in the current version of AREST.

  17. Conceptual IT model

    NASA Astrophysics Data System (ADS)

    Arnaoudova, Kristina; Stanchev, Peter

    2015-11-01

    The business processes are the key asset for every organization. The design of the business process models is the foremost concern and target among an organization's functions. Business processes and their proper management are intensely dependent on the performance of software applications and technology solutions. The paper is attempt for definition of new Conceptual model of IT service provider, it could be examined as IT focused Enterprise model, part of Enterprise Architecture (EA) school.

  18. Global Atmospheric Aerosol Modeling

    NASA Technical Reports Server (NTRS)

    Hendricks, Johannes; Aquila, Valentina; Righi, Mattia

    2012-01-01

    Global aerosol models are used to study the distribution and properties of atmospheric aerosol particles as well as their effects on clouds, atmospheric chemistry, radiation, and climate. The present article provides an overview of the basic concepts of global atmospheric aerosol modeling and shows some examples from a global aerosol simulation. Particular emphasis is placed on the simulation of aerosol particles and their effects within global climate models.

  19. Liftoff Model for MELCOR.

    SciTech Connect

    Young, Michael F.

    2015-07-01

    Aerosol particles that deposit on surfaces may be subsequently resuspended by air flowing over the surface. A review of models for this liftoff process is presented and compared to available data. Based on this review, a model that agrees with existing data and is readily computed is presented for incorporation into a system level code such as MELCOR. Liftoff Model for MELCOR July 2015 4 This page is intentionally blank

  20. Dataset Modelability by QSAR

    PubMed Central

    Golbraikh, Alexander; Muratov, Eugene; Fourches, Denis; Tropsha, Alexander

    2014-01-01

    We introduce a simple MODelability Index (MODI) that estimates the feasibility of obtaining predictive QSAR models (Correct Classification Rate above 0.7) for a binary dataset of bioactive compounds. MODI is defined as an activity class-weighted ratio of the number of the nearest neighbor pairs of compounds with the same activity class versus the total number of pairs. The MODI values were calculated for more than 100 datasets and the threshold of 0.65 was found to separate non-modelable from the modelable datasets. PMID:24251851

  1. Mathematical model of sarcoidosis

    PubMed Central

    Hao, Wenrui; Crouser, Elliott D.; Friedman, Avner

    2014-01-01

    Sarcoidosis is a disease involving abnormal collection of inflammatory cells forming nodules, called granulomas. Such granulomas occur in the lung and the mediastinal lymph nodes, in the heart, and in other vital and nonvital organs. The origin of the disease is unknown, and there are only limited clinical data on lung tissue of patients. No current model of sarcoidosis exists. In this paper we develop a mathematical model on the dynamics of the disease in the lung and use patients’ lung tissue data to validate the model. The model is used to explore potential treatments. PMID:25349384

  2. Models of Reality.

    SciTech Connect

    Brown-VanHoozer, S. A.

    1999-06-02

    Conscious awareness of our environment is based on a feedback loop comprised of sensory input transmitted to the central nervous system leading to construction of our ''model of the world,'' (Lewis et al, 1982). We then assimilate the neurological model at the unconscious level into information we can later consciously consider useful in identifying belief systems and behaviors for designing diverse systems. Thus, we can avoid potential problems based on our open-to-error perceived reality of the world. By understanding how our model of reality is organized, we allow ourselves to transcend content and develop insight into how effective choices and belief systems are generated through sensory derived processes. These are the processes which provide the designer the ability to meta model (build a model of a model) the user; consequently, matching the mental model of the user with that of the designer's and, coincidentally, forming rapport between the two participants. The information shared between the participants is neither assumed nor generalized, it is closer to equivocal; thus minimizing error through a sharing of each other's model of reality. How to identify individual mental mechanisms or processes, how to organize the individual strategies of these mechanisms into useful patterns, and to formulate these into models for success and knowledge based outcomes is the subject of the discussion that follows.

  3. Computer Modeling and Simulation

    SciTech Connect

    Pronskikh, V. S.

    2014-05-09

    Verification and validation of computer codes and models used in simulation are two aspects of the scientific practice of high importance and have recently been discussed by philosophers of science. While verification is predominantly associated with the correctness of the way a model is represented by a computer code or algorithm, validation more often refers to model’s relation to the real world and its intended use. It has been argued that because complex simulations are generally not transparent to a practitioner, the Duhem problem can arise for verification and validation due to their entanglement; such an entanglement makes it impossible to distinguish whether a coding error or model’s general inadequacy to its target should be blamed in the case of the model failure. I argue that in order to disentangle verification and validation, a clear distinction between computer modeling (construction of mathematical computer models of elementary processes) and simulation (construction of models of composite objects and processes by means of numerical experimenting with them) needs to be made. Holding on to that distinction, I propose to relate verification (based on theoretical strategies such as inferences) to modeling and validation, which shares the common epistemology with experimentation, to simulation. To explain reasons of their intermittent entanglement I propose a weberian ideal-typical model of modeling and simulation as roles in practice. I suggest an approach to alleviate the Duhem problem for verification and validation generally applicable in practice and based on differences in epistemic strategies and scopes

  4. Models of HERG gating.

    PubMed

    Bett, Glenna C L; Zhou, Qinlian; Rasmusson, Randall L

    2011-08-01

    HERG (Kv11.1, KCNH2) is a voltage-gated potassium channel with unique gating characteristics. HERG has fast voltage-dependent inactivation, relatively slow deactivation, and fast recovery from inactivation. This combination of gating kinetics makes study of HERG difficult without using mathematical models. Several HERG models have been developed, with fundamentally different organization. HERG is the molecular basis of I(Kr), which plays a critical role in repolarization. We programmed and compared five distinct HERG models. HERG gating cannot be adequately replicated using Hodgkin-Huxley type formulation. Using Markov models, a five-state model is required with three closed, one open, and one inactivated state, and a voltage-independent step between some of the closed states. A fundamental difference between models is the presence/absence of a transition directly from the proximal closed state to the inactivated state. The only models that effectively reproduce HERG data have no direct closed-inactivated transition, or have a closed-inactivated transition that is effectively zero compared to the closed-open transition, rendering the closed-inactivation transition superfluous. Our single-channel model demonstrates that channels can inactivate without conducting with a flickering or bursting open-state. The various models have qualitative and quantitative differences that are critical to accurate predictions of HERG behavior during repolarization, tachycardia, and premature depolarizations. PMID:21806931

  5. Modeling plant morphogenesis.

    PubMed

    Prusinkiewicz, Przemyslaw; Rolland-Lagan, Anne-Gaëlle

    2006-02-01

    Applications of computational techniques to developmental plant biology include the processing of experimental data and the construction of simulation models. Substantial progress has been made in these areas over the past few years. Complex image-processing techniques are used to integrate sequences of two-dimensional images into three-dimensional descriptions of development over time and to extract useful quantitative traits. Large amounts of data are integrated into empirical models of developing plant organs and entire plants. Mechanistic models link molecular-level phenomena with the resulting phenotypes. Several models shed light on the possible properties of active auxin transport and its role in plant morphogenesis. PMID:16376602

  6. Model Error Budgets

    NASA Technical Reports Server (NTRS)

    Briggs, Hugh C.

    2008-01-01

    An error budget is a commonly used tool in design of complex aerospace systems. It represents system performance requirements in terms of allowable errors and flows these down through a hierarchical structure to lower assemblies and components. The requirements may simply be 'allocated' based upon heuristics or experience, or they may be designed through use of physics-based models. This paper presents a basis for developing an error budget for models of the system, as opposed to the system itself. The need for model error budgets arises when system models are a principle design agent as is increasingly more common for poorly testable high performance space systems.

  7. Lightning return stroke models

    NASA Technical Reports Server (NTRS)

    Lin, Y. T.; Uman, M. A.; Standler, R. B.

    1980-01-01

    We test the two most commonly used lightning return stroke models, Bruce-Golde and transmission line, against subsequent stroke electric and magnetic field wave forms measured simultaneously at near and distant stations and show that these models are inadequate to describe the experimental data. We then propose a new return stroke model that is physically plausible and that yields good approximations to the measured two-station fields. Using the new model, we derive return stroke charge and current statistics for about 100 subsequent strokes.

  8. Modeling plant morphogenesis.

    PubMed

    Prusinkiewicz, Przemyslaw; Rolland-Lagan, Anne-Gaëlle

    2006-02-01

    Applications of computational techniques to developmental plant biology include the processing of experimental data and the construction of simulation models. Substantial progress has been made in these areas over the past few years. Complex image-processing techniques are used to integrate sequences of two-dimensional images into three-dimensional descriptions of development over time and to extract useful quantitative traits. Large amounts of data are integrated into empirical models of developing plant organs and entire plants. Mechanistic models link molecular-level phenomena with the resulting phenotypes. Several models shed light on the possible properties of active auxin transport and its role in plant morphogenesis.

  9. Particle bed reactor modeling

    NASA Technical Reports Server (NTRS)

    Sapyta, Joe; Reid, Hank; Walton, Lew

    1993-01-01

    The topics are presented in viewgraph form and include the following: particle bed reactor (PBR) core cross section; PBR bleed cycle; fuel and moderator flow paths; PBR modeling requirements; characteristics of PBR and nuclear thermal propulsion (NTP) modeling; challenges for PBR and NTP modeling; thermal hydraulic computer codes; capabilities for PBR/reactor application; thermal/hydralic codes; limitations; physical correlations; comparison of predicted friction factor and experimental data; frit pressure drop testing; cold frit mask factor; decay heat flow rate; startup transient simulation; and philosophy of systems modeling.

  10. Photovoltaic array performance model.

    SciTech Connect

    Kratochvil, Jay A.; Boyson, William Earl; King, David L.

    2004-08-01

    This document summarizes the equations and applications associated with the photovoltaic array performance model developed at Sandia National Laboratories over the last twelve years. Electrical, thermal, and optical characteristics for photovoltaic modules are included in the model, and the model is designed to use hourly solar resource and meteorological data. The versatility and accuracy of the model has been validated for flat-plate modules (all technologies) and for concentrator modules, as well as for large arrays of modules. Applications include system design and sizing, 'translation' of field performance measurements to standard reporting conditions, system performance optimization, and real-time comparison of measured versus expected system performance.

  11. Modelling approaches in biomechanics.

    PubMed Central

    Alexander, R McN

    2003-01-01

    Conceptual, physical and mathematical models have all proved useful in biomechanics. Conceptual models, which have been used only occasionally, clarify a point without having to be constructed physically or analysed mathematically. Some physical models are designed to demonstrate a proposed mechanism, for example the folding mechanisms of insect wings. Others have been used to check the conclusions of mathematical modelling. However, others facilitate observations that would be difficult to make on real organisms, for example on the flow of air around the wings of small insects. Mathematical models have been used more often than physical ones. Some of them are predictive, designed for example to calculate the effects of anatomical changes on jumping performance, or the pattern of flow in a 3D assembly of semicircular canals. Others seek an optimum, for example the best possible technique for a high jump. A few have been used in inverse optimization studies, which search for variables that are optimized by observed patterns of behaviour. Mathematical models range from the extreme simplicity of some models of walking and running, to the complexity of models that represent numerous body segments and muscles, or elaborate bone shapes. The simpler the model, the clearer it is which of its features is essential to the calculated effect. PMID:14561333

  12. Wind power prediction models

    NASA Technical Reports Server (NTRS)

    Levy, R.; Mcginness, H.

    1976-01-01

    Investigations were performed to predict the power available from the wind at the Goldstone, California, antenna site complex. The background for power prediction was derived from a statistical evaluation of available wind speed data records at this location and at nearby locations similarly situated within the Mojave desert. In addition to a model for power prediction over relatively long periods of time, an interim simulation model that produces sample wind speeds is described. The interim model furnishes uncorrelated sample speeds at hourly intervals that reproduce the statistical wind distribution at Goldstone. A stochastic simulation model to provide speed samples representative of both the statistical speed distributions and correlations is also discussed.

  13. DISJUNCTIVE NORMAL SHAPE MODELS

    PubMed Central

    Ramesh, Nisha; Mesadi, Fitsum; Cetin, Mujdat; Tasdizen, Tolga

    2016-01-01

    A novel implicit parametric shape model is proposed for segmentation and analysis of medical images. Functions representing the shape of an object can be approximated as a union of N polytopes. Each polytope is obtained by the intersection of M half-spaces. The shape function can be approximated as a disjunction of conjunctions, using the disjunctive normal form. The shape model is initialized using seed points defined by the user. We define a cost function based on the Chan-Vese energy functional. The model is differentiable, hence, gradient based optimization algorithms are used to find the model parameters. PMID:27403233

  14. Multifamily Envelope Leakage Model

    SciTech Connect

    Faakye, O.; Griffiths, D.

    2015-05-01

    The objective of the 2013 research project was to develop the model for predicting fully guarded test results (FGT), using unguarded test data and specific building features of apartment units. The model developed has a coefficient of determination R2 value of 0.53 with a root mean square error (RMSE) of 0.13. Both statistical metrics indicate that the model is relatively strong. When tested against data that was not included in the development of the model, prediction accuracy was within 19%, which is reasonable given that seasonal differences in blower door measurements can vary by as much as 25%.

  15. Models of HERG Gating

    PubMed Central

    Bett, Glenna C.L.; Zhou, Qinlian; Rasmusson, Randall L.

    2011-01-01

    HERG (Kv11.1, KCNH2) is a voltage-gated potassium channel with unique gating characteristics. HERG has fast voltage-dependent inactivation, relatively slow deactivation, and fast recovery from inactivation. This combination of gating kinetics makes study of HERG difficult without using mathematical models. Several HERG models have been developed, with fundamentally different organization. HERG is the molecular basis of IKr, which plays a critical role in repolarization. We programmed and compared five distinct HERG models. HERG gating cannot be adequately replicated using Hodgkin-Huxley type formulation. Using Markov models, a five-state model is required with three closed, one open, and one inactivated state, and a voltage-independent step between some of the closed states. A fundamental difference between models is the presence/absence of a transition directly from the proximal closed state to the inactivated state. The only models that effectively reproduce HERG data have no direct closed-inactivated transition, or have a closed-inactivated transition that is effectively zero compared to the closed-open transition, rendering the closed-inactivation transition superfluous. Our single-channel model demonstrates that channels can inactivate without conducting with a flickering or bursting open-state. The various models have qualitative and quantitative differences that are critical to accurate predictions of HERG behavior during repolarization, tachycardia, and premature depolarizations. PMID:21806931

  16. Radiation Environment Modeling for Spacecraft Design: New Model Developments

    NASA Technical Reports Server (NTRS)

    Barth, Janet; Xapsos, Mike; Lauenstein, Jean-Marie; Ladbury, Ray

    2006-01-01

    A viewgraph presentation on various new space radiation environment models for spacecraft design is described. The topics include: 1) The Space Radiatio Environment; 2) Effects of Space Environments on Systems; 3) Space Radiatio Environment Model Use During Space Mission Development and Operations; 4) Space Radiation Hazards for Humans; 5) "Standard" Space Radiation Environment Models; 6) Concerns about Standard Models; 7) Inadequacies of Current Models; 8) Development of New Models; 9) New Model Developments: Proton Belt Models; 10) Coverage of New Proton Models; 11) Comparison of TPM-1, PSB97, AP-8; 12) New Model Developments: Electron Belt Models; 13) Coverage of New Electron Models; 14) Comparison of "Worst Case" POLE, CRESELE, and FLUMIC Models with the AE-8 Model; 15) New Model Developments: Galactic Cosmic Ray Model; 16) Comparison of NASA, MSU, CIT Models with ACE Instrument Data; 17) New Model Developmemts: Solar Proton Model; 18) Comparison of ESP, JPL91, KIng/Stassinopoulos, and PSYCHIC Models; 19) New Model Developments: Solar Heavy Ion Model; 20) Comparison of CREME96 to CREDO Measurements During 2000 and 2002; 21) PSYCHIC Heavy ion Model; 22) Model Standardization; 23) Working Group Meeting on New Standard Radiation Belt and Space Plasma Models; and 24) Summary.

  17. Interface Representations of Critical Ground States

    NASA Astrophysics Data System (ADS)

    Kondev, Jane

    1995-01-01

    We study the critical properties of the F model, the three-coloring model on the honeycomb lattice, and the four-coloring model on the square lattice, by mapping these models to models of rough interfaces. In particular, we construct operators in a systematic way, which is provided by the interface representation, and we show that their scaling dimensions can be related to the stiffness of the interface. Two types of operators are found, and they correspond to electric and magnetic charges in the Coulomb gas which is related to the interface model by the usual duality transformation. Furthermore, we find that the stiffness of the interface models, and therefore all the critical exponents, can be calculated exactly by considering the contour correlation function which measures the probability that two points on the interface belong to the same contour loop. The exact information about the stiffness also allows us to analyze in detail the conformal field theories (CFT) that represent the scaling limits of the interface models. We find that CFT's associated with the F model, the three -coloring model, and the four-coloring model, have chiral symmetry algebras given by the su(2)_{k=1 }, su(3)_{k=1}, and su(4) _{k=1} Kac-Moody algebras, respectively. The three-coloring and the four coloring-model are ground states of certain antiferromagnetic Potts models, and the behavior of these Potts models at small but finite temperatures is determined by topological defects that can be defined in the associated interface models. In this way we calculate the correlation length and the specific heat of the Potts models, and they are in good agreement with numerical simulations. We also present our Monte-Carlo results for the scaling dimensions of operators in the four-coloring model, and they are in excellent agreement with our analytical results. Finally, we define geometrical exponents for contour loops on self -affine interfaces and calculate their values as a function of the

  18. Groundwater Model Validation

    SciTech Connect

    Ahmed E. Hassan

    2006-01-24

    Models have an inherent uncertainty. The difficulty in fully characterizing the subsurface environment makes uncertainty an integral component of groundwater flow and transport models, which dictates the need for continuous monitoring and improvement. Building and sustaining confidence in closure decisions and monitoring networks based on models of subsurface conditions require developing confidence in the models through an iterative process. The definition of model validation is postulated as a confidence building and long-term iterative process (Hassan, 2004a). Model validation should be viewed as a process not an end result. Following Hassan (2004b), an approach is proposed for the validation process of stochastic groundwater models. The approach is briefly summarized herein and detailed analyses of acceptance criteria for stochastic realizations and of using validation data to reduce input parameter uncertainty are presented and applied to two case studies. During the validation process for stochastic models, a question arises as to the sufficiency of the number of acceptable model realizations (in terms of conformity with validation data). Using a hierarchical approach to make this determination is proposed. This approach is based on computing five measures or metrics and following a decision tree to determine if a sufficient number of realizations attain satisfactory scores regarding how they represent the field data used for calibration (old) and used for validation (new). The first two of these measures are applied to hypothetical scenarios using the first case study and assuming field data consistent with the model or significantly different from the model results. In both cases it is shown how the two measures would lead to the appropriate decision about the model performance. Standard statistical tests are used to evaluate these measures with the results indicating they are appropriate measures for evaluating model realizations. The use of validation

  19. Why business models matter.

    PubMed

    Magretta, Joan

    2002-05-01

    "Business model" was one of the great buzz-words of the Internet boom. A company didn't need a strategy, a special competence, or even any customers--all it needed was a Web-based business model that promised wild profits in some distant, ill-defined future. Many people--investors, entrepreneurs, and executives alike--fell for the fantasy and got burned. And as the inevitable counterreaction played out, the concept of the business model fell out of fashion nearly as quickly as the .com appendage itself. That's a shame. As Joan Magretta explains, a good business model remains essential to every successful organization, whether it's a new venture or an established player. To help managers apply the concept successfully, she defines what a business model is and how it complements a smart competitive strategy. Business models are, at heart, stories that explain how enterprises work. Like a good story, a robust business model contains precisely delineated characters, plausible motivations, and a plot that turns on an insight about value. It answers certain questions: Who is the customer? How do we make money? What underlying economic logic explains how we can deliver value to customers at an appropriate cost? Every viable organization is built on a sound business model, but a business model isn't a strategy, even though many people use the terms interchangeably. Business models describe, as a system, how the pieces of a business fit together. But they don't factor in one critical dimension of performance: competition. That's the job of strategy. Illustrated with examples from companies like American Express, EuroDisney, WalMart, and Dell Computer, this article clarifies the concepts of business models and strategy, which are fundamental to every company's performance.

  20. Biosphere Process Model Report

    SciTech Connect

    J. Schmitt

    2000-05-25

    To evaluate the postclosure performance of a potential monitored geologic repository at Yucca Mountain, a Total System Performance Assessment (TSPA) will be conducted. Nine Process Model Reports (PMRs), including this document, are being developed to summarize the technical basis for each of the process models supporting the TSPA model. These reports cover the following areas: (1) Integrated Site Model; (2) Unsaturated Zone Flow and Transport; (3) Near Field Environment; (4) Engineered Barrier System Degradation, Flow, and Transport; (5) Waste Package Degradation; (6) Waste Form Degradation; (7) Saturated Zone Flow and Transport; (8) Biosphere; and (9) Disruptive Events. Analysis/Model Reports (AMRs) contain the more detailed technical information used to support TSPA and the PMRs. The AMRs consists of data, analyses, models, software, and supporting documentation that will be used to defend the applicability of each process model for evaluating the postclosure performance of the potential Yucca Mountain repository system. This documentation will ensure the traceability of information from its source through its ultimate use in the TSPA-Site Recommendation (SR) and in the National Environmental Policy Act (NEPA) analysis processes. The objective of the Biosphere PMR is to summarize (1) the development of the biosphere model, and (2) the Biosphere Dose Conversion Factors (BDCFs) developed for use in TSPA. The Biosphere PMR does not present or summarize estimates of potential radiation doses to human receptors. Dose calculations are performed as part of TSPA and will be presented in the TSPA documentation. The biosphere model is a component of the process to evaluate postclosure repository performance and regulatory compliance for a potential monitored geologic repository at Yucca Mountain, Nevada. The biosphere model describes those exposure pathways in the biosphere by which radionuclides released from a potential repository could reach a human receptor

  1. Bayesian Data-Model Fit Assessment for Structural Equation Modeling

    ERIC Educational Resources Information Center

    Levy, Roy

    2011-01-01

    Bayesian approaches to modeling are receiving an increasing amount of attention in the areas of model construction and estimation in factor analysis, structural equation modeling (SEM), and related latent variable models. However, model diagnostics and model criticism remain relatively understudied aspects of Bayesian SEM. This article describes…

  2. Spiral model pilot project information model

    NASA Technical Reports Server (NTRS)

    1991-01-01

    The objective was an evaluation of the Spiral Model (SM) development approach to allow NASA Marshall to develop an experience base of that software management methodology. A discussion is presented of the Information Model (IM) that was used as part of the SM methodology. A key concept of the SM is the establishment of an IM to be used by management to track the progress of a project. The IM is the set of metrics that is to be measured and reported throughout the life of the project. These metrics measure both the product and the process to ensure the quality of the final delivery item and to ensure the project met programmatic guidelines. The beauty of the SM, along with the IM, is the ability to measure not only the correctness of the specification and implementation of the requirements but to also obtain a measure of customer satisfaction.

  3. Automated Student Model Improvement

    ERIC Educational Resources Information Center

    Koedinger, Kenneth R.; McLaughlin, Elizabeth A.; Stamper, John C.

    2012-01-01

    Student modeling plays a critical role in developing and improving instruction and instructional technologies. We present a technique for automated improvement of student models that leverages the DataShop repository, crowd sourcing, and a version of the Learning Factors Analysis algorithm. We demonstrate this method on eleven educational…

  4. Modeling Antibody Diversity.

    ERIC Educational Resources Information Center

    Baker, William P.; Moore, Cathy Ronstadt

    1998-01-01

    Understanding antibody structure and function is difficult for many students. The rearrangement of constant and variable regions during antibody differentiation can be effectively simulated using a paper model. Describes a hands-on laboratory exercise which allows students to model antibody diversity using readily available resources. (PVD)

  5. Canister Model, Systems Analysis

    1993-09-29

    This packges provides a computer simulation of a systems model for packaging nuclear waste and spent nuclear fuel in canisters. The canister model calculates overall programmatic cost, number of canisters, and fuel and waste inventories for the Idaho Chemical Processing Plant (other initial conditions can be entered).

  6. Earth and ocean modeling

    NASA Technical Reports Server (NTRS)

    Knezovich, F. M.

    1976-01-01

    A modular structured system of computer programs is presented utilizing earth and ocean dynamical data keyed to finitely defined parameters. The model is an assemblage of mathematical algorithms with an inherent capability of maturation with progressive improvements in observational data frequencies, accuracies and scopes. The Eom in its present state is a first-order approach to a geophysical model of the earth's dynamics.

  7. Fictional models in science

    NASA Astrophysics Data System (ADS)

    Morrison, Margaret

    2014-02-01

    When James Clerk Maxwell set out his famous equations 150 years ago, his model of electromagnetism included a piece of pure fiction: an invisible, all-pervasive "aether" made up of elastic vortices separated by electric charges. Margaret Morrison explores how this and other "fictional" models shape science.

  8. Modeling Water Filtration

    ERIC Educational Resources Information Center

    Parks, Melissa

    2014-01-01

    Model-eliciting activities (MEAs) are not new to those in engineering or mathematics, but they were new to Melissa Parks. Model-eliciting activities are simulated real-world problems that integrate engineering, mathematical, and scientific thinking as students find solutions for specific scenarios. During this process, students generate solutions…

  9. Dasymetric Modeling and Uncertainty

    PubMed Central

    Nagle, Nicholas N.; Buttenfield, Barbara P.; Leyk, Stefan; Speilman, Seth

    2014-01-01

    Dasymetric models increase the spatial resolution of population data by incorporating related ancillary data layers. The role of uncertainty in dasymetric modeling has not been fully addressed as of yet. Uncertainty is usually present because most population data are themselves uncertain, and/or the geographic processes that connect population and the ancillary data layers are not precisely known. A new dasymetric methodology - the Penalized Maximum Entropy Dasymetric Model (P-MEDM) - is presented that enables these sources of uncertainty to be represented and modeled. The P-MEDM propagates uncertainty through the model and yields fine-resolution population estimates with associated measures of uncertainty. This methodology contains a number of other benefits of theoretical and practical interest. In dasymetric modeling, researchers often struggle with identifying a relationship between population and ancillary data layers. The PEDM model simplifies this step by unifying how ancillary data are included. The P-MEDM also allows a rich array of data to be included, with disparate spatial resolutions, attribute resolutions, and uncertainties. While the P-MEDM does not necessarily produce more precise estimates than do existing approaches, it does help to unify how data enter the dasymetric model, it increases the types of data that may be used, and it allows geographers to characterize the quality of their dasymetric estimates. We present an application of the P-MEDM that includes household-level survey data combined with higher spatial resolution data such as from census tracts, block groups, and land cover classifications. PMID:25067846

  10. Connectionist Modelling and Education.

    ERIC Educational Resources Information Center

    Evers, Colin W.

    2000-01-01

    Provides a detailed, technical introduction to the state of cognitive science research, in particular the rise of the "new cognitive science," especially artificial neural net (ANN) models. Explains one influential ANN model and describes diverse applications and their implications for education. (EV)

  11. Unitary Response Regression Models

    ERIC Educational Resources Information Center

    Lipovetsky, S.

    2007-01-01

    The dependent variable in a regular linear regression is a numerical variable, and in a logistic regression it is a binary or categorical variable. In these models the dependent variable has varying values. However, there are problems yielding an identity output of a constant value which can also be modelled in a linear or logistic regression with…

  12. Animal models for osteoporosis

    NASA Technical Reports Server (NTRS)

    Turner, R. T.; Maran, A.; Lotinun, S.; Hefferan, T.; Evans, G. L.; Zhang, M.; Sibonga, J. D.

    2001-01-01

    Animal models will continue to be important tools in the quest to understand the contribution of specific genes to establishment of peak bone mass and optimal bone architecture, as well as the genetic basis for a predisposition toward accelerated bone loss in the presence of co-morbidity factors such as estrogen deficiency. Existing animal models will continue to be useful for modeling changes in bone metabolism and architecture induced by well-defined local and systemic factors. However, there is a critical unfulfilled need to develop and validate better animal models to allow fruitful investigation of the interaction of the multitude of factors which precipitate senile osteoporosis. Well characterized and validated animal models that can be recommended for investigation of the etiology, prevention and treatment of several forms of osteoporosis have been listed in Table 1. Also listed are models which are provisionally recommended. These latter models have potential but are inadequately characterized, deviate significantly from the human response, require careful choice of strain or age, or are not practical for most investigators to adopt. It cannot be stressed strongly enough that the enormous potential of laboratory animals as models for osteoporosis can only be realized if great care is taken in the choice of an appropriate species, age, experimental design, and measurements. Poor choices will results in misinterpretation of results which ultimately can bring harm to patients who suffer from osteoporosis by delaying advancement of knowledge.

  13. Models and Metaphors

    ERIC Educational Resources Information Center

    Ivie, Stanley D.

    2007-01-01

    Humanity delights in spinning conceptual models of the world. These models, in turn, mirror their respective root metaphors. Three root metaphors--spiritual, organic, and mechanical--have dominated western thought. The spiritual metaphor runs from Plato, through Hegel, and connects with Montessori. The organic metaphor extends from Aristotle,…

  14. Pathological Gambling: Psychiatric Models

    ERIC Educational Resources Information Center

    Westphal, James R.

    2008-01-01

    Three psychiatric conceptual models: addictive, obsessive-compulsive spectrum and mood spectrum disorder have been proposed for pathological gambling. The objectives of this paper are to (1) evaluate the evidence base from the most recent reviews of each model, (2) update the evidence through 2007 and (3) summarize the status of the evidence for…

  15. Evaluating Causal Models.

    ERIC Educational Resources Information Center

    Watt, James H., Jr.

    Pointing out that linear causal models can organize the interrelationships of a large number of variables, this paper contends that such models are particularly useful to mass communication research, which must by necessity deal with complex systems of variables. The paper first outlines briefly the philosophical requirements for establishing a…

  16. Modeling Carbon Exchange

    NASA Technical Reports Server (NTRS)

    Sellers, Piers

    2012-01-01

    Model results will be reviewed to assess different methods for bounding the terrestrial role in the global carbon cycle. It is proposed that a series of climate model runs could be scoped that would tighten the limits on the "missing sink" of terrestrial carbon and could also direct future satellite image analyses to search for its geographical location and understand its seasonal dynamics.

  17. Using Models Effectively

    ERIC Educational Resources Information Center

    Eichinger, John

    2005-01-01

    Models are crucial to science teaching and learning, yet they can create unforeseen and overlooked challenges for students and teachers. For example, consider the time-tested clay volcano that relies on a vinegar and-baking-soda mixture for its "eruption." Based on a classroom demonstration of that geologic model, elementary students may interpret…

  18. Multilevel Mixture Factor Models

    ERIC Educational Resources Information Center

    Varriale, Roberta; Vermunt, Jeroen K.

    2012-01-01

    Factor analysis is a statistical method for describing the associations among sets of observed variables in terms of a small number of underlying continuous latent variables. Various authors have proposed multilevel extensions of the factor model for the analysis of data sets with a hierarchical structure. These Multilevel Factor Models (MFMs)…

  19. Modelling extended chromospheres

    NASA Technical Reports Server (NTRS)

    Linsky, J. L.

    1986-01-01

    Attention is given to the concept that the warm, partially ionized plasma (presently called chromosphere) associated with such stars as Alpha Boo and Rho Per extends outwards at least several photospheric radii. Calculations are presented for the Mg II K line in light of two input model atmospheres. Specific predictions are deduced from the results obtained by each of the two models.

  20. Model-Based Reasoning

    ERIC Educational Resources Information Center

    Ifenthaler, Dirk; Seel, Norbert M.

    2013-01-01

    In this paper, there will be a particular focus on mental models and their application to inductive reasoning within the realm of instruction. A basic assumption of this study is the observation that the construction of mental models and related reasoning is a slowly developing capability of cognitive systems that emerges effectively with proper…