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Sample records for 2d potts model

  1. Stable spins in the zero temperature spinodal decomposition of 2D Potts models

    NASA Astrophysics Data System (ADS)

    Derrida, B.; de Oliveira, P. M. C.; Stauffer, D.

    1996-02-01

    We present the results of zero temperature Monte Carlo simulations of the q-state Potts model on a square lattice with either four or eight neighbors, and for the triangular lattice with six neighbors. In agreement with previous works, we observe that the domain growth process gets blocked for the nearest-neighbor square lattice when q is large enough, whereas for the eight neighbor square lattice and for the triangular lattice no blocking is observed. Our simulations indicate that the number of spins which never flipped from the beginning of the simulation up to time t follows a power law as a function of the energy, even in the case of blocking. The exponent of this power law varies from less than {sol1}/{2} for the Ising case (1 q = 2) to 2 for q → ∞ and seems to be universal. The effect of blocking on this exponent is invisible at least up to q = 7.

  2. Potts model and graph theory

    NASA Astrophysics Data System (ADS)

    Wu, F. Y.

    1988-07-01

    Elementary exposition is given of some recent developments in studies of graphtheoretic aspects of the Potts model. Topics discussed include graphical expansions of the Potts partition function and correlation functions and their relationships with the chromatic, dichromatic, and flow polynomials occurring in graph theory. It is also shown that the Potts model realization of these classic graph-theoretic problems provides alternate and direct proofs of properties established heretofore only in the context of formal graph theory.

  3. 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

  4. Dilute Potts model in two dimensions.

    PubMed

    Qian, Xiaofeng; Deng, Youjin; Blöte, Henk W J

    2005-11-01

    We study the two-dimensional dilute q-state Potts model by means of transfer-matrix and Monte Carlo methods. Using the random-cluster representation, we include noninteger values of q. We locate phase transitions in the three-dimensional parameter space of q, the Potts coupling K>0, and the chemical potential of the vacancies. The critical plane is found to contain a line of fixed points that divides into a critical branch and a tricritical one, just as predicted by the renormalization scenario formulated by Nienhuis et al for the dilute Potts model. The universal properties along the line of fixed points agree with the theoretical predictions. We also determine the density of the vacancies along these branches. For q=2-squareroot of 2 we obtain the phase diagram in a three-dimensional parameter space that also includes a coupling V> or = 0 between the vacancies. For q=2, the latter space contains the Blume-Capel model as a special case. We include a determination of the tricritical point of this model, as well as an analysis of percolation clusters constructed on tricritical Potts configurations for noninteger q. This percolation study is based on Monte Carlo algorithms that include local updates flipping between Potts sites and vacancies. The bond updates are performed locally for and by means of a cluster algorithm for q>1. The updates for q>1 use a number of operations per site independent of the system size.

  5. 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.

  6. Glass transitions in the cellular Potts model

    NASA Astrophysics Data System (ADS)

    Chiang, M.; Marenduzzo, D.

    2016-10-01

    We study the dynamical transition between a fluid-like and a solid-like phase in a confluent cell monolayer, by using the cellular Potts model and computer simulations. We map out the phase diagram as a function of interfacial tension and of cell motility. While in the fluid phase there is normal diffusion, in the solid phase we observe sub-diffusion, very slow relaxation, and ageing, thereby strongly suggesting that this phase is glassy. Our results complement previous theoretical work within the vertex model and show that the cellular Potts model can account for the experimentally observed glassy dynamics of some biological tissues.

  7. One-dimensional q-state Potts model with multi-site interactions

    NASA Astrophysics Data System (ADS)

    Turban, Loïc

    2017-05-01

    A one-dimensional (1D) q-state Potts model with N sites, m-site interaction K in a field H is studied for arbitrary values of m. Exact results for the partition function and the two-point correlation function are obtained at H  =  0. The system in a field is shown to be self-dual. Using a change of Potts variables, it is mapped onto a standard 2D Potts model, with first-neighbour interactions K and H, on a cylinder with helical boundary conditions (BC). The 2D system has a length N/m and a transverse size m. Thus the Potts chain with multi-site interactions is expected to develop a 2D critical singularity along the self-duality line, (eqK-1)(eqH-1)=q , when N/m\\to∞ and m\\to∞ .

  8. Chromatic polynomials, Potts models and all that

    NASA Astrophysics Data System (ADS)

    Sokal, Alan D.

    2000-04-01

    The q-state Potts model can be defined on an arbitrary finite graph, and its partition function encodes much important information about that graph, including its chromatic polynomial, flow polynomial and reliability polynomial. The complex zeros of the Potts partition function are of interest both to statistical mechanicians and to combinatorists. I give a pedagogical introduction to all these problems, and then sketch two recent results: (a) Construction of a countable family of planar graphs whose chromatic zeros are dense in the whole complex q-plane except possibly for the disc | q-1|<1. (b) Proof of a universal upper bound on the q-plane zeros of the chromatic polynomial (or antiferromagnetic Potts-model partition function) in terms of the graph's maximum degree.

  9. The Potts model and the Tutte polynomial

    NASA Astrophysics Data System (ADS)

    Welsh, D. J. A.; Merino, C.

    2000-03-01

    This is an invited survey on the relation between the partition function of the Potts model and the Tutte polynomial. On the assumption that the Potts model is more familiar we have concentrated on the latter and its interpretations. In particular we highlight the connections with Abelian sandpiles, counting problems on random graphs, error correcting codes, and the Ehrhart polynomial of a zonotope. Where possible we use the mean field and square lattice as illustrations. We also discuss in some detail the complexity issues involved.

  10. Critical properties of random Potts models

    NASA Astrophysics Data System (ADS)

    Kinzel, Wolfgang; Domany, Eytan

    1981-04-01

    The critical properties of Potts models with random bonds are considered in two dimensions. A position-space renormalization-group procedure, based on the Migdal-Kadanoff method, is developed. While all previous position-space calculations satisfied the Harris criterion and the resulting scaling relation only approximately, we found conditions under which these relations are exactly satisfied, and constructed our renormalization-group procedure accordingly. Numerical results for phase diagrams and thermodynamic functions for various random-bond Potts models are presented. In addition, some exact results obtained using a duality transformation, as well as an heuristic derivation of scaling properties that correspond to the percolation problem are given.

  11. Dynamic exponents for potts model cluster algorithms

    NASA Astrophysics Data System (ADS)

    Coddington, Paul D.; Baillie, Clive F.

    We have studied the Swendsen-Wang and Wolff cluster update algorithms for the Ising model in 2, 3 and 4 dimensions. The data indicate simple relations between the specific heat and the Wolff autocorrelations, and between the magnetization and the Swendsen-Wang autocorrelations. This implies that the dynamic critical exponents are related to the static exponents of the Ising model. We also investigate the possibility of similar relationships for the Q-state Potts model.

  12. Potts and percolation models on bowtie lattices.

    PubMed

    Ding, Chengxiang; Wang, Yancheng; Li, Yang

    2012-08-01

    We give the exact critical frontier of the Potts model on bowtie lattices. For the case of q = 1, the critical frontier yields the thresholds of bond percolation on these lattices, which are exactly consistent with the results given by Ziff et al. [J. Phys. A 39, 15083 (2006)]. For the q = 2 Potts model on a bowtie A lattice, the critical point is in agreement with that of the Ising model on this lattice, which has been exactly solved. Furthermore, we do extensive Monte Carlo simulations of the Potts model on a bowtie A lattice with noninteger q. Our numerical results, which are accurate up to seven significant digits, are consistent with the theoretical predictions. We also simulate the site percolation on a bowtie A lattice, and the threshold is s(c) = 0.5479148(7). In the simulations of bond percolation and site percolation, we find that the shape-dependent properties of the percolation model on a bowtie A lattice are somewhat different from those of an isotropic lattice, which may be caused by the anisotropy of the lattice.

  13. Study of contact angle hysteresis using the Cellular Potts Model.

    PubMed

    Mortazavi, Vahid; D'Souza, Roshan M; Nosonovsky, Michael

    2013-02-28

    We use the Cellular Potts Model (CPM) to study the contact angle (CA) hysteresis in multiphase (solid-liquid-vapour) systems. We simulate a droplet over the tilted patterned surface, and a bubble placed under the surface immersed in liquid. The difference between bubbles and droplets was discussed through their CA hysteresis. Dependency of CA hysteresis on the surface structure and other parameters was also investigated. This analysis allows decoupling of the 1D (pinning of the triple line) and 2D (adhesion hysteresis in the contact area) effects and provides new insight into the nature of CA hysteresis.

  14. Duality and Fisher zeros in the two-dimensional Potts model on a square lattice.

    PubMed

    Astorino, Marco; Canfora, Fabrizio

    2010-05-01

    A phenomenological approach to the ferromagnetic two-dimensional (2D) Potts model on square lattice is proposed. Our goal is to present a simple functional form that obeys the known properties possessed by the free energy of the q-state Potts model. The duality symmetry of the 2D Potts model together with the known results on its critical exponent α allows us to fix consistently the details of the proposed expression for the free energy. The agreement of the analytic ansatz with numerical data in the q=3 case is very good at high and low temperatures as well as at the critical point. It is shown that the q>4 cases naturally fit into the same scheme and that one should also expect a good agreement with numerical data. The limiting q=4 case is shortly discussed.

  15. 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.

  16. Cellular Potts Models of Fruit Fly Embryogenesis

    NASA Astrophysics Data System (ADS)

    Rohner, Jason; Hutson, Shane

    2006-11-01

    Biologists have extensively studied embryonic development in the fruit fly (Drosophila melangaster) as a model for morphogenesis. Our overall goal is to understand how the cellular rearrangements of morphogenesis are caused by the underlying forces between cells. To that end, we are developing means to replicate fruit fly embryogenesis (from cellular differentiation to dorsal closure) using cellular Potts models. Cells are described as collections of like ``spins''; and spin-spin interaction energies are used to describe the forces along cell boundaries. Using a four state (spin-type) model (three tissue types and the surrounding media) we have reproduced cell sorting as well as engulfment of a surface grouping of tissue. Cell sorting can be accomplished using only the spin-spin interaction energies with the volume components being used only for cell size management. We are currently attempting to replicate the experimentally determined geometry and dynamics of dorsal closure. This modeling will take advantage of software tools developed at Notre Dame for looking at cellular Potts models and packaged as CompuCell3D.

  17. 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.

  18. Krypton on graphite and the striped helical Potts model

    NASA Astrophysics Data System (ADS)

    Halpin-Healy, Timothy; Kardar, Mehran

    1985-02-01

    A generalization of the helical Potts model, with two species of domain wall due to explicit triaxial helical symmetry breaking, is studied via position-space renormalization-group methods and is discovered to exhibit striped, as well as hexagonal, phases. The disordering transition of the commensurate ferromagnetic phase belongs to the symmetric Potts universality class. No evidence is found for a chiral melting transition. Commensurate-incommensurate phase diagrams for oversaturated krypton on graphite are constructed.

  19. Diffusion and Advection using Cellular Potts Model

    NASA Astrophysics Data System (ADS)

    Dan, Debasis; Glazier, James

    2005-03-01

    The Cellular Potts Model (CPM) is a robust cell level methodology for simulation of biological tissues and morphogenesis. Standard diffusion solvers in the CPM use finite difference methods on the underlying CPM lattice. These methods have difficulty in simulating local advection in the ECM due to physiology and morphogenesis. To circumvent the problem of instabilities we simulate advection-diffusion within the framework of CPM using off-lattice finite-difference methods. We define a set of generalised fluid "cells" or particles which separate advection and diffusion from the lattice. Diffusion occurs between neighboring fluid cells by local averaging rules which approximate the Laplacian. CPM movement of the cells by spin flips handles the advection. The extension allows the CPM to model viscosity explicitly by including a relative velocity constraint on the fluid. The extended CPM correctly reproduces flow profiles of viscous fluids in cylindrical tube, during Stokes flow across a sphere and in flow in concentric cylindrical shells. We illustrate various conditions for diffusion including multiple instantaneous sources, continuous sources, moving sources and different boundary geometries and conditions to validate our approximation by comparing with analytical and established numerical solutions.

  20. Phase transitions and thermodynamic properties of triangular strongly-diluted antiferromagnetic Potts model

    NASA Astrophysics Data System (ADS)

    Murtazaev, A. K.; Babaev, A. B.; Ataeva, G. Y.

    2017-10-01

    By introducing a substantial amount of non-magnetic impurities into an antiferromagnetic 2d Potts model on a triangular lattice it is that the impurities in spin systems described by this model result in the change of a first-order to a second-order phase transition. The systems with linear sizes L×L=N, L=18-48 are considered. Investigations are performed using the standard Metropolis algorithm along with Monte-Carlo single-cluster Wolff algorithm.

  1. On the Potts Model Partition Function in an External Field

    NASA Astrophysics Data System (ADS)

    McDonald, Leslie M.; Moffatt, Iain

    2012-03-01

    We study the partition function of the Potts model in an external (magnetic) field, and its connections with the zero-field Potts model partition function. Using a deletion-contraction formulation for the partition function Z for this model, we show that it can be expanded in terms of the zero-field partition function. We also show that Z can be written as a sum over the spanning trees, and the spanning forests, of a graph G. Our results extend to Z the well-known spanning tree expansion for the zero-field partition function that arises though its connections with the Tutte polynomial.

  2. Application of the Potts model to simulation of Ostwald ripening

    SciTech Connect

    Tikare, V.; Cawley, J.D.

    1998-03-01

    Many models have been developed to simulate microstructural evolution in recent years. Among these is the Monte Carlo Potts model used to simulate microstructural evolution under a wide range of conditions for a variety of microstructural evolution processes. An advantage of the Potts model is that the thermodynamic and kinetic characteristics are inherent to the technique. In this paper, grain growth by Ostwald ripening will be used as an example to demonstrate how a well-designed Potts model need not explicitly specify the thermodynamics of the process; rather, it should rely on the statistical-mechanical nature of the model to simulate the physics of the process. Simulation of Ostwald ripening requires two components forming two-phase, solid grains in a liquid matrix with solubility of the components forming the solid phase in the liquid phase. Another requirement is Gibbs-Thomson`s behavior for the solid grains where solubility is inversely proportional to size. The incorporation of these characteristics into the Potts model using the statistical-mechanical nature of the system will be demonstrated in this paper.

  3. Free energies of the Potts model on a Cayley tree

    NASA Astrophysics Data System (ADS)

    Rozikov, U. A.; Rakhmatullaev, M. M.

    2017-01-01

    For the Potts model on the Cayley tree, we obtain some explicit formulas for the free energies and entropies in the case of vector-valued boundary conditions. These formulas include translation-invariant, periodic, and Dobrushin-like boundary conditions and also those corresponding to weakly periodic Gibbs measures.

  4. Potts models coupled to two-dimensional quantum gravity

    NASA Astrophysics Data System (ADS)

    Baillie, Clive F.

    We perform Monte Carlo simulations using the Wolff cluster algorithm of the q=2 (Ising), 3 and 4 Potts models on dynamical phi-cubed graphs of spherical topology with up to 5000 nodes. We find that the measured critical exponents are in reasonable agreement with those from the exact solution of the Ising model and with those calculated from KPZ scaling for q=3,4 where no exact solution is available.

  5. Lung Cancer Pathological Image Analysis Using a Hidden Potts Model.

    PubMed

    Li, Qianyun; Yi, Faliu; Wang, Tao; Xiao, Guanghua; Liang, Faming

    2017-01-01

    Nowadays, many biological data are acquired via images. In this article, we study the pathological images scanned from 205 patients with lung cancer with the goal to find out the relationship between the survival time and the spatial distribution of different types of cells, including lymphocyte, stroma, and tumor cells. Toward this goal, we model the spatial distribution of different types of cells using a modified Potts model for which the parameters represent interactions between different types of cells and estimate the parameters of the Potts model using the double Metropolis-Hastings algorithm. The double Metropolis-Hastings algorithm allows us to simulate samples approximately from a distribution with an intractable normalizing constant. Our numerical results indicate that the spatial interaction between the lymphocyte and tumor cells is significantly associated with the patient's survival time, and it can be used together with the cell count information to predict the survival of the patients.

  6. Equivalent-neighbor Potts models in two dimensions

    NASA Astrophysics Data System (ADS)

    Qian, Xiaofeng; Deng, Youjin; Liu, Yuhai; Guo, Wenan; Blöte, Henk W. J.

    2016-11-01

    We investigate the two-dimensional q =3 and 4 Potts models with a variable interaction range by means of Monte Carlo simulations. We locate the phase transitions for several interaction ranges as expressed by the number z of equivalent neighbors. For not-too-large z , the transitions fit well in the universality classes of the short-range Potts models. However, at longer ranges, the transitions become discontinuous. For q =3 we locate a tricritical point separating the continuous and discontinuous transitions near z =80 , and a critical fixed point between z =8 and 12. For q =4 the transition becomes discontinuous for z >16 . The scaling behavior of the q =4 model with z =16 approximates that of the q =4 merged critical-tricritical fixed point predicted by the renormalization scenario.

  7. Equivalent-neighbor Potts models in two dimensions.

    PubMed

    Qian, Xiaofeng; Deng, Youjin; Liu, Yuhai; Guo, Wenan; Blöte, Henk W J

    2016-11-01

    We investigate the two-dimensional q=3 and 4 Potts models with a variable interaction range by means of Monte Carlo simulations. We locate the phase transitions for several interaction ranges as expressed by the number z of equivalent neighbors. For not-too-large z, the transitions fit well in the universality classes of the short-range Potts models. However, at longer ranges, the transitions become discontinuous. For q=3 we locate a tricritical point separating the continuous and discontinuous transitions near z=80, and a critical fixed point between z=8 and 12. For q=4 the transition becomes discontinuous for z>16. The scaling behavior of the q=4 model with z=16 approximates that of the q=4 merged critical-tricritical fixed point predicted by the renormalization scenario.

  8. Lung Cancer Pathological Image Analysis Using a Hidden Potts Model

    PubMed Central

    Li, Qianyun; Yi, Faliu; Wang, Tao; Xiao, Guanghua; Liang, Faming

    2017-01-01

    Nowadays, many biological data are acquired via images. In this article, we study the pathological images scanned from 205 patients with lung cancer with the goal to find out the relationship between the survival time and the spatial distribution of different types of cells, including lymphocyte, stroma, and tumor cells. Toward this goal, we model the spatial distribution of different types of cells using a modified Potts model for which the parameters represent interactions between different types of cells and estimate the parameters of the Potts model using the double Metropolis-Hastings algorithm. The double Metropolis-Hastings algorithm allows us to simulate samples approximately from a distribution with an intractable normalizing constant. Our numerical results indicate that the spatial interaction between the lymphocyte and tumor cells is significantly associated with the patient’s survival time, and it can be used together with the cell count information to predict the survival of the patients. PMID:28615918

  9. Potts model partition functions on two families of fractal lattices

    NASA Astrophysics Data System (ADS)

    Gong, Helin; Jin, Xian'an

    2014-11-01

    The partition function of q-state Potts model, or equivalently the Tutte polynomial, is computationally intractable for regular lattices. The purpose of this paper is to compute partition functions of q-state Potts model on two families of fractal lattices. Based on their self-similar structures and by applying the subgraph-decomposition method, we divide their Tutte polynomials into two summands, and for each summand we obtain a recursive formula involving the other summand. As a result, the number of spanning trees and their asymptotic growth constants, and a lower bound of the number of connected spanning subgraphs or acyclic root-connected orientations for each of such two lattices are obtained.

  10. Functional connectivity mapping using the ferromagnetic Potts spin model.

    PubMed

    Stanberry, Larissa; Murua, Alejandro; Cordes, Dietmar

    2008-04-01

    An unsupervised stochastic clustering method based on the ferromagnetic Potts spin model is introduced as a powerful tool to determine functionally connected regions. The method provides an intuitively simple approach to clustering and makes no assumptions of the number of clusters in the data or their underlying distribution. The performance of the method and its dependence on the intrinsic parameters (size of the neighborhood, form of the interaction term, etc.) is investigated on the simulated data and real fMRI data acquired during a conventional periodic finger tapping task. The merits of incorporating Euclidean information into the connectivity analysis are discussed. The ability of the Potts model clustering to uncover the hidden structure in the complex data is demonstrated through its application to the resting-state data to determine functional connectivity networks of the anterior and posterior cingulate cortices for the group of nine healthy male subjects. (c) 2007 Wiley-Liss, Inc.

  11. q-state Potts model on the Apollonian network.

    PubMed

    Araújo, Nuno A M; Andrade, Roberto F S; Herrmann, Hans J

    2010-10-01

    The q-state Potts model is studied on the Apollonian network with Monte Carlo simulations and the transfer matrix method. The spontaneous magnetization, correlation length, entropy, and specific heat are analyzed as a function of temperature for different number of states, q. Different scaling functions in temperature and q are proposed. A quantitative agreement is found between results from both methods. No critical behavior is observed in the thermodynamic limit for any number of states.

  12. Academic Meeting Scheduling Using an Antiferromagnetic Potts Model

    NASA Astrophysics Data System (ADS)

    Kudo, Kazue

    2017-07-01

    Scheduling parallel sessions of an academic meeting is a complicated task. If each presentation is assigned to an appropriate session, an antiferromagnetic Potts model can be used for semi-automatic timetabling. The timetabling method proposed here is based on graph coloring and includes additional constraints to be considered in a practical situation. We examine the feasibility of semi-automatic timetabling in some practical examples.

  13. Multiple Potts models coupled to two-dimensional quantum gravity

    NASA Astrophysics Data System (ADS)

    Baillie, C. F.; Johnston, D. A.

    1992-07-01

    We perform Monte Carlo simulations using the Wolff cluster algorithm of multiple q=2, 3, 4 state Potts models on dynamical phi-cubed graphs of spherical topology in order to investigate the c>1 region of two-dimensional quantum gravity. Contrary to naive expectation we find no obvious signs of pathological behaviour for c>1. We discuss the results in the light of suggestions that have been made for a modified DDK ansatz for c>1.

  14. Local resolution-limit-free Potts model for community detection.

    PubMed

    Ronhovde, Peter; Nussinov, Zohar

    2010-04-01

    We report on an exceptionally accurate spin-glass-type Potts model for community detection. With a simple algorithm, we find that our approach is at least as accurate as the best currently available algorithms and robust to the effects of noise. It is also competitive with the best currently available algorithms in terms of speed and size of solvable systems. We find that the computational demand often exhibits superlinear scaling O(L1.3) where L is the number of edges in the system, and we have applied the algorithm to synthetic systems as large as 40 x 10(6) nodes and over 1 x 10(9) edges. A previous stumbling block encountered by popular community detection methods is the so-called "resolution limit." Being a "local" measure of community structure, our Potts model is free from this resolution-limit effect, and it further remains a local measure on weighted and directed graphs. We also address the mitigation of resolution-limit effects for two other popular Potts models.

  15. Dynamical behavior of the Niedermayer algorithm applied to Potts models

    NASA Astrophysics Data System (ADS)

    Girardi, D.; Penna, T. J. P.; Branco, N. S.

    2012-08-01

    In this work, we make a numerical study of the dynamic universality class of the Niedermayer algorithm applied to the two-dimensional Potts model with 2, 3, and 4 states. This algorithm updates clusters of spins and has a free parameter, E0, which controls the size of these clusters, such that E0=1 is the Metropolis algorithm and E0=0 regains the Wolff algorithm, for the Potts model. For -10, spins in different states may be added to the cluster but the dynamic behavior is less efficient than for the Wolff algorithm (E0=0). Therefore, our results show that the Wolff algorithm is the best choice for Potts models, when compared to the Niedermayer's generalization.

  16. Cellular Potts modeling of complex multicellular behaviors in tissue morphogenesis.

    PubMed

    Hirashima, Tsuyoshi; Rens, Elisabeth G; Merks, Roeland M H

    2017-06-01

    Mathematical modeling is an essential approach for the understanding of complex multicellular behaviors in tissue morphogenesis. Here, we review the cellular Potts model (CPM; also known as the Glazier-Graner-Hogeweg model), an effective computational modeling framework. We discuss its usability for modeling complex developmental phenomena by examining four fundamental examples of tissue morphogenesis: (i) cell sorting, (ii) cyst formation, (iii) tube morphogenesis in kidney development, and (iv) blood vessel formation. The review provides an introduction for biologists for starting simulation analysis using the CPM framework. © 2017 Japanese Society of Developmental Biologists.

  17. Multi-GPU-based Swendsen-Wang multi-cluster algorithm for the simulation of two-dimensional q-state Potts model

    NASA Astrophysics Data System (ADS)

    Komura, Yukihiro; Okabe, Yutaka

    2013-01-01

    We present multiple GPU computing with the common unified device architecture (CUDA) for the Swendsen-Wang multi-cluster algorithm of two-dimensional (2D) q-state Potts model. Extending our algorithm for single GPU computing [Y. Komura, Y. Okabe, GPU-based Swendsen-Wang multi-cluster algorithm for the simulation of two-dimensional classical spin systems, Comput. Phys. Comm. 183 (2012) 1155-1161], we realize the GPU computation of the Swendsen-Wang multi-cluster algorithm for multiple GPUs. We implement our code on the large-scale open science supercomputer TSUBAME 2.0, and test the performance and the scalability of the simulation of the 2D Potts model. The performance on Tesla M2050 using 256 GPUs is obtained as 37.3 spin flips per a nano second for the q=2 Potts model (Ising model) at the critical temperature with the linear system size L=65536.

  18. New Correlation Duality Relations for the Planar Potts Model

    NASA Astrophysics Data System (ADS)

    King, C.; Wu, F. Y.

    2002-05-01

    We introduce a new method to generate duality relations for correlation functions of the Potts model on a planar graph. The method extends previously known results, by allowing the consideration of the correlation function for arbitrarily placed vertices on the graph. We show that generally it is linear combinations of correlation functions, not the individual correlations, that are related by dualities. The method is illustrated in several non-trivial cases, and the relation to earlier results is explained. A graph-theoretical formulation of our results in terms of rooted dichromatic, or Tutte, polynomials is also given.

  19. A motivic approach to phase transitions in Potts models

    NASA Astrophysics Data System (ADS)

    Aluffi, Paolo; Marcolli, Matilde

    2013-01-01

    We describe an approach to the study of phase transitions in Potts models based on an estimate of the complexity of the locus of real zeros of the partition function, computed in terms of the classes in the Grothendieck ring of the affine algebraic varieties defined by the vanishing of the multivariate Tutte polynomial. We give completely explicit calculations for the examples of the chains of linked polygons and of the graphs obtained by replacing the polygons with their dual graphs. These are based on a deletion-contraction formula for the Grothendieck classes and on generating functions for splitting and doubling edges.

  20. Critical Interfaces in the Random-Bond Potts Model

    NASA Astrophysics Data System (ADS)

    Jacobsen, Jesper L.; Le Doussal, Pierre; Picco, Marco; Santachiara, Raoul; Wiese, Kay Jörg

    2009-02-01

    We study geometrical properties of interfaces in the random-temperature q-states Potts model as an example of a conformal field theory weakly perturbed by quenched disorder. Using conformal perturbation theory in q-2 we compute the fractal dimension of Fortuin-Kasteleyn (FK) domain walls. We also compute it numerically both via the Wolff cluster algorithm for q=3 and via transfer-matrix evaluations. We also obtain numerical results for the fractal dimension of spin clusters interfaces for q=3. These are found numerically consistent with the duality κspinκFK=16 as expressed in putative SLE parameters.

  1. Critical interfaces in the random-bond Potts model.

    PubMed

    Jacobsen, Jesper L; Le Doussal, Pierre; Picco, Marco; Santachiara, Raoul; Wiese, Kay Jörg

    2009-02-20

    We study geometrical properties of interfaces in the random-temperature q-states Potts model as an example of a conformal field theory weakly perturbed by quenched disorder. Using conformal perturbation theory in q-2 we compute the fractal dimension of Fortuin-Kasteleyn (FK) domain walls. We also compute it numerically both via the Wolff cluster algorithm for q=3 and via transfer-matrix evaluations. We also obtain numerical results for the fractal dimension of spin clusters interfaces for q=3. These are found numerically consistent with the duality kappaspinkappaFK=16 as expressed in putative SLE parameters.

  2. Anisotropic exchange-interaction model: From the Potts model to the exchange-interaction model

    NASA Astrophysics Data System (ADS)

    King, T. C.; Chen, H. H.

    1995-04-01

    A spin model called the anisotropic exchange-interaction model is proposed. The Potts model, the exchange-interaction model, and the spin-1/2 anisotropic Heisenberg model are special cases of the proposed model. Thermodynamic properties of the model on the bcc and the fcc lattices are determined by the constant-coupling approximation.

  3. 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}).

  4. Extended defects in the Potts-percolation model of a solid: renormalization group and Monte Carlo analysis.

    PubMed

    Diep, H T; Kaufman, Miron

    2009-09-01

    We extend the model of a 2d solid to include a line of defects. Neighboring atoms on the defect line are connected by springs of different strength and different cohesive energy with respect to the rest of the system. Using the Migdal-Kadanoff renormalization group we show that the elastic energy is an irrelevant field at the bulk critical point. For zero elastic energy this model reduces to the Potts model. By using Monte Carlo simulations of the three- and four-state Potts model on a square lattice with a line of defects, we confirm the renormalization-group prediction that for a defect interaction larger than the bulk interaction the order parameter of the defect line changes discontinuously while the defect energy varies continuously as a function of temperature at the bulk critical temperature.

  5. 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.

  6. Exact Potts model partition functions on ladder graphs

    NASA Astrophysics Data System (ADS)

    Shrock, Robert

    2000-08-01

    We present exact calculations of the partition function Z of the q-state Potts model and its generalization to real q, for arbitrary temperature on n-vertex ladder graphs, i.e., strips of the square lattice with width Ly=2 and arbitrary length Lx, with free, cyclic, and Möbius longitudinal boundary conditions. These partition functions are equivalent to Tutte/Whitney polynomials for these graphs. The free energy is calculated exactly for the infinite-length limit of these ladder graphs and the thermodynamics is discussed. By comparison with strip graphs of other widths, we analyze how the singularities at the zero-temperature critical point of the ferromagnet on infinite-length, finite-width strips depend on the width. We point out and study the following noncommutativity at certain special values q s: lim n→∞ limq→q s Z 1/n≠ limq→q s limn→∞ Z 1/n. It is shown that the Potts antiferromagnet on both the infinite-length line and ladder graphs with cyclic or Möbius boundary conditions exhibits a phase transition at finite temperature if 0< q<2, but with unphysical properties, including negative specific heat and non-existence, in the low-temperature phase, of an n→∞ limit for thermodynamic functions that is independent of boundary conditions. Considering the full generalization to arbitrary complex q and temperature, we determine the singular locus B in the corresponding C2 space, arising as the accumulation set of partition function zeros as n→∞. In particular, we study the connection with the T=0 limit of the Potts antiferromagnet where B reduces to the accumulation set of chromatic zeros. Certain properties of the complex-temperature phase diagrams are shown to exhibit close connections with those of the model on the square lattice, showing that exact solutions on infinite-length strips provide a way of gaining insight into these complex-temperature phase diagrams.

  7. Potts-model formulation of the random resistor network

    NASA Astrophysics Data System (ADS)

    Harris, A. B.; Lubensky, T. C.

    1987-05-01

    The randomly diluted resistor network is formulated in terms of an n-replicated s-state Potts model with a spin-spin coupling constant J in the limit when first n, then s, and finally 1/J go to zero. This limit is discussed and to leading order in 1/J the generalized susceptibility is shown to reproduce the results of the accompanying paper where the resistor network is treated using the xy model. This Potts Hamiltonian is converted into a field theory by the usual Hubbard-Stratonovich transformation and thereby a renormalization-group treatment is developed to obtain the corrections to the critical exponents to first order in ɛ=6-d, where d is the spatial dimensionality. The recursion relations are shown to be the same as for the xy model. Their detailed analysis (given in the accompanying paper) gives the resistance crossover exponent as φ1=1+ɛ/42, and determines the critical exponent, t for the conductivity of the randomly diluted resistor network at concentrations, p, just above the percolation threshold: t=(d-2)ν+φ1, where ν is the critical exponent for the correlation length at the percolation threshold. These results correct previously accepted results giving φ=1 to all orders in ɛ. The new result for φ1 removes the paradox associated with the numerical result that t>1 for d=2, and also shows that the Alexander-Orbach conjecture, while numerically quite accurate, is not exact, since it disagrees with the ɛ expansion.

  8. The aggregate path coupling method for the Potts model on bipartite graph

    NASA Astrophysics Data System (ADS)

    Hernández, José C.; Kovchegov, Yevgeniy; Otto, Peter T.

    2017-02-01

    In this paper, we derive the large deviation principle for the Potts model on the complete bipartite graph Kn,n as n increases to infinity. Next, for the Potts model on Kn,n, we provide an extension of the method of aggregate path coupling that was originally developed in the work of Kovchegov, Otto, and Titus [J. Stat. Phys. 144(5), 1009-1027 (2011)] for the mean-field Blume-Capel model and in Kovchegov and Otto [J. Stat. Phys. 161(3), 553-576 (2015)] for a general mean-field setting that included the generalized Curie-Weiss-Potts model analyzed in the work of Jahnel et al. [Markov Process. Relat. Fields 20, 601-632 (2014)]. We use the aggregate path coupling method to identify and determine the threshold value βs separating the rapid and slow mixing regimes for the Glauber dynamics of the Potts model on Kn,n.

  9. Chiral Potts rapidity curve descended from six-vertex model and symmetry group of rapidities

    NASA Astrophysics Data System (ADS)

    Roan, Shi-shyr

    2005-08-01

    In this paper, we present a systematical account of the descending procedure from the six-vertex model to the N-state chiral Potts model through fusion relations of τ(j)-operators, following the works of Bazhanov-Stroganov and Baxter-Bazhanov-Perk. A careful analysis of the descending process leads to the appearance of the high genus curve as the rapidity constraint for the chiral Potts models. Full symmetries of the rapidity curve are identified, as is its symmetry group structure. By normalized transfer matrices of the chiral Potts model, the τ(2)T relation can be reduced to functional equations over a hyperelliptic curve associated with rapidities, by which the degeneracy of τ(2)-eigenvalues is revealed in the case of the superintegrable chiral Potts model.

  10. Interplay between sign problem and Z3 symmetry in three-dimensional Potts models

    NASA Astrophysics Data System (ADS)

    Hirakida, Takehiro; Kouno, Hiroaki; Takahashi, Junichi; Yahiro, Masanobu

    2016-07-01

    We construct four kinds of Z3 -symmetric three-dimensional (3D) Potts models, each with a different number of states at each site on a 3D lattice, by extending the 3D 3-state Potts model. Comparing the ordinary Potts model with the four Z3-symmetric Potts models, we investigate how Z3 symmetry affects the sign problem and see how the deconfinement transition line changes in the μ -κ plane as the number of states increases, where μ (κ ) plays a role of chemical potential (temperature) in the models. We find that the sign problem is almost cured by imposing Z3 symmetry. This mechanism may happen in Z3-symmetric QCD-like theory. We also show that the deconfinement transition line has stronger μ dependence with respect to increasing the number of states.

  11. Geometrical properties of the Potts model during the coarsening regime.

    PubMed

    Loureiro, Marcos P O; Arenzon, Jeferson J; Cugliandolo, Leticia F

    2012-02-01

    We study the dynamic evolution of geometric structures in a polydegenerate system represented by a q-state Potts model with nonconserved order parameter that is quenched from its disordered into its ordered phase. The numerical results obtained with Monte Carlo simulations show a strong relation between the statistical properties of hull perimeters in the initial state and during coarsening: The statistics and morphology of the structures that are larger than the averaged ones are those of the initial state, while the ones of small structures are determined by the curvature-driven dynamic process. We link the hull properties to the ones of the areas they enclose. We analyze the linear von Neumann-Mullins law, both for individual domains and on the average, concluding that its validity, for the later case, is limited to domains with number of sides around 6, while presenting stronger violations in the former case. © 2012 American Physical Society

  12. Backbone exponents of the two-dimensional q-state Potts model: a Monte Carlo investigation.

    PubMed

    Deng, Youjin; Blöte, Henk W J; Nienhuis, Bernard

    2004-02-01

    We determine the backbone exponent X(b) of several critical and tricritical q-state Potts models in two dimensions. The critical systems include the bond percolation, the Ising, the q=2-sqrt[3], 3, and 4 state Potts, and the Baxter-Wu model, and the tricritical ones include the q=1 Potts model and the Blume-Capel model. For this purpose, we formulate several efficient Monte Carlo methods and sample the probability P2 of a pair of points connected via at least two independent paths. Finite-size-scaling analysis of P2 yields X(b) as 0.3566(2), 0.2696(3), 0.2105(3), and 0.127(4) for the critical q=2-sqrt[3], 1,2, 3, and 4 state Potts model, respectively. At tricriticality, we obtain X(b)=0.0520(3) and 0.0753(6) for the q=1 and 2 Potts model, respectively. For the critical q-->0 Potts model it is derived that X(b)=3/4. From a scaling argument, we find that, at tricriticality, X(b) reduces to the magnetic exponent, as confirmed by the numerical results.

  13. Multiscale Model of Colorectal Cancer Using the Cellular Potts Framework

    PubMed Central

    Osborne, James M

    2015-01-01

    Colorectal cancer (CRC) is one of the major causes of death in the developed world and forms a canonical example of tumorigenesis. CRC arises from a string of mutations of individual cells in the colorectal crypt, making it particularly suited for multiscale multicellular modeling, where mutations of individual cells can be clearly represented and their effects readily tracked. In this paper, we present a multicellular model of the onset of colorectal cancer, utilizing the cellular Potts model (CPM). We use the model to investigate how, through the modification of their mechanical properties, mutant cells colonize the crypt. Moreover, we study the influence of mutations on the shape of cells in the crypt, suggesting possible cell- and tissue-level indicators for identifying early-stage cancerous crypts. Crucially, we discuss the effect that the motility parameters of the model (key factors in the behavior of the CPM) have on the distribution of cells within a homeostatic crypt, resulting in an optimal parameter regime that accurately reflects biological assumptions. In summary, the key results of this paper are 1) how to couple the CPM with processes occurring on other spatial scales, using the example of the crypt to motivate suitable motility parameters; 2) modeling mutant cells with the CPM; 3) and investigating how mutations influence the shape of cells in the crypt. PMID:26461973

  14. Multiscale Model of Colorectal Cancer Using the Cellular Potts Framework.

    PubMed

    Osborne, James M

    2015-01-01

    Colorectal cancer (CRC) is one of the major causes of death in the developed world and forms a canonical example of tumorigenesis. CRC arises from a string of mutations of individual cells in the colorectal crypt, making it particularly suited for multiscale multicellular modeling, where mutations of individual cells can be clearly represented and their effects readily tracked. In this paper, we present a multicellular model of the onset of colorectal cancer, utilizing the cellular Potts model (CPM). We use the model to investigate how, through the modification of their mechanical properties, mutant cells colonize the crypt. Moreover, we study the influence of mutations on the shape of cells in the crypt, suggesting possible cell- and tissue-level indicators for identifying early-stage cancerous crypts. Crucially, we discuss the effect that the motility parameters of the model (key factors in the behavior of the CPM) have on the distribution of cells within a homeostatic crypt, resulting in an optimal parameter regime that accurately reflects biological assumptions. In summary, the key results of this paper are 1) how to couple the CPM with processes occurring on other spatial scales, using the example of the crypt to motivate suitable motility parameters; 2) modeling mutant cells with the CPM; 3) and investigating how mutations influence the shape of cells in the crypt.

  15. Completeness of the classical 2D Ising model and universal quantum computation.

    PubMed

    Van den Nest, M; Dür, W; Briegel, H J

    2008-03-21

    We prove that the 2D Ising model is complete in the sense that the partition function of any classical q-state spin model (on an arbitrary graph) can be expressed as a special instance of the partition function of a 2D Ising model with complex inhomogeneous couplings and external fields. In the case where the original model is an Ising or Potts-type model, we find that the corresponding 2D square lattice requires only polynomially more spins with respect to the original one, and we give a constructive method to map such models to the 2D Ising model. For more general models the overhead in system size may be exponential. The results are established by connecting classical spin models with measurement-based quantum computation and invoking the universality of the 2D cluster states.

  16. 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. Copyright © 2016 Elsevier Ltd. All rights reserved.

  17. A cellular Potts model of germband retraction and dorsal closure

    NASA Astrophysics Data System (ADS)

    Hutson, M. Shane; Rohner, Jason; Crews, Sarah; McCleery, W. Tyler; Robinson, W. Bradley

    2011-03-01

    Germband retraction and dorsal closure are critical morphogenetic events in fruit fly embryogenesis. Both involve the coordinated reshaping of two epitheloid tissues -- germband (GB) and amnioserosa (AS). The GB is initially curled into a U-shape with the AS between the arms of the U. Retraction leaves the embryo's dorsal surface covered by AS cells which then contract to pull lateral parts of the GB up to cover the dorsal surface. We have simulated these events using a cellular Potts model. The model is 3D with several generalized cell types: a central yolk; a surrounding monolayer of AS and GB cells with epithelial polarization; and an outer vitelline membrane enclosing the cells and a perivitelline fluid. The model also incorporates several critical cell behaviors: polarized apical constriction of AS cells; controlled relaxation of stretched GB cells; and differentiation of GB cells at the GB-AS interface so that these cells then contract a supracellular purse-string and extend filopodia that reach across the AS and zip together the GB's approaching lateral flanks. We will discuss how all of these components are necessary to reproduce normal tissue motions and those observed during laser microsurgery experiments. Supported by NSF Grant IOB-0545679.

  18. An extended Cellular Potts Model analyzing a wound healing assay.

    PubMed

    Scianna, Marco

    2015-07-01

    A suitable Cellular Potts Model is developed to reproduce and analyze an in vitro wound-healing assay. The proposed approach is able both to quantify the invasive capacity of the overall cell population and to evaluate selected determinants of single cell movement (velocity, directional movement, and final displacement). In this respect, the present CPM allows us to capture differences and correlations in the migratory behavior of cells initially located at different distances from the wound edge. In the case of an undifferentiated extracellular matrix, the model then predicts that a maximal healing can be obtained by a chemically induced increment of cell elasticity and not by a chemically induced downregulation of intercellular adhesive contacts. Moreover, in the case of two-component substrates (formed by a mesh of collagenous-like threads and by a homogeneous medium), CPM simulations show that both fiber number and cell-fiber adhesiveness influence cell speed and wound closure rate in a biphasic fashion. On the contrary, the topology of the fibrous network affects the healing process by mediating the productive directional cell movement. The paper, also equipped with comments on the computational cost of the CPM algorithm, ends with a throughout discussion of the pertinent experimental and theoretical literature. Copyright © 2015 Elsevier Ltd. All rights reserved.

  19. 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.

  20. 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.

  1. Marginal dimensions of the Potts model with invisible states

    NASA Astrophysics Data System (ADS)

    Krasnytska, M.; Sarkanych, P.; Berche, B.; Holovatch, Yu; Kenna, R.

    2016-06-01

    We reconsider the mean-field Potts model with q interacting and r non-interacting (invisible) states. The model was recently introduced to explain discrepancies between theoretical predictions and experimental observations of phase transitions in some systems where the Z q -symmetry is spontaneously broken. We analyse the marginal dimensions of the model, i.e., the value of r at which the order of the phase transition changes. In the q = 2 case, we determine that value to be {r}{{c}}=3.65(5); there is a second-order phase transition there when r\\lt {r}{{c}} and a first-order one at r\\gt {r}{{c}}. We also analyse the region 1≤slant q\\lt 2 and show that the change from second to first order there is manifest through a new mechanism involving two marginal values of r. The q = 1 limit gives bond percolation. Above the lower value r c1, the order parameters exhibit discontinuities at temperature \\tilde{t} below a critical value t c. The larger value r c2 marks the point at which the phase transition at t c changes from second to first order. Thus, for {r}{{c}1}\\lt r\\lt {r}{{c}2}, the transition at t c remains second order while at \\tilde{t} the system undergoes a first order phase transition. As r increases further, \\tilde{t} increases, bringing the discontinuity closer to t c. Finally, when r exceeds r c2 \\tilde{t} coincides with t c and the phase transition becomes first order. This new mechanism indicates how the discontinuity characteristic of first order phase transitions emerges.

  2. a Numerical Test of Kpz Scaling:. Potts Models Coupled to Two-Dimensional Quantum Gravity

    NASA Astrophysics Data System (ADS)

    Baillie, C. F.; Johnston, D. A.

    We perform Monte-Carlo simulations using the Wolff cluster algorithm of the q=2 (Ising), 3, 4 and q=10 Potts models on dynamical phi-cubed graphs of spherical topology with up to 5000 nodes. We find that the measured critical exponents are in reasonable agreement with those from the exact solution of the Ising model and with those calculated from KPZ scaling for q=3, 4 where no exact solution is available. Using Binder’s cumulant we find that the q=10 Potts model displays a first order phase transition on a dynamical graph, as it does on a fixed lattice. We also examine the internal geometry of the graphs generated in the simulation, finding a linear relationship between ring length probabilities and the central charge of the Potts model.

  3. 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.

  4. Potts model based on a Markov process computation solves the community structure problem effectively.

    PubMed

    Li, Hui-Jia; Wang, Yong; Wu, Ling-Yun; Zhang, Junhua; Zhang, Xiang-Sun

    2012-07-01

    The Potts model is a powerful tool to uncover community structure in complex networks. Here, we propose a framework to reveal the optimal number of communities and stability of network structure by quantitatively analyzing the dynamics of the Potts model. Specifically we model the community structure detection Potts procedure by a Markov process, which has a clear mathematical explanation. Then we show that the local uniform behavior of spin values across multiple timescales in the representation of the Markov variables could naturally reveal the network's hierarchical community structure. In addition, critical topological information regarding multivariate spin configuration could also be inferred from the spectral signatures of the Markov process. Finally an algorithm is developed to determine fuzzy communities based on the optimal number of communities and the stability across multiple timescales. The effectiveness and efficiency of our algorithm are theoretically analyzed as well as experimentally validated.

  5. 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.

  6. A Bayesian Non-Parametric Potts Model with Application to Pre-Surgical FMRI Data

    PubMed Central

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

    2013-01-01

    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 manuscript we present a non-parametric Potts model and apply it to an FMRI 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 belong 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

  7. Super-Potts glass: A disordered model for glass-forming liquids

    NASA Astrophysics Data System (ADS)

    Angelini, Maria Chiara; Biroli, Giulio

    2014-12-01

    We introduce a disordered system, the super-Potts model, which is a more frustrated version of the Potts glass. Its elementary degrees of freedom are variables that can take M values and are coupled via pairwise interactions. Its exact solution on a completely connected lattice demonstrates that, for large enough M , it belongs to the class of mean-field systems solved by a one-step replica symmetry breaking ansatz. Numerical simulations by the parallel tempering technique show that in three dimensions it displays a phenomenological behavior similar to the one of glass-forming liquids. The super-Potts glass is therefore a disordered model allowing one to perform extensive and detailed studies of the random first-order transition in finite dimensions. We also discuss its behavior for small values of M , which is similar to the one of spin glasses in a field.

  8. Translation-invariant and periodic Gibbs measures for the Potts model on a Cayley tree

    NASA Astrophysics Data System (ADS)

    Khakimov, R. M.; Khaydarov, F. Kh.

    2016-11-01

    We study translation-invariant Gibbs measures on a Cayley tree of order k = 3 for the ferromagnetic three-state Potts model. We obtain explicit formulas for translation-invariant Gibbs measures. We also consider periodic Gibbs measures on a Cayley tree of order k for the antiferromagnetic q-state Potts model. Moreover, we improve previously obtained results: we find the exact number of periodic Gibbs measures with the period two on a Cayley tree of order k ≥ 3 that are defined on some invariant sets.

  9. 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).

  10. Equation of state from the Potts-percolation model of a solid.

    PubMed

    Kaufman, Miron; Diep, H T

    2011-11-01

    We expand the Potts-percolation model of a solid to include stress and strain. Neighboring atoms are connected by bonds. We set the energy of a bond to be given by the Lennard-Jones potential. If the energy is larger than a threshold the bond is more likely to fail, whereas if the energy is lower than the threshold, the bond is more likely to be alive. In two dimensions we compute the equation of state: stress as a function of interatomic distance and temperature by using renormalization-group and Monte Carlo simulations. The phase diagram, the equation of state, and the isothermal modulus are determined. When the Potts heat capacity is divergent the continuous transition is replaced by a weak first-order transition through the van der Waals loop mechanism. When the Potts transition is first order the stress exhibits a large discontinuity as a function of the interatomic distance.

  11. Structural properties of Potts model partition functions and chromatic polynomials for lattice strips

    NASA Astrophysics Data System (ADS)

    Chang, Shu-Chiuan; Shrock, Robert

    2001-07-01

    The q-state Potts model partition function (equivalent to the Tutte polynomial) for a lattice strip of fixed width Ly and arbitrary length Lx has the form Z(G,q,v)=∑ j=1N Z,G,λ c Z,G,j(λ Z,G,j) L x, where v is a temperature-dependent variable. The special case of the zero-temperature antiferromagnet ( v=-1) is the chromatic polynomial P( G, q). Using coloring and transfer matrix methods, we give general formulas for C X,G=∑ j=1N X,G,λ c X,G,j for X= Z, P on cyclic and Möbius strip graphs of the square and triangular lattice. Combining these with a general expression for the (unique) coefficient cZ, G, j of degree d in q: c (d)=U 2d( q/2) , where Un( x) is the Chebyshev polynomial of the second kind, we determine the number of λZ, G, j's with coefficient c( d) in Z( G, q, v) for these cyclic strips of width Ly to be n Z(L y,d)=(2d+1)(L y+d+1) -1{2L y}/{L y-d } for 0⩽ d⩽ Ly and zero otherwise. For both cyclic and Möbius strips of these lattices, the total number of distinct eigenvalues λZ, G, j is calculated to be N Z,L y,λ = {2L y}/{L y}. Results are also presented for the analogous numbers nP( Ly, d) and NP, Ly, λ for P( G, q). We find that nP( Ly,0)= nP( Ly-1,1)= MLy-1 (Motzkin number), nZ( Ly,0)= CLy (the Catalan number), and give an exact expression for NP, Ly, λ. Our results for NZ, Ly, λ and NP, Ly, λ apply for both the cyclic and Möbius strips of both the square and triangular lattices; we also point out the interesting relations NZ, Ly, λ=2 NDA, tri, Ly and NP, Ly, λ=2 NDA, sq, Ly, where NDA, Λ, n denotes the number of directed lattice animals on the lattice Λ. We find the asymptotic growths NZ, Ly, λ∼ Ly-1/24 Ly and NP, Ly, λ∼ Ly-1/23 Ly as Ly→∞. Some general geometric identities for Potts model partition functions are also presented.

  12. Parallel family trees for transfer matrices in the Potts model

    NASA Astrophysics Data System (ADS)

    Navarro, Cristobal A.; Canfora, Fabrizio; Hitschfeld, Nancy; Navarro, Gonzalo

    2015-02-01

    The computational cost of transfer matrix methods for the Potts model is related to the question in how many ways can two layers of a lattice be connected? Answering the question leads to the generation of a combinatorial set of lattice configurations. This set defines the configuration space of the problem, and the smaller it is, the faster the transfer matrix can be computed. The configuration space of generic (q , v) transfer matrix methods for strips is in the order of the Catalan numbers, which grows asymptotically as O(4m) where m is the width of the strip. Other transfer matrix methods with a smaller configuration space indeed exist but they make assumptions on the temperature, number of spin states, or restrict the structure of the lattice. In this paper we propose a parallel algorithm that uses a sub-Catalan configuration space of O(3m) to build the generic (q , v) transfer matrix in a compressed form. The improvement is achieved by grouping the original set of Catalan configurations into a forest of family trees, in such a way that the solution to the problem is now computed by solving the root node of each family. As a result, the algorithm becomes exponentially faster than the Catalan approach while still highly parallel. The resulting matrix is stored in a compressed form using O(3m ×4m) of space, making numerical evaluation and decompression to be faster than evaluating the matrix in its O(4m ×4m) uncompressed form. Experimental results for different sizes of strip lattices show that the parallel family trees (PFT) strategy indeed runs exponentially faster than the Catalan Parallel Method (CPM), especially when dealing with dense transfer matrices. In terms of parallel performance, we report strong-scaling speedups of up to 5.7 × when running on an 8-core shared memory machine and 28 × for a 32-core cluster. The best balance of speedup and efficiency for the multi-core machine was achieved when using p = 4 processors, while for the cluster

  13. Renormalization-group theory for cooling first-order phase transitions in Potts models

    NASA Astrophysics Data System (ADS)

    Liang, Ning; Zhong, Fan

    2017-03-01

    We develop a dynamic field-theoretic renormalization-group (RG) theory for cooling first-order phase transitions in the Potts model. It is suggested that the well-known imaginary fixed points of the q -state Potts model for q >10 /3 in the RG theory are the origin of the dynamic scaling found recently from numerical simulations, apart from logarithmic corrections. This indicates that the real and imaginary fixed points of the Potts model are both physical and control the scalings of the continuous and discontinuous phase transitions, respectively, of the model. Our one-loop results for the scaling exponents are already not far away from the numerical results. Further, the scaling exponents depend on q only slightly, consistent with the numerical results. Therefore, the theory is believed to provide a natural explanation of the dynamic scaling including the scaling exponents and their scaling laws for various observables in the cooling first-order phase transition of the Potts model.

  14. Renormalization-group theory for cooling first-order phase transitions in Potts models.

    PubMed

    Liang, Ning; Zhong, Fan

    2017-03-01

    We develop a dynamic field-theoretic renormalization-group (RG) theory for cooling first-order phase transitions in the Potts model. It is suggested that the well-known imaginary fixed points of the q-state Potts model for q>10/3 in the RG theory are the origin of the dynamic scaling found recently from numerical simulations, apart from logarithmic corrections. This indicates that the real and imaginary fixed points of the Potts model are both physical and control the scalings of the continuous and discontinuous phase transitions, respectively, of the model. Our one-loop results for the scaling exponents are already not far away from the numerical results. Further, the scaling exponents depend on q only slightly, consistent with the numerical results. Therefore, the theory is believed to provide a natural explanation of the dynamic scaling including the scaling exponents and their scaling laws for various observables in the cooling first-order phase transition of the Potts model.

  15. Improved lower bounds on the ground-state entropy of the antiferromagnetic Potts model.

    PubMed

    Chang, Shu-Chiuan; Shrock, Robert

    2015-05-01

    We present generalized methods for calculating lower bounds on the ground-state entropy per site, S(0), or equivalently, the ground-state degeneracy per site, W=e(S(0)/k(B)), of the antiferromagnetic Potts model. We use these methods to derive improved lower bounds on W for several lattices.

  16. Brittle damage models in DYNA2D

    SciTech Connect

    Faux, D.R.

    1997-09-01

    DYNA2D is an explicit Lagrangian finite element code used to model dynamic events where stress wave interactions influence the overall response of the system. DYNA2D is often used to model penetration problems involving ductile-to-ductile impacts; however, with the advent of the use of ceramics in the armor-anti-armor community and the need to model damage to laser optics components, good brittle damage models are now needed in DYNA2D. This report will detail the implementation of four brittle damage models in DYNA2D, three scalar damage models and one tensor damage model. These new brittle damage models are then used to predict experimental results from three distinctly different glass damage problems.

  17. 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.

  18. Nonlinear scaling analysis approach of agent-based Potts financial dynamical model.

    PubMed

    Hong, Weijia; Wang, Jun

    2014-12-01

    A financial agent-based price model is developed and investigated by one of statistical physics dynamic systems-the Potts model. Potts model, a generalization of the Ising model to more than two components, is a model of interacting spins on a crystalline lattice which describes the interaction strength among the agents. In this work, we investigate and analyze the correlation behavior of normalized returns of the proposed financial model by the power law classification scheme analysis and the empirical mode decomposition analysis. Moreover, the daily returns of Shanghai Composite Index and Shenzhen Component Index are considered, and the comparison nonlinear analysis of statistical behaviors of returns between the actual data and the simulation data is exhibited.

  19. Joint image reconstruction and segmentation using the Potts model

    NASA Astrophysics Data System (ADS)

    Storath, Martin; Weinmann, Andreas; Frikel, Jürgen; Unser, Michael

    2015-02-01

    We propose a new algorithmic approach to the non-smooth and non-convex Potts problem (also called piecewise-constant Mumford-Shah problem) for inverse imaging problems. We derive a suitable splitting into specific subproblems that can all be solved efficiently. Our method does not require a priori knowledge on the gray levels nor on the number of segments of the reconstruction. Further, it avoids anisotropic artifacts such as geometric staircasing. We demonstrate the suitability of our method for joint image reconstruction and segmentation. We focus on Radon data, where we in particular consider limited data situations. For instance, our method is able to recover all segments of the Shepp-Logan phantom from seven angular views only. We illustrate the practical applicability on a real positron emission tomography dataset. As further applications, we consider spherical Radon data as well as blurred data.

  20. Nonequilibrium phase transition in a driven Potts model with friction.

    PubMed

    Iglói, Ferenc; Pleimling, Michel; Turban, Loïc

    2011-04-01

    We consider magnetic friction between two systems of q-state Potts spins which are moving along their boundaries with a relative constant velocity ν. Due to the interaction between the surface spins there is a permanent energy flow and the system is in a steady state, which is far from equilibrium. The problem is treated analytically in the limit ν=∞ (in one dimension, as well as in two dimensions for large-q values) and for v and q finite by Monte Carlo simulations in two dimensions. Exotic nonequilibrium phase transitions take place, the properties of which depend on the type of phase transition in equilibrium. When this latter transition is of first order, a sequence of second- and first-order nonequilibrium transitions can be observed when the interaction is varied. ©2011 American Physical Society

  1. Matrix models of 2d gravity

    SciTech Connect

    Ginsparg, P.

    1991-01-01

    These are introductory lectures for a general audience that give an overview of the subject of matrix models and their application to random surfaces, 2d gravity, and string theory. They are intentionally 1.5 years out of date.

  2. Matrix models of 2d gravity

    SciTech Connect

    Ginsparg, P.

    1991-12-31

    These are introductory lectures for a general audience that give an overview of the subject of matrix models and their application to random surfaces, 2d gravity, and string theory. They are intentionally 1.5 years out of date.

  3. Fluctuation complexity of agent-based financial time series model by stochastic Potts system

    NASA Astrophysics Data System (ADS)

    Hong, Weijia; Wang, Jun

    2015-03-01

    Financial market is a complex evolved dynamic system with high volatilities and noises, and the modeling and analyzing of financial time series are regarded as the rather challenging tasks in financial research. In this work, by applying the Potts dynamic system, a random agent-based financial time series model is developed in an attempt to uncover the empirical laws in finance, where the Potts model is introduced to imitate the trading interactions among the investing agents. Based on the computer simulation in conjunction with the statistical analysis and the nonlinear analysis, we present numerical research to investigate the fluctuation behaviors of the proposed time series model. Furthermore, in order to get a robust conclusion, we consider the daily returns of Shanghai Composite Index and Shenzhen Component Index, and the comparison analysis of return behaviors between the simulation data and the actual data is exhibited.

  4. Universality of the crossing probability for the Potts model for q=1, 2, 3, 4.

    PubMed

    Vasilyev, Oleg A

    2003-08-01

    The universality of the crossing probability pi(hs) of a system to percolate only in the horizontal direction was investigated numerically by a cluster Monte Carlo algorithm for the q-state Potts model for q=2, 3, 4 and for percolation q=1. We check the percolation through Fortuin-Kasteleyn clusters near the critical point on the square lattice by using representation of the Potts model as the correlated site-bond percolation model. It was shown that probability of a system to percolate only in the horizontal direction pi(hs) has the universal form pi(hs)=A(q)Q(z) for q=1,2,3,4 as a function of the scaling variable z=[b(q)L(1/nu(q))[p-p(c)(q,L)

  5. Interfacial adsorption in two-dimensional pure and random-bond Potts models

    NASA Astrophysics Data System (ADS)

    Fytas, Nikolaos G.; Theodorakis, Panagiotis E.; Malakis, Anastasios

    2017-03-01

    We use Monte Carlo simulations to study the finite-size scaling behavior of the interfacial adsorption of the two-dimensional square-lattice q -states Potts model. We consider the pure and random-bond versions of the Potts model for q =3 ,4 ,5 ,8 , and 10, thus probing the interfacial properties at the originally continuous, weak, and strong first-order phase transitions. For the pure systems our results support the early scaling predictions for the size dependence of the interfacial adsorption at both first- and second-order phase transitions. For the disordered systems, the interfacial adsorption at the (disordered induced) continuous transitions is discussed, applying standard scaling arguments and invoking findings for bulk critical properties. The self-averaging properties of the interfacial adsorption are also analyzed by studying the infinite limit-size extrapolation of properly defined signal-to-noise ratios.

  6. Interfacial adsorption in two-dimensional pure and random-bond Potts models.

    PubMed

    Fytas, Nikolaos G; Theodorakis, Panagiotis E; Malakis, Anastasios

    2017-03-01

    We use Monte Carlo simulations to study the finite-size scaling behavior of the interfacial adsorption of the two-dimensional square-lattice q-states Potts model. We consider the pure and random-bond versions of the Potts model for q=3,4,5,8, and 10, thus probing the interfacial properties at the originally continuous, weak, and strong first-order phase transitions. For the pure systems our results support the early scaling predictions for the size dependence of the interfacial adsorption at both first- and second-order phase transitions. For the disordered systems, the interfacial adsorption at the (disordered induced) continuous transitions is discussed, applying standard scaling arguments and invoking findings for bulk critical properties. The self-averaging properties of the interfacial adsorption are also analyzed by studying the infinite limit-size extrapolation of properly defined signal-to-noise ratios.

  7. 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.

  8. The Potts Model on a Bethe Lattice in an External Field

    NASA Astrophysics Data System (ADS)

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

    2017-02-01

    A solution for the Potts model with arbitrary number of states on a Bethe lattice in a nonzero external field has been obtained. A line of first-order phase transitions has been constructed in the temperature - external-field plane, terminating at the point of the second-order phase transition. The magnitude of the magnetization jump on the phase-transition lines has been found, as well as some of the critical exponents characterizing this phase transition.

  9. Boundary Conditions for Translation-Invariant Gibbs Measures of the Potts Model on Cayley Trees

    NASA Astrophysics Data System (ADS)

    Gandolfo, D.; Rahmatullaev, M. M.; Rozikov, U. A.

    2017-06-01

    We consider translation-invariant splitting Gibbs measures (TISGMs) for the q-state Potts model on a Cayley tree of order two. Recently a full description of the TISGMs was obtained, and it was shown in particular that at sufficiently low temperatures their number is 2q-1. In this paper for each TISGM μ we explicitly give the set of boundary conditions such that limiting Gibbs measures with respect to these boundary conditions coincide with μ.

  10. Investigation of the Potts model of a diluted magnet by local field averaging technique

    NASA Astrophysics Data System (ADS)

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

    2016-08-01

    Averaging of the local interatomic interaction fields has been applied to the Potts model of a diluted magnet. A self-consistent equation for the magnetization and an equation for the phase transition temperature have been derived. The temperature and magnetic atom density dependences of the spontaneous magnetization have been found for the lattices with the coordination numbers 3 and 4 and various numbers of spin states.

  11. Exact Potts model partition function on strips of the triangular lattice

    NASA Astrophysics Data System (ADS)

    Chang, Shu-Chiuan; Shrock, Robert

    2000-10-01

    In this paper we present exact calculations of the partition function Z of the q-state Potts model and its generalization to real q, for arbitrary temperature on n-vertex strip graphs, of width Ly=2 and arbitrary length, of the triangular lattice with free, cyclic, and Möbius longitudinal boundary conditions. These partition functions are equivalent to Tutte/Whitney polynomials for these graphs. The free energy is calculated exactly for the infinite-length limit of the graphs, and the thermodynamics is discussed. Considering the full generalization to arbitrary complex q and temperature, we determine the singular locus B in the corresponding C2 space, arising as the accumulation set of partition function zeros as n→∞. In particular, we study the connection with the T=0 limit of the Potts antiferromagnet where B reduces to the accumulation set of chromatic zeros. Comparisons are made with our previous exact calculation of Potts model partition functions for the corresponding strips of the square lattice. Our present calculations yield, as special cases, several quantities of graph-theoretic interest.

  12. 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.

  13. Computational energetic model of morphogenesis based on multi-agent Cellular Potts Model.

    PubMed

    Tripodi, Sébastien; Ballet, Pascal; Rodin, Vincent

    2010-01-01

    The Cellular Potts Model (CPM) is a cellular automaton (CA), developed by Glazier and Graner in 1992, to model the morphogenesis. In this model, the entities are the cells. It has already been improved in many ways; however, a key point in biological systems, not defined in CPM, is energetic exchange between entities. We integrate this energetic concept inside the CPM. We simulate a cell differentiation inside a growing cell tissue. The results are the emergence of dynamic patterns coming from the consumption and production of energy. A model described by CA is less scalable than one described by a multi-agent system (MAS). We have developed a MAS based on the CPM, where a cell agent is implemented from the cell of CPM together with several behaviours, in particular the consumption and production of energy from the consumption of molecules.

  14. 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.

  15. Exact Results on Potts Model Partition Functions in a Generalized External Field and Weighted-Set Graph Colorings

    NASA Astrophysics Data System (ADS)

    Shrock, Robert; Xu, Yan

    2010-12-01

    We present exact results on the partition function of the q-state Potts model on various families of graphs G in a generalized external magnetic field that favors or disfavors spin values in a subset I s ={1,…, s} of the total set of possible spin values, Z( G, q, s, v, w), where v and w are temperature- and field-dependent Boltzmann variables. We remark on differences in thermodynamic behavior between our model with a generalized external magnetic field and the Potts model with a conventional magnetic field that favors or disfavors a single spin value. Exact results are also given for the interesting special case of the zero-temperature Potts antiferromagnet, corresponding to a set-weighted chromatic polynomial Ph( G, q, s, w) that counts the number of colorings of the vertices of G subject to the condition that colors of adjacent vertices are different, with a weighting w that favors or disfavors colors in the interval I s . We derive powerful new upper and lower bounds on Z( G, q, s, v, w) for the ferromagnetic case in terms of zero-field Potts partition functions with certain transformed arguments. We also prove general inequalities for Z( G, q, s, v, w) on different families of tree graphs. As part of our analysis, we elucidate how the field-dependent Potts partition function and weighted-set chromatic polynomial distinguish, respectively, between Tutte-equivalent and chromatically equivalent pairs of graphs.

  16. The Replica Symmetric Solution for Potts Models on d-Regular Graphs

    NASA Astrophysics Data System (ADS)

    Dembo, Amir; Montanari, Andrea; Sly, Allan; Sun, Nike

    2014-04-01

    We establish an explicit formula for the limiting free energy density (log-partition function divided by the number of vertices) for ferromagnetic Potts models on uniformly sparse graph sequences converging locally to the d-regular tree for d even, covering all temperature regimes. This formula coincides with the Bethe free energy functional evaluated at a suitable fixed point of the belief propagation recursion on the d-regular tree, the so-called replica symmetric solution. For uniformly random d-regular graphs we further show that the replica symmetric Bethe formula is an upper bound for the asymptotic free energy for any model with permissive interactions.

  17. Shaken, but not stirred—Potts model coupled to quantum gravity

    NASA Astrophysics Data System (ADS)

    Ambjørn, J. A.; Anagnostopoulos, K. N.; Loll, R.; Pushkina, I.

    2009-01-01

    We investigate the critical behaviour of both matter and geometry of the three-state Potts model coupled to two-dimensional Lorentzian quantum gravity in the framework of causal dynamical triangulations. Contrary to what general arguments on the effects of disorder suggest, we find strong numerical evidence that the critical exponents of the matter are not changed under the influence of quantum fluctuations in the geometry, compared to their values on fixed, regular lattices. This lends further support to previous findings that quantum gravity models based on causal dynamical triangulations are in many ways better behaved than their Euclidean counterparts.

  18. Some exact results on the Potts model partition function in a magnetic field

    NASA Astrophysics Data System (ADS)

    Chang, Shu-Chiuan; Shrock, Robert

    2009-09-01

    We consider the Potts model in a magnetic field on an arbitrary graph G. Using a formula by F Y Wu for the partition function Z of this model as a sum over spanning subgraphs of G, we prove some properties of Z concerning factorization, monotonicity and zeros. A generalization of the Tutte polynomial is presented that corresponds to this partition function. In this context, we formulate and discuss two weighted graph-coloring problems. We also give a general structural result for Z for cyclic strip graphs.

  19. Mean-field approximation for the potts model of a diluted magnet in the external field

    NASA Astrophysics Data System (ADS)

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

    2016-07-01

    The Potts model of a diluted magnet with an arbitrary number of states placed in the external field has been considered. Phase transitions of this model have been studied in the mean-field approximation, the dependence of the critical temperature on the external field and the density of magnetic atoms has been found, and the magnetic susceptibility has been calculated. An improved mean-field technique has been proposed, which provides more accurate account of the effects associated with nonmagnetic dilution. The influence of dilution on the first-order phase transition curve and the magnetization jump at the phase transition has been studied by this technique.

  20. Evaporation-condensation transition of the two-dimensional Potts model in the microcanonical ensemble.

    PubMed

    Nogawa, Tomoaki; Ito, Nobuyasu; Watanabe, Hiroshi

    2011-12-01

    The evaporation-condensation transition of the Potts model on a square lattice is numerically investigated by the Wang-Landau sampling method. An intrinsically system-size-dependent discrete transition between supersaturation state and phase-separation state is observed in the microcanonical ensemble by changing constrained internal energy. We calculate the microcanonical temperature, as a derivative of microcanonical entropy, and condensation ratio, and perform a finite-size scaling of them to indicate the clear tendency of numerical data to converge to the infinite-size limit predicted by phenomenological theory for the isotherm lattice gas model.

  1. The early history of the integrable chiral Potts model and the odd-even problem

    NASA Astrophysics Data System (ADS)

    Perk, Jacques H. H.

    2016-04-01

    In the first part of this paper I shall discuss the round-about way of how the integrable chiral Potts model was discovered about 30 years ago. As there should be more higher-genus models to be discovered, this might be of interest. In the second part I shall discuss some quantum group aspects, especially issues of odd versus even N related to the Serre relations conjecture in our quantum loop subalgebra paper of 5 years ago and how we can make good use of coproducts, also borrowing ideas of Drinfeld, Jimbo, Deguchi, Fabricius, McCoy and Nishino.

  2. Critical manifold of the Potts model: exact results and homogeneity approximation.

    PubMed

    Wu, F Y; Guo, Wenan

    2012-08-01

    The q-state Potts model has stood at the frontier of research in statistical mechanics for many years. In the absence of a closed-form solution, much of the past effort has focused on locating its critical manifold, trajectory in the parameter (q,e(J)) space where J is the reduced interaction, along which the free energy is singular. However, except in isolated cases, antiferromagnetic (AF) models with J<0 have been largely neglected. In this paper we consider the Potts model with AF interactions focusing on obtaining its critical manifold in exact and/or closed-form expressions. We first reexamine the known critical frontiers in light of AF interactions. For the square lattice we confirm the Potts self-dual point to be the sole critical frontier for J>0. We also locate its critical frontier for J<0 and find it to coincide with a solvability condition observed by Baxter in 1982 [R. J. Baxter, Proc. R. Soc. London Ser. A 388, 43 (1982)]. For the honeycomb lattice we show that the known critical frontier holds for all J, and determine its critical q(c) = 1/2(3 + sqrt[5]) = 2.61803 beyond which there is no transition. For the triangular lattice we confirm the known critical frontier to hold only for J>0. More generally we consider the centered-triangle (CT) and Union-Jack (UJ) lattices consisting of mixed J and K interactions, and deduce critical manifolds under homogeneity hypotheses. For K = 0 the CT lattice is the diced lattice, and we determine its critical manifold for all J and find q(c) = 3.32472. For K = 0 the UJ lattice is the square lattice and from this we deduce both the J > 0 and J < 0 critical manifolds and q(c) = 3. Our theoretical predictions are compared with recent numerical results.

  3. Antiferromagnetic Potts Model on the Erdős-Rényi Random Graph

    NASA Astrophysics Data System (ADS)

    Contucci, Pierluigi; Dommers, Sander; Giardinà, Cristian; Starr, Shannon

    2013-10-01

    We study the antiferromagnetic Potts model on the Poissonian Erdős-Rényi random graph. By identifying a suitable interpolation structure and an extended variational principle, together with a positive temperature second-moment analysis we prove the existence of a phase transition at a positive critical temperature. Upper and lower bounds on the temperature critical value are obtained from the stability analysis of the replica symmetric solution (recovered in the framework of Derrida-Ruelle probability cascades) and from an entropy positivity argument.

  4. Metastability of Non-reversible, Mean-Field Potts Model with Three Spins

    NASA Astrophysics Data System (ADS)

    Landim, C.; Seo, I.

    2016-11-01

    We examine a non-reversible, mean-field Potts model with three spins on a set with N\\uparrow ∞ points. Without an external field, there are three critical temperatures and five different metastable regimes. The analysis can be extended by a perturbative argument to the case of small external fields, and it can be carried out in the case where the external field is in the direction or in the opposite direction to one of the values of the spins. Numerical computations permit to identify other phenomena which are not present in the previous situations.

  5. Locally self-similar phase diagram of the disordered Potts model on the hierarchical lattice.

    PubMed

    Anglès d'Auriac, J-Ch; Iglói, Ferenc

    2013-02-01

    We study the critical behavior of the random q-state Potts model in the large-q limit on the diamond hierarchical lattice with an effective dimensionality d(eff)>2. By varying the temperature and the strength of the frustration the system has a phase transition line between the paramagnetic and the ferromagnetic phases which is controlled by four different fixed points. According to our renormalization group study the phase boundary in the vicinity of the multicritical point is self-similar; it is well represented by a logarithmic spiral. We expect an infinite number of reentrances in the thermodynamic limit; consequently one cannot define standard thermodynamic phases in this region.

  6. Curvature-driven coarsening in the two-dimensional Potts model.

    PubMed

    Loureiro, Marcos P O; Arenzon, Jeferson J; Cugliandolo, Leticia F; Sicilia, Alberto

    2010-02-01

    We study the geometric properties of polymixtures after a sudden quench in temperature. We mimic these systems with the q -states Potts model on a square lattice with and without weak quenched disorder, and their evolution with Monte Carlo simulations with nonconserved order parameter. We analyze the distribution of hull-enclosed areas for different initial conditions and compare our results with recent exact and numerical findings for q=2 (Ising) case. Our results demonstrate the memory of the presence or absence of long-range correlations in the initial state during the coarsening regime and exhibit superuniversality properties.

  7. Scaling of cluster heterogeneity in the two-dimensional Potts model.

    PubMed

    Lv, Jian-Ping; Yang, Xianqing; Deng, Youjin

    2012-08-01

    Cluster heterogeneity, the number of clusters of mutually distinct sizes, has been recently studied for explosive percolation and standard percolation [H. K. Lee et al., Phys. Rev. E 84, 020101(R) (2011); J. D. Noh et al., Phys. Rev. E 84, 010101(R) (2011)]. In this work we study the scaling of various quantities related with cluster heterogeneity in a broader context of two-dimensional q-state Potts model. We predict, via an analytic approach, the critical exponents for most of the measured quantities, and confirm these predications for various q values using extensive Monte Carlo simulations.

  8. Griffiths phase and critical behavior of the two-dimensional Potts models with long-range correlated disorder.

    PubMed

    Chatelain, Christophe

    2014-03-01

    The q-state Potts model with long-range correlated disorder is studied by means of large-scale Monte Carlo simulations for q=2, 4, 8, and 16. Evidence is given of the existence of a Griffiths phase, where the thermodynamic quantities display an algebraic finite-size scaling, in a finite range of temperatures. The critical exponents are shown to depend on both the temperature and the exponent of the algebraic decay of disorder correlations, but not on the number of states of the Potts model. The mechanism leading to the violation of hyperscaling relations is observed in the entire Griffiths phase.

  9. Dynamics of cell shape and forces on micropatterned substrates predicted by a cellular Potts model.

    PubMed

    Albert, Philipp J; Schwarz, Ulrich S

    2014-06-03

    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. Copyright © 2014 Biophysical Society. Published by Elsevier Inc. All rights reserved.

  10. Solving the advection-diffusion equations in biological contexts using the cellular Potts model

    NASA Astrophysics Data System (ADS)

    Dan, Debasis; Mueller, Chris; Chen, Kun; Glazier, James A.

    2005-10-01

    The cellular Potts model (CPM) is a robust, cell-level methodology for simulation of biological tissues and morphogenesis. Both tissue physiology and morphogenesis depend on diffusion of chemical morphogens in the extra-cellular fluid or matrix (ECM). Standard diffusion solvers applied to the cellular potts model use finite difference methods on the underlying CPM lattice. However, these methods produce a diffusing field tied to the underlying lattice, which is inaccurate in many biological situations in which cell or ECM movement causes advection rapid compared to diffusion. Finite difference schemes suffer numerical instabilities solving the resulting advection-diffusion equations. To circumvent these problems we simulate advection diffusion within the framework of the CPM using off-lattice finite-difference methods. We define a set of generalized fluid particles which detach advection and diffusion from the lattice. Diffusion occurs between neighboring fluid particles by local averaging rules which approximate the Laplacian. Directed spin flips in the CPM handle the advective movement of the fluid particles. A constraint on relative velocities in the fluid explicitly accounts for fluid viscosity. We use the CPM to solve various diffusion examples including multiple instantaneous sources, continuous sources, moving sources, and different boundary geometries and conditions to validate our approximation against analytical and established numerical solutions. We also verify the CPM results for Poiseuille flow and Taylor-Aris dispersion.

  11. 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. © 2016 The Protein Society.

  12. Multi-scale modeling in morphogenesis: a critical analysis of the cellular Potts model.

    PubMed

    Voss-Böhme, Anja

    2012-01-01

    Cellular Potts models (CPMs) are used as a modeling framework to elucidate mechanisms of biological development. They allow a spatial resolution below the cellular scale and are applied particularly when problems are studied where multiple spatial and temporal scales are involved. Despite the increasing usage of CPMs in theoretical biology, this model class has received little attention from mathematical theory. To narrow this gap, the CPMs are subjected to a theoretical study here. It is asked to which extent the updating rules establish an appropriate dynamical model of intercellular interactions and what the principal behavior at different time scales characterizes. It is shown that the longtime behavior of a CPM is degenerate in the sense that the cells consecutively die out, independent of the specific interdependence structure that characterizes the model. While CPMs are naturally defined on finite, spatially bounded lattices, possible extensions to spatially unbounded systems are explored to assess to which extent spatio-temporal limit procedures can be applied to describe the emergent behavior at the tissue scale. To elucidate the mechanistic structure of CPMs, the model class is integrated into a general multiscale framework. It is shown that the central role of the surface fluctuations, which subsume several cellular and intercellular factors, entails substantial limitations for a CPM's exploitation both as a mechanistic and as a phenomenological model.

  13. Thermodynamics and Low-Temperature Spectrum of the Three-State Potts Model

    NASA Astrophysics Data System (ADS)

    Kedem, Rinat

    We use the expression for the eigenvalues of the three state Potts hamiltonian in (1+1)-dimensions in terms of solutions of Bethe ansatz-type equations to characterize the low-lying excitations above the ground state. These are found to be massless quasi-particle excitations which obey generalized fermionic statistics in the sense of momentum exclusion rules. We use this fact to construct a partition function valid in the low temperature, large lattice scaling limit. We show that the partition function computed in this limit, Tto 0, Mtoinfty with the product MT fixed, where M is the length of the spin chain, is equal to the modular invariant partition function of the corresponding conformal field theory (CFT) limit of the model, where the CFT gives the critical dimensions of the model at criticality. Thus the CFT limit describes a system of massless excitations with linear dispersion relations, momentum quantized in units of 2pi/M and generalized-fermionic momentum restrictions. In chapter 2, we consider the scaling limit of the anti-ferromagnetic three-state Potts quantum spin chain. We use the single-particle excitation energies and the "completeness rules" or momentum ranges, which are obtained from the Bethe equations for the eigenvalues, to compute the modular invariant partition function. This provides a fermionic construction for the branching functions of the D _4 representation of {bf Z}_4 parafermions which complements the bosonic constructions. It is found that there are oscillations in some of the correlations and a new connection with the field theory of the Lee-Yang edge is presented. In chapter 3, we construct the thermodynamics of the ferromagnetic and anti-ferromagnetic three-state Potts spin chains. We demonstrate the relation of the infrared momentum restrictions of conformal field theory to entropy considerations of finite temperature thermodynamics for the three-state Potts chain. We compute the free energy and the low temperature specific heat

  14. Tricritical point for the three-dimensional disordered Potts model ( q = 3) on a simple cubic lattice

    NASA Astrophysics Data System (ADS)

    Babaev, A. B.; Murtazaev, A. K.

    2017-03-01

    Slightly diluted magnetic systems described by the disordered three-dimensional Potts model with the number of spin states q = 3 are studied in the case of a simple cubic lattice. The position of the tricritical point in the phase diagram is determined using the histogram Monte Carlo technique.

  15. Coupled Finite Element ? Potts Model Simulations of Grain Growth in Copper Interconnects

    SciTech Connect

    Radhakrishnan, Balasubramaniam; Gorti, Sarma B

    2009-01-01

    The paper addresses grain growth in copper interconnects in the presence of thermal expansion mismatch stresses. The evolution of grain structure and texture in copper in the simultaneous presence of two driving forces, curvature and elastic stored energy difference, is modeled by using a hybrid Potts model simulation approach. The elastic stored energy is calculated by using the commercial finite element code ABAQUS, where the effect of elastic anisotropy on the thermal mismatch stress and strain distribution within a polycrystalline grain structure is modeled through a user material (UMAT) interface. Parametric studies on the effect of trench width and the height of the overburden were carried out. The results show that the grain structure and texture evolution are significantly altered by the presence of elastic strain energy.

  16. The role of extracellular matrix in glioma invasion: a cellular Potts model approach.

    PubMed

    Rubenstein, Brenda M; Kaufman, Laura J

    2008-12-15

    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.

  17. Acid-mediated tumour cell invasion: a discrete modelling approach using the extended Potts model.

    PubMed

    Al-Husari, Maymona; Webb, Steven D

    2013-08-01

    Acidic extracellular pH has been shown to play a crucial part in the invasive and metastatic cascade of some tumours. In this study, we examine the effect of extracellular acidity on tumour invasion focusing, in particular, on cellular adhesion, proteolytic enzyme activity and cellular proliferation. Our numerical simulations using a cellular Potts model show that, under acidic extracellular pH, changes in cell-matrix adhesion strength has a comparable effect on tumour invasiveness as the increase in proteolytic enzyme activity. We also show that tumour cells cultured under physiological pH tend to be large and the tumours develop a "diffuse" morphology compared to those cultured at acidic pH, which display protruding "fingers" at the advancing front. A key model prediction is the observation that the main effect on invasion from culturing cells at low extracellular pH stems from changes in the intercellular and cell-matrix adhesion strengths and proteolytic enzyme secretion rate. However, we show that the effects of proteolysis needs to be significant as low to moderate changes only has nominal effects on cell invasiveness. We find that the low pH e effects on cell size and proliferation rate have much lower influence on cell invasiveness.

  18. Modelling wound closure in an epithelial cell sheet using the cellular Potts model.

    PubMed

    Noppe, Adrian R; Roberts, Anthony P; Yap, Alpha S; Gomez, Guillermo A; Neufeld, Zoltan

    2015-10-01

    We use a two-dimensional cellular Potts model to represent the behavior of an epithelial cell layer and describe its dynamics in response to a microscopic wound. Using an energy function to describe properties of the cells, we found that the interaction between contractile tension along cell-cell junctions and cell-cell adhesion plays an important role not only in determining the dynamics and morphology of cells in the monolayer, but also in influencing whether or not a wound in the monolayer will close. Our results suggest that, depending on the balance between cell-cell adhesion and junctional tension, mechanics of the monolayer can either correspond to a hard or a soft regime that determines cell morphology and polygonal organization in the monolayer. Moreover, the presence of a wound in a hard regime, where junctional tension is significant, can lead to two results: (1) wound closure or (2) an initial increase and expansion of the wound area towards an equilibrium value. Theoretical approximations and simulations allowed us to determine the thresholds in the values of cell-cell adhesion and initial wound size that allow the system to lead to wound closure. Overall, our results suggest that around the site of injury, changes in the balance between contraction and adhesion determine whether or not non-monotonous wound closure occurs.

  19. High-precision percolation thresholds and Potts-model critical manifolds from graph polynomials

    NASA Astrophysics Data System (ADS)

    >Jesper Lykke Jacobsen,

    2014-04-01

    The critical curves of the q-state Potts model can be determined exactly for regular two-dimensional lattices G that are of the three-terminal type. This comprises the square, triangular, hexagonal and bow-tie lattices. Jacobsen and Scullard have defined a graph polynomial PB(q, v) that gives access to the critical manifold for general lattices. It depends on a finite repeating part of the lattice, called the basis B, and its real roots in the temperature variable v = eK - 1 provide increasingly accurate approximations to the critical manifolds upon increasing the size of B. Using transfer matrix techniques, these authors computed PB(q, v) for large bases (up to 243 edges), obtaining determinations of the ferromagnetic critical point vc > 0 for the (4, 82), kagome, and (3, 122) lattices to a precision (of the order 10-8) slightly superior to that of the best available Monte Carlo simulations. In this paper we describe a more efficient transfer matrix approach to the computation of PB(q, v) that relies on a formulation within the periodic Temperley-Lieb algebra. This makes possible computations for substantially larger bases (up to 882 edges), and the precision on vc is hence taken to the range 10-13. We further show that a large variety of regular lattices can be cast in a form suitable for this approach. This includes all Archimedean lattices, their duals and their medials. For all these lattices we tabulate high-precision estimates of the bond percolation thresholds pc and Potts critical points vc. We also trace and discuss the full Potts critical manifold in the (q, v) plane, paying special attention to the antiferromagnetic region v < 0. Finally, we adapt the technique to site percolation as well, and compute the polynomials PB(p) for certain Archimedean and dual lattices (those having only cubic and quartic vertices), using very large bases (up to 243 vertices). This produces the site percolation thresholds pc to a precision of the order of 10-9.

  20. Effects of turbulent mixing on critical behaviour: renormalization-group analysis of the Potts model

    NASA Astrophysics Data System (ADS)

    Antonov, N. V.; Malyshev, A. V.

    2012-06-01

    The critical behaviour of a system, subjected to strongly anisotropic turbulent mixing, is studied by means of the field-theoretic renormalization group. Specifically, the relaxational stochastic dynamics of a non-conserved multicomponent order parameter of the Ashkin-Teller-Potts model, coupled to a random velocity field with prescribed statistics, is considered. The velocity is taken to be Gaussian, white in time, with a correlation function of the form ∝δ(t - t‧)/|k⊥|d - 1 + ξ, where k⊥ is the component of the wave vector, perpendicular to the distinguished direction (‘direction of the flow’)—the d-dimensional generalization of the ensemble was introduced by Avellaneda and Majda (1990 Commun. Math. Phys. 131 381) within the context of passive scalar advection. This model can describe a rich class of physical situations. It is shown that, depending on the values of the parameters that define the self-interaction of the order parameter and the relation between the exponent ξ and the space dimension d, the system exhibits various types of large-scale scaling behaviour, associated with different infrared attractive fixed points of the renormalization-group equations. In addition to known asymptotic regimes (critical dynamics of the Potts model and passively advected field without self-interaction), the existence of a new, non-equilibrium and strongly anisotropic, type of critical behaviour (universality class) is established, and the corresponding critical dimensions are calculated to the leading order of the double expansion in ξ and ɛ = 6 - d (one-loop approximation). The scaling appears to be strongly anisotropic in the sense that the critical dimensions related to the directions parallel and perpendicular to the flow are essentially different.

  1. Phase diagram of a two-dimensional large- Q Potts model in an external field

    NASA Astrophysics Data System (ADS)

    Tsai, Shan-Ho; Landau, D. P.

    2009-04-01

    We use a two-dimensional Wang-Landau sampling algorithm to map out the phase diagram of a Q-state Potts model with Q⩽10 in an external field H that couples to one state. Finite-size scaling analyses show that for large Q the first-order phase transition point at H=0 is in fact a triple point at which three first-order phase transition lines meet. One such line is restricted to H=0; another line has H⩽0. The third line, which starts at the H=0 triple point, ends at a critical point (T,H) which needs to be located in a two-dimensional parameter space. The critical field H(Q) is positive and decreases with decreasing Q, which is in qualitative agreement with previous predictions.

  2. Kosterlitz-Thouless and Potts transitions in a generalized XY model.

    PubMed

    Canova, Gabriel A; Levin, Yan; Arenzon, Jeferson J

    2014-01-01

    We present extensive numerical simulations of a generalized XY model with nematic-like terms recently proposed by Poderoso et al. [ Phys. Rev. Lett. 106 067202 (2011)]. Using finite size scaling and focusing on the q=3 case, we locate the transitions between the paramagnetic (P), the nematic-like (N), and the ferromagnetic (F) phases. The results are compared with the recently derived lower bounds for the P-N and P-F transitions. While the P-N transition is found to be very close to the lower bound, the P-F transition occurs significantly above the bound. Finally, the transition between the nematic-like and the ferromagnetic phases is found to belong to the three-states Potts universality class.

  3. Effects of random and deterministic discrete scale invariance on the critical behavior of the Potts model.

    PubMed

    Monceau, Pascal

    2012-12-01

    The effects of disorder on the critical behavior of the q-state Potts model in noninteger dimensions are studied by comparison of deterministic and random fractals sharing the same dimensions in the framework of a discrete scale invariance. We carried out intensive Monte Carlo simulations. In the case of a fractal dimension slightly smaller than two d(f) ~/= 1.974636, we give evidence that the disorder structured by discrete scale invariance does not change the first order transition associated with the deterministic case when q = 7. Furthermore the study of the high value q = 14 shows that the transition is a second order one both for deterministic and random scale invariance, but that their behavior belongs to different university classes.

  4. A Cellular Potts Model of single cell migration in presence of durotaxis.

    PubMed

    Allena, R; Scianna, M; Preziosi, L

    2016-05-01

    Cell migration is a fundamental biological phenomenon during which cells sense their surroundings and respond to different types of signals. In presence of durotaxis, cells preferentially crawl from soft to stiff substrates by reorganizing their cytoskeleton from an isotropic to an anisotropic distribution of actin filaments. In the present paper, we propose a Cellular Potts Model to simulate single cell migration over flat substrates with variable stiffness. We have tested five configurations: (i) a substrate including a soft and a stiff region, (ii) a soft substrate including two parallel stiff stripes, (iii) a substrate made of successive stripes with increasing stiffness to create a gradient and (iv) a stiff substrate with four embedded soft squares. For each simulation, we have evaluated the morphology of the cell, the distance covered, the spreading area and the migration speed. We have then compared the numerical results to specific experimental observations showing a consistent agreement. Copyright © 2016 Elsevier Inc. All rights reserved.

  5. Nucleation near the eutectic point in a Potts-lattice gas model.

    PubMed

    Agarwal, Vishal; Peters, Baron

    2014-02-28

    We use the Potts-lattice gas model to study nucleation at and near the eutectic composition. We use rare-event methods to compute the free energy landscape for the competing nucleation products, and short trajectories at the barrier top to obtain prefactors. We introduce a procedure to tune the frequency of semigrand Monte Carlo moves so that the dynamics of a small closed system roughly resemble those of an infinite system. The non-dimensionalized nucleation rates follow trends as predicted by the classical nucleation theory. Finally, we develop corrections that convert free energy surfaces from closed (canonical) simulations into free energy surfaces from open (semigrand) simulations. The new corrections extend earlier corrections to now address situations like nucleation at the eutectic point where two products nucleate competitively.

  6. 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

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

    NASA Astrophysics Data System (ADS)

    Lykke Jacobsen, Jesper; Scullard, Christian R.

    2013-02-01

    In our previous work [1] we have shown 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.

  8. Re-orientation transition in molecular thin films: Potts model with dipolar interaction.

    PubMed

    Hoang, Danh-Tai; Kasperski, Maciej; Puszkarski, Henryk; Diep, H T

    2013-02-06

    We study the low-temperature behavior and the phase transition of a thin film by Monte Carlo simulation. The thin film has a simple cubic lattice structure where each site is occupied by a Potts parameter which indicates the molecular orientation of the site. We take only three molecular orientations in this paper, which correspond to the three-state Potts model. The Hamiltonian of the system includes (i) the exchange interaction J(ij) between nearest-neighbor sites i and j, (ii) the long-range dipolar interaction of amplitude D truncated at a cutoff distance r(c), and (iii) a single-ion perpendicular anisotropy of amplitude A. We allow J(ij) = J(s) between surface spins, and J(ij) = J otherwise. We show that the ground state depends on the ratio D/A and r(c). For a single layer, for a given A, there is a critical value D(c) below (above) which the ground-state (GS) configuration of molecular axes is perpendicular (parallel) to the film surface. When the temperature T is increased, a re-orientation transition occurs near D(c): the low-T in-plane ordering undergoes a transition to the perpendicular ordering at a finite T, below the transition to the paramagnetic phase. The same phenomenon is observed in the case of a film with a thickness. Comparison with the Fe/Gd experiment is given. We show that the surface phase transition can occur below or above the bulk transition depending on the ratio J(s)/J. Surface and bulk order parameters as well as other physical quantities are shown and discussed.

  9. Influence of aperiodic modulations on first-order transitions: numerical study of the two-dimensional Potts model.

    PubMed

    Girardi, D; Branco, N S

    2011-06-01

    We study the Potts model on a rectangular lattice with aperiodic modulations in its interactions along one direction. Numerical results are obtained using the Wolff algorithm and for many lattice sizes, allowing for a finite-size scaling analyses to be carried out. Three different self-dual aperiodic sequences are employed, which leads to more precise results, since the exact critical temperature is known. We analyze two models, with 6 and 15 number of states: both present first-order transitions on their uniform versions. We show that the Harris-Luck criterion, originally introduced in the study of continuous transitions, is obeyed also for first-order ones. Also, we show that the new universality class that emerges for relevant aperiodic modulations depends on the number of states of the Potts model, as obtained elsewhere for random disorder, and on the aperiodic sequence. We determine the occurrence of log-periodic behavior, as expected for models with aperiodic modulated interactions.

  10. 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.

  11. Continuity of the Phase Transition for Planar Random-Cluster and Potts Models with {1 ≤ q ≤ 4}

    NASA Astrophysics Data System (ADS)

    Duminil-Copin, Hugo; Sidoravicius, Vladas; Tassion, Vincent

    2017-01-01

    This article studies the planar Potts model and its random-cluster representation. We show that the phase transition of the nearest-neighbor ferromagnetic q-state Potts model on Z^2 is continuous for {q in {2,3,4}}, in the sense that there exists a unique Gibbs state, or equivalently that there is no ordering for the critical Gibbs states with monochromatic boundary conditions. The proof uses the random-cluster model with cluster-weight {q ≥ 1} (note that q is not necessarily an integer) and is based on two ingredients: The fact that the two-point function for the free state decays sub-exponentially fast for cluster-weights {1≤ q≤ 4}, which is derived studying parafermionic observables on a discrete Riemann surface.

  12. 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.

  13. WFR-2D: an analytical model for PWAS-generated 2D ultrasonic guided wave propagation

    NASA Astrophysics Data System (ADS)

    Shen, Yanfeng; Giurgiutiu, Victor

    2014-03-01

    This paper presents WaveFormRevealer 2-D (WFR-2D), an analytical predictive tool for the simulation of 2-D ultrasonic guided wave propagation and interaction with damage. The design of structural health monitoring (SHM) systems and self-aware smart structures requires the exploration of a wide range of parameters to achieve best detection and quantification of certain types of damage. Such need for parameter exploration on sensor dimension, location, guided wave characteristics (mode type, frequency, wavelength, etc.) can be best satisfied with analytical models which are fast and efficient. The analytical model was constructed based on the exact 2-D Lamb wave solution using Bessel and Hankel functions. Damage effects were inserted in the model by considering the damage as a secondary wave source with complex-valued directivity scattering coefficients containing both amplitude and phase information from wave-damage interaction. The analytical procedure was coded with MATLAB, and a predictive simulation tool called WaveFormRevealer 2-D was developed. The wave-damage interaction coefficients (WDICs) were extracted from harmonic analysis of local finite element model (FEM) with artificial non-reflective boundaries (NRB). The WFR-2D analytical simulation results were compared and verified with full scale multiphysics finite element models and experiments with scanning laser vibrometer. First, Lamb wave propagation in a pristine aluminum plate was simulated with WFR-2D, compared with finite element results, and verified by experiments. Then, an inhomogeneity was machined into the plate to represent damage. Analytical modeling was carried out, and verified by finite element simulation and experiments. This paper finishes with conclusions and suggestions for future work.

  14. 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.

  15. Critical behaviour of the two-dimensional Potts model with a continuous number of states; A finite size scaling analysis

    NASA Astrophysics Data System (ADS)

    Blöte, H. W. J.; Nightingale, M. P.

    1982-06-01

    We investigate the critical behaviour of the two-dimensional, q-state Potts model, using finite-size scaling and transfer matrix methods. For the continuous transition range (0< q⩽4), we present accurate values of the thermal and magnetic exponents. These are in excellent agreement with the conjecture of den Nijs, and that of Nienhuis et al. and Pearson, respectively. Finite size scaling is extended for the description of the first order region ( q>4). For completely finite systems, we recover the power law behaviour describe by discontinuity fixed point exponents; however, for systems that are infinite in one direction, exponential behaviour occurs. This is illustrated numerically by the exponential divergences of the susceptibility and specific heat with increasing system size for q≫4. These results for continuous q were obtained from a transfer matrix constructed for a generalized Whitney polynomial representing the Potts models. An effective algorithm to compute the dominant eigenvalues of this essentially nonsymmetric transfer matrix is developed.

  16. 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.

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

    NASA Astrophysics Data System (ADS)

    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-->∅) 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)~t-φ(q), with a nontrivial exponent φ(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 φ(q) to a higher degree of accuracy than previous simulations and relate the exponent φ(q) to the persistence exponent θ(q) [B. Derrida, V. Hakim, and V. Pasquier, Phys. Rev. Lett. 75, 751 (1995)], through the relation φ(q)=γ(q)θ(q) where γ is an exponent introduced in [S. J. O'Donoghue and A. J. Bray, preceding paper, Phys. Rev. E 65, XXXX (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 ρ(t)~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)~t-θ with θ~=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)~t-φ, where φ~=1.13 when infection occurs between like particles only, and φ~=1.93 when we also include cross-species contamination. We find that the relation between φ and θ in this model can also be characterized by an exponent γ, where similarly, φ=γθ.

  18. A Cellular Potts Model simulating cell migration on and in matrix environments.

    PubMed

    Scianna, Marco; Preziosi, Luigi; Wolf, Katarina

    2013-02-01

    Cell migration on and through extracellular matrix is fundamental in a wide variety of physiological and pathological phenomena, and is exploited in scaffold-based tissue engineering. Migration is regulated by a number of extracellular matrix- or cell-derived biophysical parameters, such as matrix fiber orientation, pore size, and elasticity, or cell deformation, proteolysis, and adhesion. We here present an extended Cellular Potts Model (CPM) able to qualitatively and quantitatively describe cell migration efficiencies and phenotypes both on two-dimensional substrates and within three-dimensional matrices, close to experimental evidence. As distinct features of our approach, cells are modeled as compartmentalized discrete objects, differentiated into nucleus and cytosolic region, while the extracellular matrix is composed of a fibrous mesh and a homogeneous fluid. Our model provides a strong correlation of the directionality of migration with the topological extracellular matrix distribution and a biphasic dependence of migration on the matrix structure, density, adhesion, and stiffness, and, moreover, simulates that cell locomotion in highly constrained fibrillar obstacles requires the deformation of the cell's nucleus and/or the activity of cell-derived proteolysis. In conclusion, we here propose a mathematical modeling approach that serves to characterize cell migration as a biological phenomenon in healthy and diseased tissues and in engineering applications.

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

    PubMed

    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.

  20. Three-state Potts model on non-local directed small-world lattices

    NASA Astrophysics Data System (ADS)

    Ferraz, Carlos Handrey Araujo; Lima, José Luiz Sousa

    2017-10-01

    In this paper, we study the non-local directed Small-World (NLDSW) disorder effects in the three-state Potts model as a form to capture the essential features shared by real complex systems where non-locality effects play a important role in the behavior of these systems. Using Monte Carlo techniques and finite-size scaling analysis, we estimate the infinite lattice critical temperatures and the leading critical exponents in this model. In particular, we investigate the first- to second-order phase transition crossover when NLDSW links are inserted. A cluster-flip algorithm was used to reduce the critical slowing down effect in our simulations. We find that for a NLDSW disorder densities p model exhibits a continuous phase transition falling into a new universality class, which continuously depends on the value of p, while for p∗ ⩽ p ⩽ 1 . 0, the model presents a weak first-order phase transition.

  1. 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.

  2. PM-PM: PatchMatch with Potts Model for object segmentation and stereo matching.

    PubMed

    Xu, Shibiao; Zhang, Feihu; He, Xiaofei; Shen, Xukun; Zhang, Xiaopeng

    2015-07-01

    This paper presents a unified variational formulation for joint object segmentation and stereo matching, which takes both accuracy and efficiency into account. In our approach, depth-map consists of compact objects, each object is represented through three different aspects: 1) the perimeter in image space; 2) the slanted object depth plane; and 3) the planar bias, which is to add an additional level of detail on top of each object plane in order to model depth variations within an object. Compared with traditional high quality solving methods in low level, we use a convex formulation of the multilabel Potts Model with PatchMatch stereo techniques to generate depth-map at each image in object level and show that accurate multiple view reconstruction can be achieved with our formulation by means of induced homography without discretization or staircasing artifacts. Our model is formulated as an energy minimization that is optimized via a fast primal-dual algorithm, which can handle several hundred object depth segments efficiently. Performance evaluations in the Middlebury benchmark data sets show that our method outperforms the traditional integer-valued disparity strategy as well as the original PatchMatch algorithm and its variants in subpixel accurate disparity estimation. The proposed algorithm is also evaluated and shown to produce consistently good results for various real-world data sets (KITTI benchmark data sets and multiview benchmark data sets).

  3. Reexamination of the long-range Potts model: a multicanonical approach.

    PubMed

    Reynal, S; Diep, H T

    2004-02-01

    We investigate the critical behavior of the one-dimensional q-state Potts model with long-range (LR) interactions 1/r(d+sigma), using a multicanonical algorithm. The recursion scheme initially proposed by Berg is improved so as to make it suitable for a large class of LR models with unequally spaced energy levels. The choice of an efficient predictor and a reliable convergence criterion is discussed. We obtain transition temperatures in the first-order regime which are in far better agreement with mean-field predictions than in previous Monte Carlo studies. By relying on the location of spinodal points and resorting to scaling arguments, we determine the threshold value sigma(c)(q) separating the first- and second-order regimes to two-digit precision within the range 3< or =q < or =9. We offer convincing numerical evidence supporting sigma(c)(q)<1.0 for all q, by virtue of an unusual finite-size effect, namely, finite-size scaling predicts a continuous transition in the thermodynamic limit, despite the first-order nature of the transition at finite size. A qualitative account in terms of correlation lengths is provided. Finally, we find the crossover between the LR and short-range regimes to occur inside a narrow window 1.0

  4. A cellular Potts model analyzing differentiated cell behavior during in vivo vascularization of a hypoxic tissue.

    PubMed

    Scianna, Marco; Bassino, Eleonora; Munaron, Luca

    2015-08-01

    Angiogenesis, the formation of new blood vessel networks from existing capillary or post-capillary venules, is an intrinsically multiscale process occurring in several physio-pathological conditions. In particular, hypoxic tissue cells activate downstream cascades culminating in the secretion of a wide range of angiogenic factors, including VEGF isoforms. Such diffusive chemicals activate the endothelial cells (ECs) forming the external walls of the nearby vessels that chemotactically migrate toward the hypoxic areas of the tissue as multicellular sprouts. A functional network eventually emerges by further branching and anastomosis processes. We here propose a CPM-based approach reproducing selected features of the angiogenic progression necessary for the reoxygenation of a hypoxic tissue. Our model is able to span the different scale involved in the angiogenic progression as it incorporates reaction-diffusion equations for the description of the evolution of microenvironmental variables in a discrete mesoscopic cellular Potts model (CPM) that reproduces the dynamics of the vascular cells. A key feature of this work is the explicit phenotypic differentiation of the ECs themselves, distinguished in quiescent, stalk and tip. The simulation results allow identifying a set of key mechanisms underlying tissue vascularization. Further, we provide evidence that the nascent pattern is characterized by precise topological properties. Finally, we link abnormal sprouting angiogenesis with alteration in selected cell behavior. Copyright © 2015 Elsevier Ltd. All rights reserved.

  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. Finite-time scaling via linear driving: application to the two-dimensional Potts model.

    PubMed

    Huang, Xianzhi; Gong, Shurong; Zhong, Fan; Fan, Shuangli

    2010-04-01

    We apply finite-time scaling to the q-state Potts model with q=3 and 4 on two-dimensional lattices to determine its critical properties. This consists in applying to the model a linearly varying external field that couples to one of its q states to manipulate its dynamics in the vicinity of its criticality and that drives the system out of equilibrium and thus produces hysteresis and in defining an order parameter other than the usual one and a nonequilibrium susceptibility to extract coercive fields. From the finite-time scaling of the order parameter, the coercivity, and the hysteresis area and its derivative, we are able to determine systematically both static and dynamic critical exponents as well as the critical temperature. The static critical exponents obtained in general and the magnetic exponent delta in particular agree reasonably with the conjectured ones. The dynamic critical exponents obtained appear to confirm the proposed dynamic weak universality but unlikely to agree with recent short-time dynamic results for q=4. Our results also suggest an alternative way to characterize the weak universality.

  7. 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/.

  8. 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

  9. Cellular potts modeling of tumor growth, tumor invasion, and tumor evolution.

    PubMed

    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.

  10. Exact Potts model partition functions on wider arbitrary-length strips of the square lattice

    NASA Astrophysics Data System (ADS)

    Chang, Shu-Chiuan; Shrock, Robert

    2001-07-01

    We present exact calculations of the partition function of the q-state Potts model for general q and temperature on strips of the square lattice of width Ly=3 vertices and arbitrary length Lx with periodic longitudinal boundary conditions, of the following types: (i) (FBC y, PBC x) = cyclic, (ii) (FBC y,TPBC x) = Möbius, (iii) (PBC y,PBC x) = toroidal, and (iv) (PBC y,TPBC x) = Klein bottle, where FBC and ( T) PBC refer to free and (twisted) periodic boundary conditions. Results for the Ly=2 torus and Klein bottle strips are also included. In the infinite-length limit the thermodynamic properties are discussed and some general results are given for low-temperature behavior on strips of arbitrarily great width. We determine the submanifold in the C2 space of q and temperature where the free energy is singular for these strips. Our calculations are also used to compute certain quantities of graph-theoretic interest.

  11. 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.

  12. Dynamic Critical Exponents of Three-Dimensional Ising Models and Two-Dimensional Three-States Potts Models

    NASA Astrophysics Data System (ADS)

    Murase, Yohsuke; Ito, Nobuyasu

    2008-01-01

    Values of dynamic critical exponents are numerically estimated for various models with the nonequilibrium relaxation method to test the dynamic universality hypothesis. The dynamics used here are single-spin update with Metropolis-type transition probabities. The estimated values of nonequilibrium relaxation exponent of magnetization λm (=β/zν) of Ising models on bcc and fcc lattices are estimated to be 0.251(3) and 0.252(3), respectively, which are consistent with the value of the model on simple-cubic lattice, 0.250(2). The dynamic critical exponents of three-states Potts models on square, honeycomb and triangular lattices are also estimated to be 2.193(5), 2.198(4), and 2.199(3), respectively. They are consistent within the error bars. It is also confirmed that Ising models with regularly modulated coupling constants on square lattice have the same dynamic critical exponents with the uniformly ferromagnetic Ising model.

  13. Exact Solution of Ising Model in 2d Shortcut Network

    NASA Astrophysics Data System (ADS)

    Shanker, O.

    We give the exact solution to the Ising model in the shortcut network in the 2D limit. The solution is found by mapping the model to the square lattice model with Brascamp and Kunz boundary conditions.

  14. Influence of frustrations on the thermodynamic properties of the low-dimensional Potts model studied by computer simulation

    NASA Astrophysics Data System (ADS)

    Babaev, A. B.; Murtazaev, A. K.; Suleimanov, E. M.; Rizvanova, T. R.

    2016-10-01

    Influence of disorder in the form of frustration on the thermodynamic behavior of a two-dimensional three-vertex Potts model has been studied by the Monte Carlo method, taking into account the nearest and next-nearest neighbors. Systems with linear sizes of L × L = N ( L = 9-48) on a triangular lattice have been considered. It has been shown that in the case of J 1 > 0 and J 2 < 0 frustrations appear in the spin system within the interval of 0.5 ≤ | r| ≤ 1.0. The model undergoes a phase transition outside this region.

  15. Potts model partition functions for self-dual families of strip graphs

    NASA Astrophysics Data System (ADS)

    Chang, Shu-Chiuan; Shrock, Robert

    2001-12-01

    We consider the q-state Potts model on families of self-dual strip graphs GD of the square lattice of width Ly and arbitrarily great length Lx, with periodic longitudinal boundary conditions. The general partition function Z and the T=0 antiferromagnetic special case P (chromatic polynomial) have the respective forms ∑ j=1 NF, Ly, λcF, Ly, j( λF, Ly, j) Lx, with F= Z, P. For arbitrary Ly, we determine (i) the general coefficient cF, Ly, j in terms of Chebyshev polynomials, (ii) the number nF( Ly, d) of terms with each type of coefficient, and (iii) the total number of terms NF, Ly, λ. We point out interesting connections between the nZ( Ly, d) and Temperley-Lieb algebras, and between the NF, Ly, λ and enumerations of directed lattice animals. Exact calculations of P are presented for 2⩽ Ly⩽4. In the limit of infinite length, we calculate the ground state degeneracy per site (exponent of the ground state entropy), W( q). Generalizing q from Z+ to C, we determine the continuous locus B in the complex q plane where W( q) is singular. We find the interesting result that for all Ly values considered, the maximal point at which B crosses the real q-axis, denoted qc, is the same, and is equal to the value for the infinite square lattice, qc=3. This is the first family of strip graphs of which we are aware that exhibits this type of universality of qc.

  16. Exact Valence Bond Entanglement Entropy and Probability Distribution in the XXX Spin Chain and the Potts Model

    NASA Astrophysics Data System (ADS)

    Jacobsen, J. L.; Saleur, H.

    2008-02-01

    We determine exactly the probability distribution of the number Nc 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 SVB=⟨Nc⟩ln⁡2=(4ln⁡2)/(π2)ln⁡L disproving a recent conjecture that this should be related with the von Neumann entropy, and thus equal to (1)/(3)ln⁡L. Our results generalize to the Q-state Potts model.

  17. Topology of the space of periodic ground states in the antiferromagnetic Ising and Potts models in selected spatial structures

    NASA Astrophysics Data System (ADS)

    Krawczyk, Małgorzata J.

    2010-05-01

    Topology of the space of periodic ground states in the antiferromagnetic Ising and Potts (3-state) models is analysed in selected spatial structures. The states are treated as graph nodes, connected by one-spin-flip transitions. The spatial structures are the triangular lattice, the Archimedean ( 3,12) lattice and the cubic Laves C15 lattice with the periodic boundary conditions. In most cases the ground states are isolated nodes, but for selected systems we obtain connected graphs. The latter means that the magnetisation can vary in time with zero energy cost. The ground states are classified according to their degree and type of neighbours.

  18. Evidence of a one-step replica symmetry breaking in a three-dimensional Potts glass model.

    PubMed

    Takahashi, Takashi; Hukushima, Koji

    2015-02-01

    We study a seven-state Potts glass model in three dimensions with first-, second-, and third-nearest-neighbor interactions with a bimodal distribution of couplings by Monte Carlo simulations. Our results show the existence of a spin-glass transition at a finite temperature T(c), a discontinuous jump of an order parameter at T(c) without latent heat, and a nontrivial structure in the order parameter distribution below T(c). They are compatible with one-step replica symmetry breaking.

  19. Hierarchy of the low-lying excitations for the (2 + 1)-dimensional q = 3 Potts model in the ordered phase

    NASA Astrophysics Data System (ADS)

    Nishiyama, Yoshihiro

    2017-03-01

    The (2 + 1)-dimensional q = 3 Potts model was simulated with the exact diagonalization method. In the ordered phase, the elementary excitations (magnons) are attractive, forming a series of bound states in the low-energy spectrum. We investigate the low-lying spectrum through a dynamical susceptibility, which is readily tractable with the exact diagonalization method via the continued-fraction expansion. As a result, we estimate the series of (scaled) mass gaps, m 2 , 3 , 4 /m1 (m1: single-magnon mass), in proximity to the transition point.

  20. 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.

  1. Investigation of the thermodynamic properties and phase transitions in a strongly diluted three-vertex antiferromagnetic Potts model by the Monte Carlo method

    NASA Astrophysics Data System (ADS)

    Murtazaev, A. K.; Babaev, A. B.; Ataeva, G. Ya.

    2017-01-01

    The thermodynamic properties and phase transitions in a two-dimensional strongly diluted threevertex antiferromagnetic Potts model on a triangular lattice have been investigated using the Monte Carlo method. The systems with linear dimensions of L × L = N, where L = 18-48, have been considered. It has been shown using the method of fourth-order Binder cumulants that, upon the introduction of nonmagnetic impurities into the spin system described by the two-dimensional antiferromagnetic Potts model, the firstorder phase transition changes to a second-order phase transition.

  2. Studying Zeolite Catalysts with a 2D Model System

    SciTech Connect

    Boscoboinik, Anibal

    2016-12-07

    Anibal Boscoboinik, a materials scientist at Brookhaven’s Center for Functional Nanomaterials, discusses the surface-science tools and 2D model system he uses to study catalysis in nanoporous zeolites, which catalyze reactions in many industrial processes.

  3. Large pseudocounts and L2-norm penalties are necessary for the mean-field inference of Ising and Potts models

    NASA Astrophysics Data System (ADS)

    Barton, J. P.; Cocco, S.; De Leonardis, E.; Monasson, R.

    2014-07-01

    The mean-field (MF) approximation offers a simple, fast way to infer direct interactions between elements in a network of correlated variables, a common, computationally challenging problem with practical applications in fields ranging from physics and biology to the social sciences. However, MF methods achieve their best performance with strong regularization, well beyond Bayesian expectations, an empirical fact that is poorly understood. In this work, we study the influence of pseudocount and L2-norm regularization schemes on the quality of inferred Ising or Potts interaction networks from correlation data within the MF approximation. We argue, based on the analysis of small systems, that the optimal value of the regularization strength remains finite even if the sampling noise tends to zero, in order to correct for systematic biases introduced by the MF approximation. Our claim is corroborated by extensive numerical studies of diverse model systems and by the analytical study of the m-component spin model for large but finite m. Additionally, we find that pseudocount regularization is robust against sampling noise and often outperforms L2-norm regularization, particularly when the underlying network of interactions is strongly heterogeneous. Much better performances are generally obtained for the Ising model than for the Potts model, for which only couplings incoming onto medium-frequency symbols are reliably inferred.

  4. Large pseudocounts and L2-norm penalties are necessary for the mean-field inference of Ising and Potts models.

    PubMed

    Barton, J P; Cocco, S; De Leonardis, E; Monasson, R

    2014-07-01

    The mean-field (MF) approximation offers a simple, fast way to infer direct interactions between elements in a network of correlated variables, a common, computationally challenging problem with practical applications in fields ranging from physics and biology to the social sciences. However, MF methods achieve their best performance with strong regularization, well beyond Bayesian expectations, an empirical fact that is poorly understood. In this work, we study the influence of pseudocount and L(2)-norm regularization schemes on the quality of inferred Ising or Potts interaction networks from correlation data within the MF approximation. We argue, based on the analysis of small systems, that the optimal value of the regularization strength remains finite even if the sampling noise tends to zero, in order to correct for systematic biases introduced by the MF approximation. Our claim is corroborated by extensive numerical studies of diverse model systems and by the analytical study of the m-component spin model for large but finite m. Additionally, we find that pseudocount regularization is robust against sampling noise and often outperforms L(2)-norm regularization, particularly when the underlying network of interactions is strongly heterogeneous. Much better performances are generally obtained for the Ising model than for the Potts model, for which only couplings incoming onto medium-frequency symbols are reliably inferred.

  5. Degenerate ground states and multiple bifurcations in a two-dimensional q-state quantum Potts model.

    PubMed

    Dai, Yan-Wei; Cho, Sam Young; Batchelor, Murray T; Zhou, Huan-Qiang

    2014-06-01

    We numerically investigate the two-dimensional q-state quantum Potts model on the infinite square lattice by using the infinite projected entangled-pair state (iPEPS) algorithm. We show that the quantum fidelity, defined as an overlap measurement between an arbitrary reference state and the iPEPS ground state of the system, can detect q-fold degenerate ground states for the Z_{q} broken-symmetry phase. Accordingly, a multiple bifurcation of the quantum ground-state fidelity is shown to occur as the transverse magnetic field varies from the symmetry phase to the broken-symmetry phase, which means that a multiple-bifurcation point corresponds to a critical point. A (dis)continuous behavior of quantum fidelity at phase transition points characterizes a (dis)continuous phase transition. Similar to the characteristic behavior of the quantum fidelity, the magnetizations, as order parameters, obtained from the degenerate ground states exhibit multiple bifurcation at critical points. Each order parameter is also explicitly demonstrated to transform under the Z_{q} subgroup of the symmetry group of the Hamiltonian. We find that the q-state quantum Potts model on the square lattice undergoes a discontinuous (first-order) phase transition for q=3 and q=4 and a continuous phase transition for q=2 (the two-dimensional quantum transverse Ising model).

  6. Technical Review of the UNET2D Hydraulic Model

    SciTech Connect

    Perkins, William A.; Richmond, Marshall C.

    2009-05-18

    The Kansas City District of the US Army Corps of Engineers is engaged in a broad range of river management projects that require knowledge of spatially-varied hydraulic conditions such as velocities and water surface elevations. This information is needed to design new structures, improve existing operations, and assess aquatic habitat. Two-dimensional (2D) depth-averaged numerical hydraulic models are a common tool that can be used to provide velocity and depth information. Kansas City District is currently using a specific 2D model, UNET2D, that has been developed to meet the needs of their river engineering applications. This report documents a tech- nical review of UNET2D.

  7. 2D microscopic model of graphene fracture properties

    NASA Astrophysics Data System (ADS)

    Hess, Peter

    2015-05-01

    An analytical two-dimensional (2D) microscopic fracture model based on Morse-type interaction is derived containing no adjustable parameter. From the 2D Young’s moduli and 2D intrinsic strengths of graphene measured by nanoindentation based on biaxial tension and calculated by density functional theory for uniaxial tension the widely unknown breaking force, line or edge energy, surface energy, fracture toughness, and strain energy release rate were determined. The simulated line energy agrees well with ab initio calculations and the fracture toughness of perfect graphene sheets is in good agreement with molecular dynamics simulations and the fracture toughness evaluated for defective graphene using the Griffith relation. Similarly, the estimated critical strain energy release rate agrees well with result of various theoretical approaches based on the J-integral and surface energy. The 2D microscopic model, connecting 2D and three-dimensional mechanical properties in a consistent way, provides a versatile relationship to easily access all relevant fracture properties of pristine 2D solids.

  8. An Intercomparison of 2-D Models Within a Common Framework

    NASA Technical Reports Server (NTRS)

    Weisenstein, Debra K.; Ko, Malcolm K. W.; Scott, Courtney J.; Jackman, Charles H.; Fleming, Eric L.; Considine, David B.; Kinnison, Douglas E.; Connell, Peter S.; Rotman, Douglas A.; Bhartia, P. K. (Technical Monitor)

    2002-01-01

    A model intercomparison among the Atmospheric and Environmental Research (AER) 2-D model, the Goddard Space Flight Center (GSFC) 2-D model, and the Lawrence Livermore National Laboratory 2-D model allows us to separate differences due to model transport from those due to the model's chemical formulation. This is accomplished by constructing two hybrid models incorporating the transport parameters of the GSFC and LLNL models within the AER model framework. By comparing the results from the native models (AER and e.g. GSFC) with those from the hybrid model (e.g. AER chemistry with GSFC transport), differences due to chemistry and transport can be identified. For the analysis, we examined an inert tracer whose emission pattern is based on emission from a High Speed Civil Transport (HSCT) fleet; distributions of trace species in the 2015 atmosphere; and the response of stratospheric ozone to an HSCT fleet. Differences in NO(y) in the upper stratosphere are found between models with identical transport, implying different model representations of atmospheric chemical processes. The response of O3 concentration to HSCT aircraft emissions differs in the models from both transport-dominated differences in the HSCT-induced perturbations of H2O and NO(y) as well as from differences in the model represent at ions of O3 chemical processes. The model formulations of cold polar processes are found to be the most significant factor in creating large differences in the calculated ozone perturbations

  9. Quasi-Long-Range Order and Vortex Lattice in the Three-State Potts Model.

    PubMed

    Bhattacharya, Soumyadeep; Ray, Purusattam

    2016-03-04

    We show that the order-disorder phase transition in the three-state Potts ferromagnet on a square lattice is driven by a coupled proliferation of domain walls and vortices. Raising the vortex core energy above a threshold value decouples the proliferation and splits the transition into two. The phase between the two transitions exhibits an emergent U(1) symmetry and quasi-long-range order. Lowering the core energy below a threshold value also splits the order-disorder transition but the system forms a vortex lattice in the intermediate phase.

  10. Distribution of domain sizes in the zero temperature Glauber dynamics of the one-dimensional Potts model

    NASA Astrophysics Data System (ADS)

    Derrida, Bernard; Zeitak, Reuven

    1996-09-01

    For the zero temperature Glauber dynamics of the q-state Potts model, we calculate the exact distribution of domain sizes by mapping the problem on an exactly soluble one-species coagulation model (A+A-->A). In the long time limit, this distribution is universal and, from its (complicated) exact expression, we extract its behavior in various regimes. Our results are tested in a simulation and compared to the predictions of a simple approximation proposed recently. Considering the dynamics of domain walls as a reaction-diffusion model A+A-->A with probability (q-2)/(q-1) and A+A-->θ with probability 1/(q-1), we calculate the pair correlation function in the long time regime.

  11. Superstable cycles for antiferromagnetic Q-state Potts and three-site interaction Ising models on recursive lattices

    NASA Astrophysics Data System (ADS)

    Ananikian, N.; Artuso, R.; Chakhmakhchyan, L.

    2014-10-01

    We consider the superstable cycles of the Q-state Potts (QSP) and the three-site interaction antiferromagnetic Ising (TSAI) models on recursive lattices. The rational mappings describing the models’ statistical properties are obtained via the recurrence relation technique. We provide analytical solutions for the superstable cycles of the second order for both models. A particular attention is devoted to the period three window. Here we present an exact result for the third order superstable orbit for the QSP and a numerical solution for the TSAI model. Additionally, we point out a non-trivial connection between bifurcations and superstability: in some regions of parameters a superstable cycle is not followed by a doubling bifurcation. Furthermore, we use symbolic dynamics to understand the changes taking place at points of superstability and to distinguish areas between two consecutive superstable orbits.

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

    PubMed

    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 .

  13. Studying Zeolite Catalysts with a 2D Model System

    ScienceCinema

    Boscoboinik, Anibal

    2016-12-14

    Anibal Boscoboinik, a materials scientist at Brookhaven’s Center for Functional Nanomaterials, discusses the surface-science tools and 2D model system he uses to study catalysis in nanoporous zeolites, which catalyze reactions in many industrial processes.

  14. Consistency between 2D-3D Sediment Transport models

    NASA Astrophysics Data System (ADS)

    Villaret, Catherine; Jodeau, Magali

    2017-04-01

    Sediment transport models have been developed and applied by the engineering community to estimate transport rates and morphodynamic bed evolutions in river flows, coastal and estuarine conditions. Environmental modelling systems like the open-source Telemac modelling system include a hierarchy of models from 1D (Mascaret), 2D (Telemac-2D/Sisyphe) and 3D (Telemac-3D/Sedi-3D) and include a wide range of processes to represent sediment flow interactions under more and more complex situations (cohesive, non-cohesive and mixed sediment). Despite some tremendous progresses in the numerical techniques and computing resources, the quality/accuracy of model results mainly depend on the numerous choices and skills of the modeler. In complex situations involving stratification effects, complex geometry, recirculating flows… 2D model assumptions are no longer valid. A full 3D turbulent flow model is then required in order to capture the vertical mixing processes and to represent accurately the coupled flow/sediment distribution. However a number of theoretical and numerical difficulties arise when dealing with sediment transport modelling in 3D which will be high-lighted : (1) Dependency of model results to the vertical grid refinement and choice of boundary conditions and numerical scheme (2) The choice of turbulence model determines also the sediment vertical distribution which is governed by a balance between the downward settling term and upward turbulent diffusion. (3) The use of different numerical schemes for both hydrodynamics (mean and turbulent flow) and sediment transport modelling can lead to some inconsistency including a mismatch in the definition of numerical cells and definition of boundary conditions. We discuss here those present issues and present some detailed comparison between 2D and 3D simulations on a set of validation test cases which are available in the Telemac 7.2 release using both cohesive and non-cohesive sediments.

  15. Joint NDT image restoration and segmentation using Gauss-Markov-Potts prior models and variational Bayesian computation.

    PubMed

    Ayasso, Hacheme; Mohammad-Djafari, Ali

    2010-09-01

    In this paper, we propose a method to simultaneously restore and to segment piecewise homogeneous images degraded by a known point spread function (PSF) and additive noise. For this purpose, we propose a family of nonhomogeneous Gauss-Markov fields with Potts region labels model for images to be used in a Bayesian estimation framework. The joint posterior law of all the unknowns (the unknown image, its segmentation (hidden variable) and all the hyperparameters) is approximated by a separable probability law via the variational Bayes technique. This approximation gives the possibility to obtain practically implemented joint restoration and segmentation algorithm. We will present some preliminary results and comparison with a MCMC Gibbs sampling based algorithm. We may note that the prior models proposed in this work are particularly appropriate for the images of the scenes or objects that are composed of a finite set of homogeneous materials. This is the case of many images obtained in nondestructive testing (NDT) applications.

  16. Preliminary 2D numerical modeling of common granular problems

    NASA Astrophysics Data System (ADS)

    Wyser, Emmanuel; Jaboyedoff, Michel

    2017-04-01

    Granular studies received an increasing interest during the last decade. Many scientific investigations were successfully addressed to acknowledge the ubiquitous behavior of granular matter. We investigate liquid impacts onto granular beds, i.e. the influence of the packing and compaction-dilation transition. However, a physically-based model is still lacking to address complex microscopic features of granular bed response during liquid impacts such as compaction-dilation transition or granular bed uplifts (Wyser et al. in review). We present our preliminary 2D numerical modeling based on the Discrete Element Method (DEM) using nonlinear contact force law (the Hertz-Mindlin model) for disk shape particles. The algorithm is written in C programming language. Our 2D model provides an analytical tool to address granular problems such as i) granular collapses and ii) static granular assembliy problems. This provides a validation framework of our numerical approach by comparing our numerical results with previous laboratory experiments or numerical works. Inspired by the work of Warnett et al. (2014) and Staron & Hinch (2005), we studied i) the axisymetric collapse of granular columns. We addressed the scaling between the initial aspect ratio and the final runout distance. Our numerical results are in good aggreement with the previous studies of Warnett et al. (2014) and Staron & Hinch (2005). ii) Reproducing static problems for regular and randomly stacked particles provides a valid comparison to results of Egholm (2007). Vertical and horizontal stresses within the assembly are quite identical to stresses obtained by Egholm (2007), thus demonstating the consistency of our 2D numerical model. Our 2D numerical model is able to reproduce common granular case studies such as granular collapses or static problems. However, a sufficient small timestep should be used to ensure a good numerical consistency, resulting in higher computational time. The latter becomes critical

  17. Gold-standard performance for 2D hydrodynamic modeling

    NASA Astrophysics Data System (ADS)

    Pasternack, G. B.; MacVicar, B. J.

    2013-12-01

    Two-dimensional, depth-averaged hydrodynamic (2D) models are emerging as an increasingly useful tool for environmental water resources engineering. One of the remaining technical hurdles to the wider adoption and acceptance of 2D modeling is the lack of standards for 2D model performance evaluation when the riverbed undulates, causing lateral flow divergence and convergence. The goal of this study was to establish a gold-standard that quantifies the upper limit of model performance for 2D models of undulating riverbeds when topography is perfectly known and surface roughness is well constrained. A review was conducted of published model performance metrics and the value ranges exhibited by models thus far for each one. Typically predicted velocity differs from observed by 20 to 30 % and the coefficient of determination between the two ranges from 0.5 to 0.8, though there tends to be a bias toward overpredicting low velocity and underpredicting high velocity. To establish a gold standard as to the best performance possible for a 2D model of an undulating bed, two straight, rectangular-walled flume experiments were done with no bed slope and only different bed undulations and water surface slopes. One flume tested model performance in the presence of a porous, homogenous gravel bed with a long flat section, then a linear slope down to a flat pool bottom, and then the same linear slope back up to the flat bed. The other flume had a PVC plastic solid bed with a long flat section followed by a sequence of five identical riffle-pool pairs in close proximity, so it tested model performance given frequent undulations. Detailed water surface elevation and velocity measurements were made for both flumes. Comparing predicted versus observed velocity magnitude for 3 discharges with the gravel-bed flume and 1 discharge for the PVC-bed flume, the coefficient of determination ranged from 0.952 to 0.987 and the slope for the regression line was 0.957 to 1.02. Unsigned velocity

  18. Instantons in 2D U(1) Higgs model and 2D CP(N-1) sigma models

    NASA Astrophysics Data System (ADS)

    Lian, Yaogang

    2007-12-01

    In this thesis I present the results of a study of the topological structures of 2D U(1) Higgs model and 2D CP N-1 sigma models. Both models have been studied using the overlap Dirac operator construction of topological charge density. The overlap operator provides a more incisive probe into the local topological structure of gauge field configurations than the traditional plaquette-based operator. In the 2D U(1) Higgs model, we show that classical instantons with finite sizes violate the negativity of topological charge correlator by giving a positive contribution to the correlator at non-zero separation. We argue that instantons in 2D U(1) Higgs model must be accompanied by large quantum fluctuations in order to solve this contradiction. In 2D CPN-1 sigma models, we observe the anomalous scaling behavior of the topological susceptibility chi t for N ≤ 3. The divergence of chi t in these models is traced to the presence of small instantons with a radius of order a (= lattice spacing), which are directly observed on the lattice. The observation of these small instantons provides detailed confirmation of Luscher's argument that such short-distance excitations, with quantized topological charge, should be the dominant topological fluctuations in CP1 and CP 2, leading to a divergent topological susceptibility in the continuum limit. For the CPN-1 models with N > 3 the topological susceptibility is observed to scale properly with the mass gap. Another topic presented in this thesis is an implementation of the Zolotarev optimal rational approximation for the overlap Dirac operator. This new implementation has reduced the time complexity of the overlap routine from O(N3 ) to O(N), where N is the total number of sites on the lattice. This opens up a door to more accurate lattice measurements in the future.

  19. 2-D Magnetohydrodynamic Modeling of A Pulsed Plasma Thruster

    NASA Technical Reports Server (NTRS)

    Thio, Y. C. Francis; Cassibry, J. T.; Wu, S. T.; Rodgers, Stephen L. (Technical Monitor)

    2002-01-01

    Experiments are being performed on the NASA Marshall Space Flight Center (MSFC) MK-1 pulsed plasma thruster. Data produced from the experiments provide an opportunity to further understand the plasma dynamics in these thrusters via detailed computational modeling. The detailed and accurate understanding of the plasma dynamics in these devices holds the key towards extending their capabilities in a number of applications, including their applications as high power (greater than 1 MW) thrusters, and their use for producing high-velocity, uniform plasma jets for experimental purposes. For this study, the 2-D MHD modeling code, MACH2, is used to provide detailed interpretation of the experimental data. At the same time, a 0-D physics model of the plasma initial phase is developed to guide our 2-D modeling studies.

  20. Transfer Matrices and Partition-Function Zeros for Antiferromagnetic Potts Models VI. Square Lattice with Extra-Vertex Boundary Conditions

    NASA Astrophysics Data System (ADS)

    Salas, Jesús; Sokal, Alan D.

    2011-09-01

    We study, using transfer-matrix methods, the partition-function zeros of the square-lattice q-state Potts antiferromagnet at zero temperature (= square-lattice chromatic polynomial) for the boundary conditions that are obtained from an m× n grid with free boundary conditions by adjoining one new vertex adjacent to all the sites in the leftmost column and a second new vertex adjacent to all the sites in the rightmost column. We provide numerical evidence that the partition-function zeros are becoming dense everywhere in the complex q-plane outside the limiting curve {B}_{infty}(sq) for this model with ordinary (e.g. free or cylindrical) boundary conditions. Despite this, the infinite-volume free energy is perfectly analytic in this region.

  1. Flow transitions in a 2D directional solidification model

    NASA Technical Reports Server (NTRS)

    Larroude, Philippe; Ouazzani, Jalil; Alexander, J. Iwan D.

    1992-01-01

    Flow transitions in a Two Dimensional (2D) model of crystal growth were examined using the Bridgman-Stockbarger me thod. Using a pseudo-spectral Chebyshev collocation method, the governing equations yield solutions which exhibit a symmetry breaking flow tansition and oscillatory behavior indicative of a Hopf bifurcation at higher values of Ra. The results are discussed from fluid dynamic viewpoint, and broader implications for process models are also addressed.

  2. Numerical modelling of spallation in 2D hydrodynamics codes

    NASA Astrophysics Data System (ADS)

    Maw, J. R.; Giles, A. R.

    1996-05-01

    A model for spallation based on the void growth model of Johnson has been implemented in 2D Lagrangian and Eulerian hydrocodes. The model has been extended to treat complete separation of material when voids coalesce and to describe the effects of elevated temperatures and melting. The capabilities of the model are illustrated by comparison with data from explosively generated spall experiments. Particular emphasis is placed on the prediction of multiple spall effects in weak, low melting point, materials such as lead. The correlation between the model predictions and observations on the strain rate dependence of spall strength is discussed.

  3. NGMIX: Gaussian mixture models for 2D images

    NASA Astrophysics Data System (ADS)

    Sheldon, Erin

    2015-08-01

    NGMIX implements Gaussian mixture models for 2D images. Both the PSF profile and the galaxy are modeled using mixtures of Gaussians. Convolutions are thus performed analytically, resulting in fast model generation as compared to methods that perform the convolution in Fourier space. For the galaxy model, NGMIX supports exponential disks and de Vaucouleurs and Sérsic profiles; these are implemented approximately as a sum of Gaussians using the fits from Hogg & Lang (2013). Additionally, any number of Gaussians can be fit, either completely free or constrained to be cocentric and co-elliptical.

  4. Numerical 2D-modeling of multiroll leveling

    NASA Astrophysics Data System (ADS)

    Mathieu, N.; Potier-Ferry, M.; Zahrouni, H.

    2016-10-01

    Multiroll leveling is a forming process used in the metals industries (aluminum, steel, …) in order to correct flatness defects and minimize residual stresses in strips thanks to alternating bending. This work proposes a Finite Element 2D model to simulate the metal sheet conveying through the machine. Obtained results (plastic strain and residual stress distributions through thickness) are analysed. Strip deformation, after elastic springback and potential buckling, is also predicted (residual curvatures).

  5. Influence of Elevation Data Source on 2D Hydraulic Modelling

    NASA Astrophysics Data System (ADS)

    Bakuła, Krzysztof; StĘpnik, Mateusz; Kurczyński, Zdzisław

    2016-08-01

    The aim of this paper is to analyse the influence of the source of various elevation data on hydraulic modelling in open channels. In the research, digital terrain models from different datasets were evaluated and used in two-dimensional hydraulic models. The following aerial and satellite elevation data were used to create the representation of terrain-digital terrain model: airborne laser scanning, image matching, elevation data collected in the LPIS, EuroDEM, and ASTER GDEM. From the results of five 2D hydrodynamic models with different input elevation data, the maximum depth and flow velocity of water were derived and compared with the results of the most accurate ALS data. For such an analysis a statistical evaluation and differences between hydraulic modelling results were prepared. The presented research proved the importance of the quality of elevation data in hydraulic modelling and showed that only ALS and photogrammetric data can be the most reliable elevation data source in accurate 2D hydraulic modelling.

  6. Fracture surfaces of heterogeneous materials: A 2D solvable model

    NASA Astrophysics Data System (ADS)

    Katzav, E.; Adda-Bedia, M.; Derrida, B.

    2007-05-01

    Using an elastostatic description of crack growth based on the Griffith criterion and the principle of local symmetry, we present a stochastic model describing the propagation of a crack tip in a 2D heterogeneous brittle material. The model ensures the stability of straight cracks and allows for the study of the roughening of fracture surfaces. When neglecting the effect of the nonsingular stress, the problem becomes exactly solvable and yields analytic predictions for the power spectrum of the paths. This result suggests an alternative to the conventional power law analysis often used in the analysis of experimental data.

  7. Unitary matrix models and 2D quantum gravity

    SciTech Connect

    Dalley, S. . Joseph Henry Labs.); Johnson, C.V.; Morris, T.R. . Dept. of Physics); Watterstam, A. )

    1992-09-21

    In this paper the KdV and modified KdV integrable hierarchies are shown to be different descriptions of the same 2D gravitational system - open-closed string theory. Non-perturbative solutions of the multicritical unitary matrix models map to non-singular solutions of the renormalization group equation for the string susceptibility, [P, Q] = Q. The authors also demonstrate that the large-N solutions of unitary matrix integrals in external fields, studied by Gross and Newman, equal the non-singular pure closed-string solutions of [[bar P], Q] = Q.

  8. Critical behavior of the ferromagnetic q -state Potts model in fractal dimensions: Monte Carlo simulations on Sierpinski and Menger fractal structures

    NASA Astrophysics Data System (ADS)

    Monceau, Pascal

    2006-09-01

    The extension of the phase diagram of the q -state Potts model to noninteger dimension is investigated by means of Monte Carlo simulations on Sierpinski and Menger fractal structures. Both multicanonical and canonical simulations have been carried out with the help of the Wang-Landau and the Wolff cluster algorithms. Lower bounds are provided for the critical values qc of q where a first-order transition is expected in the cases of two structures whose fractal dimension is smaller than 2: The transitions associated with the seven-state and ten-state Potts models on Sierpinski carpets with fractal dimensions df≃1.8928 and df≃1.7925 , respectively, are shown to be second-order ones, the renormalization eigenvalue exponents yh are calculated, and bounds are provided for the renormalization eigenvalue exponents yt and the critical temperatures. Moreover, the results suggest that second-order transitions are expected to occur for very large values of q when the fractal dimension is lowered below 2—that is, in the case of hierarchically weakly connected systems with an infinite ramification order. At last, the transition associated with the four-state Potts model on a fractal structure with a dimension df≃2.631 is shown to be a weakly first-order one.

  9. Nucleation in a Potts lattice gas model of crystallization from solution

    NASA Astrophysics Data System (ADS)

    Duff, Nathan; Peters, Baron

    2009-11-01

    Nucleation from solution is important in many pharmaceutical crystallization, biomineralization, material synthesis, and self-assembly processes. Simulation methodology has progressed rapidly for studies of nucleation in pure component and implicit solvent systems; however little progress has been made in the simulation of explicit solvent systems. The impasse stems from the inability of rare events simulation methodology to be combined with simulation techniques which maintain a constant chemical potential driving force (supersaturation) for nucleation. We present a Potts lattice gas (PLG) to aid in the development of new simulation strategies for nucleation from solution. The PLG captures common crystallization phase diagram features such as a eutectic point and solute/solvent melting points. Simulations of the PLG below the bulk solute melting temperature reveal a competition between amorphous and crystalline nuclei. As the temperature is increased toward the bulk melting temperature, the nucleation pathway changes from a one step crystalline nucleation pathway to a two step pathway, where an amorphous nucleus forms and then crystallizes. We explain these results in terms of classical nucleation theory with different size-dependant chemical potentials for the amorphous and crystalline nucleation pathways. The two step pathway may be particularly important when crystallization is favored only at postcritical sizes.

  10. Nucleation in a Potts lattice gas model of crystallization from solution.

    PubMed

    Duff, Nathan; Peters, Baron

    2009-11-14

    Nucleation from solution is important in many pharmaceutical crystallization, biomineralization, material synthesis, and self-assembly processes. Simulation methodology has progressed rapidly for studies of nucleation in pure component and implicit solvent systems; however little progress has been made in the simulation of explicit solvent systems. The impasse stems from the inability of rare events simulation methodology to be combined with simulation techniques which maintain a constant chemical potential driving force (supersaturation) for nucleation. We present a Potts lattice gas (PLG) to aid in the development of new simulation strategies for nucleation from solution. The PLG captures common crystallization phase diagram features such as a eutectic point and solute/solvent melting points. Simulations of the PLG below the bulk solute melting temperature reveal a competition between amorphous and crystalline nuclei. As the temperature is increased toward the bulk melting temperature, the nucleation pathway changes from a one step crystalline nucleation pathway to a two step pathway, where an amorphous nucleus forms and then crystallizes. We explain these results in terms of classical nucleation theory with different size-dependant chemical potentials for the amorphous and crystalline nucleation pathways. The two step pathway may be particularly important when crystallization is favored only at postcritical sizes.

  11. 2D Quantum Transport Modeling in Nanoscale MOSFETs

    NASA Technical Reports Server (NTRS)

    Svizhenko, Alexei; Anantram, M. P.; Govindan, T. R.; Biegel, B.

    2001-01-01

    We have developed physical approximations and computer code capable of realistically simulating 2-D nanoscale transistors, using the non-equilibrium Green's function (NEGF) method. This is the most accurate full quantum model yet applied to 2-D device simulation. Open boundary conditions, oxide tunneling and phase-breaking scattering are treated on an equal footing. Electron bandstructure is treated within the anisotropic effective mass approximation. We present the results of our simulations of MIT 25 and 90 nm "well-tempered" MOSFETs and compare them to those of classical and quantum corrected models. The important feature of quantum model is smaller slope of Id-Vg curve and consequently higher threshold voltage. These results are consistent with 1D Schroedinger-Poisson calculations. The effect of gate length on gate-oxide leakage and subthreshold current has been studied. The shorter gate length device has an order of magnitude smaller leakage current than the longer gate length device without a significant trade-off in on-current.

  12. 2D Quantum Transport Modeling in Nanoscale MOSFETs

    NASA Technical Reports Server (NTRS)

    Svizhenko, Alexei; Anantram, M. P.; Govindan, T. R.; Biegel, B.

    2001-01-01

    We have developed physical approximations and computer code capable of realistically simulating 2-D nanoscale transistors, using the non-equilibrium Green's function (NEGF) method. This is the most accurate full quantum model yet applied to 2-D device simulation. Open boundary conditions, oxide tunneling and phase-breaking scattering are treated on an equal footing. Electron bandstructure is treated within the anisotropic effective mass approximation. We present the results of our simulations of MIT 25 and 90 nm "well-tempered" MOSFETs and compare them to those of classical and quantum corrected models. The important feature of quantum model is smaller slope of Id-Vg curve and consequently higher threshold voltage. These results are consistent with 1D Schroedinger-Poisson calculations. The effect of gate length on gate-oxide leakage and subthreshold current has been studied. The shorter gate length device has an order of magnitude smaller leakage current than the longer gate length device without a significant trade-off in on-current.

  13. Spectrum of superintegrable chiral Potts model and L(sl2) symmetry in associated XXZ-type spin chain

    NASA Astrophysics Data System (ADS)

    Nishino, Akinori; Deguchi, Tetsuo

    2006-03-01

    We study the correspondence between the Ising-like spectra of superintegrable N-state chiral Potts (SCP) model [1,2] and the energy degenerate subspaces of XXZ-type spin chain, called nilpotent Bazhanov-Stroganov (NBS) model [3], whose transfer matrix commutes with the SCP transfer matrix. We show that, if the number of sites is a multiple of N, the NBS model has a loop algebra L(sl2) symmetry in the subspace with ZN-charge Q=0. Applying the approach [4] to the case, we obtain the dimension of L(sl2)-degenerate subspaces through the calculation of Drinfeld polynomials. The Drinfeld polynomials are in fact identified with Baxter's polynomials [2] characterizing the SCP's Ising-like spectra, which shows that each subspace with the Ising-like spectra have the same dimension as the corresponding L(sl2)-degenerate subspace of NBS model. [1] G. Albertini, B. M. McCoy, J. H. H. Perk and S. Tang, Nucl. Phys. B 314 (1989) 741. [2] R. J. Baxter, J. Statist. Phys. 57 (1989) 1. [3] V. V. Bazhanov and Yu. G. Stroganov, J. Statist. Phys. 59 (1990) 803. [4] T. Deguchi, cond-mat/0503564.

  14. Drumhead model of 2D wetting, filling and wedge covariance

    NASA Astrophysics Data System (ADS)

    Abraham, D. B.; Parry, A. O.; Wood, A. J.

    2002-10-01

    Recent work has demonstrated novel fluid interfacial behaviour occurring at filling or wedge-wetting transitions in two- and three-dimensional systems. In particular, in two dimensions (2D) studies of filling in shallow wedges, for both pure and impure systems, reveal simple covariance relations which relate criticality at filling to strong-fluctuation regime wetting and restrict the allowed critical singularities. Here we introduce a drumhead interfacial model of filling in acute wedges which can be adapted to include an orientation-dependent surface tension. We calculate the excess wedge free energy and scaling form of the mid-point height probability distribution function (PDF) and demonstrate that the covariance relations are the same as found in the shallow wedge approximation. Connections with exact Ising model results and a bubble model interpretation of the interfacial height PDF at wetting are made.

  15. Model dielectric function for 2D semiconductors including substrate screening

    PubMed Central

    Trolle, Mads L.; Pedersen, Thomas G.; Véniard, Valerie

    2017-01-01

    Dielectric screening of excitons in 2D semiconductors is known to be a highly non-local effect, which in reciprocal space translates to a strong dependence on momentum transfer q. We present an analytical model dielectric function, including the full non-linear q-dependency, which may be used as an alternative to more numerically taxing ab initio screening functions. By verifying the good agreement between excitonic optical properties calculated using our model dielectric function, and those derived from ab initio methods, we demonstrate the versatility of this approach. Our test systems include: Monolayer hBN, monolayer MoS2, and the surface exciton of a 2 × 1 reconstructed Si(111) surface. Additionally, using our model, we easily take substrate screening effects into account. Hence, we include also a systematic study of the effects of substrate media on the excitonic optical properties of MoS2 and hBN. PMID:28117326

  16. 2D Numerical MHD Models of Solar Explosive Events

    NASA Astrophysics Data System (ADS)

    Roussev, I.

    2001-10-01

    Observations of the Sun reveal a great variety of dynamic phenomena interpretable as a manifestation of magnetic reconnection. These range from small-scale 'Explosive events' seen in the 'quiet' Sun, through violent flares observed in active regions. The high degree of complexity of the magnetic field inferred from observations may locally produce a fruitful environment for the process of magnetic reconnection to take place. Explosive events are associated with regions undergoing magnetic flux cancellation. This thesis presents a 2-dimensional (2D) numerical study devoted to explore the idea that the salient spectral signatures seen in explosive events are most probably caused by bi-directional outflow jets as a results of an ongoing magnetic reconnection. In order to provide qualitative results needed for the better physical interpretation of solar explosive events, several models intended to represent a 'quiet' Sun transition of solar explosive events, several models intended to represent a 'quiet' Sun transition region undergoing magnetic reconnection are examined, in both unstratified and gravitationally stratified atmospheres. The magnetic reconnection is initiated in an ad hoc manner, and the dynamic evolution is followed by numerically solving the equations of 2D dissipative magnetohydrodynamics (MHD), including the effects of field-aligned thermal conduction, radiative losses, volumetric heating, and anomalous resistivity.

  17. Nonequilibrium critical relaxation of the order parameter and energy in the two-dimensional ferromagnetic Potts model.

    PubMed

    Nam, Keekwon; Kim, Bongsoo; Lee, Sung Jong

    2008-05-01

    The static and dynamic critical properties of the ferromagnetic q -state Potts models on a square lattice with q=2 and 3 are numerically studied via the nonequilibrium relaxation method. The relaxation behavior of both the order parameter and energy as well as that of the second moments are investigated, from which static and dynamic critical exponents can be obtained. We find that the static exponents thus obtained from the relaxation of the order parameter and energy together with the second moments of the order parameter exhibit a close agreement with the exact exponents, especially for the case of the q=2 (Ising) model, when care is taken in the choice of the initial states for the relaxation of the second moments. As for the case of q=3 , the estimates for the static exponents become less accurate, but still exhibit reasonable agreement with the exactly known static exponents. The dynamic critical exponent for the q=2 (Ising) model is estimated from the relaxation of the second moments of the order parameter with mixed initial conditions to give z(q=2) approximately 2.1668(19) .

  18. Coarse-grained Monte Carlo simulations of the phase transition of the Potts model on weighted networks.

    PubMed

    Shen, Chuansheng; Chen, Hanshuang; Hou, Zhonghuai; Xin, Houwen

    2011-06-01

    Developing an effective coarse-grained (CG) approach is a promising way for studying dynamics on large size networks. In the present work, we have proposed a strength-based CG (s-CG) method to study critical phenomena of the Potts model on weighted complex networks. By merging nodes with close strengths together, the original network is reduced to a CG network with much smaller size, on which the CG Hamiltonian can be well defined. In particular, we make an error analysis and show that our s-CG approach satisfies the condition of statistical consistency, which demands that the equilibrium probability distribution of the CG model matches that of the microscopic counterpart. Extensive numerical simulations are performed on scale-free networks and random networks, without or with strength correlation, showing that this s-CG approach works very well in reproducing the phase diagrams, fluctuations, and finite-size effects of the microscopic model, while the d-CG approach proposed in our recent work [Phys. Rev. E 82, 011107 (2010)] does not.

  19. Investigation of the influence of quenched nonmagnetic impurities on phase transitions in the three-dimensional Potts model

    NASA Astrophysics Data System (ADS)

    Murtazaev, A. K.; Babaev, A. B.; Aznaurova, G. Ya.

    2008-04-01

    The influence of quenched nonmagnetic impurities on phase transitions in the three-dimensional Potts model with the number of spin states q = 3 is investigated using the Wolff single-cluster algorithm of the Monte Carlo method. The systems with linear sizes L = 20-44 at the spin concentrations p = 1.0, 0.9, 0.8, and 0.7 are analyzed. It is demonstrated with the use of the method of fourth-order Binder cumulants that the second-order phase transition occurs in the model under consideration at the spin concentrations p = 0.9, 0.8, and 0.7 and that the first-order phase transition is observed in the pure model ( p = 1.0). The static critical exponents α (heat capacity), γ (susceptibility), β (magnetization), and ν (correlation length) are calculated in the framework of the finite-size scaling theory. The problem regarding the universality classes of the critical behavior of weakly diluted systems is discussed.

  20. Ground-state energy of the q-state Potts model: The minimum modularity.

    PubMed

    Lee, J S; Hwang, S; Yeo, J; Kim, D; Kahng, B

    2014-11-01

    A wide range of interacting systems can be described by complex networks. A common feature of such networks is that they consist of several communities or modules, the degree of which may quantified as the modularity. However, even a random uncorrelated network, which has no obvious modular structure, has a finite modularity due to the quenched disorder. For this reason, the modularity of a given network is meaningful only when it is compared with that of a randomized network with the same degree distribution. In this context, it is important to calculate the modularity of a random uncorrelated network with an arbitrary degree distribution. The modularity of a random network has been calculated [Reichardt and Bornholdt, Phys. Rev. E 76, 015102 (2007)PLEEE81539-375510.1103/PhysRevE.76.015102]; however, this was limited to the case whereby the network was assumed to have only two communities, and it is evident that the modularity should be calculated in general with q(≥2) communities. Here we calculate the modularity for q communities by evaluating the ground-state energy of the q-state Potts Hamiltonian, based on replica symmetric solutions assuming that the mean degree is large. We found that the modularity is proportional to 〈sqrt[k]〉/〈k〉 regardless of q and that only the coefficient depends on q. In particular, when the degree distribution follows a power law, the modularity is proportional to 〈k〉^{-1/2}. Our analytical results are confirmed by comparison with numerical simulations. Therefore, our results can be used as reference values for real-world networks.

  1. Mass loss in 2D rotating stellar models

    SciTech Connect

    Lovekin, Caterine; Deupree, Bob

    2010-10-05

    Radiatively driven mass loss is an important factor in the evolution of massive stars . The mass loss rates depend on a number of stellar parameters, including the effective temperature and luminosity. Massive stars are also often rapidly rotating, which affects their structure and evolution. In sufficiently rapidly rotating stars, both the effective temperature and radius vary significantly as a function of latitude, and hence mass loss rates can vary appreciably between the poles and the equator. In this work, we discuss the addition of mass loss to a 2D stellar evolution code (ROTORC) and compare evolution sequences with and without mass loss. Preliminary results indicate that a full 2D calculation of mass loss using the local effective temperature and luminosity can significantly affect the distribution of mass loss in rotating main sequence stars. More mass is lost from the pole than predicted by 1D models, while less mass is lost at the equator. This change in the distribution of mass loss will affect the angular momentum loss, the surface temperature and luminosity, and even the interior structure of the star. After a single mass loss event, these effects are small, but can be expected to accumulate over the course of the main sequence evolution.

  2. Predicting abnormal pressure from 2-D seismic velocity modeling

    SciTech Connect

    Grauls, D.; Dunand, J.P.; Beaufort, D.

    1995-12-01

    Seismic velocities are the only data available, before drilling, on which to base a quantitative, present-day estimate of abnormal pressure. Recent advances in seismic velocity processing have enabled them to obtain, using an in-house approach, an optimized 2-D interval velocity field and consequently to better define the lateral extension of pressure regimes. The methodology, interpretation and quantification of overpressure-related anomalies are supported by case studies, selected in sand-shale dominated Tertiary basins, offshore West Africa. Another advantage of this approach is that it can also account for the presence of reservoir-potential intervals at great depth and thus provide significant insight, from a prospective standpoint, into very poorly explored areas. Although at the outset the 2-D seismic tool legitimately merits being favored, optimization of the final predictive pressure model, prior to drilling, will depend upon the success of its combined use with other concepts and approaches, pertaining to structural geology, sedimentology, rock mechanics and fluid dynamics.

  3. 2D Quantum Transport Modeling in Nanoscale MOSFETs

    NASA Technical Reports Server (NTRS)

    Svizhenko, Alexei; Anantram, M. P.; Govindan, T. R.; Biegel, Bryan

    2001-01-01

    With the onset of quantum confinement in the inversion layer in nanoscale MOSFETs, behavior of the resonant level inevitably determines all device characteristics. While most classical device simulators take quantization into account in some simplified manner, the important details of electrostatics are missing. Our work addresses this shortcoming and provides: (a) a framework to quantitatively explore device physics issues such as the source-drain and gate leakage currents, DIBL, and threshold voltage shift due to quantization, and b) a means of benchmarking quantum corrections to semiclassical models (such as density- gradient and quantum-corrected MEDICI). We have developed physical approximations and computer code capable of realistically simulating 2-D nanoscale transistors, using the non-equilibrium Green's function (NEGF) method. This is the most accurate full quantum model yet applied to 2-D device simulation. Open boundary conditions, oxide tunneling and phase-breaking scattering are treated on equal footing. Electrons in the ellipsoids of the conduction band are treated within the anisotropic effective mass approximation. Quantum simulations are focused on MIT 25, 50 and 90 nm "well- tempered" MOSFETs and compared to classical and quantum corrected models. The important feature of quantum model is smaller slope of Id-Vg curve and consequently higher threshold voltage. These results are quantitatively consistent with I D Schroedinger-Poisson calculations. The effect of gate length on gate-oxide leakage and sub-threshold current has been studied. The shorter gate length device has an order of magnitude smaller current at zero gate bias than the longer gate length device without a significant trade-off in on-current. This should be a device design consideration.

  4. 2D Quantum Transport Modeling in Nanoscale MOSFETs

    NASA Technical Reports Server (NTRS)

    Svizhenko, Alexei; Anantram, M. P.; Govindan, T. R.; Biegel, Bryan

    2001-01-01

    With the onset of quantum confinement in the inversion layer in nanoscale MOSFETs, behavior of the resonant level inevitably determines all device characteristics. While most classical device simulators take quantization into account in some simplified manner, the important details of electrostatics are missing. Our work addresses this shortcoming and provides: (a) a framework to quantitatively explore device physics issues such as the source-drain and gate leakage currents, DIBL, and threshold voltage shift due to quantization, and b) a means of benchmarking quantum corrections to semiclassical models (such as density- gradient and quantum-corrected MEDICI). We have developed physical approximations and computer code capable of realistically simulating 2-D nanoscale transistors, using the non-equilibrium Green's function (NEGF) method. This is the most accurate full quantum model yet applied to 2-D device simulation. Open boundary conditions, oxide tunneling and phase-breaking scattering are treated on equal footing. Electrons in the ellipsoids of the conduction band are treated within the anisotropic effective mass approximation. Quantum simulations are focused on MIT 25, 50 and 90 nm "well- tempered" MOSFETs and compared to classical and quantum corrected models. The important feature of quantum model is smaller slope of Id-Vg curve and consequently higher threshold voltage. These results are quantitatively consistent with I D Schroedinger-Poisson calculations. The effect of gate length on gate-oxide leakage and sub-threshold current has been studied. The shorter gate length device has an order of magnitude smaller current at zero gate bias than the longer gate length device without a significant trade-off in on-current. This should be a device design consideration.

  5. 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.

  6. Rare events in a finite 2D Ising model

    NASA Astrophysics Data System (ADS)

    Xuan, Ning

    The dynamics of physical systems are always subject to thermal fluctuations or noise. These perturbations will make the stable states of the deterministic part of the dynamical system become only metastable states. When the amplitude of the perturbation is small, the transitions from one metastable state to another are rare events. One such example is the magnetization switching between the two metastable states of 2D Ising model at T < Tc. The 2D Ising model displays two metastable states below the critical temperature Tc. These metastable states are characterized by spontaneous magnetization per spin that tend to m = +/-1 as temperature T → 0. A finite-size Ising system performs transitions from one metastable phase to another due to thermal fluctuations. Such phase transitions often involve growth or birth of a thermally activated critical nucleus, which is statistically a rare event when the noise is small. It may occur via homogeneous nucleation or heterogeneous nucleation, depending on whether the nucleus is formed in system with periodic boundary condition or with boundary condition of Dirichlet or Neumann type. In this thesis, we study the influences of an applied bulk field and local boundary fields to the critical points (minimums and saddle) of noised-driven phase transitions arising in a finite 2D Ising system in both frameworks of the Ginzburg-Landau theory and lattice spins. We use the string method to numerically allocate the minimum energy path (MEP) and the profile of the energy barrier along it. In the framework of Ginzburg-Landau, we introduce an interface energy functional as a sharp interface limit of the Ginzburg-Landau energy, and compare the numerical results from the string method to the analytical results from this interface energy. In the framework of lattice spin model, we first applied the Transition Path Theory to the system to get the transition rate functional that is suitable for both theoretical and numerical purpose. Then the

  7. Transfer matrices for the partition function of the Potts model on cyclic and Möbius lattice strips

    NASA Astrophysics Data System (ADS)

    Chang, Shu-Chiuan; Shrock, Robert

    2005-03-01

    We present a method for calculating transfer matrices for the q-state Potts model partition functions Z(G,q,v), for arbitrary q and temperature variable v, on cyclic and Möbius strip graphs G of the square (sq), triangular (tri), and honeycomb (hc) lattices of width Ly vertices and of arbitrarily great length Lx vertices. For the cyclic case we express the partition function as Z(Λ,Ly×Lx,q,v)=∑d=0Ly c Tr[(T)m], where Λ denotes lattice type, c are specified polynomials of degree d in q, T is the transfer matrix in the degree- d subspace, and m=Lx (Lx/2) for Λ=sq, tri ( hc), respectively. An analogous formula is given for Möbius strips. We exhibit a method for calculating T for arbitrary Ly. Explicit results for arbitrary Ly are given for T with d=Ly and Ly-1. In particular, we find very simple formulas the determinant det(T), and trace Tr(T). Corresponding results are given for the equivalent Tutte polynomials for these lattice strips and illustrative examples are included. We also present formulas for self-dual cyclic strips of the square lattice.

  8. Generalization Technique for 2D+SCALE Dhe Data Model

    NASA Astrophysics Data System (ADS)

    Karim, Hairi; Rahman, Alias Abdul; Boguslawski, Pawel

    2016-10-01

    Different users or applications need different scale model especially in computer application such as game visualization and GIS modelling. Some issues has been raised on fulfilling GIS requirement of retaining the details while minimizing the redundancy of the scale datasets. Previous researchers suggested and attempted to add another dimension such as scale or/and time into a 3D model, but the implementation of scale dimension faces some problems due to the limitations and availability of data structures and data models. Nowadays, various data structures and data models have been proposed to support variety of applications and dimensionality but lack research works has been conducted in terms of supporting scale dimension. Generally, the Dual Half Edge (DHE) data structure was designed to work with any perfect 3D spatial object such as buildings. In this paper, we attempt to expand the capability of the DHE data structure toward integration with scale dimension. The description of the concept and implementation of generating 3D-scale (2D spatial + scale dimension) for the DHE data structure forms the major discussion of this paper. We strongly believed some advantages such as local modification and topological element (navigation, query and semantic information) in scale dimension could be used for the future 3D-scale applications.

  9. Effects of Agent's Repulsion in 2d Flocking Models

    NASA Astrophysics Data System (ADS)

    Moussa, Najem; Tarras, Iliass; Mazroui, M'hammed; Boughaleb, Yahya

    In nature many animal groups, such as fish schools or bird flocks, clearly display structural order and appear to move as a single coherent entity. In order to understand the complex behavior of these systems, many models have been proposed and tested so far. This paper deals with an extension of the Vicsek model, by including a second zone of repulsion, where each agent attempts to maintain a minimum distance from the others. The consideration of this zone in our study seems to play an important role during the travel of agents in the two-dimensional (2D) flocking models. Our numerical investigations show that depending on the basic ingredients such as repulsion radius (R1), effect of density of agents (ρ) and noise (η), our nonequilibrium system can undergo a kinetic phase transition from no transport to finite net transport. For different values of ρ, kinetic phase diagrams in the plane (η ,R1) are found. Implications of these findings are discussed.

  10. 2-D Model for Normal and Sickle Cell Blood Microcirculation

    NASA Astrophysics Data System (ADS)

    Tekleab, Yonatan; Harris, Wesley

    2011-11-01

    Sickle cell disease (SCD) is a genetic disorder that alters the red blood cell (RBC) structure and function such that hemoglobin (Hb) cannot effectively bind and release oxygen. Previous computational models have been designed to study the microcirculation for insight into blood disorders such as SCD. Our novel 2-D computational model represents a fast, time efficient method developed to analyze flow dynamics, O2 diffusion, and cell deformation in the microcirculation. The model uses a finite difference, Crank-Nicholson scheme to compute the flow and O2 concentration, and the level set computational method to advect the RBC membrane on a staggered grid. Several sets of initial and boundary conditions were tested. Simulation data indicate a few parameters to be significant in the perturbation of the blood flow and O2 concentration profiles. Specifically, the Hill coefficient, arterial O2 partial pressure, O2 partial pressure at 50% Hb saturation, and cell membrane stiffness are significant factors. Results were found to be consistent with those of Le Floch [2010] and Secomb [2006].

  11. Evaporation out of a 2D model soil

    NASA Astrophysics Data System (ADS)

    Selva, Bertrand; Dreyfus, Remi

    2011-03-01

    Our goal is to improve our understanding of water transport in the soil-plant-atmosphere continuum. For this purpose, we focus on water losses due to evaporation at the soil surface. Such losses are known to be important at places where plants do not entirely cover the surface. Our model soil is a 2D porous medium with controlled wettability and humidity. It has been reported that evaporation is characterized by three stages: a first stage with a strong and constant evaporation flux, a second stage where mass transfer is dominated by diffusion mechanisms, and a third stage that occurs when the medium is almost empty. Here we focus on the first two stages and the transition between them which occurs when an intermediate unsaturated zone has reached its maximum width. This width strongly depends on the wettability distribution of the porous medium. In our experiments, we have explored a regime where gravity effects and capillary forces have similar contributions. In this particular regime we found that the first stage is characterized by a continuously decreasing evaporation flux and the second stage by usual diffusion transfer mechanisms. In order to understand this behavior, we have developed a model which allows us to predict the transition between the two stages and which is in agreement with the decreasing values of the first stage evaporation flux.

  12. Ab initio modeling of 2D layered organohalide lead perovskites

    NASA Astrophysics Data System (ADS)

    Fraccarollo, Alberto; Cantatore, Valentina; Boschetto, Gabriele; Marchese, Leonardo; Cossi, Maurizio

    2016-04-01

    A number of 2D layered perovskites A2PbI4 and BPbI4, with A and B mono- and divalent ammonium and imidazolium cations, have been modeled with different theoretical methods. The periodic structures have been optimized (both in monoclinic and in triclinic systems, corresponding to eclipsed and staggered arrangements of the inorganic layers) at the DFT level, with hybrid functionals, Gaussian-type orbitals and dispersion energy corrections. With the same methods, the various contributions to the solid stabilization energy have been discussed, separating electrostatic and dispersion energies, organic-organic intralayer interactions and H-bonding effects, when applicable. Then the electronic band gaps have been computed with plane waves, at the DFT level with scalar and full relativistic potentials, and including the correlation energy through the GW approximation. Spin orbit coupling and GW effects have been combined in an additive scheme, validated by comparing the computed gap with well known experimental and theoretical results for a model system. Finally, various contributions to the computed band gaps have been discussed on some of the studied systems, by varying some geometrical parameters and by substituting one cation in another's place.

  13. Mathematical model for silicon electrode - Part I. 2-d model

    NASA Astrophysics Data System (ADS)

    Sikha, Godfrey; De, Sumitava; Gordon, Joseph

    2014-09-01

    This paper presents a 2-dimensional transient numerical model to simulate the electrochemical lithium insertion in a silicon nanowire (Si NW) electrode. The model geometry is a cylindrical Si NW electrode anchored to a copper current collector (Cu CC) substrate. The model solves for diffusion of lithium in Si NW, stress generation in the Si NW due to chemical and elastic strains, stress generation in the Cu CC due to elastic strain, and volume expansion in the Si NW and Cu CC geometries. The evolution of stress components, i.e., radial, axial and tangential stresses in different regions in the Si NW are presented and discussed. The effect of radius of Si NW and lithiation rate, on the maximum stresses developed in the Si NW are also discussed.

  14. 2D modeling of electromagnetic waves in cold plasmas

    SciTech Connect

    Crombé, K.; Van Eester, D.; Koch, R.; Kyrytsya, V.

    2014-02-12

    The consequences of sheath (rectified) electric fields, resulting from the different mobility of electrons and ions as a response to radio frequency (RF) fields, are a concern for RF antenna design as it can cause damage to antenna parts, limiters and other in-vessel components. As a first step to a more complete description, the usual cold plasma dielectric description has been adopted, and the density profile was assumed to be known as input. Ultimately, the relevant equations describing the wave-particle interaction both on the fast and slow timescale will need to be tackled but prior to doing so was felt as a necessity to get a feeling of the wave dynamics involved. Maxwell's equations are solved for a cold plasma in a 2D antenna box with strongly varying density profiles crossing also lower hybrid and ion-ion hybrid resonance layers. Numerical modelling quickly becomes demanding on computer power, since a fine grid spacing is required to capture the small wavelengths effects of strongly evanescent modes.

  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. 2D-model of oxygen emissions lines for Europa

    NASA Astrophysics Data System (ADS)

    Cessateur, Gaël; Barthelemy, Mathieu; Lilensten, Jean; Rubin, Martin; Maggiolo, Romain; De Keyser, Johan

    2017-04-01

    The Jovian moon Europa is an interesting case study as an archetype for icy satellites, and will be one of the primary targets of the ESA JUICE mission which should be launched in 2022. Hosting a thin neutral gas atmosphere mainly composed of O2 and H2O, Europa can be studied by its airglow and dayglow emissions. A 1D photochemistry model has first been developed to assess the impact of the solar UV flux on the visible emission, such as the red and green oxygen lines (Cessateur et al. 2016). For limb polar viewing, red line emissions can reach a few hundreds of Rayleigh close to the surface. The impact of the precipitating electrons has also been studied. The density and temperature of the electrons are first derived from the multifluid MHD model from Rubin et al. (2015). A 2D emission model has thus been developed to estimate the airglow emissions. When electrons are the major source of the visible emissions, the solar UV flux can be responsible for up to 15% of those emissions for some specific line of sight. Oxygen emission lines in the UV have also been considered, such as 130.5 and 135.6 nm. For the latter, we did estimate some significant line emissions reaching 700 Rayleigh for a polar limb viewing angle close to the surface. Oxygen emission lines are significant (higher than 10 R) for altitudes lower than 100 km for all lines, except for the red line emissions where emissions are still above 10 R up to 200 km from the surface. A sensitivity study has also been performed in order to assess the impact of the uncertainties relative to the dissociative-excitation cross sections. Cessateur G, Barthelemy M & Peinke I. Photochemistry-emission coupled model for Europa and Ganymede. J. Space Weather Space Clim., 6, A17, 2016 Rubin, M., et al. Self-consistent multifluid MHD simulations of Europa's exospheric interaction with Jupiter's magnetosphere, J. Geophys. Res. Space Physics, 120, 3503-3524, 2015

  17. 2D DEM model of sand transport with wind interaction

    NASA Astrophysics Data System (ADS)

    Oger, L.; Valance, A.

    2013-06-01

    The advance of the dunes in the desert is a threat to the life of the local people. The dunes invade houses, agricultural land and perturb the circulation on the roads. It is therefore very important to understand the mechanism of sand transport in order to fight against desertification. Saltation in which sand grains are propelled by the wind along the surface in short hops, is the primary mode of blown sand movement [1]. The saltating grains are very energetic and when impact a sand surface, they rebound and consequently eject other particles from the sand bed. The ejected grains, called reptating grains, contribute to the augmentation of the sand flux. Some of them can be promoted to the saltation motion. We use a mechanical model based on the Discrete Element Method to study successive collisions of incident energetic beads with granular packing in the context of Aeolian saltation transport. We investigate the collision process for the case where the incident bead and those from the packing have identical mechanical properties. We analyze the features of the consecutive collision processes made by the transport of the saltating disks by a wind in which its profile is obtained from the counter-interaction between air flow and grain flows. We used a molecular dynamics method known as DEM (soft Discrete Element Method) with a initial static packing of 20000 2D particles. The dilation of the upper surface due to the consecutive collisions is responsible for maintaining the flow at a given energy input due to the wind.

  18. The Dynamics of The Potts-Bethe Mapping over ℚ p : The Case p ≡ 2 (mod 3)

    NASA Astrophysics Data System (ADS)

    Saburov, Mansoor; Khameini Ahmad, Mohd Ali

    2017-03-01

    In this paper, we study the dynamics of the Potts-Bethe mapping associated with the p-adic q-state Potts model over the Cayley tree of order three. Namely, we establish the regularity of the Potts-Bethe mapping for the case p ≡ 2 (mod 3) with p ≥ 5.

  19. 2-D model of ice in the lunar polar regolith

    NASA Astrophysics Data System (ADS)

    Crider, Dana

    If volatiles are present in permanently shadowed craters on the Moon, they appear to be patchy, buried, and/or not very pure. Although some radar data may be indicative of ice deposits on the Moon from Clementine, they are inconclusive regarding the contents of the cold traps because similar signals are found in locations where ice is not expected and may be due to blocky regolith. Neutron measurements indicate that if any lunar ice exists in the topmost meter, it is buried beneath about 10 cm dry regolith and has a concentration of around 0.5 wt.%. These observations differ from those of permanently shadowed regions of Mercury, where radar data are consistent with relatively pure, thick ice buried by 20-30 cm of dry regolith. A lot can be learned about the important processes in delivery and retention of volatiles in permanently shadowed regions by modeling the Moon and Mercury to see which factors reproduce the observed differences. With this goal in mind, we perform 2-D Monte Carlo modeling of the evolution of ice layers on the Moon over time due to impact gardening to examine the relationship between the coherence length and time. The model traces the water content as a function of depth in the lunar regolith in several columns of regolith at set spacing intervals. An initial column ice profile is assumed, for example reflecting ice layer(s) deposited by comets, for each regolith column. The program then simulates a series of impacts onto the region based on the crater frequency function. Each column is modified appropriately for each impact. We examine the ice profiles of the different regolith columns as a function of time, correlating ice thickness, peak concentration, depth, and total ice content over the lateral spacings of the columns. This provides an appropriate view of how well ice layers in lunar permanently shadowed regions remain coherent as a function of time, initial thickness, initial concentration, and lateral distance. This information will aid

  20. A 2D simulation model for urban flood management

    NASA Astrophysics Data System (ADS)

    Price, Roland; van der Wielen, Jonathan; Velickov, Slavco; Galvao, Diogo

    2014-05-01

    The European Floods Directive, which came into force on 26 November 2007, requires member states to assess all their water courses and coast lines for risk of flooding, to map flood extents and assets and humans at risk, and to take adequate and coordinated measures to reduce the flood risk in consultation with the public. Flood Risk Management Plans are to be in place by 2015. There are a number of reasons for the promotion of this Directive, not least because there has been much urban and other infrastructural development in flood plains, which puts many at risk of flooding along with vital societal assets. In addition there is growing awareness that the changing climate appears to be inducing more frequent extremes of rainfall with a consequent increases in the frequency of flooding. Thirdly, the growing urban populations in Europe, and especially in the developing countries, means that more people are being put at risk from a greater frequency of urban flooding in particular. There are urgent needs therefore to assess flood risk accurately and consistently, to reduce this risk where it is important to do so or where the benefit is greater than the damage cost, to improve flood forecasting and warning, to provide where necessary (and possible) flood insurance cover, and to involve all stakeholders in decision making affecting flood protection and flood risk management plans. Key data for assessing risk are water levels achieved or forecasted during a flood. Such levels should of course be monitored, but they also need to be predicted, whether for design or simulation. A 2D simulation model (PriceXD) solving the shallow water wave equations is presented specifically for determining flood risk, assessing flood defense schemes and generating flood forecasts and warnings. The simulation model is required to have a number of important properties: -Solve the full shallow water wave equations using a range of possible solutions; -Automatically adjust the time step and

  1. Transfer matrices for the partition function of the Potts model on lattice strips with toroidal and Klein-bottle boundary conditions

    NASA Astrophysics Data System (ADS)

    Chang, Shu-Chiuan; Shrock, Robert

    2006-05-01

    We present a method for calculating transfer matrices for the q-state Potts model partition functions Z(G,q,v), for arbitrary q and temperature variable v, on strip graphs G of the square (sq), triangular (tri), and honeycomb (hc) lattices of width Ly vertices and of arbitrarily great length Lx vertices, subject to toroidal and Klein-bottle boundary conditions. For the toroidal case we express the partition function as Z(Λ,Ly×Lx,q,v)=∑d=0Ly ∑ bj(d)(λ)m, where Λ denotes lattice type, bj(d) are specified polynomials of degree d in q, λ are eigenvalues of the transfer matrix T in the degree- d subspace, and m=Lx ( Lx/2) for Λ=sq,tri (hc), respectively. An analogous formula is given for Klein-bottle strips. We exhibit a method for calculating T for arbitrary Ly. In particular, we find some very simple formulas for the determinant det(T), and trace Tr(T). Illustrative examples of our general results are given, including new calculations of transfer matrices for Potts model partition functions on strips of the square, triangular, and honeycomb lattices with toroidal or Klein-bottle boundary conditions.

  2. Topologiacl Models of 2D Fractal Cellular Structures

    NASA Astrophysics Data System (ADS)

    Le Caër, G.; Delannay, R.

    1995-11-01

    In space-filling 2D cellular structures with trivalent vertices and in which each cell is constrained to share at most one side with any cell and no side with itself, the maximum fraction of three-sided cells is produced by a decoration of vertices of any initial structure by three-sided cells. Fractal cellular structures are obtained if the latter decoration process is iterated indefinitely. Other methods of constructions of fractal structures are also described. The probability distribution P(n) of the number n of cell sides and some two-cell topological properties of a 2D fractal cellular structure constructed from the triangular Sierpinski gasket are investigated. On the whole, the repartition of cells in 2D structures with n geq 3 and P(3) ne 0 evolve regularly when topological disorder, conveniently measured by the variance μ2 of P(n), increases. The strong correlations which exist among cells, in particular in natural structures (μ2lesssim 5), decrease progressively when μ2 increases, a cell repartition close to a random one being reached for μ2sim 12. We argue that the structures finally evolve to fractal structures (for which μ2 is infinite) but we have not characterized the latter transition. Dans des structures cellulaires 2D à sommets trivalents qui remplissent l'espace et dans lesquelles une cellule partage au plus un côté avec toute autre cellule et aucun avec elle-même, la proportion maximum admissible de cellules à trois côtés est obtenue par une décoration de tous les sommets d'une structure initiale quelconque par des cellules à trois côtés. Des structures cellulaires “fractales” 2D sont ainsi engendrées si le processus précédent est répété à l'infini. D'autres méthodes de constructions de structures fractales sont également décrites. La distribution de probabilité P(n) du nombre n de côtés des cellules ainsi que des corrélations de paires sont étudiées pour une structure cellulaire fractale construite à partir

  3. Competitive nucleation and the Ostwald rule in a generalized Potts model with multiple metastable phases

    NASA Astrophysics Data System (ADS)

    Sanders, David P.; Larralde, Hernán; Leyvraz, François

    2007-04-01

    We introduce a simple nearest-neighbor spin model with multiple metastable phases, the number and decay pathways of which are explicitly controlled by the parameters of the system. With this model, we can construct, for example, a system which evolves through an arbitrarily long succession of metastable phases. We also construct systems in which different phases may nucleate competitively from a single initial phase. For such a system, we present a general method to extract from numerical simulations the individual nucleation rates of the nucleating phases. The results show that the Ostwald rule, which predicts which phase will nucleate, must be modified probabilistically when the new phases are almost equally stable. Finally, we show that the nucleation rate of a phase depends, among other things, on the number of other phases accessible from it.

  4. The Implementation of C-ID, R2D2 Model on Learning Reading Comprehension

    ERIC Educational Resources Information Center

    Rayanto, Yudi Hari; Rusmawan, Putu Ngurah

    2016-01-01

    The purposes of this research are to find out, (1) whether C-ID, R2D2 model is effective to be implemented on learning Reading comprehension, (2) college students' activity during the implementation of C-ID, R2D2 model on learning Reading comprehension, and 3) college students' learning achievement during the implementation of C-ID, R2D2 model on…

  5. Exact exponent for the number of persistent spins in the zero-temperature dynamics of the one-dimensional Potts model

    NASA Astrophysics Data System (ADS)

    Derrida, Bernard; Hakim, Vincent; Pasquier, Vincent

    1996-12-01

    For the zero-temperature Glauber dynamics of the q-state Potts model, the fraction r(q, t) of spins which never flip up to time t decays like a power law r(q, t)˜t -θ(q) when the initial condition is random. By mapping the problem onto an exactly soluble one-species coagulation model ( A+A→A) or alternatively by transforming the problem into a free-fermion model, we obtain the exact expression of θ( q) for all values of q. The exponent π( q) is in general irrational, θ(3)=0.53795082..., θ(4)=0.63151575..., ..., with the exception of q=2 and q=∞, for which θ(2)=3/8 and θ(∞)=1.

  6. A mean-field renormalisation-group approach to Ising and q = 3-state Potts models with long-range interactions in one dimension

    NASA Astrophysics Data System (ADS)

    Soares, C. E. K.; de Sousa, J. Ricardo; Branco, N. S.

    2017-09-01

    We study the one-dimensional Potts model with long-range interactions decaying with distance r as r 1 + σ. An extended mean-field renormalisation-group procedure is applied, such that three finite-size linear lattices are compared, in order to evaluate critical temperatures and exponents for the q = 2 (Ising model) and q = 3 (such that the transition is a continuous one) cases. Good results are obtained, whenever comparison with exact results or with other procedures is possible. Moreover, we evaluate the surface field exponent for these models. We have been able to go to rather large lattices and then a suitable finite-size scaling procedure is employed to obtain the results in the thermodynamic limit.

  7. Pott puffy tumor

    PubMed Central

    Sharma, Pranav; Sharma, Salil; Gupta, Nishant; Kochar, Puneet

    2017-01-01

    Pott puffy tumor is osteomyelitis of the frontal bone with associated subperiosteal abscess causing swelling and edema over the forehead and scalp. It is a complication of frontal sinusitis or trauma. We present the case of an 8-year-old girl with frontal swelling. Imaging evaluation showed frontal osteomyelitis as a complication of frontal sinusitis with associated epidural and subperiosteal abscess. The patient was treated surgically and recovered well. This case highlights the need for high clinical suspicion and early diagnosis and management to prevent life-threatening complications. Unfortunately, in our case the patient had to undergo surgery for this complication, which could have been prevented by earlier diagnosis. PMID:28405074

  8. 2-D model of the streamer zone of a leader

    NASA Astrophysics Data System (ADS)

    Milikh, G. M.; Likhanskii, A. V.; Shneider, M. N.; Raina, A.; George, A.

    2016-02-01

    Formation of the streamer zone of a leader is an outstanding problem in the physics of electric discharges which is relevant to laboratory leaders, as well as to the leaders formed by lightning. Despite substantial progress in the theoretical understanding of this complicated phenomenon, significant puzzles, such as the low propagation velocity of a leader compared to the fast streamers, remain. The objective of this paper is to present 2-D plasma simulations of the formation and propagation of the streamer zone of a leader. In these simulations we will generate a group of streamers that propagate in a discharge gap while interacting with each other. It is shown that interaction between the streamers significantly reduces their propagation velocity. This explains why the leader, which consists of many streamers, is much slower than a single streamer formed in the same discharge gap. It is shown that the mean velocity suppression of the group of streamers is determined by the inter-streamer distance. The critical value of the packing factor of the streamers at which the interactions between them can be neglected, and thus the discussed process can be treated as caused by a single streamer, is obtained.

  9. Surgical palliation of primary pulmonary arterial hypertension by a unidirectional valved Potts anastomosis in an animal model.

    PubMed

    Bui, Minh Thanh; Grollmus, Oswin; Ly, Mohamedou; Mandache, Anca; Fadel, Elie; Decante, Benoit; Serraf, Alain

    2011-11-01

    Patients with idiopathic pulmonary hypertension are at risk for right-sided heart failure and sudden death. Despite improvement in pharmacologic management, some still require lung transplantation. Potts anastomosis has been demonstrated as a good palliation in children to alleviate symptoms and medical therapy despite desaturation in the lower part of the body. Young adult patients with pulmonary hypertension and isosystemic pressure remain at risk, particularly at exercise. The goal of this research was to find a palliation for patients in whom suprasystemic pulmonary hypertension developed at exercise. Creating a Potts anastomosis involved a unidirectional valve between the left pulmonary artery and the descending aorta. Experimental study was performed on 14 pigs. A prosthetic patch of polytetrafluoroethylene (Gore-Tex; WL Gore & Associates Inc, Newark, Del) was used to create the unidirectional valve and implanted in the Potts anastomosis. Via a left thoracotomy, an aorto-aortic shunt between the aortic isthmus and the distal descending thoracic aorta was instituted, allowing a safe surgical procedure. Intrapulmonary injection of Erciplex glue (Peters Surgical, Bobigny, France), diluted in 70% alcohol, was used to create acute pulmonary hypertension. The right to left shunt across the unidirectional valvular patch was evaluated after clamping the aorta in the acute phase of pulmonary hypertension by echo-pulsed Doppler at the level of the descending thoracic aorta by withdrawal of blood gas (arterial carbon dioxide tension, alveolar carbon dioxide tension) and assessment of peripheral oxygen saturation. Similar reevaluation of the shunt was performed at a mean interval of 13 ± 2.5 weeks. In the first series, Erciplex glue increased pulmonary artery pressure from 15.3 ± 3.1 mm Hg to 38.7 ± 6.0 mm Hg. Mean peripheral oxygen saturation decreased from 100% to 85% ± 1.5%. Mean partial pressure of carbon dioxide increased from 31.9 ± 9.1 mm Hg to 46.2 ± 12

  10. 2D modeling of the regeneration surface growth on crystals

    NASA Astrophysics Data System (ADS)

    Thomas, V. G.; Gavryushkin, P. N.; Fursenko, D. A.

    2012-11-01

    A physical model is proposed to describe the growth of regeneration surfaces (flat crystal surfaces that are not parallel to any possible faces). According to this model, the change in the growth rate of a regeneration surface during its evolution and the decrease in the number of subindividuals forming the growth front can be explained by the implementation of two types of geometric selection: within each subindividual (the absorption of rapidly growing faces by slowly growing ones) and between subindividuals (when subindividuals absorb each other). A numerical modeling of the growth of the regeneration surface (30.30.19) of potassium alum crystals showed quantitative agreement between the model proposed and the experimental data.

  11. A fully coupled 2D model of equiaxed eutectic solidification

    SciTech Connect

    Charbon, Ch.; LeSar, R.

    1995-12-31

    We propose a model of equiaxed eutectic solidification that couples the macroscopic level of heat diffusion with the microscopic level of nucleation and growth of the eutectic grains. The heat equation with the source term corresponding to the latent heat release due to solidification is calculated numerically by means of an implicit finite difference method. In the time stepping scheme, the evolution of solid fraction is deduced from a stochastic model of nucleation and growth which uses the local temperature (interpolated from the FDM mesh) to determine the local grain density and the local growth rate. The solid-liquid interface of each grain is tracked by using a subdivision of each grain perimeter in a large number of sectors. The state of each sector (i.e. whether it is still in contact with the liquid or already captured by an other grain) and the increase of radius of each grain during one time step allows one to compute the increase of solid fraction. As for deterministic models, the results of the model are the evolution of temperature and of solid fraction at any point of the sample. Moreover the model provides a complete picture of the microstructure, thus not limiting the microstructural information to the average grain density but allowing one to compute any stereological value of interest. We apply the model to the solidification of gray cast iron.

  12. Improvement of a 2D numerical model of lava flows

    NASA Astrophysics Data System (ADS)

    Ishimine, Y.

    2013-12-01

    I propose an improved procedure that reduces an improper dependence of lava flow directions on the orientation of Digital Elevation Model (DEM) in two-dimensional simulations based on Ishihara et al. (in Lava Flows and Domes, Fink, JH eds., 1990). The numerical model for lava flow simulations proposed by Ishihara et al. (1990) is based on two-dimensional shallow water model combined with a constitutive equation for a Bingham fluid. It is simple but useful because it properly reproduces distributions of actual lava flows. Thus, it has been regarded as one of pioneer work of numerical simulations of lava flows and it is still now widely used in practical hazard prediction map for civil defense officials in Japan. However, the model include an improper dependence of lava flow directions on the orientation of DEM because the model separately assigns the condition for the lava flow to stop due to yield stress for each of two orthogonal axes of rectangular calculating grid based on DEM. This procedure brings a diamond-shaped distribution as shown in Fig. 1 when calculating a lava flow supplied from a point source on a virtual flat plane although the distribution should be circle-shaped. To improve the drawback, I proposed a modified procedure that uses the absolute value of yield stress derived from both components of two orthogonal directions of the slope steepness to assign the condition for lava flows to stop. This brings a better result as shown in Fig. 2. Fig. 1. (a) Contour plots calculated with the original model of Ishihara et al. (1990). (b) Contour plots calculated with a proposed model.

  13. Anomalous invasion in a 2d model of chemotactic predation

    NASA Astrophysics Data System (ADS)

    Willemsen, Jorge F.

    2010-09-01

    It has been hypothesized that plankton predators sense the presence of their prey through detection of chemical signals exuded by the prey. This process is formulated using elements of existing models, tailored to correspond to the specific process under investigation. The motivation for the resulting model is discussed in detail. Numerical results are then presented. It is found that the front representing the advance of the predator into the prey is irregular in a novel way, and the reasons for this anomalous invasion are discussed. It is recognized that reaction-diffusion models, starting perhaps with Turing, can lead to what might have been thought of as anomalous patterns - yet the “flicker” front advance discovered here is indeed novel.

  14. Implementation of Minimal Representations in 2d Ising Model Calculations

    DTIC Science & Technology

    1992-05-01

    Re r’ u. 60:252-262.263-276. 1941. [Ons44] Lars Onsager . Crystal statistics I. A two-dimensional model with an order-disorder transition. Physical Re...ID lattices but the subject really came to life in 1944 when Onsager [Ons44] derived an exact closed form expression for the partition function (see

  15. Development of CCHE2D embankment break model

    USDA-ARS?s Scientific Manuscript database

    Earthen embankment breach often results in detrimental impact on downstream residents and infrastructure, especially those located in the flooding zone. Embankment failures are most commonly caused by overtopping or internal erosion. This study is to develop a practical numerical model for simulat...

  16. Modeling 2-D jets impinging on Stirling regenerators

    NASA Technical Reports Server (NTRS)

    Gedeon, David

    1989-01-01

    The extent to which flow leaving Stirling coolers or heaters in the form of high-velocity jets penetrate the regenerator matrix is visually modeled using a computer program. Two-dimensional laminar jets are shown impinging on regenerator samples of variable permeability ranging from no matrix at all to matrices dense enough to stop the jet dead on. The results lend credibility to a simple tension for flow uniformity as a function of penetration depth.

  17. A mathematical model for foreign body reactions in 2D

    PubMed Central

    Su, Jianzhong; Gonzales, Humberto Perez; Todorov, Michail; Kojouharov, Hristo; Tang, Liping

    2010-01-01

    The foreign body reactions are commonly referred to the network of immune and inflammatory reactions of human or animals to foreign objects placed in tissues. They are basic biological processes, and are also highly relevant to bioengineering applications in implants, as fibrotic tissue formations surrounding medical implants have been found to substantially reduce the effectiveness of devices. Despite of intensive research on determining the mechanisms governing such complex responses, few mechanistic mathematical models have been developed to study such foreign body reactions. This study focuses on a kinetics-based predictive tool in order to analyze outcomes of multiple interactive complex reactions of various cells/proteins and biochemical processes and to understand transient behavior during the entire period (up to several months). A computational model in two spatial dimensions is constructed to investigate the time dynamics as well as spatial variation of foreign body reaction kinetics. The simulation results have been consistent with experimental data and the model can facilitate quantitative insights for study of foreign body reaction process in general. PMID:21532988

  18. Towards Interpretive Models for 2-D Processing of Speech

    DTIC Science & Technology

    2011-04-26

    implementation, on the model. Furthermore, we motivate a choice of region size in WGCT analysis along the frequency dimension. A synthetic vowel ...3500 Hz (65, 90, 156, 200 Hz) to generate y[n] (i.e., a female /ael vowel , [13]). Spectrograms are computed as in the previous section though a...T’mein) 6 Figure 8. (a) Spedrogi"am of vowel with local region highlighted (white); (b) high-pass mtered version of (a) for use iD reconstruction; (c

  19. Conservation laws and LETKF with 2D Shallow Water Model

    NASA Astrophysics Data System (ADS)

    Zeng, Yuefei; Janjic, Tijana

    2016-04-01

    Numerous approaches have been proposed to maintain physical conservation laws in the numerical weather prediction models. However, to achieve a reliable prediction, adequate initial conditions are also necessary, which are produced by a data assimilation algorithm. If an ensemble Kalman filters (EnKF) is used for this purpose, it has been shown that it could yield unphysical analysis ensemble that for example violates principles of mass conservation and positivity preservation (e.g. Janjic et al 2014) . In this presentation, we discuss the selection of conservation criteria for the analysis step, and start with testing the conservation of mass, energy and enstrophy. The simple experiments deal with nonlinear shallow water equations and simulated observations that are assimilated with LETKF (Localized Ensemble Transform Kalman Filter, Hunt et al. 2007). The model is discretized in a specific way to conserve mass, angular momentum, energy and enstrophy. The effects of the data assimilation on the conserved quantities (of mass, energy and enstrophy) depend on observation covarage, localization radius, observed variable and observation operator. Having in mind that Arakawa (1966) and Arakawa and Lamb (1977) showed that the conservation of both kinetic energy and enstrophy by momentum advection schemes in the case of nondivergent flow prevents systematic and unrealistic energy cascade towards high wave numbers, a cause of excessive numerical noise and possible eventual nonlinear instability, we test the effects on prediction depending on the type of errors in the initial condition. The performance with respect to nonlinear energy cascade is assessed as well.

  20. SToRM: A Model for 2D environmental hydraulics

    USGS Publications Warehouse

    Simões, Francisco J. M.

    2017-01-01

    A two-dimensional (depth-averaged) finite volume Godunov-type shallow water model developed for flow over complex topography is presented. The model, SToRM, is based on an unstructured cell-centered finite volume formulation and on nonlinear strong stability preserving Runge-Kutta time stepping schemes. The numerical discretization is founded on the classical and well established shallow water equations in hyperbolic conservative form, but the convective fluxes are calculated using auto-switching Riemann and diffusive numerical fluxes. Computational efficiency is achieved through a parallel implementation based on the OpenMP standard and the Fortran programming language. SToRM’s implementation within a graphical user interface is discussed. Field application of SToRM is illustrated by utilizing it to estimate peak flow discharges in a flooding event of the St. Vrain Creek in Colorado, U.S.A., in 2013, which reached 850 m3/s (~30,000 f3 /s) at the location of this study.

  1. NKG2D-deficient mice are defective in tumor surveillance in models of spontaneous malignancy

    PubMed Central

    Guerra, Nadia; Tan, Ying Xim; Joncker, Nathalie T.; Choy, Augustine; Gallardo, Fermin; Xiong, Na; Knoblaugh, Susan; Cado, Dragana; Greenberg, Norman R.; Raulet, David H.

    2012-01-01

    SUMMARY Ligands for the NKG2D stimulatory receptor are frequently upregulated on tumor lines, rendering them sensitive to NK cells, but the role of NKG2D in tumor surveillance has not been addressed in spontaneous cancer models. Here, we provided the first characterization of NKG2D-deficient mice, including evidence that NKG2D was not necessary for NK cell development, but was critical for immunosurveillance of epithelial and lymphoid malignancies in two transgenic models of de novo tumorigenesis. In both models, we detected NKG2D ligands on the tumor cell surface ex vivo, providing needed evidence for ligand expression by primary tumors. In a prostate cancer model, aggressive tumors arising in NKG2D-deficient mice expressed higher amounts of NKG2D ligands than did similar tumors in wild-type mice, suggesting an NKG2D-dependent immuno-editing of tumors in this model. These findings provide important genetic evidence for surveillance of primary tumors by an NK receptor. PMID:18394936

  2. Approaches to numerical solution of 2D Ising model

    NASA Astrophysics Data System (ADS)

    Soldatov, K. S.; Nefedev, K. V.; Kapitan, V. Yu; Andriushchenko, P. D.

    2016-08-01

    Parallel algorithm of partition function calculation of two-dimensional Ising model for systems with a finite number of spins was developed. Within a method of complete enumeration by using MPI technology with subsequent optimization of a parallel code time of calculations was reduced considerably. Partition function was calculated for systems of 16, 25, 36 Ising spins. Based on the obtained results, main thermodynamic and magnetic values dependences (such as heat capacity, magnetic susceptibility, mean square magnetization) for ferromagnetic and antiferromagnetic interactions was investigated. The analysis of a different configurations contribution showed, that states with the minimum energy have essential influence on dependences of thermodynamic values. Comparison with the results obtained by the Wang Landau algorithm was performed.

  3. Multiscale equatorial electrojet turbulence:Baseline 2-D model

    NASA Astrophysics Data System (ADS)

    Hassan, Ehab; Horton, W.; Smolyakov, A. I.; Hatch, D. R.; Litt, S. K.

    2015-02-01

    The spatial and spectral characteristics of the turbulent plasma density, electric fields, and ion drift in ionospheric E region are studied using a new set of nonlinear plasma fluid equations. The fluid model combines both Farley-Buneman (Type-I) and Gradient-Drift (Type-II) plasma instabilities in the equatorial electrojet. In our unified model of the plasma instabilities, we include the ion viscosity in the ion momentum equation and electron inertia in the electron momentum equation. These two terms play an important role in stabilizing the growing modes in the linear regime and in driving the Farley-Buneman instability into the saturation state. The simulation results show good agreements with a number of features of rocket and radar observations, such as (1) saturation of plasma density perturbations depends on the solar condition and reaches 7-15% relative to the background, (2) fluctuation of the horizontal secondary electric field reaches 8-15 mV/m, (3) stabilization of the phase velocity of the perturbed density wave around the value of the ion-acoustic speed inside the electrojet, (4) "up-down" asymmetry in the vertical fluxes of the plasma density, (5) "east-west" asymmetry of the plasma zonal drifts, and (6) generation of small scale of the order of meter scale lengths irregularities embedded in large-scale structures. Spectral analysis of the density fluctuations reveals the energy cascade due to the nonlinear coupling between structures of different scales. The break-up of the large-scale structures into small-scale structures explains the disappearance of Type-II echoes in the presence of Type-I instabilities.

  4. Dynamics of intraoceanic subduction initiation: 2D thermomechanical modeling

    NASA Astrophysics Data System (ADS)

    Zhou, X.; Gerya, T.; LI, Z.; Stern, R. J.

    2016-12-01

    Intraoceanic subduction initiation occurs in previous weak zones which could be transform faults or old fracture zones, and concurrents with the change of plate motions. It is an important process to understand the beginning of plate tectonics. However, the dynamic process during (after) subduction initiation remain obscure. The process of suducting slabs move from down to downdip is also not revealed clearly. In order to obtain better understanding of the transitional process of subducting slab motion, we use finite difference and marker-in-cell methods to establish a series of self-sustainable subduction initiation models and explore many visco-plastic parameters to qualify the dynamical process of subduction initiation. The following parameters are systematic tested: (1) the age of the subducting slab; (2) friction coefficient of the mantle material; (3) the mantle potential temperature; (4) the age of the overriding slab. We find out the critical age of the oceanic lithosphere which can produce subduction initiation. And the age of subducting slab plays important roles during subduction initiation. The young subducting slab induces fast trench retreat and then trench begin to advance. For the old subducting slab, it induces relative slower trench retreat and then stop moving. The age of overriding slabs impacts coupling with the subducting slab. The friction coefficient of lithosphere also impacts the backarc spreading and subduction velocity. Stronger subducted plate gives lower subduction velocity and faster trench retreat velocity. The mantle potential temperature changes the critical age of subducted slabs.

  5. Bond Order Correlations in the 2D Hubbard Model

    NASA Astrophysics Data System (ADS)

    Moore, Conrad; Abu Asal, Sameer; Yang, Shuxiang; Moreno, Juana; Jarrell, Mark

    We use the dynamical cluster approximation to study the bond correlations in the Hubbard model with next nearest neighbor (nnn) hopping to explore the region of the phase diagram where the Fermi liquid phase is separated from the pseudogap phase by the Lifshitz line at zero temperature. We implement the Hirsch-Fye cluster solver that has the advantage of providing direct access to the computation of the bond operators via the decoupling field. In the pseudogap phase, the parallel bond order susceptibility is shown to persist at zero temperature while it vanishes for the Fermi liquid phase which allows the shape of the Lifshitz line to be mapped as a function of filling and nnn hopping. Our cluster solver implements NVIDIA's CUDA language to accelerate the linear algebra of the Quantum Monte Carlo to help alleviate the sign problem by allowing for more Monte Carlo updates to be performed in a reasonable amount of computation time. Work supported by the NSF EPSCoR Cooperative Agreement No. EPS-1003897 with additional support from the Louisiana Board of Regents.

  6. A 2D model to design MHD induction pumps

    NASA Astrophysics Data System (ADS)

    Stieglitz, R.; Zeininger, J.

    2006-09-01

    Technical liquid metal systems accompanied by a thermal transfer of energy such as reactor systems, metallurgical processes, metal refinement, casting, etc., require a forced convection of the fluid. The increased temperatures and more often the environmental conditions as, e.g., in a nuclear environment, pumping principles are required, in which rotating parts are absent. Additionally, in many applications a controlled atmosphere is indispensable, in order to ensure the structural integrity of the duct walls. An interesting option to overcome the sealing problem of a mechanical pump towards the surrounding is offered by induction systems. Although their efficiency compared to that of turbo machines is quite low, they have several advantages, which are attractive to the specific requirements in liquid metal applications such as: - low maintenance costs due to the absence of sealings, bearings and moving parts; - low degradation rate of the structural material; - simple replacement of the inductor without cut of the piping system; - fine regulation of flow rate by different inductor connections; - change of pump characteristics without change of the mechanical set-up. Within the article, general design requirements of electromagnetic pumps (EMP) are elaborated. The design of two annular linear induction pumps operating with sodium and lead-bismuth are presented and the calculated pump characteristics and experimentally obtained data are compared. In this context, physical effects leading to deviations between the model and the real data are addressed. Finally, the main results are summarized. Tables 4, Figs 4, Refs 12.

  7. Simulation of subgrid orographic precipitation with an embedded 2-D cloud-resolving model

    NASA Astrophysics Data System (ADS)

    Jung, Joon-Hee; Arakawa, Akio

    2016-03-01

    By explicitly resolving cloud-scale processes with embedded two-dimensional (2-D) cloud-resolving models (CRMs), superparameterized global atmospheric models have successfully simulated various atmospheric events over a wide range of time scales. Up to now, however, such models have not included the effects of topography on the CRM grid scale. We have used both 3-D and 2-D CRMs to simulate the effects of topography with prescribed "large-scale" winds. The 3-D CRM is used as a benchmark. The results show that the mean precipitation can be simulated reasonably well by using a 2-D representation of topography as long as the statistics of the topography such as the mean and standard deviation are closely represented. It is also shown that the use of a set of two perpendicular 2-D grids can significantly reduce the error due to a 2-D representation of topography.

  8. Measurement and modelling of magnetic properties of soft magnetic composite material under 2D vector magnetisations

    NASA Astrophysics Data System (ADS)

    Guo, Y. G.; Zhu, J. G.; Zhong, J. J.

    2006-07-01

    This paper reports the measurement and modelling of magnetic properties of SOMALOY TM 500, a soft magnetic composite (SMC) material, under different 2D vector magnetisations, such as alternating along one direction, circularly and elliptically rotating in a 2D plane. By using a 2D magnetic property tester, the B- H curves and core losses of the SMC material have been measured with different flux density patterns on a single sheet square sample. The measurements can provide useful information for modelling of the magnetic properties, such as core losses. The core loss models have been successfully applied in the design of rotating electrical machines with SMC core.

  9. Epitope spreading of the anti-CYP2D6 antibody response in patients with autoimmune hepatitis and in the CYP2D6 mouse model.

    PubMed

    Hintermann, Edith; Holdener, Martin; Bayer, Monika; Loges, Stephanie; Pfeilschifter, Josef M; Granier, Claude; Manns, Michael P; Christen, Urs

    2011-11-01

    Autoimmune hepatitis (AIH) is a serious chronic inflammatory disease of the liver with yet unknown etiology and largely uncertain immunopathology. The hallmark of type 2 AIH is the generation of liver kidney microsomal-1 (LKM-1) autoantibodies, which predominantly react to cytochrome P450 2D6 (CYP2D6). The identification of disease initiating factors has been hampered in the past, since antibody epitope mapping was mostly performed using serum samples collected late during disease resulting in the identification of immunodominant epitopes not necessarily representing those involved in disease initiation. In order to identify possible environmental triggers for AIH, we analyzed for the first time the spreading of the anti-CYP2D6 antibody response over a prolonged period of time in AIH patients and in the CYP2D6 mouse model, in which mice infected with Adenovirus-human CYP2D6 (Ad-h2D6) develop antibodies with a similar specificity than AIH patients. Epitope spreading was analyzed in six AIH-2-patients and in the CYP2D6 mouse model using SPOTs membranes containing peptides covering the entire CYP2D6 protein. Despite of a considerable variation, both mice and AIH patients largely focus their humoral immune response on an immunodominant epitope early after infection (mice) or diagnosis (patients). The CYP2D6 mouse model revealed that epitope spreading is initiated at the immunodominant epitope and later expands to neighboring and remote regions. Sequence homologies to human pathogens have been detected for all identified epitopes. Our study demonstrates that epitope spreading does indeed occur during the pathogenesis of AIH and supports the concept of molecular mimicry as a possible initiating mechanism for AIH.

  10. Probabilistic Cellular Automata for Low-Temperature 2-d Ising Model

    NASA Astrophysics Data System (ADS)

    Procacci, Aldo; Scoppola, Benedetto; Scoppola, Elisabetta

    2016-12-01

    We construct a parallel stochastic dynamics with invariant measure converging to the Gibbs measure of the 2-d low-temperature Ising model. The proof of such convergence requires a polymer expansion based on suitably defined Peierls-type contours.

  11. The immunoreceptor NKG2D promotes tumour growth in a model of hepatocellular carcinoma

    PubMed Central

    Sheppard, Sam; Guedes, Joana; Mroz, Anna; Zavitsanou, Anastasia-Maria; Kudo, Hiromi; Rothery, Stephen M.; Angelopoulos, Panagiotis; Goldin, Robert; Guerra, Nadia

    2017-01-01

    Inflammation is recognized as one of the drivers of cancer. Yet, the individual immune components that possess pro- and anti-tumorigenic functions in individual cancers remain largely unknown. NKG2D is a potent activating immunoreceptor that has emerged as an important player in inflammatory disorders besides its well-established function as tumour suppressor. Here, we provide genetic evidence of an unexpected tumour-promoting effect of NKG2D in a model of inflammation-driven liver cancer. Compared to NKG2D-deficient mice, NKG2D-sufficient mice display accelerated tumour growth associated with, an increased recruitment of memory CD8+T cells to the liver and exacerbated pro-inflammatory milieu. In addition, we show that NKG2D contributes to liver damage and consequent hepatocyte proliferation known to favour tumorigenesis. Thus, the NKG2D/NKG2D-ligand pathway provides an additional mechanism linking chronic inflammation to tumour development in hepatocellular carcinoma. Our findings expose the need to selectively target the types of cancer that could benefit from NKG2D-based immunotherapy. PMID:28128200

  12. GEO2D - Two-Dimensional Computer Model of a Ground Source Heat Pump System

    DOE Data Explorer

    James Menart

    2013-06-07

    This file contains a zipped file that contains many files required to run GEO2D. GEO2D is a computer code for simulating ground source heat pump (GSHP) systems in two-dimensions. GEO2D performs a detailed finite difference simulation of the heat transfer occurring within the working fluid, the tube wall, the grout, and the ground. Both horizontal and vertical wells can be simulated with this program, but it should be noted that the vertical wall is modeled as a single tube. This program also models the heat pump in conjunction with the heat transfer occurring. GEO2D simulates the heat pump and ground loop as a system. Many results are produced by GEO2D as a function of time and position, such as heat transfer rates, temperatures and heat pump performance. On top of this information from an economic comparison between the geothermal system simulated and a comparable air heat pump systems or a comparable gas, oil or propane heating systems with a vapor compression air conditioner. The version of GEO2D in the attached file has been coupled to the DOE heating and cooling load software called ENERGYPLUS. This is a great convenience for the user because heating and cooling loads are an input to GEO2D. GEO2D is a user friendly program that uses a graphical user interface for inputs and outputs. These make entering data simple and they produce many plotted results that are easy to understand. In order to run GEO2D access to MATLAB is required. If this program is not available on your computer you can download the program MCRInstaller.exe, the 64 bit version, from the MATLAB website or from this geothermal depository. This is a free download which will enable you to run GEO2D..

  13. CAST2D: A finite element computer code for casting process modeling

    SciTech Connect

    Shapiro, A.B.; Hallquist, J.O.

    1991-10-01

    CAST2D is a coupled thermal-stress finite element computer code for casting process modeling. This code can be used to predict the final shape and stress state of cast parts. CAST2D couples the heat transfer code TOPAZ2D and solid mechanics code NIKE2D. CAST2D has the following features in addition to all the features contained in the TOPAZ2D and NIKE2D codes: (1) a general purpose thermal-mechanical interface algorithm (i.e., slide line) that calculates the thermal contact resistance across the part-mold interface as a function of interface pressure and gap opening; (2) a new phase change algorithm, the delta function method, that is a robust method for materials undergoing isothermal phase change; (3) a constitutive model that transitions between fluid behavior and solid behavior, and accounts for material volume change on phase change; and (4) a modified plot file data base that allows plotting of thermal variables (e.g., temperature, heat flux) on the deformed geometry. Although the code is specialized for casting modeling, it can be used for other thermal stress problems (e.g., metal forming).

  14. Stability analysis and breast tumor classification from 2D ARMA models of ultrasound images.

    PubMed

    Abdulsadda, A; Bouaynaya, N; Iqbal, K

    2009-01-01

    Two-dimensional (2D) autoregressive moving average (ARMA) random fields have been proven to be accurate models of ultrasound breast images. However, the stability properties of these models have not been examined. In this paper, we investigate the stability of 2D ARMA models in ultrasound breast images, and use the estimated 2D ARMA coefficients as a basis for statistical inference using artificial neural networks. Specifically, we use the estimated 2D ARMA coefficients as inputs to a Multi layer perceptron (MLP) neural network to classify the ultrasound breast image into three regions: healthy tissue, benign tumor, and cancerous tumor. Our simulation results on various cancerous and benign ultrasound breast images illustrate the power of the proposed algorithm as attested by different learning algorithms and classification accuracy measures.

  15. Representativeness of 2D models to simulate 3D unstable variable density flow in porous media

    NASA Astrophysics Data System (ADS)

    Knorr, Bastian; Xie, Yueqing; Stumpp, Christine; Maloszewski, Piotr; Simmons, Craig T.

    2016-11-01

    Variable density flow in porous media has been studied primarily using numerical models because it is a semi-chaotic and transient process. Most of these studies have been 2D, owing to the computational restrictions on 3D simulations, and the ability to observe variable density flow in 2D experimentation. However, it is recognised that variable density flow is a three-dimensional process. A 3D system may cause weaker variable density flow than a 2D system due to stronger dispersion, but may also result in bigger fingers and hence stronger variable density flow because of more space for fingers to coalesce. This study aimed to determine the representativeness of 2D modelling to simulate 3D variable density flow. 3D homogeneous sand column experiments were conducted at three different water flow velocities with three different bromide tracer solutions mixed with methanol resulting in different density ratios. Both 2D axisymmetric and 3D numerical simulations were performed to reproduce experimental data. Experimental results showed that the magnitude of variable density flow increases with decreasing flow rates and decreasing density ratios. The shapes of the observed breakthrough curves differed significantly from those produced by 2D axisymmetric and 3D simulations. Compared to 2D simulations, the onset of instabilities was delayed but the growth was more pronounced in 3D simulations. Despite this difference, both 2D axisymmetric and 3D models successfully simulated mass recovery with high efficiency (between 77% and 99%). This study indicates that 2D simulations are sufficient to understand integrated features of variable density flow in homogeneous sand column experiments.

  16. New 2D diffraction model and its applications to terahertz parallel-plate waveguide power splitters.

    PubMed

    Zhang, Fan; Song, Kaijun; Fan, Yong

    2017-02-09

    A two-dimensional (2D) diffraction model for the calculation of the diffraction field in 2D space and its applications to terahertz parallel-plate waveguide power splitters are proposed in this paper. Compared with the Huygens-Fresnel principle in three-dimensional (3D) space, the proposed model provides an approximate analytical expression to calculate the diffraction field in 2D space. The diffraction filed is regarded as the superposition integral in 2D space. The calculated results obtained from the proposed diffraction model agree well with the ones by software HFSS based on the element method (FEM). Based on the proposed 2D diffraction model, two parallel-plate waveguide power splitters are presented. The splitters consist of a transmitting horn antenna, reflectors, and a receiving antenna array. The reflector is cylindrical parabolic with superimposed surface relief to efficiently couple the transmitted wave into the receiving antenna array. The reflector is applied as computer-generated holograms to match the transformed field to the receiving antenna aperture field. The power splitters were optimized by a modified real-coded genetic algorithm. The computed results of the splitters agreed well with the ones obtained by software HFSS verify the novel design method for power splitter, which shows good applied prospects of the proposed 2D diffraction model.

  17. New 2D diffraction model and its applications to terahertz parallel-plate waveguide power splitters

    NASA Astrophysics Data System (ADS)

    Zhang, Fan; Song, Kaijun; Fan, Yong

    2017-02-01

    A two-dimensional (2D) diffraction model for the calculation of the diffraction field in 2D space and its applications to terahertz parallel-plate waveguide power splitters are proposed in this paper. Compared with the Huygens-Fresnel principle in three-dimensional (3D) space, the proposed model provides an approximate analytical expression to calculate the diffraction field in 2D space. The diffraction filed is regarded as the superposition integral in 2D space. The calculated results obtained from the proposed diffraction model agree well with the ones by software HFSS based on the element method (FEM). Based on the proposed 2D diffraction model, two parallel-plate waveguide power splitters are presented. The splitters consist of a transmitting horn antenna, reflectors, and a receiving antenna array. The reflector is cylindrical parabolic with superimposed surface relief to efficiently couple the transmitted wave into the receiving antenna array. The reflector is applied as computer-generated holograms to match the transformed field to the receiving antenna aperture field. The power splitters were optimized by a modified real-coded genetic algorithm. The computed results of the splitters agreed well with the ones obtained by software HFSS verify the novel design method for power splitter, which shows good applied prospects of the proposed 2D diffraction model.

  18. New 2D diffraction model and its applications to terahertz parallel-plate waveguide power splitters

    PubMed Central

    Zhang, Fan; Song, Kaijun; Fan, Yong

    2017-01-01

    A two-dimensional (2D) diffraction model for the calculation of the diffraction field in 2D space and its applications to terahertz parallel-plate waveguide power splitters are proposed in this paper. Compared with the Huygens-Fresnel principle in three-dimensional (3D) space, the proposed model provides an approximate analytical expression to calculate the diffraction field in 2D space. The diffraction filed is regarded as the superposition integral in 2D space. The calculated results obtained from the proposed diffraction model agree well with the ones by software HFSS based on the element method (FEM). Based on the proposed 2D diffraction model, two parallel-plate waveguide power splitters are presented. The splitters consist of a transmitting horn antenna, reflectors, and a receiving antenna array. The reflector is cylindrical parabolic with superimposed surface relief to efficiently couple the transmitted wave into the receiving antenna array. The reflector is applied as computer-generated holograms to match the transformed field to the receiving antenna aperture field. The power splitters were optimized by a modified real-coded genetic algorithm. The computed results of the splitters agreed well with the ones obtained by software HFSS verify the novel design method for power splitter, which shows good applied prospects of the proposed 2D diffraction model. PMID:28181514

  19. A 2D spring model for the simulation of ultrasonic wave propagation in nonlinear hysteretic media.

    PubMed

    Delsanto, P P; Gliozzi, A S; Hirsekorn, M; Nobili, M

    2006-07-01

    A two-dimensional (2D) approach to the simulation of ultrasonic wave propagation in nonclassical nonlinear (NCNL) media is presented. The approach represents the extension to 2D of a previously proposed one dimensional (1D) Spring Model, with the inclusion of a PM space treatment of the intersticial regions between grains. The extension to 2D is of great practical relevance for its potential applications in the field of quantitative nondestructive evaluation and material characterization, but it is also useful, from a theoretical point of view, to gain a better insight of the interaction mechanisms involved. The model is tested by means of virtual 2D experiments. The expected NCNL behaviors are qualitatively well reproduced.

  20. Multi-Scale Modeling, Design Strategies and Physical Properties of 2D Composite Sheets

    DTIC Science & Technology

    2015-01-15

    of Pennsylvania. The breakthrough results obtained are 1) prediction and subsequent experimental observation of strain induced changes in electronic...structure of TMD materials 2) Prediction and experimental observation of using defects in 2D materials to enhance charge storage capacity and 3...221 Philadelphia , PA 19104 -6205 4-Mar-2014 ABSTRACT Final Report: 9.4: Multi-scale modeling, design strategies and physical properties of 2D

  1. Testing Conformal Theory:. 3-STATE Potts

    NASA Astrophysics Data System (ADS)

    Barkema, G. T.; McCabe, J.; Wydro, T.

    2001-04-01

    Conformal theory predictions and Monte Carlo measurements of structure constants in 3-state Potts model were reviewed. The results provide a direct confirmation of the quality of conformal theory predictions of universal 3-point amplitudes. The prediction of these type of universal amplitudes sparked much of the original interest in conformal models, but are almost untested outside of the Ising model. Structure constants, C123, are universal amplitudes that define 3-point correlations, i.e., <∫1(X1)∫2(X2) ∫3(X3)+> = C123/ |X12|2(Δ1+Δ2-Δ3)·× cyclic perms. To predict the values of these universal numbers, one constructs a 4-point correlation as a sum of products of conformal blocks and then, determines coefficients that weight the sum by demanding that the 4-point correlation satisfy a bootstrap equation. The bootstrap equation imposes consistency of the 4-point correlation with operator product expansions in multiple channels. The 3-state Potts model was chosen, because this model is easy of simulate. But, this Potts model has an added complication, i.e., a discrete Z3 symmetry at criticality. The discrete symmetry had to be implemented to calculate structure constants. Conformal theory predicted that Cσσσ = 1.092 and Cɛσσ* = 0.546. Monte Carlo simulations were performed on 500 × 500 lattices on which sample configurations were generated by the cluster algorithm of Wolff. To obtain the structure constants both 2-point and 3-point correlations were measured. The 2-point correlations fixed non-universal normalizatons. The quality of the Monte-Carlo methods were tested by measuring structure constants of the Ising model-good agreement with known results was found. For 3-state Potts, the simulations found that Cσσσ = 1.116 ± 0.14 and Cɛσσ* = 0.61 ± 0.06. These results provide striking agreement with predictions and a confirmation of conformal field theory.

  2. Analysis of vegetation effect on waves using a vertical 2-D RANS model

    USDA-ARS?s Scientific Manuscript database

    A vertical two-dimensional (2-D) model has been applied in the simulation of wave propagation through vegetated water bodies. The model is based on an existing model SOLA-VOF which solves the Reynolds-Averaged Navier-Stokes (RANS) equations with the finite difference method on a staggered rectangula...

  3. Simulation of Cardiac Arrhythmias Using a 2D Heterogeneous Whole Heart Model.

    PubMed

    Balakrishnan, Minimol; Chakravarthy, V Srinivasa; Guhathakurta, Soma

    2015-01-01

    Simulation studies of cardiac arrhythmias at the whole heart level with electrocardiogram (ECG) gives an understanding of how the underlying cell and tissue level changes manifest as rhythm disturbances in the ECG. We present a 2D whole heart model (WHM2D) which can accommodate variations at the cellular level and can generate the ECG waveform. It is shown that, by varying cellular-level parameters like the gap junction conductance (GJC), excitability, action potential duration (APD) and frequency of oscillations of the auto-rhythmic cell in WHM2D a large variety of cardiac arrhythmias can be generated including sinus tachycardia, sinus bradycardia, sinus arrhythmia, sinus pause, junctional rhythm, Wolf Parkinson White syndrome and all types of AV conduction blocks. WHM2D includes key components of the electrical conduction system of the heart like the SA (Sino atrial) node cells, fast conducting intranodal pathways, slow conducting atriovenctricular (AV) node, bundle of His cells, Purkinje network, atrial, and ventricular myocardial cells. SA nodal cells, AV nodal cells, bundle of His cells, and Purkinje cells are represented by the Fitzhugh-Nagumo (FN) model which is a reduced model of the Hodgkin-Huxley neuron model. The atrial and ventricular myocardial cells are modeled by the Aliev-Panfilov (AP) two-variable model proposed for cardiac excitation. WHM2D can prove to be a valuable clinical tool for understanding cardiac arrhythmias.

  4. Simulation of Cardiac Arrhythmias Using a 2D Heterogeneous Whole Heart Model

    PubMed Central

    Balakrishnan, Minimol; Chakravarthy, V. Srinivasa; Guhathakurta, Soma

    2015-01-01

    Simulation studies of cardiac arrhythmias at the whole heart level with electrocardiogram (ECG) gives an understanding of how the underlying cell and tissue level changes manifest as rhythm disturbances in the ECG. We present a 2D whole heart model (WHM2D) which can accommodate variations at the cellular level and can generate the ECG waveform. It is shown that, by varying cellular-level parameters like the gap junction conductance (GJC), excitability, action potential duration (APD) and frequency of oscillations of the auto-rhythmic cell in WHM2D a large variety of cardiac arrhythmias can be generated including sinus tachycardia, sinus bradycardia, sinus arrhythmia, sinus pause, junctional rhythm, Wolf Parkinson White syndrome and all types of AV conduction blocks. WHM2D includes key components of the electrical conduction system of the heart like the SA (Sino atrial) node cells, fast conducting intranodal pathways, slow conducting atriovenctricular (AV) node, bundle of His cells, Purkinje network, atrial, and ventricular myocardial cells. SA nodal cells, AV nodal cells, bundle of His cells, and Purkinje cells are represented by the Fitzhugh-Nagumo (FN) model which is a reduced model of the Hodgkin-Huxley neuron model. The atrial and ventricular myocardial cells are modeled by the Aliev-Panfilov (AP) two-variable model proposed for cardiac excitation. WHM2D can prove to be a valuable clinical tool for understanding cardiac arrhythmias. PMID:26733873

  5. Pott's spine and paraplegia.

    PubMed

    Gautam, M P; Karki, P; Rijal, S; Singh, R

    2005-01-01

    Spinal tuberculosis is usually secondary to lung or abdominal involvement and may also be the first manifestation of tuberculosis. Spinal tuberculosis (often called Pott's disease) is by definition, an advanced disease, requiring meticulous assessment and aggressive systemic therapy. Physicians should keep the diagnosis in mind, especially in a patient from a group with a high rate of tuberculosis infection. This review aims on updating the knowledge on spinal tuberculosis and its management. Skeletal involvement has been reported to occur in approximately 10% of all patents with extrapulmonary tuberculosis, and half of these patients develop infection within the spinal column. Symptoms of spinal tuberculosis are back pain, weakness, weight loss, fever, fatigue, and malaise. It is much more prone to develop neurological manifestation, paraplegia of varying degree. The palpation of spinous process in routine clinical examination is the most rewarding clinical method and is an invaluable measure for early recognition. Diagnosis of spinal tuberculosis is made on the basis of typical clinical presentation along with systemic constitutional manifestation and the evidence of past exposure to tuberculosis or concomitant visceral tuberculosis. Magnetic resonance imaging can define the extent of abscess formation and spinal cord compression. The diagnosis is confirmed through percutaneous or open biopsy of the spinal lesion. Surgery is necessary as an adjunct to antibiotic therapy if the vertebral infection produces an abscess, vertebral collapse, or neurologic compression. Some patents need aggressive supportive care owing to tuberculous meningitis or encephalopathy. Moreover, the importance of immediate commencement of appropriate treatment and its continuation for adequate duration along with the proper counseling of the patient and family members should not be underestimated for successful and desired outcome.

  6. MODELING THE TRANSVERSE THERMAL CONDUCTIVITY OF 2D-SICF/SIC COMPOSITES

    SciTech Connect

    Youngblood, Gerald E.; Senor, David J.; Jones, Russell H.

    2002-09-01

    A hierarchical model was developed to describe the effective transverse thermal conductivity, K effective, of a 2D-SiC/SiC composite made from stacked and infiltrated woven fabric layers in terms of constituent properties and microstructural and architectural variables. The model includes the expected effects of fiber-matrix interfacial conductance as well as the effects of high fiber packing fractions within individual tows and the non-uniform nature of 2D-fabric layers that include a significant amount of interlayer porosity. Model predictions were obtained for two versions of DuPont 2D-Hi Nicalon(Trademark)/PyC/ICVI-SiC composite, one with a thin (0.110 micron) and the other with a thick (1.040 micron) PyC fiber coating. The model predicts that the matrix porosity content and porosity shape factor have a major influence on K effective(T) for such a composite.

  7. 2D numerical simulation of the MEP energy-transport model with a finite difference scheme

    SciTech Connect

    Romano, V. . E-mail: romano@dmi.unict.it

    2007-02-10

    A finite difference scheme of Scharfetter-Gummel type is used to simulate a consistent energy-transport model for electron transport in semiconductors devices, free of any fitting parameters, formulated on the basis of the maximum entropy principle. Simulations of silicon n{sup +}-n-n{sup +} diodes, 2D-MESFET and 2D-MOSFET and comparisons with the results obtained by a direct simulation of the Boltzmann transport equation and with other energy-transport models, known in the literature, show the validity of the model and the robustness of the numerical scheme.

  8. A simple 2-D inundation model for incorporating flood damage in urban drainage planning

    NASA Astrophysics Data System (ADS)

    Pathirana, A.; Tsegaye, S.; Gersonius, B.; Vairavamoorthy, K.

    2011-08-01

    An urban inundation model was developed and coupled with 1-D drainage network model (EPA-SWMM5). The objective was to achieve a 1-D/2-D coupled model that is simple and fast enough to be consistently used in planning stages of urban drainage projects. The 2-D inundation model is based on a non-standard simplification of the shallow water equation, lays between diffusion-wave and full dynamic models. Simplifications were made in the process representation and numerical solving mechanisms and a depth scaled Manning coefficient was introduced to achieve stability in the cell wetting-drying process. The 2-D model is coupled with SWMM for simulation of both network flow and surcharge induced inundation. The coupling is archived by mass transfer from the network system to the 2-D system. A damage calculation block is integrated within the model code for assessing flood damage costs in optimal planning of urban drainage networks. The model is stable in dealing with complex flow conditions, and cell wetting/drying processes, as demonstrated by a number of idealised experiments. The model application is demonstrated by applying to a case study in Brazil.

  9. 2D/3D velocity model for the high resolution 2D and 3D seismic data from the CO2SINK Ketzin Project

    NASA Astrophysics Data System (ADS)

    Ivanova, A.; Asch, G.; Lueth, S.; Goetz, J.

    2009-04-01

    Seismic traveltime inversion, traveltime tomography and seismic reflection techniques have been applied for two dimensional (2D) and three dimensional (3D) data acquired in conjunction with characterization and monitoring aspects at a carbon dioxide (CO2) geological storage site at Ketzin, Germany (the CO2SINK project) (S.Yordkayhun, 2008). A seismic source comparison from the 2D pilot study regarding acquisition parameters have been tested at the side has shown the weight drop source is suitable concerning the signal penetration, frequency content of the data and minimizing time and costs for the 3D data acquisition. For the Ketzin seismic data, the ability to obtain an accurate 2D/3D interval velocity model is limited by the acquisition geometry, source-generated noise and time shifts due to the near-surface effects producing severe distortions in the data. Moreover, these time shifts are comparable to the dominant periods of the reflections and to the size of structures to be imaged. Therefore, a combination of seismic refraction and state-of-the-art processing techniques, including careful static corrections and more accurate velocity analysis, has resulted in key improvements of the images and has allowed new information about the 2D/3D interval velocities. The results from these studies together with borehole information, hydrogeologic models and seismic modeling will be combined into an integrated 2D/3D velocity model. After that a careful 2D/3D depth migration is to be provided. It can be used as a database for the future monitoring program at the site.

  10. 2-D magnetotelluric modeling using finite element method incorporating unstructured quadrilateral elements

    NASA Astrophysics Data System (ADS)

    Sarakorn, Weerachai

    2017-04-01

    In this research, the finite element (FE) method incorporating quadrilateral elements for solving 2-D MT modeling was presented. The finite element software was developed, employing a paving algorithm to generate the unstructured quadrilateral mesh. The accuracy, efficiency, reliability, and flexibility of our FE forward modeling are presented, compared and discussed. The numerical results indicate that our FE codes using an unstructured quadrilateral mesh provide good accuracy when the local mesh refinement is applied around sites and in the area of interest, with superior results when compared to other FE methods. The reliability of the developed codes was also confirmed when comparing both analytical solutions and COMMEMI2D model. Furthermore, our developed FE codes incorporating an unstructured quadrilateral mesh showed useful and powerful features such as handling irregular and complex subregions and providing local refinement of the mesh for a 2-D domain as closely as unstructured triangular mesh but it requires less number of elements in a mesh.

  11. On Limits of Embedding in 3D Images Based on 2D Watson's Model

    NASA Astrophysics Data System (ADS)

    Kavehvash, Zahra; Ghaemmaghami, Shahrokh

    We extend the Watson image quality metric to 3D images through the concept of integral imaging. In the Watson's model, perceptual thresholds for changes to the DCT coefficients of a 2D image are given for information hiding. These thresholds are estimated in a way that the resulting distortion in the 2D image remains undetectable by the human eyes. In this paper, the same perceptual thresholds are estimated for a 3D scene in the integral imaging method. These thresholds are obtained based on the Watson's model using the relation between 2D elemental images and resulting 3D image. The proposed model is evaluated through subjective tests in a typical image steganography scheme.

  12. Modeling Tear Film Dynamics on a 2-D Eye-shaped Domain

    NASA Astrophysics Data System (ADS)

    Li, Longfei; Braun, Richard; Maki, Kara; Henshaw, William

    2012-11-01

    We study tear film dynamics on a 2-D eye-shaped domain using a lubrication model. Time dependent flux boundary conditions that model the lacrimal gland tear supply and punctal drainage are imposed. We solved the model equations with Overture computational framework. Results reveals our model captures the hydraulic connectivity and other key physics of human tear film observed in vivo. Comparisons are made with existing models and experiments. Should time permit, osmolarity dynamics (salt ion concentration) will be included.

  13. Introducing the R2D2 Model: Online Learning for the Diverse Learners of This World

    ERIC Educational Resources Information Center

    Bonk, Curtis J.; Zhang, Ke

    2006-01-01

    The R2D2 method--read, reflect, display, and do--is a new model for designing and delivering distance education, and in particular, online learning. Such a model is especially important to address the diverse preferences of online learners of varied generations and varied Internet familiarity. Four quadrants can be utilized separately or as part…

  14. Evaluation of 2D shallow-water model for spillway flow with a complex geometry

    USDA-ARS?s Scientific Manuscript database

    Although the two-dimensional (2D) shallow water model is formulated based on several assumptions such as hydrostatic pressure distribution and vertical velocity is negligible, as a simple alternative to the complex 3D model, it has been used to compute water flows in which these assumptions may be ...

  15. Image segmentation and classification based on a 2D distributed hidden Markov model

    NASA Astrophysics Data System (ADS)

    Ma, Xiang; Schonfeld, Dan; Khokhar, Ashfaq

    2008-01-01

    In this paper, we propose a two-dimensional distributed hidden Markovmodel (2D-DHMM), where dependency of the state transition probability on any state is allowed as long as causality is preserved. The proposed 2D-DHMM model is result of a novel solution to a more general non-causal two-dimensional hidden Markovmodel (2D-HMM) that we proposed. Our proposed models can capture, for example, dependency among diagonal states, which can be critical in many image processing applications, for example, image segmentation. A new sets of basic image patterns are designed to enrich the variability of states, which in return largely improves the accuracy of state estimations and segmentation performance. We provide three algorithms for the training and classification of our proposed model. A new Expectation-Maximization (EM) algorithm suitable for estimation of the new model is derived, where a novel General Forward-Backward (GFB) algorithm is proposed for recursive estimation of the model parameters. A new conditional independent subset-state sequence structure decomposition of state sequences is proposed for the 2D Viterbi algorithm. Application to aerial image segmentation shows the superiority of our model compared to the existing models.

  16. Non-trivial θ-vacuum effects in the 2-d O(3) model

    NASA Astrophysics Data System (ADS)

    Bögli, M.; Niedermayer, F.; Pepe, M.; Wiese, U.-J.

    2012-04-01

    We study θ-vacua in the 2-d lattice O(3) model using the standard action and an optimized constraint action with very small cut-off effects, combined with the geometric topological charge. Remarkably, dislocation lattice artifacts do not spoil the non-trivial continuum limit at θ ne 0 , and there are different continuum theories for each value 0 ≤ θ ≤ π. A very precise Monte Carlo study of the step scaling function indirectly confirms the exact S-matrix of the 2-d O(3) model at θ = π.

  17. Disorder and interaction in 2D: exact diagonalization study of the Anderson-Hubbard-Mott model.

    PubMed

    Kotlyar, R; Das Sarma, S

    2001-03-12

    We investigate, by numerically calculating the charge stiffness, the effects of random diagonal disorder and electron-electron interaction on the nature of the ground state in the 2D Hubbard model through the finite-size exact diagonalization technique. By comparing with the corresponding 1D Hubbard model results and by using heuristic arguments we conclude that it is unlikely that there is a 2D metal-insulator quantum phase transition, although the effect of interaction in some range of parameters is to substantially enhance the noninteracting charge stiffness.

  18. Towards more realistic 2D & 3D numerical models of Earth's mantle

    NASA Astrophysics Data System (ADS)

    Ghias, Sanaz

    2011-12-01

    There are a number of simplifying assumptions in modeling Earth's deep interior. These are mostly simplifying assumptions that make the mathematics simpler either for less complicated modeling or for numerical efficiency purposes. The aim of this study is to investigate the effects of some of these simplifying assumptions on 2D and 3D mantle convection models. In particular, the cases with variable coefficients of thermal expansion, alpha, and the inclusion of mineral phase transitions and viscosity stratification have been studied. The coefficient of thermal expansion is temperature- and depth-dependent in Earth. But for simplicity, it has been considered as constant in most mantle convection models and only depth-dependent in others. 2D mantle convection models (2D Cartesian and 2D cylindrical) have been created based on an existing model from Jarvis [1992] to investigate the effects of temperature- and depth-dependent alpha on mantle convection compared with the simplified cases. Also an existing version of a 3D parallel mantle convection model, MC3D, from Lowman et al. [2001] have been modified to include the temperature- and depth-dependent alpha. In the 3D study it has also been investigated that how the effects of temperature- and depth-dependent alpha vary with or without lithospheric plates. There are at least two mineral phase transitions in Earth. There is an exothermic phase boundary at 410km below the surface and an endothermic phase boundary at 660km below the surface. For simplicity, most mantle convection models do not consider any of the phase boundaries. Some consider only the endothermic phase boundary. A 2D cylindrical model from Shahnas and Jarvas [2005] has been employed to investigate the effects of considering both phase boundaries compared to models with either no, or one, phase boundary. Different viscosity stratifications have been used in addition to the phase boundaries.

  19. 2D photochemical model for forbidden oxygen line emission for comet 1P/Halley

    NASA Astrophysics Data System (ADS)

    Cessateur, G.; De Keyser, J.; Maggiolo, R.; Rubin, M.; Gronoff, G.; Gibbons, A.; Jehin, E.; Dhooghe, F.; Gunell, H.; Vaeck, N.; Loreau, J.

    2016-11-01

    We present here a 2D model of photochemistry for computing the production and loss mechanisms of the O(1S) and O(1D) states, which are responsible for the emission lines at 577.7, 630, and 636.4 nm, in case of the comet 1P/Halley. The presence of O2 within cometary atmospheres, measured by the in situ Rosetta and Giotto missions, necessitates a revision of the usual photochemical models. Indeed, the photodissociation of molecular oxygen also leads to a significant production of oxygen in excited electronic states. In order to correctly model the solar ultraviolet (UV) flux absorption, we consider here a 2D configuration. While the green to red-doublet ratio is not affected by the solar UV flux absorption, estimates of the red-doublet and green lines emissions are, however, overestimated by a factor of 2 in the 1D model compared to the 2D model. Considering a spherical symmetry, emission maps can be deduced from the 2D model in order to be directly compared to ground and/or in situ observations.

  20. Exact Potts/Tutte polynomials for polygon chain graphs

    NASA Astrophysics Data System (ADS)

    Shrock, Robert

    2011-04-01

    We present exact calculations of Potts model partition functions and the equivalent Tutte polynomials for polygon chain graphs with open and cyclic boundary conditions. Special cases of the results that yield flow and reliability polynomials are discussed. We also analyze special cases of the Tutte polynomials that determine various quantities of graph-theoretic interest.

  1. The simulation of 3D mass models in 2D digital mammography and breast tomosynthesis

    SciTech Connect

    Shaheen, Eman De Keyzer, Frederik; Bosmans, Hilde; Ongeval, Chantal Van; Dance, David R.; Young, Kenneth C.

    2014-08-15

    Purpose: This work proposes a new method of building 3D breast mass models with different morphological shapes and describes the validation of the realism of their appearance after simulation into 2D digital mammograms and breast tomosynthesis images. Methods: Twenty-five contrast enhanced MRI breast lesions were collected and each mass was manually segmented in the three orthogonal views: sagittal, coronal, and transversal. The segmented models were combined, resampled to have isotropic voxel sizes, triangularly meshed, and scaled to different sizes. These masses were referred to as nonspiculated masses and were then used as nuclei onto which spicules were grown with an iterative branching algorithm forming a total of 30 spiculated masses. These 55 mass models were projected into 2D projection images to obtain mammograms after image processing and into tomographic sequences of projection images, which were then reconstructed to form 3D tomosynthesis datasets. The realism of the appearance of these mass models was assessed by five radiologists via receiver operating characteristic (ROC) analysis when compared to 54 real masses. All lesions were also given a breast imaging reporting and data system (BIRADS) score. The data sets of 2D mammography and tomosynthesis were read separately. The Kendall's coefficient of concordance was used for the interrater observer agreement assessment for the BIRADS scores per modality. Further paired analysis, using the Wilcoxon signed rank test, of the BIRADS assessment between 2D and tomosynthesis was separately performed for the real masses and for the simulated masses. Results: The area under the ROC curves, averaged over all observers, was 0.54 (95% confidence interval [0.50, 0.66]) for the 2D study, and 0.67 (95% confidence interval [0.55, 0.79]) for the tomosynthesis study. According to the BIRADS scores, the nonspiculated and the spiculated masses varied in their degrees of malignancy from normal (BIRADS 1) to highly

  2. The simulation of 3D mass models in 2D digital mammography and breast tomosynthesis.

    PubMed

    Shaheen, Eman; De Keyzer, Frederik; Bosmans, Hilde; Dance, David R; Young, Kenneth C; Van Ongeval, Chantal

    2014-08-01

    This work proposes a new method of building 3D breast mass models with different morphological shapes and describes the validation of the realism of their appearance after simulation into 2D digital mammograms and breast tomosynthesis images. Twenty-five contrast enhanced MRI breast lesions were collected and each mass was manually segmented in the three orthogonal views: sagittal, coronal, and transversal. The segmented models were combined, resampled to have isotropic voxel sizes, triangularly meshed, and scaled to different sizes. These masses were referred to as nonspiculated masses and were then used as nuclei onto which spicules were grown with an iterative branching algorithm forming a total of 30 spiculated masses. These 55 mass models were projected into 2D projection images to obtain mammograms after image processing and into tomographic sequences of projection images, which were then reconstructed to form 3D tomosynthesis datasets. The realism of the appearance of these mass models was assessed by five radiologists via receiver operating characteristic (ROC) analysis when compared to 54 real masses. All lesions were also given a breast imaging reporting and data system (BIRADS) score. The data sets of 2D mammography and tomosynthesis were read separately. The Kendall's coefficient of concordance was used for the interrater observer agreement assessment for the BIRADS scores per modality. Further paired analysis, using the Wilcoxon signed rank test, of the BIRADS assessment between 2D and tomosynthesis was separately performed for the real masses and for the simulated masses. The area under the ROC curves, averaged over all observers, was 0.54 (95% confidence interval [0.50, 0.66]) for the 2D study, and 0.67 (95% confidence interval [0.55, 0.79]) for the tomosynthesis study. According to the BIRADS scores, the nonspiculated and the spiculated masses varied in their degrees of malignancy from normal (BIRADS 1) to highly suggestive for malignancy (BIRADS 5

  3. Impact of high speed civil transports on stratospheric ozone: A 2-D model investigation

    SciTech Connect

    Kinnison, D.E.; Connell, P.S.

    1996-12-01

    This study investigates the effect on stratospheric ozone from a fleet of proposed High Speed Civil Transports (HSCTs). The new LLNL 2-D operator-split chemical-radiative-transport model of the troposphere and stratosphere is used for this HSCT investigation. This model is integrated in a diurnal manner, using an implicit numerical solver. Therefore, rate coefficients are not modified by any sort of diurnal average factor. This model also does not make any assumptions on lumping of chemical species into families. Comparisons to previous model-derived HSCT assessment of ozone change are made, both to the previous LLNL 2-D model and to other models from the international assessment modeling community. The sensitivity to the NO{sub x} emission index and sulfate surface area density is also explored.

  4. 2D TEM Modeling and Inversion by Adaptive Born Forward Mapping

    NASA Astrophysics Data System (ADS)

    Lee, T.; Seo, M.; Cho, I. K.; Ko, K. B.; You, Y. J.

    2014-12-01

    In the airborne electromagnetic survey, vast data are acquired with the development of precise measuring equipment and the automation of data acquisition. In this study we developed fast and accurate two-dimensional (2D) modeling and inversion algorithm based on the adaptive born forward mapping (ABFM) method, which is recently emerging for fast time-domain electromagnetic (TEM) modeling. The ABFM method is an approximation method that takes into consideration the true electrical conductivity distribution of subsurface media and is different from the conventional Born approximation that uses the constant electric conductivity. One of the most important points of the ABFM method is how to set a suitable sensitivity function. In this study, the known 1D sensitivity function was expanded into 2D sensitivity function to effectively approximate the dispersive behavior of electromagnetic field. By comparing the analytic solution and approximate ABFM solution for layered earth models, we found that the two solutions correspond to each other well. This implies that the 2D sensitivity function suggested in this study is suitable and that the ABFM method has very excellent accuracy in 2D TEM modeling even though it is an approximation method. Furthermore, a 2D inversion algorithm was developed with respect to the apparent conductivity data of TEM based on ABFM. To enhance the resolution and stability, the smoothness-constrained least-squares method with ACB constraint was employed. The inversion of calculated data for various models produced a reasonable model close to the true model. It is expected that the method will be extensively applicable to TEM modeling and inversion without difficulty in the future.

  5. Extension and application of the Preissmann slot model to 2D transient mixed flows

    NASA Astrophysics Data System (ADS)

    Maranzoni, Andrea; Dazzi, Susanna; Aureli, Francesca; Mignosa, Paolo

    2015-08-01

    This paper presents an extension of the Preissmann slot concept for the modeling of highly transient two-dimensional (2D) mixed flows. The classic conservative formulation of the 2D shallow water equations for free surface flows is adapted by assuming that two fictitious vertical slots, aligned along the two Cartesian plane directions and normally intersecting, are added on the ceiling of each integration element. Accordingly, transitions between free surface and pressurized flow can be handled in a natural and straightforward way by using the same set of governing equations. The opportunity of coupling free surface and pressurized flows is actually useful not only in one-dimensional (1D) problems concerning sewer systems but also for modeling 2D flooding phenomena in which the pressurization of bridges, culverts, or other crossing hydraulic structures can be expected. Numerical simulations are performed by using a shock-capturing MUSCL-Hancock finite volume scheme combined with the FORCE (First-Order Centred) solver for the evaluation of the numerical fluxes. The validation of the mathematical model is accomplished on the basis of both exact solutions of 1D discontinuous initial value problems and reference radial solutions of idealized test cases with cylindrical symmetry. Furthermore, the capability of the model to deal with practical field-scale applications is assessed by simulating the transit of a bore under an arch bridge. Numerical results show that the proposed model is suitable for the prediction of highly transient 2D mixed flows.

  6. Nonlinear Modeling of E-Type Ferrite Inductors Using Finite Element Analysis in 2D.

    PubMed

    Salas, Rosa Ana; Pleite, Jorge

    2014-07-25

    We present here a modeling procedure for inductors with an E-shaped ferrite core valid for calculating the inductance of an equivalent circuit from the linear operating region to the saturation region. The procedure was developed using Finite Elements in 2D. We demonstrate that using a 2D section of the real core the results obtained are similar to the real ones, which solves the problem of convergence that appeared when E type cores were simulated in 3D, while also saving computational cost. We also discuss the effect of the gap-thickness on the magnetic properties. The data obtained by simulation are compared with experimental results.

  7. Nonlinear Modeling of E-Type Ferrite Inductors Using Finite Element Analysis in 2D

    PubMed Central

    Salas, Rosa Ana; Pleite, Jorge

    2014-01-01

    We present here a modeling procedure for inductors with an E-shaped ferrite core valid for calculating the inductance of an equivalent circuit from the linear operating region to the saturation region. The procedure was developed using Finite Elements in 2D. We demonstrate that using a 2D section of the real core the results obtained are similar to the real ones, which solves the problem of convergence that appeared when E type cores were simulated in 3D, while also saving computational cost. We also discuss the effect of the gap-thickness on the magnetic properties. The data obtained by simulation are compared with experimental results. PMID:28788138

  8. New technologies of 2-D and 3-D modeling for analysis and management of natural resources

    NASA Astrophysics Data System (ADS)

    Cheremisina, E. N.; Lyubimova, A. V.; Kirpicheva, E. Yu.

    2016-09-01

    For ensuring technological support of research and administrative activity in the sphere of environmental management a specialized modular program complex was developed. The special attention in developing a program complex is focused to creation of convenient and effective tools for creation and visualization 2d and 3D models providing the solution of tasks of the analysis and management of natural resources.

  9. Parallelized CCHE2D flow model with CUDA Fortran on Graphics Process Units

    USDA-ARS?s Scientific Manuscript database

    This paper presents the CCHE2D implicit flow model parallelized using CUDA Fortran programming technique on Graphics Processing Units (GPUs). A parallelized implicit Alternating Direction Implicit (ADI) solver using Parallel Cyclic Reduction (PCR) algorithm on GPU is developed and tested. This solve...

  10. Breach modelling by overflow with TELEMAC 2D: Comparison with large-scale experiments

    USDA-ARS?s Scientific Manuscript database

    An erosion law has been implemented in TELEMAC 2D to represent the surface erosion process to model the breach formation of a levee. We focus on homogeneous and earth fill levee to simplify this first implementation. The first part of this study reveals the ability of this method to represent simu...

  11. 2D-Raman-THz spectroscopy: A sensitive test of polarizable water models

    NASA Astrophysics Data System (ADS)

    Hamm, Peter

    2014-11-01

    In a recent paper, the experimental 2D-Raman-THz response of liquid water at ambient conditions has been presented [J. Savolainen, S. Ahmed, and P. Hamm, Proc. Natl. Acad. Sci. U. S. A. 110, 20402 (2013)]. Here, all-atom molecular dynamics simulations are performed with the goal to reproduce the experimental results. To that end, the molecular response functions are calculated in a first step, and are then convoluted with the laser pulses in order to enable a direct comparison with the experimental results. The molecular dynamics simulation are performed with several different water models: TIP4P/2005, SWM4-NDP, and TL4P. As polarizability is essential to describe the 2D-Raman-THz response, the TIP4P/2005 water molecules are amended with either an isotropic or a anisotropic polarizability a posteriori after the molecular dynamics simulation. In contrast, SWM4-NDP and TL4P are intrinsically polarizable, and hence the 2D-Raman-THz response can be calculated in a self-consistent way, using the same force field as during the molecular dynamics simulation. It is found that the 2D-Raman-THz response depends extremely sensitively on details of the water model, and in particular on details of the description of polarizability. Despite the limited time resolution of the experiment, it could easily distinguish between various water models. Albeit not perfect, the overall best agreement with the experimental data is obtained for the TL4P water model.

  12. Analysis of Korean Students' International Mobility by 2-D Model: Driving Force Factor and Directional Factor

    ERIC Educational Resources Information Center

    Park, Elisa L.

    2009-01-01

    The purpose of this study is to understand the dynamics of Korean students' international mobility to study abroad by using the 2-D Model. The first D, "the driving force factor," explains how and what components of the dissatisfaction with domestic higher education perceived by Korean students drives students' outward mobility to seek…

  13. 2D-Raman-THz spectroscopy: A sensitive test of polarizable water models

    SciTech Connect

    Hamm, Peter

    2014-11-14

    In a recent paper, the experimental 2D-Raman-THz response of liquid water at ambient conditions has been presented [J. Savolainen, S. Ahmed, and P. Hamm, Proc. Natl. Acad. Sci. U. S. A. 110, 20402 (2013)]. Here, all-atom molecular dynamics simulations are performed with the goal to reproduce the experimental results. To that end, the molecular response functions are calculated in a first step, and are then convoluted with the laser pulses in order to enable a direct comparison with the experimental results. The molecular dynamics simulation are performed with several different water models: TIP4P/2005, SWM4-NDP, and TL4P. As polarizability is essential to describe the 2D-Raman-THz response, the TIP4P/2005 water molecules are amended with either an isotropic or a anisotropic polarizability a posteriori after the molecular dynamics simulation. In contrast, SWM4-NDP and TL4P are intrinsically polarizable, and hence the 2D-Raman-THz response can be calculated in a self-consistent way, using the same force field as during the molecular dynamics simulation. It is found that the 2D-Raman-THz response depends extremely sensitively on details of the water model, and in particular on details of the description of polarizability. Despite the limited time resolution of the experiment, it could easily distinguish between various water models. Albeit not perfect, the overall best agreement with the experimental data is obtained for the TL4P water model.

  14. Multiple Ising models coupled to 2-d gravity: a CSD analysis

    NASA Astrophysics Data System (ADS)

    Bowick, Mark; Falcioni, Marco; Harris, Geoffrey; Marinari, Enzo

    1994-04-01

    We simulate single and multiple Ising models coupled to 2-d gravity and we measure critical slowing down (CSD) with the standard methods. We find that the Swendsen-Wang and Wolff cluster algorithms do not eliminate CSD. We interpret the result as an effect of the mesh dynamics.

  15. A General Set of Procedures for Constructivist Instructional Design: The New R2D2 Model.

    ERIC Educational Resources Information Center

    Willis, Jerry; Wright, Kristen Egeland

    2000-01-01

    Describes the R2D2 (Reflective, Recursive Design and Development) model of constructivist instructional design. Highlights include participatory teams; progressive problem solution; phronesis, or contextual understanding; dissemination, including summative evaluation; and a new paradigm that shifts from the industrial age to the information age.…

  16. A Parallel 2D Depth-averaged Hydrodynamic, Sediment Transport and River Morphological Model

    NASA Astrophysics Data System (ADS)

    Zhu, Z.

    2016-12-01

    Numerical models of river morphodynamics have become important tools for understanding process-form relationships in river channels through the computation of hydrodynamics, sediment transport and an evolving river bed morphology. While 2D depth-averaged models do not include vertical variation in velocities, they can provide appropriate hydrodynamic results in shallow water environments. Although 2D models are less computationally expensive than 3D models, computation speed is still a concern in many applications, especially in river morphological applications. This paper presents a new parallel 2D hydrodynamic, sediment transport and bed morphology model, developed using Open source Field Operation And Manipulation (OpenFOAM). The model uses the Message Passing Interface (MPI) for parallel computing. Further development and modification of the model are relatively straightforward to accomplish with the OpenFOAM framework. Thus, developers can focus on scientific questions rather than having to write their own code for numerical schemes or learn the intricacies of a particular coding language. The open source platform also allows others to add on to and improve the base model so that it becomes an evolving, community-based computational resource. Model validation and parallel efficiency evaluation will be presented and discussed.

  17. The effects of cell compressibility, motility and contact inhibition on the growth of tumor cell clusters using the Cellular Potts Model.

    PubMed

    Li, Jonathan F; Lowengrub, John

    2014-02-21

    There are numerous biological examples where genes associated with migratory ability of cells also confer the cells with an increased fitness even though these genes may not have any known effect on the cell mitosis rates. Here, we provide insight into these observations by analyzing the effects of cell migration, compression, and contact inhibition on the growth of tumor cell clusters using the Cellular Potts Model (CPM) in a monolayer geometry. This is a follow-up of a previous study (Thalhauser et al. 2010) in which a Moran-type model was used to study the interaction of cell proliferation, migratory potential and death on the emergence of invasive phenotypes. Here, we extend the study to include the effects of cell size and shape. In particular, we investigate the interplay between cell motility and compressibility within the CPM and find that the CPM predicts that increased cell motility leads to smaller cells. This is an artifact in the CPM. An analysis of the CPM reveals an explicit inverse-relationship between the cell stiffness and motility parameters. We use this relationship to compensate for motility-induced changes in cell size in the CPM so that in the corrected CPM, cell size is independent of the cell motility. We find that subject to comparable levels of compression, clusters of motile cells grow faster than clusters of less motile cells, in qualitative agreement with biological observations and our previous study. Increasing compression tends to reduce growth rates. Contact inhibition penalizes clumped cells by halting their growth and gives motile cells an even greater advantage. Finally, our model predicts cell size distributions that are consistent with those observed in clusters of neuroblastoma cells cultured in low and high density conditions. © 2013 Elsevier Ltd. Published by Elsevier Ltd. All rights reserved.

  18. Molecular Dynamics implementation of BN2D or 'Mercedes Benz' water model

    NASA Astrophysics Data System (ADS)

    Scukins, Arturs; Bardik, Vitaliy; Pavlov, Evgen; Nerukh, Dmitry

    2015-05-01

    Two-dimensional 'Mercedes Benz' (MB) or BN2D water model (Naim, 1971) is implemented in Molecular Dynamics. It is known that the MB model can capture abnormal properties of real water (high heat capacity, minima of pressure and isothermal compressibility, negative thermal expansion coefficient) (Silverstein et al., 1998). In this work formulas for calculating the thermodynamic, structural and dynamic properties in microcanonical (NVE) and isothermal-isobaric (NPT) ensembles for the model from Molecular Dynamics simulation are derived and verified against known Monte Carlo results. The convergence of the thermodynamic properties and the system's numerical stability are investigated. The results qualitatively reproduce the peculiarities of real water making the model a visually convenient tool that also requires less computational resources, thus allowing simulations of large (hydrodynamic scale) molecular systems. We provide the open source code written in C/C++ for the BN2D water model implementation using Molecular Dynamics.

  19. A novel explicit 2D+t cyclic shape model applied to echocardiography.

    PubMed

    Casero, Ramón; Noble, J Alison

    2008-01-01

    In this paper, we propose a novel explicit 2D+t cyclic shape model that extends the Point Distribution Model (PDM) to shapes like myocardial contours with cyclic dynamics. We also propose an extension to Procrustes alignment that removes pose and subject size variability while maintaining dynamic effects. Our model draws on ideas from Principal Component Analysis (PCA), Multidimensional Scaling (MDS) and Kernel PCA (KPCA) and solves 3 shortcomings of previous implicit models: (1) cardiac cycles in the data set do not each need to have the same number of frames, (2) the required number of subjects for statistically significant results is substantially reduced and (3) the displacement of contour points incorporates time as an explicit variable. We illustrate our method by computing models of the myocardium in the 4 principal planes of 2D+t echocardiography data.

  20. 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.

  1. MODELING THE TRANSVERSE THERMAL CONDUCTIVITY OF 2-D SICF/SIC COMPOSITES MADE WITH WOVEN FABRIC

    SciTech Connect

    Youngblood, Gerald E; Senor, David J; Jones, Russell H

    2004-06-01

    The hierarchical two-layer (H2L) model describes the effective transverse thermal conductivity (Keff) of a 2D-SiCf/SiC composite plate made from stacked and infiltrated woven fabric layers in terms of constituent properties and microstructural and architectural variables. The H2L model includes the effects of fiber-matrix interfacial conductance, high fiber packing fractions within individual tows and the non-uniform nature of 2D fabric/matrix layers that usually include a significant amount of interlayer porosity. Previously, H2L model Keff-predictions were compared to measured values for two versions of 2D Hi-Nicalon/PyC/ICVI-SiC composite, one with a “thin” (0.11m) and the other with a “thick” (1.04m) pyrocarbon (PyC) fiber coating, and for a 2D Tyranno SA/”thin” PyC/FCVI-SIC composite. In this study, H2L model Keff-predictions were compared to measured values for a 2D-SiCf/SiC composite made using the ICVI-process with Hi-Nicalon type S fabric and a “thin” PyC fiber coating. The values of Keff determined for the latter composite were significantly greater than the Keff-values determined for the composites made with either the Hi-Nicalon or the Tyranno SA fabrics. Differences in Keff-values were expected for the different fiber types, but major differences also were due to observed microstructural and architectural variations between the composite systems, and as predicted by the H2L model.

  2. A Deformed Shape Monitoring Model for Building Structures Based on a 2D Laser Scanner

    PubMed Central

    Choi, Se Woon; Kim, Bub Ryur; Lee, Hong Min; Kim, Yousok; Park, Hyo Seon

    2013-01-01

    High-rise buildings subjected to lateral loads such as wind and earthquake loads must be checked not to exceed the limits on the maximum lateral displacement or the maximum inter-story drift ratios. In this paper, a sensing model for deformed shapes of a building structure in motion is presented. The deformed shape sensing model based on a 2D scanner consists of five modules: (1) module for acquiring coordinate information of a point in a building; (2) module for coordinate transformation and data arrangement for generation of time history of the point; (3) module for smoothing by adjacent averaging technique; (4) module for generation of the displacement history for each story and deformed shape of a building, and (5) module for evaluation of the serviceability of a building. The feasibility of the sensing model based on a 2D laser scanner is tested through free vibration tests of a three-story steel frame structure with a relatively high slenderness ratio of 5.0. Free vibration responses measured from both laser displacement sensors and a 2D laser scanner are compared. In the experimentation, the deformed shapes were obtained from three different methods: the model based on the 2D laser scanner, the direct measurement based on laser displacement sensors, and the numerical method using acceleration data and the displacements from GPS. As a result, it is confirmed that the deformed shape measurement model based on a 2D laser scanner can be a promising alternative for high-rise buildings where installation of laser displacement sensors is impossible. PMID:23698269

  3. Numerical Simulation of Slinger Combustor Using 2-D Axisymmetric Computational Model

    NASA Astrophysics Data System (ADS)

    Lee, Semin; Park, Soo Hyung; Lee, Donghun

    2010-06-01

    Small-size turbojet engines have difficulties in maintaining the chemical reaction due to the limitation of chamber size. The combustion chamber is generally designed to improve the reaction efficiency by the generation of vortices in the chamber and to enhance air-fuel mixing characteristics. In the initial stage of designing the combustor, analysis of the 3-D full configuration is not practical due to the huge time consuming computation and grid generation followed by modifications of the geometry. In the present paper, an axisymmetric model maintaining geometric similarity and flow characteristic of 3-D configuration is developed. Based on numerical results from the full 3-D configuration, model reduction is achieved toward 2-D axisymmetric configuration. In the modeling process, the area and location of each hole in 3-D full configuration are considered reasonably and replaced to the 2-D axisymmetric model. By using the 2-D axisymmetric model, the factor that can affect the performance is investigated with the assumption that the flow is non-reacting and turbulent. Numerical results from the present model show a good agreement with numerical results from 3-D full configuration model such as existence of vortex pair in forward region and total pressure loss. By simplifying the complex 3-D model, computing time can be remarkably reduced and it makes easy to find effects of geometry modification.

  4. More on supersymmetric and 2d analogs of the SYK model

    NASA Astrophysics Data System (ADS)

    Murugan, Jeff; Stanford, Douglas; Witten, Edward

    2017-08-01

    In this paper, we explore supersymmetric and 2d analogs of the SYK model. We begin by working out a basis of (super)conformal eigenfunctions appropriate for expanding a four-point function. We use this to clarify some details of the 1d supersymmetric SYK model. We then introduce new bosonic and supersymmetric analogs of SYK in two dimensions. These theories consist of N fields interacting with random q-field interactions. Although models built entirely from bosons appear to be problematic, we find a supersymmetric model that flows to a large N CFT with interaction strength of order one. We derive an integral formula for the four-point function at order 1 /N , and use it to compute the central charge, chaos exponent and some anomalous dimensions. We describe a problem that arises if one tries to find a 2d SYK-like CFT with a continuous global symmetry.

  5. Study on Development of 1D-2D Coupled Real-time Urban Inundation Prediction model

    NASA Astrophysics Data System (ADS)

    Lee, Seungsoo

    2017-04-01

    In recent years, we are suffering abnormal weather condition due to climate change around the world. Therefore, countermeasures for flood defense are urgent task. In this research, study on development of 1D-2D coupled real-time urban inundation prediction model using predicted precipitation data based on remote sensing technology is conducted. 1 dimensional (1D) sewerage system analysis model which was introduced by Lee et al. (2015) is used to simulate inlet and overflow phenomena by interacting with surface flown as well as flows in conduits. 2 dimensional (2D) grid mesh refinement method is applied to depict road networks for effective calculation time. 2D surface model is coupled with 1D sewerage analysis model in order to consider bi-directional flow between both. Also parallel computing method, OpenMP, is applied to reduce calculation time. The model is estimated by applying to 25 August 2014 extreme rainfall event which caused severe inundation damages in Busan, Korea. Oncheoncheon basin is selected for study basin and observed radar data are assumed as predicted rainfall data. The model shows acceptable calculation speed with accuracy. Therefore it is expected that the model can be used for real-time urban inundation forecasting system to minimize damages.

  6. Simplified 2D Bidomain Model of Whole Heart Electrical Activity and ECG Generation

    NASA Astrophysics Data System (ADS)

    Sovilj, Siniša; Magjarević, Ratko; Abed, Amr Al; Lovell, Nigel H.; Dokos, Socrates

    2014-06-01

    The aim of this study was the development of a geometrically simple and highly computationally-efficient two dimensional (2D) biophysical model of whole heart electrical activity, incorporating spontaneous activation of the sinoatrial node (SAN), the specialized conduction system, and realistic surface ECG morphology computed on the torso. The FitzHugh-Nagumo (FHN) equations were incorporated into a bidomain finite element model of cardiac electrical activity, which was comprised of a simplified geometry of the whole heart with the blood cavities, the lungs and the torso as an extracellular volume conductor. To model the ECG, we placed four electrodes on the surface of the torso to simulate three Einthoven leads VI, VII and VIII from the standard 12-lead system. The 2D model was able to reconstruct ECG morphology on the torso from action potentials generated at various regions of the heart, including the sinoatrial node, atria, atrioventricular node, His bundle, bundle branches, Purkinje fibers, and ventricles. Our 2D cardiac model offers a good compromise between computational load and model complexity, and can be used as a first step towards three dimensional (3D) ECG models with more complex, precise and accurate geometry of anatomical structures, to investigate the effect of various cardiac electrophysiological parameters on ECG morphology.

  7. A Bayesian model for classifying all differentially expressed proteins simultaneously in 2D PAGE gels.

    PubMed

    Wu, Steven H; Black, Michael A; North, Robyn A; Rodrigo, Allen G

    2012-06-19

    Two-dimensional polyacrylamide gel electrophoresis (2D PAGE) is commonly used to identify differentially expressed proteins under two or more experimental or observational conditions. Wu et al (2009) developed a univariate probabilistic model which was used to identify differential expression between Case and Control groups, by applying a Likelihood Ratio Test (LRT) to each protein on a 2D PAGE. In contrast to commonly used statistical approaches, this model takes into account the two possible causes of missing values in 2D PAGE: either (1) the non-expression of a protein; or (2) a level of expression that falls below the limit of detection. We develop a global Bayesian model which extends the previously described model. Unlike the univariate approach, the model reported here is able treat all differentially expressed proteins simultaneously. Whereas each protein is modelled by the univariate likelihood function previously described, several global distributions are used to model the underlying relationship between the parameters associated with individual proteins. These global distributions are able to combine information from each protein to give more accurate estimates of the true parameters. In our implementation of the procedure, all parameters are recovered by Markov chain Monte Carlo (MCMC) integration. The 95% highest posterior density (HPD) intervals for the marginal posterior distributions are used to determine whether differences in protein expression are due to differences in mean expression intensities, and/or differences in the probabilities of expression. Simulation analyses showed that the global model is able to accurately recover the underlying global distributions, and identify more differentially expressed proteins than the simple application of a LRT. Additionally, simulations also indicate that the probability of incorrectly identifying a protein as differentially expressed (i.e., the False Discovery Rate) is very low. The source code is

  8. Coupled BOUSS-2D and CMS-Wave Modeling Approach for Harbor Projects

    DTIC Science & Technology

    2012-08-01

    channels, erosion problems at coastal inlets, and aid in design and Report Documentation Page Form ApprovedOMB No. 0704-0188 Public reporting burden for...Harbor Projects by Lihwa Lin and Zeki Demirbilek PURPOSE: This Coastal and Hydraulics Engineering Technical Note (CHETN) describes the coupled...application of two advanced coastal wave models, BOUSS-2D and CMS-Wave, for harbor applications. The two models have different computational features and

  9. Evaluation of Fish Passage at Whitewater Parks Using 2D and 3D Hydraulic Modeling

    NASA Astrophysics Data System (ADS)

    Hardee, T.; Nelson, P. A.; Kondratieff, M.; Bledsoe, B. P.

    2016-12-01

    In-stream whitewater parks (WWPs) are increasingly popular recreational amenities that typically create waves by constricting flow through a chute to increase velocities and form a hydraulic jump. However, the hydraulic conditions these structures create can limit longitudinal habitat connectivity and potentially inhibit upstream fish migration, especially of native fishes. An improved understanding of the fundamental hydraulic processes and potential environmental effects of whitewater parks is needed to inform management decisions about Recreational In-Channel Diversions (RICDs). Here, we use hydraulic models to compute a continuous and spatially explicit description of velocity and depth along potential fish swimming paths in the flow field, and the ensemble of potential paths are compared to fish swimming performance data to predict fish passage via logistic regression analysis. While 3d models have been shown to accurately predict trout movement through WWP structures, 2d methods can provide a more cost-effective and manager-friendly approach to assessing the effects of similar hydraulic structures on fish passage when 3d analysis in not feasible. Here, we use 2d models to examine the hydraulics in several WWP structures on the North Fork of the St. Vrain River at Lyons, Colorado, and we compare these model results to fish passage predictions from a 3d model. Our analysis establishes a foundation for a practical, transferable and physically-rigorous 2d modeling approach for mechanistically evaluating the effects of hydraulic structures on fish passage.

  10. Elliptic genera of 2d (0,2) gauge theories from brane brick models

    NASA Astrophysics Data System (ADS)

    Franco, Sebastian; Ghim, Dongwook; Lee, Sangmin; Seong, Rak-Kyeong

    2017-06-01

    Auc(bstract) We compute the elliptic genus of abelian 2d (0, 2) gauge theories corresponding to brane brick models. These theories are worldvolume theories on a single D1-brane probing a toric Calabi-Yau 4-fold singularity. We identify a match with the elliptic genus of the non-linear sigma model on the same Calabi-Yau background, which is computed using a new localization formula. The matching implies that the quantum effects do not drastically alter the correspondence between the geometry and the 2d (0, 2) gauge theory. In theories whose matter sector suffers from abelian gauge anomaly, we propose an ansatz for an anomaly cancelling term in the integral formula for the elliptic genus. We provide an example in which two brane brick models related to each other by Gadde-Gukov-Putrov triality give the same elliptic genus.

  11. In vitro systems to study nephropharmacology: 2D versus 3D models.

    PubMed

    Sánchez-Romero, Natalia; Schophuizen, Carolien M S; Giménez, Ignacio; Masereeuw, Rosalinde

    2016-11-05

    The conventional 2-dimensional (2D) cell culture is an invaluable tool in, amongst others, cell biology and experimental pharmacology. However, cells cultured in 2D, on the top of stiff plastic plates lose their phenotypical characteristics and fail in recreating the physiological environment found in vivo. This is a fundamental requirement when the goal of the study is to get a rigorous predictive response of human drug action and safety. Recent approaches in the field of renal cell biology are focused on the generation of 3D cell culture models due to the more bona fide features that they exhibit and the fact that they are more closely related to the observed physiological conditions, and better predict in vivo drug handling. In this review, we describe the currently available 3D in vitro models of the kidney, and some future directions for studying renal drug handling, disease modeling and kidney regeneration.

  12. Approximate analytic solutions to 3D unconfined groundwater flow within regional 2D models

    NASA Astrophysics Data System (ADS)

    Luther, K.; Haitjema, H. M.

    2000-04-01

    We present methods for finding approximate analytic solutions to three-dimensional (3D) unconfined steady state groundwater flow near partially penetrating and horizontal wells, and for combining those solutions with regional two-dimensional (2D) models. The 3D solutions use distributed singularities (analytic elements) to enforce boundary conditions on the phreatic surface and seepage faces at vertical wells, and to maintain fixed-head boundary conditions, obtained from the 2D model, at the perimeter of the 3D model. The approximate 3D solutions are analytic (continuous and differentiable) everywhere, including on the phreatic surface itself. While continuity of flow is satisfied exactly in the infinite 3D flow domain, water balance errors can occur across the phreatic surface.

  13. A depth-averaged 2-D model of flow and sediment transport in coastal waters

    NASA Astrophysics Data System (ADS)

    Sanchez, Alejandro; Wu, Weiming; Beck, Tanya M.

    2016-11-01

    A depth-averaged 2-D model has been developed to simulate unsteady flow and nonuniform sediment transport in coastal waters. The current motion is computed by solving the phase-averaged 2-D shallow water flow equations reformulated in terms of total-flux velocity, accounting for the effects of wave radiation stresses and general diffusion or mixing induced by current, waves, and wave breaking. The cross-shore boundary conditions are specified by assuming fully developed longshore current and wave setup that are determined using the reduced 1-D momentum equations. A 2-D wave spectral transformation model is used to calculate the wave height, period, direction, and radiation stresses, and a surface wave roller model is adopted to consider the effects of surface roller on the nearshore currents. The nonequilibrium transport of nonuniform total-load sediment is simulated, considering sediment entrainment by current and waves, the lag of sediment transport relative to the flow, and the hiding and exposure effect of nonuniform bed material. The flow and sediment transport equations are solved using an implicit finite volume method on a variety of meshes including nonuniform rectangular, telescoping (quadtree) rectangular, and hybrid triangular/quadrilateral meshes. The flow and wave models are integrated through a carefully designed steering process. The model has been tested in three field cases, showing generally good performance.

  14. TRENT2D WG: a smart web infrastructure for debris-flow modelling and hazard assessment

    NASA Astrophysics Data System (ADS)

    Zorzi, Nadia; Rosatti, Giorgio; Zugliani, Daniel; Rizzi, Alessandro; Piffer, Stefano

    2016-04-01

    Mountain regions are naturally exposed to geomorphic flows, which involve large amounts of sediments and induce significant morphological modifications. The physical complexity of this class of phenomena represents a challenging issue for modelling, leading to elaborate theoretical frameworks and sophisticated numerical techniques. In general, geomorphic-flows models proved to be valid tools in hazard assessment and management. However, model complexity seems to represent one of the main obstacles to the diffusion of advanced modelling tools between practitioners and stakeholders, although the UE Flood Directive (2007/60/EC) requires risk management and assessment to be based on "best practices and best available technologies". Furthermore, several cutting-edge models are not particularly user-friendly and multiple stand-alone software are needed to pre- and post-process modelling data. For all these reasons, users often resort to quicker and rougher approaches, leading possibly to unreliable results. Therefore, some effort seems to be necessary to overcome these drawbacks, with the purpose of supporting and encouraging a widespread diffusion of the most reliable, although sophisticated, modelling tools. With this aim, this work presents TRENT2D WG, a new smart modelling solution for the state-of-the-art model TRENT2D (Armanini et al., 2009, Rosatti and Begnudelli, 2013), which simulates debris flows and hyperconcentrated flows adopting a two-phase description over a mobile bed. TRENT2D WG is a web infrastructure joining advantages offered by the software-delivering model SaaS (Software as a Service) and by WebGIS technology and hosting a complete and user-friendly working environment for modelling. In order to develop TRENT2D WG, the model TRENT2D was converted into a service and exposed on a cloud server, transferring computational burdens from the user hardware to a high-performing server and reducing computational time. Then, the system was equipped with an

  15. A Convective Vorticity Vector Associated With Tropical Convection: A 2D Cloud-Resolving Modeling Study

    NASA Technical Reports Server (NTRS)

    Gao, Shou-Ting; Ping, Fan; Li, Xiao-Fan; Tao, Wei-Kuo

    2004-01-01

    Although dry/moist potential vorticity is a useful physical quantity for meteorological analysis, it cannot be applied to the analysis of 2D simulations. A convective vorticity vector (CVV) is introduced in this study to analyze 2D cloud-resolving simulation data associated with 2D tropical convection. The cloud model is forced by the vertical velocity, zonal wind, horizontal advection, and sea surface temperature obtained from the TOGA COARE, and is integrated for a selected 10-day period. The CVV has zonal and vertical components in the 2D x-z frame. Analysis of zonally-averaged and mass-integrated quantities shows that the correlation coefficient between the vertical component of the CVV and the sum of the cloud hydrometeor mixing ratios is 0.81, whereas the correlation coefficient between the zonal component and the sum of the mixing ratios is only 0.18. This indicates that the vertical component of the CVV is closely associated with tropical convection. The tendency equation for the vertical component of the CVV is derived and the zonally-averaged and mass-integrated tendency budgets are analyzed. The tendency of the vertical component of the CVV is determined by the interaction between the vorticity and the zonal gradient of cloud heating. The results demonstrate that the vertical component of the CVV is a cloud-linked parameter and can be used to study tropical convection.

  16. 2D versus 3D cross-correlation-based radial and circumferential strain estimation using multiplane 2D ultrafast ultrasound in a 3D atherosclerotic carotid artery model.

    PubMed

    Fekkes, Stein; Swillens, Abigail E S; Hansen, Hendrik H G; Saris, Anne E C M; Nillesen, Maartje M; Iannaccone, Francesco; Segers, Patrick; de Korte, Chris L

    2016-08-25

    Three-dimensional strain estimation might improve the detection and localization of high strain regions in the carotid artery for identification of vulnerable plaques. This study compares 2D vs. 3D displacement estimation in terms of radial and circumferential strain using simulated ultrasound images of a patient specific 3D atherosclerotic carotid artery model at the bifurcation embedded in surrounding tissue generated with ABAQUS software. Global longitudinal motion was superimposed to the model based on literature data. A Philips L11-3 linear array transducer was simulated which transmitted plane waves at 3 alternating angles at a pulse repetition rate of 10 kHz. Inter-frame radiofrequency ultrasound data were simulated in Field II for 191 equally spaced longitudinal positions of the internal carotid artery. Accumulated radial and circumferential displacements were estimated using tracking of the inter-frame displacements estimated by a two-step normalized cross-correlation method and displacement compounding. Least squares strain estimation was performed to determine accumulated radial and circumferential strain. The performance of the 2D and 3D method was compared by calculating the root-mean-squared error of the estimated strains with respect to the reference strains obtained from the model. More accurate strain images were obtained using the 3D displacement estimation for the entire cardiac cycle. The 3D technique clearly outperformed the 2D technique in phases with high inter-frame longitudinal motion. In fact the large inter-frame longitudinal motion rendered it impossible to accurately track the tissue and cumulate strains over the entire cardiac cycle with the 2D technique.

  17. 2-D Versus 3-D Cross-Correlation-Based Radial and Circumferential Strain Estimation Using Multiplane 2-D Ultrafast Ultrasound in a 3-D Atherosclerotic Carotid Artery Model.

    PubMed

    Fekkes, Stein; Swillens, Abigail E S; Hansen, Hendrik H G; Saris, Anne E C M; Nillesen, Maartje M; Iannaccone, Francesco; Segers, Patrick; de Korte, Chris L

    2016-10-01

    Three-dimensional (3-D) strain estimation might improve the detection and localization of high strain regions in the carotid artery (CA) for identification of vulnerable plaques. This paper compares 2-D versus 3-D displacement estimation in terms of radial and circumferential strain using simulated ultrasound (US) images of a patient-specific 3-D atherosclerotic CA model at the bifurcation embedded in surrounding tissue generated with ABAQUS software. Global longitudinal motion was superimposed to the model based on the literature data. A Philips L11-3 linear array transducer was simulated, which transmitted plane waves at three alternating angles at a pulse repetition rate of 10 kHz. Interframe (IF) radio-frequency US data were simulated in Field II for 191 equally spaced longitudinal positions of the internal CA. Accumulated radial and circumferential displacements were estimated using tracking of the IF displacements estimated by a two-step normalized cross-correlation method and displacement compounding. Least-squares strain estimation was performed to determine accumulated radial and circumferential strain. The performance of the 2-D and 3-D methods was compared by calculating the root-mean-squared error of the estimated strains with respect to the reference strains obtained from the model. More accurate strain images were obtained using the 3-D displacement estimation for the entire cardiac cycle. The 3-D technique clearly outperformed the 2-D technique in phases with high IF longitudinal motion. In fact, the large IF longitudinal motion rendered it impossible to accurately track the tissue and cumulate strains over the entire cardiac cycle with the 2-D technique.

  18. Parameterising root system growth models using 2D neutron radiography images

    NASA Astrophysics Data System (ADS)

    Schnepf, Andrea; Felderer, Bernd; Vontobel, Peter; Leitner, Daniel

    2013-04-01

    Root architecture is a key factor for plant acquisition of water and nutrients from soil. In particular in view of a second green revolution where the below ground parts of agricultural crops are important, it is essential to characterise and quantify root architecture and its effect on plant resource acquisition. Mathematical models can help to understand the processes occurring in the soil-plant system, they can be used to quantify the effect of root and rhizosphere traits on resource acquisition and the response to environmental conditions. In order to do so, root architectural models are coupled with a model of water and solute transport in soil. However, dynamic root architectural models are difficult to parameterise. Novel imaging techniques such as x-ray computed tomography, neutron radiography and magnetic resonance imaging enable the in situ visualisation of plant root systems. Therefore, these images facilitate the parameterisation of dynamic root architecture models. These imaging techniques are capable of producing 3D or 2D images. Moreover, 2D images are also available in the form of hand drawings or from images of standard cameras. While full 3D imaging tools are still limited in resolutions, 2D techniques are a more accurate and less expensive option for observing roots in their environment. However, analysis of 2D images has additional difficulties compared to the 3D case, because of overlapping roots. We present a novel algorithm for the parameterisation of root system growth models based on 2D images of root system. The algorithm analyses dynamic image data. These are a series of 2D images of the root system at different points in time. Image data has already been adjusted for missing links and artefacts and segmentation was performed by applying a matched filter response. From this time series of binary 2D images, we parameterise the dynamic root architecture model in the following way: First, a morphological skeleton is derived from the binary

  19. A preliminary 3D model for cytochrome P450 2D6 constructed by homology model building.

    PubMed

    Koymans, L M; Vermeulen, N P; Baarslag, A; Donné-Op den Kelder, G M

    1993-06-01

    A homology model building study of cytochrome P450 2D6 has been carried out based on the crystal structure of cytochrome P450 101. The primary sequences of P450 101 and P450 2D6 were aligned by making use of an automated alignment procedure. This alignment was adjusted manually by matching alpha-helices (C, D, G, I, J, K and L) and beta-sheets (beta 3/beta 4) of P450 101 that are proposed to be conserved in membrane-bound P450s (Ouzounis and Melvin [Eur. J. Biochem., 198 (1991) 307]) to the corresponding regions in the primary amino acid sequence of P450 2D6. Furthermore, alpha-helices B, B' and F were found to be conserved in P450 2D6. No significant homology between the remaining regions of P450 101 and P450 2D6 could be found and these regions were therefore deleted. A 3D model of P450 2D6 was constructed by copying the coordinates of the residues from the crystal structure of P450 101 to the corresponding residues in P450 2D6. The regions without a significant homology with P450 101 were not incorporated into the model. After energy-minimization of the resulting 3D model of P450 2D6, possible active site residues were identified by fitting the substrates debrisoquine and dextrometorphan into the proposed active site. Both substrates could be positioned into a planar pocket near the heme region formed by residues Val370, Pro371, Leu372, Trp316, and part of the oxygen binding site of P450 2D6. Furthermore, the carboxylate group of either Asp100 or Asp301 was identified as a possible candidate for the proposed interaction with basic nitrogen atom(s) of the substrates.(ABSTRACT TRUNCATED AT 250 WORDS)

  20. Laser irradiated fluorescent perfluorocarbon microparticles in 2-D and 3-D breast cancer cell models

    NASA Astrophysics Data System (ADS)

    Niu, Chengcheng; Wang, Long; Wang, Zhigang; Xu, Yan; Hu, Yihe; Peng, Qinghai

    2017-03-01

    Perfluorocarbon (PFC) droplets were studied as new generation ultrasound contrast agents via acoustic or optical droplet vaporization (ADV or ODV). Little is known about the ODV irradiated vaporization mechanisms of PFC-microparticle complexs and the stability of the new bubbles produced. In this study, fluorescent perfluorohexane (PFH) poly(lactic-co-glycolic acid) (PLGA) particles were used as a model to study the process of particle vaporization and bubble stability following excitation in two-dimensional (2-D) and three-dimensional (3-D) cell models. We observed localization of the fluorescent agent on the microparticle coating material initially and after vaporization under fluorescence microscopy. Furthermore, the stability and growth dynamics of the newly created bubbles were observed for 11 min following vaporization. The particles were co-cultured with 2-D cells to form 3-D spheroids and could be vaporized even when encapsulated within the spheroids via laser irradiation, which provides an effective basis for further work.

  1. A Neural-FEM tool for the 2-D magnetic hysteresis modeling

    NASA Astrophysics Data System (ADS)

    Cardelli, E.; Faba, A.; Laudani, A.; Lozito, G. M.; Riganti Fulginei, F.; Salvini, A.

    2016-04-01

    The aim of this work is to present a new tool for the analysis of magnetic field problems considering 2-D magnetic hysteresis. In particular, this tool makes use of the Finite Element Method to solve the magnetic field problem in real device, and fruitfully exploits a neural network (NN) for the modeling of 2-D magnetic hysteresis of materials. The NS has as input the magnetic inductions components B at the k-th simulation step and returns as output the corresponding values of the magnetic field H corresponding to the input pattern. It is trained by vector measurements performed on the magnetic material to be modeled. This input/output scheme is directly implemented in a FEM code employing the magnetic potential vector A formulation. Validations through measurements on a real device have been performed.

  2. Critical slowing down of cluster algorithms for Ising models coupled to 2-d gravity

    NASA Astrophysics Data System (ADS)

    Bowick, Mark; Falcioni, Marco; Harris, Geoffrey; Marinari, Enzo

    1994-02-01

    We simulate single and multiple Ising models coupled to 2-d gravity using both the Swendsen-Wang and Wolff algorithms to update the spins. We study the integrated autocorrelation time and find that there is considerable critical slowing down, particularly in the magnetization. We argue that this is primarily due to the local nature of the dynamical triangulation algorithm and to the generation of a distribution of baby universes which inhibits cluster growth.

  3. Localized modelling and feedback control of linear instabilities in 2-D wall bounded shear flows

    NASA Astrophysics Data System (ADS)

    Tol, Henry; Kotsonis, Marios; de Visser, Coen

    2016-11-01

    A new approach is presented for control of instabilities in 2-D wall bounded shear flows described by the linearized Navier-Stokes equations (LNSE). The control design accounts both for spatially localized actuators/sensors and the dominant perturbation dynamics in an optimal control framework. An inflow disturbance model is proposed for streamwise instabilities that drive laminar-turbulent transition. The perturbation modes that contribute to the transition process can be selected and are included in the control design. A reduced order model is derived from the LNSE that captures the input-output behavior and the dominant perturbation dynamics. This model is used to design an optimal controller for suppressing the instability growth. A 2-D channel flow and a 2-D boundary layer flow over a flat plate are considered as application cases. Disturbances are generated upstream of the control domain and the resulting flow perturbations are estimated/controlled using wall shear measurements and localized unsteady blowing and suction at the wall. It will be shown that the controller is able to cancel the perturbations and is robust to unmodelled disturbances.

  4. A Markov state modeling analysis of sliding dynamics of a 2D model

    NASA Astrophysics Data System (ADS)

    Teruzzi, M.; Pellegrini, F.; Laio, A.; Tosatti, E.

    2017-10-01

    Non-equilibrium Markov State Modeling (MSM) has recently been proposed by Pellegrini et al. [Phys. Rev. E 94, 053001 (2016)] as a possible route to construct a physical theory of sliding friction from a long steady state atomistic simulation: the approach builds a small set of collective variables, which obey a transition-matrix-based equation of motion, faithfully describing the slow motions of the system. A crucial question is whether this approach can be extended from the original 1D small size demo to larger and more realistic size systems, without an inordinate increase of the number and complexity of the collective variables. Here we present a direct application of the MSM scheme to the sliding of an island made of over 1000 harmonically bound particles over a 2D periodic potential. Based on a totally unprejudiced phase space metric and without requiring any special doctoring, we find that here too the scheme allows extracting a very small number of slow variables, necessary and sufficient to describe the dynamics of island sliding.

  5. 2D Forward Modeling of Gravity Data Using Geostatistically Generated Subsurface Density Variations

    NASA Astrophysics Data System (ADS)

    Phelps, G. A.

    2015-12-01

    Two-dimensional (2D) forward models of synthetic gravity anomalies are calculated and compared to observed gravity anomalies using geostatistical models of density variations in the subsurface, constrained by geologic data. These models have an advantage over forward gravity models generated using polygonal bodies of homogeneous density because the homogeneous density restriction is relaxed, allowing density variations internal to geologic bodies to be considered. By discretizing the subsurface and calculating the cumulative gravitational effect of each cell, multiple forward models can be generated for a given geologic body, which expands the exploration of the solution space. Furthermore, the stochastic models can be designed to match the observed statistical properties of the internal densities of the geologic units being modeled. The results of such stochastically generated forward gravity models can then be compared with the observed data. To test this modeling approach, we compared stochastic forward gravity models of 2D geologic cross-sections to gravity data collected along a profile across the Vaca Fault near Fairfield, California. Three conceptual geologic models were created, each representing a distinct fault block scenario (normal, strike-slip, reverse) with four rock units in each model. Using fixed rock unit boundaries, the units were populated with geostatistically generated density values, characterized by their respective histogram and vertical variogram. The horizontal variogram could not be estimated because of lack of data, and was therefore left as a free parameter. Each fault block model had multiple geostatistical realizations of density associated with it. Forward models of gravity were then generated from the fault block model realizations, and rejection sampling was used to determine viable fault block density models. Given the constraints on subsurface density, the normal and strike-slip fault model were the most likely.

  6. A simple 2-D inundation model for incorporating flood damage in urban drainage planning

    NASA Astrophysics Data System (ADS)

    Pathirana, A.; Tsegaye, S.; Gersonius, B.; Vairavamoorthy, K.

    2008-11-01

    In this paper a new inundation model code is developed and coupled with Storm Water Management Model, SWMM, to relate spatial information associated with urban drainage systems as criteria for planning of storm water drainage networks. The prime objective is to achive a model code that is simple and fast enough to be consistently be used in planning stages of urban drainage projects. The formulation for the two-dimensional (2-D) surface flow model algorithms is based on the Navier Stokes equation in two dimensions. An Alternating Direction Implicit (ADI) finite difference numerical scheme is applied to solve the governing equations. This numerical scheme is used to express the partial differential equations with time steps split into two halves. The model algorithm is written using C++ computer programming language. This 2-D surface flow model is then coupled with SWMM for simulation of both pipe flow component and surcharge induced inundation in urban areas. In addition, a damage calculation block is integrated within the inundation model code. The coupled model is shown to be capable of dealing with various flow conditions, as well as being able to simulate wetting and drying processes that will occur as the flood flows over an urban area. It has been applied under idealized and semi-hypothetical cases to determine detailed inundation zones, depths and velocities due to surcharged water on overland surface.

  7. Micropolar curved rods. 2-D, high order, Timoshenko's and Euler-Bernoulli models

    NASA Astrophysics Data System (ADS)

    Zozulya, V. V.

    2017-01-01

    New models for micropolar plane curved rods have been developed. 2-D theory is developed from general 2-D equations of linear micropolar elasticity using a special curvilinear system of coordinates related to the middle line of the rod and special hypothesis based on assumptions that take into account the fact that the rod is thin.High order theory is based on the expansion of the equations of the theory of elasticity into Fourier series in terms of Legendre polynomials. First stress and strain tensors,vectors of displacements and rotation and body force shave been expanded into Fourier series in terms of Legendre polynomials with respect to a thickness coordinate.Thereby all equations of elasticity including Hooke's law have been transformed to the corresponding equations for Fourier coefficients. Then in the same way as in the theory of elasticity, system of differential equations in term of displacements and boundary conditions for Fourier coefficients have been obtained. The Timoshenko's and Euler-Bernoulli theories are based on the classical hypothesis and 2-D equations of linear micropolar elasticity in a special curvilinear system. The obtained equations can be used to calculate stress-strain and to model thin walled structures in macro, micro and nano scale when taking in to account micropolar couple stress and rotation effects.

  8. Couple stress theory of curved rods. 2-D, high order, Timoshenko's and Euler-Bernoulli models

    NASA Astrophysics Data System (ADS)

    Zozulya, V. V.

    2017-01-01

    New models for plane curved rods based on linear couple stress theory of elasticity have been developed.2-D theory is developed from general 2-D equations of linear couple stress elasticity using a special curvilinear system of coordinates related to the middle line of the rod as well as special hypothesis based on assumptions that take into account the fact that the rod is thin. High order theory is based on the expansion of the equations of the theory of elasticity into Fourier series in terms of Legendre polynomials. First, stress and strain tensors, vectors of displacements and rotation along with body forces have been expanded into Fourier series in terms of Legendre polynomials with respect to a thickness coordinate.Thereby, all equations of elasticity including Hooke's law have been transformed to the corresponding equations for Fourier coefficients. Then, in the same way as in the theory of elasticity, a system of differential equations in terms of displacements and boundary conditions for Fourier coefficients have been obtained. Timoshenko's and Euler-Bernoulli theories are based on the classical hypothesis and the 2-D equations of linear couple stress theory of elasticity in a special curvilinear system. The obtained equations can be used to calculate stress-strain and to model thin walled structures in macro, micro and nano scales when taking into account couple stress and rotation effects.

  9. Modeling Physiological Events in 2D vs. 3D Cell Culture.

    PubMed

    Duval, Kayla; Grover, Hannah; Han, Li-Hsin; Mou, Yongchao; Pegoraro, Adrian F; Fredberg, Jeffery; Chen, Zi

    2017-07-01

    Cell culture has become an indispensable tool to help uncover fundamental biophysical and biomolecular mechanisms by which cells assemble into tissues and organs, how these tissues function, and how that function becomes disrupted in disease. Cell culture is now widely used in biomedical research, tissue engineering, regenerative medicine, and industrial practices. Although flat, two-dimensional (2D) cell culture has predominated, recent research has shifted toward culture using three-dimensional (3D) structures, and more realistic biochemical and biomechanical microenvironments. Nevertheless, in 3D cell culture, many challenges remain, including the tissue-tissue interface, the mechanical microenvironment, and the spatiotemporal distributions of oxygen, nutrients, and metabolic wastes. Here, we review 2D and 3D cell culture methods, discuss advantages and limitations of these techniques in modeling physiologically and pathologically relevant processes, and suggest directions for future research. Copyright © 2017 the American Physiological Society.

  10. Model-based 3D/2D deformable registration of MR images.

    PubMed

    Marami, Bahram; Sirouspour, Shahin; Capson, David W

    2011-01-01

    A method is proposed for automatic registration of 3D preoperative magnetic resonance images of deformable tissue to a sequence of its 2D intraoperative images. The algorithm employs a dynamic continuum mechanics model of the deformation and similarity (distance) measures such as correlation ratio, mutual information or sum of squared differences for registration. The registration is solely based on information present in the 3D preoperative and 2D intraoperative images and does not require fiducial markers, feature extraction or image segmentation. Results of experiments with a biopsy training breast phantom show that the proposed method can perform well in the presence of large deformations. This is particularly useful for clinical applications such as MR-based breast biopsy where large tissue deformations occur.

  11. Modeling Physiological Events in 2D vs. 3D Cell Culture

    PubMed Central

    Duval, Kayla; Grover, Hannah; Han, Li-Hsin; Mou, Yongchao; Pegoraro, Adrian F.; Fredberg, Jeffery

    2017-01-01

    Cell culture has become an indispensable tool to help uncover fundamental biophysical and biomolecular mechanisms by which cells assemble into tissues and organs, how these tissues function, and how that function becomes disrupted in disease. Cell culture is now widely used in biomedical research, tissue engineering, regenerative medicine, and industrial practices. Although flat, two-dimensional (2D) cell culture has predominated, recent research has shifted toward culture using three-dimensional (3D) structures, and more realistic biochemical and biomechanical microenvironments. Nevertheless, in 3D cell culture, many challenges remain, including the tissue-tissue interface, the mechanical microenvironment, and the spatiotemporal distributions of oxygen, nutrients, and metabolic wastes. Here, we review 2D and 3D cell culture methods, discuss advantages and limitations of these techniques in modeling physiologically and pathologically relevant processes, and suggest directions for future research. PMID:28615311

  12. Comparison between 2D and 3D Numerical Modelling of a hot forging simulative test

    SciTech Connect

    Croin, M.; Ghiotti, A.; Bruschi, S.

    2007-04-07

    The paper presents the comparative analysis between 2D and 3D modelling of a simulative experiment, performed in laboratory environment, in which operating conditions approximate hot forging of a turbine aerofoil section. The plane strain deformation was chosen as an ideal case to analyze the process because of the thickness variations in the final section and the consequent distributions of contact pressure and sliding velocity at the interface that are closed to the conditions of the real industrial process. In order to compare the performances of 2D and 3D approaches, two different analyses were performed and compared with the experiments in terms of loads and temperatures peaks at the interface between the dies and the workpiece.

  13. 2-D Petroleum System Modelling of the Browse Basin, Offshore Northwestern Australia

    NASA Astrophysics Data System (ADS)

    Son, Byeong-Kook

    2017-04-01

    Petroleum system modelling was performed for the Browse Basin, which is a hydrocarbon-bearing basin in the offshore area of northwestern Australia. The Browse Basin was formed by two cycles of tectonically controlled extension, thermal subsidence, and inversion. The first rifting had occurred by the extension in the Late Carboniferous to Early Permian, and the second was in the Early to Middle Jurassic. Thick sediments were deposited during subsequent subsidence and inversion in the basin. The Upper Jurassic to Lower Cretaceous succession is considered to have the high quality source potential. Major reservoirs are fluvio-deltaic and nearshore marine sandstone units in the Jurassic and Cretaceous. Late Cretaceous to Tertiary sequences are dominated by thick carbonate rocks. Maturity model and paleo-heat flow history were made in 1-D petroleum system modelling by comparing with vitrinite values and temperature measured from the drill wells. Based on the geologic setting and the 1-D model, 2-D Petroleum system modelling was conducted on an E-W cross section crossing three wells to understand hydrocarbon generation, migration, and accumulation in the basin. Late Jurassic to Early Cretaceous formations, including Aptian, Vlanginian, and Callovian rocks, were assigned as source rocks in the 2-D modelling. The 2-D model shows that hydrocarbons were generated during Late Jurassic to Late Cretaceous. A thick succession of overburden rocks provided the source rocks with heat and pressure to generate a significant amount of hydrocarbons. Hydrocarbons expelled from the source rocks were migrated dominantly downward to Late Jurassic sandy reservoir rocks. Upward migration is restricted by dense shale and carbonate successions. Large accumulations of gas have been found in the basin, rather than oil. It seems that the amount of gases was significantly increased by secondary cracking of the oil in reservoir formations in deep and hot conditions.

  14. Nested 1D-2D approach for urban surface flood modeling

    NASA Astrophysics Data System (ADS)

    Murla, Damian; Willems, Patrick

    2015-04-01

    Floods in urban areas as a consequence of sewer capacity exceedance receive increased attention because of trends in urbanization (increased population density and impermeability of the surface) and climate change. Despite the strong recent developments in numerical modeling of water systems, urban surface flood modeling is still a major challenge. Whereas very advanced and accurate flood modeling systems are in place and operation by many river authorities in support of flood management along rivers, this is not yet the case in urban water management. Reasons include the small scale of the urban inundation processes, the need to have very high resolution topographical information available, and the huge computational demands. Urban drainage related inundation modeling requires a 1D full hydrodynamic model of the sewer network to be coupled with a 2D surface flood model. To reduce the computational times, 0D (flood cones), 1D/quasi-2D surface flood modeling approaches have been developed and applied in some case studies. In this research, a nested 1D/2D hydraulic model has been developed for an urban catchment at the city of Gent (Belgium), linking the underground sewer (minor system) with the overland surface (major system). For the overland surface flood modelling, comparison was made of 0D, 1D/quasi-2D and full 2D approaches. The approaches are advanced by considering nested 1D-2D approaches, including infiltration in the green city areas, and allowing the effects of surface storm water storage to be simulated. An optimal nested combination of three different mesh resolutions was identified; based on a compromise between precision and simulation time for further real-time flood forecasting, warning and control applications. Main streets as mesh zones together with buildings as void regions constitute one of these mesh resolution (3.75m2 - 15m2); they have been included since they channel most of the flood water from the manholes and they improve the accuracy of

  15. A New Attempt of 2-D Numerical Ice Flow Model to Reconstruct Paleoclimate from Mountain Glaciers

    NASA Astrophysics Data System (ADS)

    Candaş, Adem; Akif Sarıkaya, Mehmet

    2017-04-01

    A new two dimensional (2D) numerical ice flow model is generated to simulate the steady-state glacier extent for a wide range of climate conditions. The simulation includes the flow of ice enforced by the annual mass balance gradient of a valley glacier. The annual mass balance is calculated by the difference of the net accumulation and ablation of snow and (or) ice. The generated model lets users to compare the simulated and field observed ice extent of paleoglaciers. As a result, model results provide the conditions about the past climates since simulated ice extent is a function of predefined climatic conditions. To predict the glacier shape and distribution in two dimension, time dependent partial differential equation (PDE) is solved. Thus, a 2D glacier flow model code is constructed in MATLAB and a finite difference method is used to solve this equation. On the other hand, Parallel Ice Sheet Model (PISM) is used to regenerate paleoglaciers in the same area where the MATLAB code is applied. We chose the Mount Dedegöl, an extensively glaciated mountain in SW Turkey, to apply both models. Model results will be presented and discussed in this presentation. This study was supported by TÜBİTAK 114Y548 project.

  16. Uncertainties in modelling Mt. Pinatubo eruption with 2-D AER model and CCM SOCOL

    NASA Astrophysics Data System (ADS)

    Kenzelmann, P.; Weisenstein, D.; Peter, T.; Luo, B. P.; Rozanov, E.; Fueglistaler, S.; Thomason, L. W.

    2009-04-01

    Large volcanic eruptions may introduce a strong forcing on climate. They challenge the skills of climate models. In addition to the short time attenuation of solar light by ashes the formation of stratospheric sulphate aerosols, due to volcanic sulphur dioxide injection into the lower stratosphere, may lead to a significant enhancement of the global albedo. The sulphate aerosols have a residence time of about 2 years. As a consequence of the enhanced sulphate aerosol concentration both the stratospheric chemistry and dynamics are strongly affected. Due to absorption of longwave and near infrared radiation the temperature in the lower stratosphere increases. So far chemistry climate models overestimate this warming [Eyring et al. 2006]. We present an extensive validation of extinction measurements and model runs of the eruption of Mt. Pinatubo in 1991. Even if Mt. Pinatubo eruption has been the best quantified volcanic eruption of this magnitude, the measurements show considerable uncertainties. For instance the total amount of sulphur emitted to the stratosphere ranges from 5-12 Mt sulphur [e.g. Guo et al. 2004, McCormick, 1992]. The largest uncertainties are in the specification of the main aerosol cloud. SAGE II, for instance, could not measure the peak of the aerosol extinction for about 1.5 years, because optical termination was reached. The gap-filling of the SAGE II [Thomason and Peter, 2006] using lidar measurements underestimates the total extinctions in the tropics for the first half year after the eruption by 30% compared to AVHRR [Rusell et. al 1992]. The same applies to the optical dataset described by Stenchikov et al. [1998]. We compare these extinction data derived from measurements with extinctions derived from AER 2D aerosol model calculations [Weisenstein et al., 2007]. Full microphysical calculations with injections of 14, 17, 20 and 26 Mt SO2 in the lower stratosphere were performed. The optical aerosol properties derived from SAGE II

  17. ICF target 2D modeling using Monte Carlo SNB electron thermal transport in DRACO

    NASA Astrophysics Data System (ADS)

    Chenhall, Jeffrey; Cao, Duc; Moses, Gregory

    2016-10-01

    The iSNB (implicit Schurtz Nicolai Busquet multigroup diffusion electron thermal transport method is adapted into a Monte Carlo (MC) transport method to better model angular and long mean free path non-local effects. The MC model was first implemented in the 1D LILAC code to verify consistency with the iSNB model. Implementation of the MC SNB model in the 2D DRACO code enables higher fidelity non-local thermal transport modeling in 2D implosions such as polar drive experiments on NIF. The final step is to optimize the MC model by hybridizing it with a MC version of the iSNB diffusion method. The hybrid method will combine the efficiency of a diffusion method in intermediate mean free path regions with the accuracy of a transport method in long mean free path regions allowing for improved computational efficiency while maintaining accuracy. Work to date on the method will be presented. This work was supported by Sandia National Laboratories and the Univ. of Rochester Laboratory for Laser Energetics.

  18. 3D/2D Model-to-Image Registration for Quantitative Dietary Assessment.

    PubMed

    Chen, Hsin-Chen; Jia, Wenyan; Li, Zhaoxin; Sun, Yung-Nien; Sun, Mingui

    2012-12-31

    Image-based dietary assessment is important for health monitoring and management because it can provide quantitative and objective information, such as food volume, nutrition type, and calorie intake. In this paper, a new framework, 3D/2D model-to-image registration, is presented for estimating food volume from a single-view 2D image containing a reference object (i.e., a circular dining plate). First, the food is segmented from the background image based on Otsu's thresholding and morphological operations. Next, the food volume is obtained from a user-selected, 3D shape model. The position, orientation and scale of the model are optimized by a model-to-image registration process. Then, the circular plate in the image is fitted and its spatial information is used as constraints for solving the registration problem. Our method takes the global contour information of the shape model into account to obtain a reliable food volume estimate. Experimental results using regularly shaped test objects and realistically shaped food models with known volumes both demonstrate the effectiveness of our method.

  19. A New Approach to Calculate Indirect GWPs using the UIUC 2-D CRT and RTM Model

    NASA Astrophysics Data System (ADS)

    Li, Y.; Youn, D.; Patten, K.; Wuebbles, D.

    2006-12-01

    Global warming potentials (GWPs) are defined to be the total impact over time of adding a unit mass of a greenhouse gas to the atmosphere. Indirect GWPs are due to ozone depletion effects in the stratosphere for a certain compound and therefore stand for the long-term global cooling effects. Previously, indirect GWPs were calculated using a box model, which was not able to consider the complex processes in the atmosphere. As a step towards obtaining indirect GWPs through a more robust approach, the UIUC 2-D CRT model was used as the computational tool to derive ozone changes. The 2-D model has more realistic chemical, physical, and dynamical processes in the atmosphere and a relatively complete transport system, which makes it useful for a more accurate analysis. Furthermore, the University of Illinois at Urbana-Champaign (UIUC) radiative transfer model (RTM) is employed to derive the corresponding time-dependent radiative forcings from the 2-D CRT outputs. Two Halon compounds, Halon-1211 and Halon-1301, were selected to be studied for their indirect GWPs. The results showed that instantaneous and stratospheric adjusted indirect GWPs for a 100-year horizon are -10004.8 and -10237.1 for Halon-1211, while for Halon-1301 they are -19218.0 and -19627.6. The indirect GWPs for Halon-1211 and -1301 presented here are two to three times smaller compared to the results in WMO (2006) draft. Further analysis on indirect GWPs will be carried out using our 3-D MOZART-3 model.

  20. RVE Model with Porosity for 2D Woven CVI SiCf/SiC Composites

    NASA Astrophysics Data System (ADS)

    Shen, Xiuli; Gong, Longdong

    2016-12-01

    A representative volume element (RVE) model with porosity for 2D woven chemical vapor infiltration (CVI) SiCf/SiC composites is presented, and its mechanical properties are analyzed. Samples are divided after a tensile test, and their cross sections are scanned with a scanning electron microscope. The size of the feature structure of the RVE model is determined based on the measurement statistics of the feature structure parameters. In accordance with CVI technology, the deposition rates of the matrix in each direction along the surface of fiber bundles are assumed to be similar. The porosity structure is formed naturally when the RVE model is established. The RVE model conforms to the real structure and accurately shows the location and geometric shape of internal porosity. The relative error of the tensile modulus value estimated from the RVE model through the asymptotic expansion homogenization method and experimental data is 3.26%. Therefore, the RVE model is accurate and efficient.

  1. Quantitative Proteomic and Phosphoproteomic Comparison of 2D and 3D Colon Cancer Cell Culture Models.

    PubMed

    Yue, Xiaoshan; Lukowski, Jessica K; Weaver, Eric M; Skube, Susan B; Hummon, Amanda B

    2016-12-02

    Cell cultures are widely used model systems. Some immortalized cell lines can be grown in either two-dimensional (2D) adherent monolayers or in three-dimensional (3D) multicellular aggregates, or spheroids. Here, the quantitative proteome and phosphoproteome of colon carcinoma HT29 cells cultures in 2D monolayers and 3D spheroids were compared with a stable isotope labeling of amino acids (SILAC) labeling strategy. Two biological replicates from each sample were examined, and notable differences in both the proteome and the phosphoproteome were determined by nanoliquid chromatography tandem mass spectrometry (LC-MS/MS) to assess how growth configuration affects molecular expression. A total of 5867 protein groups, including 2523 phosphoprotein groups and 8733 phosphopeptides were identified in the samples. The Gene Ontology analysis revealed enriched GO terms in the 3D samples for RNA binding, nucleic acid binding, enzyme binding, cytoskeletal protein binding, and histone binding for their molecular functions (MF) and in the process of cell cycle, cytoskeleton organization, and DNA metabolic process for the biological process (BP). The KEGG pathway analysis indicated that 3D cultures are enriched for oxidative phosphorylation pathways, metabolic pathways, peroxisome pathways, and biosynthesis of amino acids. In contrast, analysis of the phosphoproteomes indicated that 3D cultures have decreased phosphorylation correlating with slower growth rates and lower cell-to-extracellular matrix interactions. In sum, these results provide quantitative assessments of the effects on the proteome and phosphoproteome of culturing cells in 2D versus 3D cell culture configurations.

  2. INTERACTIONS BETWEEN TOPOGRAPHY AND ROUGHNESS IN A 2D RASTER-BASED HYDRAULIC MODEL

    NASA Astrophysics Data System (ADS)

    Casas, M.; Yu, D.; Lane, S. N.; Benito-Ferrandez, G.

    2009-12-01

    Analysis of river flow using hydraulic modelling and its implications in derived environmental applications are inextricably connected with the way in which the river boundary shape is represented. This relationship is scale-dependent upon the modelling resolution which in turn determines the importance of a subscale performance of the model and the way subscale (surface and flow) processes are parameterised. This work aims to explore scaling effects associated with the parameterisation of topography and roughness (i.e. surface at different scales) and possible interactions between its components (mesh resolution, topographic content of the DEM and roughness parameterisation) within a 2D raster-based diffusion-wave model. A distributed roughness variable which is scale dependent on the mesh resolution and the surface roughness of the DEM is incorporated to the hydraulic model. The roughness parameterisation is carried out on the basis of a LiDAR-derived vegetation height model and applied in a raster based 2D diffusion wave model. Topographic models with different topographic contents and a constant mesh resolution are generated using LiDAR data and different vertical thresholds. Five DEMs are generated with different topographic contents (±Δz), (DEM±5cm, DEM±10cm, DEM±25cm, DEM±50cm) and four mesh resolutions (1, 2, 4 and 8m) are assessed. A sensitivity analysis on the model results to mesh resolution due to interpolation and resampling procedures of topographic data is performed. Interactions between topographic and roughness parameterisation are related to model results and finally, geostatistical methods are used to document scaling effects in hydraulic modelling results and model performance. This method explicitly recognises the three-way interaction between the discretised mesh resolution and the topographic content in the DEM with the roughness parameterisation. The work shows how the subscale behaviour of the 2D hydraulic model is not well

  3. Calibration of denitrifying activity of polyphosphate accumulating organisms in an extended ASM2d model.

    PubMed

    García-Usach, F; Ribes, J; Ferrer, J; Seco, A

    2010-10-01

    This paper presents the results of an experimental study for the modelling and calibration of denitrifying activity of polyphosphate accumulating organisms (PAOs) in full-scale WWTPs that incorporate simultaneous nitrogen and phosphorus removal. The convenience of using different yields under aerobic and anoxic conditions for modelling biological phosphorus removal processes with the ASM2d has been demonstrated. Thus, parameter η(PAO) in the model is given a physical meaning and represents the fraction of PAOs that are able to follow the DPAO metabolism. Using stoichiometric relationships, which are based on assumed biochemical pathways, the anoxic yields considered in the extended ASM2d can be obtained as a function of their respective aerobic yields. Thus, this modification does not mean an extra calibration effort to obtain the new parameters. In this work, an off-line calibration methodology has been applied to validate the model, where general relationships among stoichiometric parameters are proposed to avoid increasing the number of parameters to calibrate. The results have been validated through a UCT scheme pilot plant that is fed with municipal wastewater. The good concordance obtained between experimental and simulated values validates the use of anoxic yields as well as the calibration methodology. Deterministic modelling approaches, together with off-line calibration methodologies, are proposed to assist in decision-making about further process optimization in biological phosphate removal, since parameter values obtained by off-line calibration give valuable information about the activated sludge process such as the amount of DPAOs in the system.

  4. Modeling the Elastic Modulus of 2D Woven CVI SiC Composites

    NASA Technical Reports Server (NTRS)

    Morscher, Gregory N.

    2006-01-01

    The use of fiber, interphase, CVI SiC minicomposites as structural elements for 2D-woven SiC fiber reinforced chemically vapor infiltrated (CVI) SiC matrix composites is demonstrated to be a viable approach to model the elastic modulus of these composite systems when tensile loaded in an orthogonal direction. The 0deg (loading direction) and 90deg (perpendicular to loading direction) oriented minicomposites as well as the open porosity and excess SiC associated with CVI SiC composites were all modeled as parallel elements using simple Rule of Mixtures techniques. Excellent agreement for a variety of 2D woven Hi-Nicalon(TradeMark) fiber-reinforced and Sylramic-iBN reinforced CVI SiC matrix composites that differed in numbers of plies, constituent content, thickness, density, and number of woven tows in either direction (i.e, balanced weaves versus unbalanced weaves) was achieved. It was found that elastic modulus was not only dependent on constituent content, but also the degree to which 90deg minicomposites carried load. This depended on the degree of interaction between 90deg and 0deg minicomposites which was quantified to some extent by composite density. The relationships developed here for elastic modulus only necessitated the knowledge of the fractional contents of fiber, interphase and CVI SiC as well as the tow size and shape. It was concluded that such relationships are fairly robust for orthogonally loaded 2D woven CVI SiC composite system and can be implemented by ceramic matrix composite component modelers and designers for modeling the local stiffness in simple or complex parts fabricated with variable constituent contents.

  5. Using 2D and 3D Modeling to Infer the Depth of the Okavango Dyke Swarm

    NASA Astrophysics Data System (ADS)

    Dailey, M. K.; Mortimer, D.; Atekwana, E. A.

    2009-12-01

    The 179 Ma N110°-striking Okavango Dyke swarm (ODS) extends from southern Zimbabwe for approximately 1500 km northwest into Namibia. The emplacement of dyke swarms is typically associated with the initiation of continental breakup and has been suggested that ODS was emplaced during the breakup of Gondwana along an existing zone of weakness. However, the understanding of how these giant dyke swarms are emplaced over large distances for hundreds of kilometers is limited- do these giant dike swarms propagate from a single source for hundreds of kilometers or do they propagate from sub-crustal magma chambers along a zone of weakness? To address these questions we investigated the ODS in northern Botswana. The dyke swarm is exposed at the surface in the east close to its origin but is buried in the northwest within the Okavango Rift Zone. Using airborne magnetic and ground gravity survey data along with rock property data from the exposed sections, 2D and 3D models were created in order to determine the depth of the dyke swarm. Initially several 2D models were used to test hypothesis of varying depths and rock parameters. The 2D models were then used to ‘seed’ the 3D models with similar density, susceptibility, and depth parameters. The dykes appear to have relatively shallow and finite depths, in the range of 2 to 5 km deep. These results are consistent with a lateral emplacement stemming from the failed triple junction and thus ruling out an infinite depth extent which would have been the case if the dykes were propagated vertically from sub-crustal magma chambers.

  6. A solidification constitutive model for NIKE2D and NIKE3D

    SciTech Connect

    Raboin, P.J.

    1994-03-17

    This memo updates the current status of a solidification material model development which has been underway for more than a year. Significant modeling goals such as predicting cut-off stresses, thermo-elasto-plasticity, strain rate dependent plasticity and dynamic recovery have been completed. The model is called SOLMAT for solidification material model, and while developed for NIKE2D, it has already been implemented in NIKE3D and NIT03D by B. Maker. This memo details the future development strategy of SOLMAT including liquid and solid constitutive improvements, coupling of deviatoric and dilatational deformation and a plan to switch between constitutive theories. It explains some of the difficulties associated solidification modeling and proposes two experiments to measure properties for using SOLMAT. Due to the sensitive nature of these plans in relation to programmatic and CRADA concerns, this memo should be treated as confidential document.

  7. 2D modeling of regeneration surface growth on a single-crystal sphere

    NASA Astrophysics Data System (ADS)

    Thomas, V. G.; Gavryushkin, P. N.; Fursenko, D. A.

    2015-07-01

    This paper investigates the evolution of a sphere produced from a single crystal potassium alum in course of its regeneration, using numerical 2D-simulation in the kinematic model, which describes the growth of the regenerating surfaces.The modeling results demonstrate a qualitative agreement between the predictions of the kinematic model and real processes of sphere regeneration. It is shown that the face arising on the regenerating surface of a sphere may grow either more slowly or more rapidly than the surrounding surface. In the latter case, the face interacts with the regeneration surface and disappears from the sphere surface before intersecting in edges with neighboring faces. The influence of the input model parameters on the numerical modeling results is analyzed. It is established that the roughness parameters of the initial surface of a single-crystal sphere significantly affect the surface evolution during regeneration.

  8. An Integrative Model of Excitation Driven Fluid Flow in a 2D Uterine Channel

    NASA Astrophysics Data System (ADS)

    Maggio, Charles; Fauci, Lisa; Chrispell, John

    2009-11-01

    We present a model of intra-uterine fluid flow in a sagittal cross-section of the uterus by inducing peristalsis in a 2D channel. This is an integrative multiscale computational model that takes as input fluid viscosity, passive tissue properties of the uterine channel and a prescribed wave of membrane depolarization. This voltage pulse is coupled to a model of calcium dynamics inside a uterine smooth muscle cell, which in turn drives a kinetic model of myosin phosphorylation governing contractile muscle forces. Using the immersed boundary method, these muscle forces are communicated to a fluid domain to simulate the contractions which occur in a human uterus. An analysis of the effects of model parameters on the flow properties and emergent geometry of the peristaltic channel will be presented.

  9. An Implicit 2-D Depth-Averaged Finite-Volume Model of Flow and Sediment Transport in Coastal Waters

    DTIC Science & Technology

    2010-01-01

    Two-dimensional depth-averaged circulation model CMS- M2D : Version 3.0, Report 2: Sediment transport and morphology change, Technical Report ERDC/CHL TR...dimensional depth-averaged circulation model M2D : Version 2.0, Report 1, Technical documentation and user’s guide. ERDC/CHL TR-04-2, Coastal and Hydraulics

  10. Bernstein copula approach to model direction-length dependency for 2D discrete fracture network simulation

    NASA Astrophysics Data System (ADS)

    Mendoza-Torres, F.; Diaz-Viera, M. A.

    2015-12-01

    In many natural fractured porous media, such as aquifers, soils, oil and geothermal reservoirs, fractures play a crucial role in their flow and transport properties. An approach that has recently gained popularity for modeling fracture systems is the Discrete Fracture Network (DFN) model. This approach consists in applying a stochastic boolean simulation method, also known as object simulation method, where fractures are represented as simplified geometric objects (line segments in 2D and polygons in 3D). One of the shortcomings of this approach is that it usually does not consider the dependency relationships that may exist between the geometric properties of fractures (direction, length, aperture, etc), that is, each property is simulated independently. In this work a method for modeling such dependencies by copula theory is introduced. In particular, a nonparametric model using Bernstein copulas for direction-length fracture dependency in 2D is presented. The application of this method is illustrated in a case study for a fractured rock sample from a carbonate reservoir outcrop.

  11. Evaluation of Hydrus-2D model for solute distribution in subsurface drip

    NASA Astrophysics Data System (ADS)

    Souza, Claudinei; Bizari, Douglas; Grecco, Katarina

    2015-04-01

    The competition for water use between agriculture, industry and population has become intense over the years, requiring a rational use of this resource for food production. The subsurface drip irrigation can help producers with the optimization of operating parameters such as frequency and duration of irrigation, flow, spacing and depth of the dripper installation. This information can be obtained by numerical simulations using mathematical models, thus the aim of this study was to evaluate the HYDRUS-2D model from experimental data to predict the size of the wet bulbs generated by emitters of different application rates (1.0 and 1.6 L h-1). The results showed that horizontal displacement (bulb diameter) remained the largest in all the bulbs, observed both in experimental trials and estimated by the model and the correlation between them was high, above 0.90 to below 16% error. We conclude that the HYDRUS-2D model can be used to estimate the dimensions of the wet bulb getting new information on the sizing of the irrigation system.

  12. 2D lattice model of a lipid bilayer: Microscopic derivation and thermodynamic exploration.

    PubMed

    Hakobyan, Davit; Heuer, Andreas

    2017-02-14

    Based on all-atom Molecular Dynamics (MD) simulations of a lipid bilayer we present a systematic mapping on a 2D lattice model. Keeping the lipid type and the chain order parameter as key variables we derive a free energy functional, containing the enthalpic interaction of adjacent lipids as well as the tail entropy. The functional form of both functions is explicitly determined for saturated and polyunsaturated lipids. By studying the lattice model via Monte Carlo simulations it is possible to reproduce the temperature dependence of the distribution of order parameters of the pure lipids, including the prediction of the gel transition. Furthermore, application to a mixture of saturated and polyunsaturated lipids yields the correct phase separation behavior at lower temperatures with a simulation time reduced by approximately 7 orders of magnitude as compared to the corresponding MD simulations. Even the time-dependence of the de-mixing is reproduced on a semi-quantitative level. Due to the generality of the approach we envisage a large number of further applications, ranging from modeling larger sets of lipids, sterols, and solvent proteins to predicting nucleation barriers for the melting of lipids. Particularly, from the properties of the 2D lattice model one can directly read off the enthalpy and entropy change of the 1,2-dipalmitoyl-sn-glycero-3-phosphocholine gel-to-liquid transition in excellent agreement with experimental and MD results.

  13. 2D lattice model of a lipid bilayer: Microscopic derivation and thermodynamic exploration

    NASA Astrophysics Data System (ADS)

    Hakobyan, Davit; Heuer, Andreas

    2017-02-01

    Based on all-atom Molecular Dynamics (MD) simulations of a lipid bilayer we present a systematic mapping on a 2D lattice model. Keeping the lipid type and the chain order parameter as key variables we derive a free energy functional, containing the enthalpic interaction of adjacent lipids as well as the tail entropy. The functional form of both functions is explicitly determined for saturated and polyunsaturated lipids. By studying the lattice model via Monte Carlo simulations it is possible to reproduce the temperature dependence of the distribution of order parameters of the pure lipids, including the prediction of the gel transition. Furthermore, application to a mixture of saturated and polyunsaturated lipids yields the correct phase separation behavior at lower temperatures with a simulation time reduced by approximately 7 orders of magnitude as compared to the corresponding MD simulations. Even the time-dependence of the de-mixing is reproduced on a semi-quantitative level. Due to the generality of the approach we envisage a large number of further applications, ranging from modeling larger sets of lipids, sterols, and solvent proteins to predicting nucleation barriers for the melting of lipids. Particularly, from the properties of the 2D lattice model one can directly read off the enthalpy and entropy change of the 1,2-dipalmitoyl-sn-glycero-3-phosphocholine gel-to-liquid transition in excellent agreement with experimental and MD results.

  14. Momentum Transport: 2D and 3D Cloud Resolving Model Simulations

    NASA Technical Reports Server (NTRS)

    Tao, Wei-Kuo

    2001-01-01

    The major objective of this study is to investigate the momentum budgets associated with several convective systems that developed during the TOGA COARE IOP (west Pacific warm pool region) and GATE (east Atlantic region). The tool for this study is the improved Goddard Cumulas Ensemble (GCE) model which includes a 3-class ice-phase microphysical scheme, explicit cloud radiative interactive processes and air-sea interactive surface processes. The model domain contains 256 x 256 grid points (with 2 km resolution) in the horizontal and 38 grid points (to a depth of 22 km) in the vertical. The 2D domain has 1024 grid points. The simulations were performed over a 7-day time period (December 19-26, 1992, for TOGA COARE and September 1-7, 1994 for GATE). Cyclic literal boundary conditions are required for this type of long-term integration. Two well organized squall systems (TOGA, COARE February 22, 1993, and GATE September 12, 1994) were also simulated using the 3D GCE model. Only 9 h simulations were required to cover the life time of the squall systems. the lateral boundary conditions were open for these two squall systems simulations. the following will be examined: (1) the momentum budgets in the convective and stratiform regions, (2) the relationship between momentum transport and cloud organization (i.e., well organized squall lines versus less organized convective), (3) the differences and similarities in momentum transport between 2D and 3D simulated convective systems, and (4) the differences and similarities in momentum budgets between cloud systems simulated with open and cyclic lateral boundary conditions. Preliminary results indicate that there are only small differences between 2D and 3D simulated momentum budgets. Major differences occur, however, between momentum budgets associated with squall systems simulated using different lateral boundary conditions.

  15. An interactive 2-D power-line modeling and simulation tool

    NASA Astrophysics Data System (ADS)

    Hull, David; Adelman, Ross

    2012-06-01

    The U.S. Army Research Laboratory's Power-Line unmanned aerial vehicle (UAV) Modeling and Simulation (ARL-PLUMS) is a tool for estimating and analyzing quasi-static electric and magnetic fields due to power lines. This tool consists of an interactive 2-D graphical user interface (GUI) and a compute engine that can be used to calculate and visualize the E-Field and H-Field due to as many as seven conductors (two 3-phase circuits and a ground wire). ARL-PLUMS allows the user to set the geometry of the lines and the load conditions on those lines, and then calculate Ey, Ez, Hy, or Hz along a linear path or cutting plane, or in the form of a movie. The path can be along the ground or in the air to simulate the fields that might be observed, for example, by a robotic vehicle or a UAV. ARL-PLUMS makes several simplifying assumptions in order to allow simulations to be completed on a laptop PC interactively. In most cases, the results are excellent, providing a "90% solution" in just a few minutes of total modeling and simulation time. This paper describes the physics used by ARL-PLUMS, including the simplifying assumptions and the 2-D Method of Moments solver. Examples of electric and magnetic fields for different wire configurations, including typical 3-phase distribution and transmissions lines, are provided. Comparisons to similar results using a full 3-D model are also shown, and a discussion of errors that may be expected from the 2-D simulations is provided.

  16. Comparative analysis of 2D and 3D model of a PEMFC in COMSOL

    NASA Astrophysics Data System (ADS)

    Lakshmi, R. Bakiya; Harikrishnan, N. P.; Juliet, A. Vimala

    2017-10-01

    In this article, 2D and 3D model of a PEMFC has been simulated in order to study their performance when subjected to similar operating conditions. The comparison reveals interesting phenomena of performance enhancement of the fuel cell. Design of fuel cell channel and stationary studies were done in COMSOL. Variations in current density and electrolyte potential from simulation results were observed when operated at a temperature of 120 °C. The electrolyte potential was found to have increased from 1 to 2.5 V and the surface pressure due to fluid flow was found to have increased from 3 to 9.58 Pa.

  17. JetCurry: Modeling 3D geometry of AGN jets from 2D images

    NASA Astrophysics Data System (ADS)

    Kosak, Katie; Li, KunYang; Avachat, Sayali S.; Perlman, Eric S.

    2017-02-01

    Written in Python, JetCurry models the 3D geometry of jets from 2-D images. JetCurry requires NumPy and SciPy and incorporates emcee (ascl:1303.002) and AstroPy (ascl:1304.002), and optionally uses VPython. From a defined initial part of the jet that serves as a reference point, JetCurry finds the position of highest flux within a bin of data in the image matrix and fits along the x axis for the general location of the bends in the jet. A spline fitting is used to smooth out the resulted jet stream.

  18. JetCurry: Modeling 3D geometry of AGN jets from 2D images

    NASA Astrophysics Data System (ADS)

    Li, Kunyang; Kosak, Katie; Avachat, Sayali S.; Perlman, Eric S.

    2017-02-01

    Written in Python, JetCurry models the 3D geometry of AGN jets from 2-D images. JetCurry requires NumPy and SciPy and incorporates emcee (ascl:1303.002) and AstroPy (ascl:1304.002), and optionally uses VPython. From a defined initial part of the jet that serves as a reference point, JetCurry finds the position of highest flux within a bin of data in the image matrix and fits along the x axis for the general location of the bends in the jet. A spline fitting is used to smooth out the resulted jet stream.

  19. A 2D Axisymmetric Mixture Multiphase Model for Bottom Stirring in a BOF Converter

    NASA Astrophysics Data System (ADS)

    Kruskopf, Ari

    2017-02-01

    A process model for basic oxygen furnace (BOF) steel converter is in development. The model will take into account all the essential physical and chemical phenomena, while achieving real-time calculation of the process. The complete model will include a 2D axisymmetric turbulent multiphase flow model for iron melt and argon gas mixture, a steel scrap melting model, and a chemical reaction model. A novel liquid mass conserving mixture multiphase model for bubbling gas jet is introduced in this paper. In-house implementation of the model is tested and validated in this article independently from the other parts of the full process model. Validation data comprise three different water models with different volume flow rates of air blown through a regular nozzle and a porous plug. The water models cover a wide range of dimensionless number R_{{p}} , which include values that are similar for industrial-scale steel converter. The k- ɛ turbulence model is used with wall functions so that a coarse grid can be utilized. The model calculates a steady-state flow field for gas/liquid mixture using control volume method with staggered SIMPLE algorithm.

  20. Image restoration using 2D autoregressive texture model and structure curve construction

    NASA Astrophysics Data System (ADS)

    Voronin, V. V.; Marchuk, V. I.; Petrosov, S. P.; Svirin, I.; Agaian, S.; Egiazarian, K.

    2015-05-01

    In this paper an image inpainting approach based on the construction of a composite curve for the restoration of the edges of objects in an image using the concepts of parametric and geometric continuity is presented. It is shown that this approach allows to restore the curved edges and provide more flexibility for curve design in damaged image by interpolating the boundaries of objects by cubic splines. After edge restoration stage, a texture restoration using 2D autoregressive texture model is carried out. The image intensity is locally modeled by a first spatial autoregressive model with support in a strongly causal prediction region on the plane. Model parameters are estimated by Yule-Walker method. Several examples considered in this paper show the effectiveness of the proposed approach for large objects removal as well as recovery of small regions on several test images.

  1. Modeling of lamps through a diffuser with 2D and 3D picket-fence backlight models

    NASA Astrophysics Data System (ADS)

    Belshaw, Richard J.; Wilmott, Roger; Thomas, John T.

    2002-08-01

    Laboratory photometric measurements are taken of a display backlight one metre away from the emission surface (diffuser) with a whole acceptance angle on the photometer of about 0.125 degrees (2.182mm spot size at emission surface). A simulation method was sought to be able to obtain the brightness uniformity (luminance peak to trough ratio from above one lamp to the null between lamps in a picket-fence backlight). A 3D raytrace BackLight model in TracePro and a 2D Mathematical model in Matlab have been developed. With a specimen backlight in the laboratory, a smooth luminance profile was measured by the photometer on the diffuser surface. Ray Trace models in both 3D and 2D take too long to produce smooth 'continuous filled' distributions. The Mathematical 2D approach, although with limitations, yielded smooth solutions in a very reasonable time frame.

  2. Stochastic dynamics of phase singularities under ventricular fibrillation in 2D Beeler-Reuter model

    NASA Astrophysics Data System (ADS)

    Suzuki, Akio; Konno, Hidetoshi

    2011-09-01

    The dynamics of ventricular fibrillation (VF) has been studied extensively, and the initiation mechanism of VF has been elucidated to some extent. However, the stochastic dynamical nature of sustained VF remains unclear so far due to the complexity of high dimensional chaos in a heterogeneous system. In this paper, various statistical mechanical properties of sustained VF are studied numerically in 2D Beeler-Reuter-Drouhard-Roberge (BRDR) model with normal and modified ionic current conductance. The nature of sustained VF is analyzed by measuring various fluctuations of spatial phase singularity (PS) such as velocity, lifetime, the rates of birth and death. It is found that the probability density function (pdf) for lifetime of PSs is independent of system size. It is also found that the hyper-Gamma distribution serves as a universal pdf for the counting number of PSs for various system sizes and various parameters of our model tissue under VF. Further, it is demonstrated that the nonlinear Langevin equation associated with a hyper-Gamma process can mimic the pdf and temporal variation of the number of PSs in the 2D BRDR model.

  3. Quantifying Mixing and Scales of Heterogeneity in 2-D Numerical Models of Chaotic Mantle Mixing

    NASA Astrophysics Data System (ADS)

    Harris, A. C.; Naliboff, J.; Prytulak, J.; Vanacore, E.; Cooper, K. M.; Hart, S.; Kellogg, L. H.

    2006-12-01

    Fundamental to our understanding of geochemical reservoirs within the Earth's mantle is the concept of the scale and distribution of heterogeneity. Although many studies approach this concept qualitatively few have attempted a quantitative assessment. Through a collaborative effort at the CIDER (Cooperative Institute for Deep Earth Research) 2006 summer workshop, we applied a 2-D/1-D power spectral and statistical analysis, respectively, to the temperature field and passive tracer distribution within a 2-D numerical model of mantle convection. The resultant data provides a means to objectively describe the scales of mixing and heterogeneity within various model scenarios. The dynamic models used had a 1x10 aspect ratio, included temperature- and pressure-dependent viscosity, had a Rayleigh number of 10^7, and had both internal and basal heating. One end member case includes a layered structure for viscosity and thermal conductivity, with a sharp increase in the mid-mantle. Spectral analysis of the temperature fields indicates that power near the upper and lower boundary layers is concentrated in long-wavelength structures while in the mid-mantle the spectrum is broader. Layering the viscosity structure enhances this dichotomy, but does not isolate the upper from the lower mantle and does not necessarily lead to decreased mixing rates or efficiency. Preliminary results demonstrate that the overall particle distribution, measured as a function of the distance between particles, is not necessarily unimodal. Furthermore, at a given time step this distribution may become multimodal.

  4. A mathematical model incorporating the effects of detector width in 2D PET

    NASA Astrophysics Data System (ADS)

    Mair, B. A.

    2000-02-01

    For decades, the Radon transform has been used as an approximate model for two-dimensional (2D) positron emission tomography (PET). Since this model assumes that detector tubes are represented by lines (hence have no area), PET reconstruction algorithms need to be modified to account for the nonzero width of detectors. To date, these modifications have been obtained by computational methods, so fail to exhibit any inherent mathematical structure of the PET transform which takes emission intensity to detector tube means. This paper contains a precise mathematical representation of this PET transform and exploits this representation to propose a new method for reconstructing PET images. This representation is achieved by expressing the probability that an emission at a point is detected in a detector tube, in terms of the Green function and Poisson kernel for Laplace's equation on the unit disc. This new PET transform involves four weighted line integrals of the emission intensity function, instead of the single unweighted line integral defining the 2D Radon transform. Despite the complexity of this model, a reconstruction method is obtained by using classical orthogonal series representations of the emission intensity and detection means in terms of circular harmonics, Bessel functions and Chebyshev polynomials.

  5. Self-Organization in 2D Traffic Flow Model with Jam-Avoiding Drive

    NASA Astrophysics Data System (ADS)

    Nagatani, Takashi

    1995-04-01

    A stochastic cellular automaton (CA) model is presented to investigate the traffic jam by self-organization in the two-dimensional (2D) traffic flow. The CA model is the extended version of the 2D asymmetric exclusion model to take into account jam-avoiding drive. Each site contains either a car moving to the up, a car moving to the right, or is empty. A up car can shift right with probability p ja if it is blocked ahead by other cars. It is shown that the three phases (the low-density phase, the intermediate-density phase and the high-density phase) appear in the traffic flow. The intermediate-density phase is characterized by the right moving of up cars. The jamming transition to the high-density jamming phase occurs with higher density of cars than that without jam-avoiding drive. The jamming transition point p 2c increases with the shifting probability p ja. In the deterministic limit of p ja=1, it is found that a new jamming transition occurs from the low-density synchronized-shifting phase to the high-density moving phase with increasing density of cars. In the synchronized-shifting phase, all up cars do not move to the up but shift to the right by synchronizing with the move of right cars. We show that the jam-avoiding drive has an important effect on the dynamical jamming transition.

  6. 2D-photochemical model for forbidden oxygen line emission for comets

    NASA Astrophysics Data System (ADS)

    Cessateur, G.; De Keyser, J.; Maggiolo, R.; Rubin, M.; Gronoff, G.; Gibbons, A.; Jehin, E.; Dhooghe, F.; Gunell, H.; Vaeck, N.; Loreau, J.

    2016-12-01

    Emissions at 577.7 nm (green line), 630 nm, and 636.4 nm (red-doublet) come from the deactivation of the O(1S) and O(1D) oxygen states. The photodissociation of H2O, CO and CO2 in the inner coma are responsible for the production of those oxygen states. This list of species had to be extended to include molecular oxygen since its in-situ detection by the Rosetta and Giotto missions. This contribution will present a 2D-photochemical model that calculates the number densities of the O(1S) and O(1D) oxygen states in the comae of various comets, taking the production, the loss and the transport mechanisms into account. For very active comets, e.g. 1P/Halley, a 1D model does not suffice since the solar UV flux is strongly absorbed resulting in an overestimation of the red-doublet and green lines emissions by a factor of 2. Even when assuming spherical symmetry of the neutral gas coma, the phase angle of the observation introduces asymmetries in the measured emission line ratios. Emission maps are deduced from our 2D-model, which can directly be compared to ground and/or in-situ observations.

  7. A 2-D enlarged cell technique (ECT) for elastic wave modelling on a curved free surface

    NASA Astrophysics Data System (ADS)

    Wei, Songlin; Zhuang, Mingwei; Zhou, Jianyang; Liu, Qing Huo

    2015-04-01

    The conventional finite-difference time-domain (FDTD) method for elastic waves suffers from the staircasing error when applied to model a curved free surface because of the structured grid. This is similar to the situation for the FDTD method in electromagnetics when it is applied to model a curved perfect conductor surface, where the conformal FDTD methods have been recently developed to avoid this error. In this work a stable and second-order accurate 2-D FDTD method for elastic wave modelling on a curved free surface is presented based on the finite volume method and enlarged cell technique (ECT). To achieve a sufficiently accurate implementation, a finite volume scheme is applied to the curved free surface to remove the staircasing error; in the meantime, to achieve the same stability as the FDTD method without reducing the time step increment, the ECT is introduced to preserve the solution stability even for small irregular cells. This method is verified by several 2-D numerical examples. Results show that the method is second-order accurate and stable at the Courant stability limit for a regular FDTD grid.

  8. Stable structure-approximating inverse protein folding in 2D hydrophobic-polar-cysteine (HPC) model.

    PubMed

    Khodabakhshi, Alireza Hadj; Manuch, Ján; Rafiey, Arash; Gupta, Arvind

    2009-01-01

    The inverse protein folding problem is that of designing an amino acid sequence which folds into a prescribed conformation/structure. This problem arises in drug design where a particular structure is necessary to ensure proper protein-protein interactions. Gupta et al. (2005) introduced a design in the two-dimensional (2D) hydrophobic-polar (HP) model of Dill that can be used to approximate any given (2D) shape. They conjectured that the protein sequences of their design are stable but only proved the stability for an infinite class of very basic structures. We introduce a refinement of the HP model, in which the cysteine and non-cysteine hydrophobic monomers are distinguished and SS-bridges, which two cysteines can form, are taken into account in the energy function. We call this model the HPC model. We consider a subclass of linear structures designed in Gupta et al. (2005) which is rich enough to approximate (although more coarsely) any given structure. We refine these structures for the HPC model by setting approximately a half of H amino acids to cysteine ones and call them snake structures. We first prove that the proteins of the snake structures are stable under the strong HPC model in which we make an additional assumption that non-cysteine amino acids act as cysteine ones, i.e., they can form their own bridges to reduce the energy. Then we consider a subclass of snake structures called wave structures that can still approximate any given shape and prove that their proteins are stable under the proper HPC model. This partially confirms the conjecture stated in Gupta et al. (2005). To prove the above results we developed a computational tool, called 2DHPSolver, which we used to perform large case analysis required for the proofs. We conjecture that the proteins of snake structures are stable under the proper HPC model.

  9. A comparative 2D modeling of debris-flow propagation and outcomes for end-users

    NASA Astrophysics Data System (ADS)

    Bettella, F.; Bertoldi, G.; Pozza, E.; McArdell, B. W.; D'Agostino, V.

    2012-04-01

    In Alpine regions gravity-driven natural hazards, in particular debris flows, endanger settlements and human life. Mitigation strategies based on hazard maps are necessary tools for land planning. These maps can be made more precise by using numerical models to forecasting the inundated areas after a careful setting of those 'key parameters' (K-P) which directly affect the flow motion and its interaction with the ground surface. Several physically based 2D models are available for practitioners and governmental agencies, but the selection criteria of model type and of the related K-P remain flexible and partly subjective. This remark has driven us to investigate how different models simulate different types of debris flows (from granular to muddy debris flows, going through intermediate types), in particular when the flow is influenced by the presence of deposition basins. Two commercial 2D physical models (RAMMS and FLO-2D) have been tested for five well-documented debris flows events from five Italian catchments were different geology and flow dynamics are observed: 1) a viscous debris flow occurred in 2009 in a catchment with a metamorphic geology (Gadria torrent, Bolzano Province); 2) the 2009 granular debris flow in an granitic geological setting (Rio Dosson, Trento Province); 3-4) two events occurred in the 'rio Val del Lago' and 'rio Molinara' (Trento Province) in 2010 where porphyritic lithology prevails (intermediate granular debris flow); 5) the Rotolon torrent (Vicenza Province) 2009 debris flow containing sedimentary rocks enclosed in an abundant clay-rich matrix (intermediate viscous case). Event volumes range from 5.000 to 50.000 cubic meters. The Gadria, Rotolon and Val del Lago events are also influenced by artificial retention basins. Case study simulations allowed delineation of some practical end-user suggestions and good practices in order to guide the model choice and the K-P setting, particularly related to different flow dynamics. The

  10. Kinetic parameter estimation in N. europaea biofilms using a 2-D reactive transport model.

    PubMed

    Lauchnor, Ellen G; Semprini, Lewis; Wood, Brian D

    2015-06-01

    Biofilms of the ammonia oxidizing bacterium Nitrosomonas europaea were cultivated to study microbial processes associated with ammonia oxidation in pure culture. We explored the hypothesis that the kinetic parameters of ammonia oxidation in N. europaea biofilms were in the range of those determined with batch suspended cells. Oxygen and pH microelectrodes were used to measure dissolved oxygen (DO) concentrations and pH above and inside biofilms and reactive transport modeling was performed to simulate the measured DO and pH profiles. A two dimensional (2-D) model was used to simulate advection parallel to the biofilm surface and diffusion through the overlying fluid while reaction and diffusion were simulated in the biofilm. Three experimental studies of microsensor measurements were performed with biofilms: i) NH3 concentrations near the Ksn value of 40 μM determined in suspended cell tests ii) Limited buffering capacity which resulted in a pH gradient within the biofilms and iii) NH3 concentrations well below the Ksn value. Very good fits to the DO concentration profiles both in the fluid above and in the biofilms were achieved using the 2-D model. The modeling study revealed that the half-saturation coefficient for NH3 in N. europaea biofilms was close to the value measured in suspended cells. However, the third study of biofilms with low availability of NH3 deviated from the model prediction. The model also predicted shifts in the DO profiles and the gradient in pH that resulted for the case of limited buffering capacity. The results illustrate the importance of incorporating both key transport and chemical processes in a biofilm reactive transport model.

  11. Shaking Duration and Resonance Frequencies From 2d Hybrid Modelling For The Region of Cologne (germany)

    NASA Astrophysics Data System (ADS)

    Richwalski, S. M.; Parolai, S.; Wang, R.; Roth, F.

    The effect of sedimentary basins on the seismic wavefield is mainly twofold: The shaking at resonance frequencies is amplified and the shaking duration is increased. We study these effects for the area of Cologne (Germany), which is situated in the Lower Rhine Embayment. This is an active tectonic region with a horst/graben struc- ture where moderate sized earthquakes occur along the fault systems. The Erft fault system for example, with the closest surface exposure only 15 km West of the city of Cologne and its high concentration of industrial facilities, is the most important po- tential fault (Ahorner, 2001, DGG Mittlg., 2, p 3). This research is part of the German Research Network for Natural Disasters (DFNK) which aims at an integrated approach for assessing the seismic hazard in this region. Seismic modelling may aid the mitigation of earthquake risk by providing shaking sce- narios for possible source locations and parameters. For modelling, we use a hybrid technique, which combines an improved Thomson-Haskell algorithm (Wang, 1999, BSSA, p 733) with a 2D finite-difference algorithm (Zahradník and Moczo, 1996, PAGEOPH, p 21). This allows for including realistic sources, a regional background model, and a detailed near surface model for the basin. The increase in the shaking duration is already visible in the seismograms but bet- ter visualised by sonograms that show the distribution of the spectral energy in time. Resonance frequencies can be identified using the classical spectral ratio method. The necessary reference site can be created by repeating the modelling using only the re- gional background model but not the basin structure. We also compare the results of 1D and 2D modelling.

  12. Assessing soil fluxes using meteoric 10Be: development and application of the Be2D model

    NASA Astrophysics Data System (ADS)

    Campforts, Benjamin; Govers, Gerard; Vanacker, Veerle; Baken, Stijn; Smolders, Erik; Vanderborght, Jan

    2015-04-01

    Meteoric 10Be is a promising and increasingly popular tool to better understand soil fluxes at different timescales. Unlike other, more classical, methods such as the study of sedimentary archives it enables a direct coupling between eroding and deposition sites. However, meteoric 10Be can be mobilized within the soil. Therefore, spatial variations in meteoric 10Be inventories cannot directly be translated into spatial variations in erosion and sedimentation rates: a correct interpretation of measured 10Be inventories requires that both lateral and vertical movement of meteoric 10Be are accounted for. Here, we present a spatially explicit 2D model that allows to simulate the behaviour of meteoric 10Be in the soil system over timescales of up to 1 million year and use the model to investigate the impact of accelerated erosion on meteoric 10Be inventories. The model consists of two parts. A first component deals with advective and diffusive mobility within the soil profile, whereas a second component describes lateral soil (and meteoric 10Be) fluxes over the hillslope. Soil depth is calculated dynamically, accounting for soil production through weathering and lateral soil fluxes. Different types of erosion such as creep, water and tillage erosion are supported. Model runs show that natural soil fluxes can be well reconstructed based on meteoric 10Be inventories, and this for a wide range of geomorphological and pedological conditions. However, extracting signals of human impact and distinguishing them from natural soil fluxes is only feasible when the soil has a rather high retention capacity so that meteoric 10Be is retained in the top soil layer. Application of the Be2D model to an existing data set in the Appalachian Mountains [West et al.,2013] using realistic parameter values for the soil retention capacity as well as for vertical advection resulted in a good agreement between simulated and observed 10Be inventories. This confirms the robustness of the model. We

  13. Analysis of stochastic phenomena in 2D Hindmarsh-Rose neuron model

    NASA Astrophysics Data System (ADS)

    Bashkirtseva, I.; Ryashko, L.; Slepukhina, E.

    2016-10-01

    In mathematical research of neuronal activity, conceptual models play an important role. We consider 2D Hindmarsh-Rose model, which exhibits the fundamental property of neuron, the excitability. We study how random disturbances affect this property. The effects of noise are analysed in the parametric zone where the deterministic model is characterized by the coexistence of two stable equilibria. We show that under random disturbances, noise-induced transitions between the attractors occur, forming a new complex dynamic regime of stochastic bursting. It is confirmed by changes of distribution of random trajectories and interspike intervals. For the analysis of this noise-induced phenomenon, we apply the stochastic sensitivity technique and confidence domains method. We suggest a method for estimation of threshold noise intensity corresponding to the onset of noise-induced bursting. We show that the obtained values are in a good agreement with direct numerical simulations.

  14. Longtime Well-posedness for the 2D Groma-Balogh Model

    NASA Astrophysics Data System (ADS)

    Wan, Renhui; Chen, Jiecheng

    2016-12-01

    In this paper, we consider the cauchy problem for the 2D Groma-Balogh model (Acta Mater 47:3647-3654, 1999). From the works Cannone et al. (Arch Ration Mech Anal 196:71-96, 2010) and El Hajj (Ann Inst Henri Poincaré Anal Nonlinéaire 27:21-35, 2010), one can see global well-posedness for this model is an open question. However, we can prove longtime well-posedness. In particular, we show that this model admits a unique solution with the lifespan T^star satisfying T^star log ^2(1+T^star )≳ ɛ ^{-2} if the initial data is of size ɛ . To achieve this, we first establish some new decay estimates concerning the operator e^{-{R}_{12}^2t}. Then, we prove the longtime well-posedness by utilizing the weak dissipation to deal with the nonlinear terms.

  15. The concept models and implementations of multiport neural net associative memory for 2D patterns

    NASA Astrophysics Data System (ADS)

    Krasilenko, Vladimir G.; Nikolskyy, Aleksandr I.; Yatskovskaya, Rimma A.; Yatskovsky, Victor I.

    2011-04-01

    The paper considers neural net models and training and recognizing algorithms with base neurobiologic operations: p-step autoequivalence and non-equivalenc The Modified equivalently models (MEMs) of multiport neural net associative memory (MNNAM) are offered with double adaptive - equivalently weighing (DAEW) for recognition of 2D-patterns (images). It is shown, the computing process in MNNAM under using the proposed MEMs, is reduced to two-step and multi-step algorithms and step-by-step matrix-matrix (tensor-tensor) procedures. The given results of computer simulations confirmed the perspective of such models. Besides the result was received when MNNAM capacity on base of MEMs exceeded the amount of neurons.

  16. Observation of spatial charge and spin correlations in the 2D Fermi-Hubbard model.

    PubMed

    Cheuk, Lawrence W; Nichols, Matthew A; Lawrence, Katherine R; Okan, Melih; Zhang, Hao; Khatami, Ehsan; Trivedi, Nandini; Paiva, Thereza; Rigol, Marcos; Zwierlein, Martin W

    2016-09-16

    Strong electron correlations lie at the origin of high-temperature superconductivity. Its essence is believed to be captured by the Fermi-Hubbard model of repulsively interacting fermions on a lattice. Here we report on the site-resolved observation of charge and spin correlations in the two-dimensional (2D) Fermi-Hubbard model realized with ultracold atoms. Antiferromagnetic spin correlations are maximal at half-filling and weaken monotonically upon doping. At large doping, nearest-neighbor correlations between singly charged sites are negative, revealing the formation of a correlation hole, the suppressed probability of finding two fermions near each other. As the doping is reduced, the correlations become positive, signaling strong bunching of doublons and holes, in agreement with numerical calculations. The dynamics of the doublon-hole correlations should play an important role for transport in the Fermi-Hubbard model. Copyright © 2016, American Association for the Advancement of Science.

  17. Well-posedness and generalized plane waves simulations of a 2D mode conversion model

    SciTech Connect

    Imbert-Gérard, Lise-Marie

    2015-12-15

    Certain types of electro-magnetic waves propagating in a plasma can undergo a mode conversion process. In magnetic confinement fusion, this phenomenon is very useful to heat the plasma, since it permits to transfer the heat at or near the plasma center. This work focuses on a mathematical model of wave propagation around the mode conversion region, from both theoretical and numerical points of view. It aims at developing, for a well-posed equation, specific basis functions to study a wave mode conversion process. These basis functions, called generalized plane waves, are intrinsically based on variable coefficients. As such, they are particularly adapted to the mode conversion problem. The design of generalized plane waves for the proposed model is described in detail. Their implementation within a discontinuous Galerkin method then provides numerical simulations of the process. These first 2D simulations for this model agree with qualitative aspects studied in previous works.

  18. Partitioning of crustal shortening during continental collision: 2-D thermomechanical modeling

    NASA Astrophysics Data System (ADS)

    Liao, Jie; Gerya, Taras

    2017-01-01

    Partitioning of crustal shortening between the colliding continental plates is highly variable in nature. Physical controls of such variability remain largely enigmatic and require quantitative understanding. In this study, we employ 2-D thermomechanical numerical modeling to investigate the influence of the rheological properties of the continental crust on the dynamics and distribution of crustal shortening during continental collision. Three major physical parameters, (i) the mechanical strength of the upper crust, (ii) the Moho temperature, and (iii) the convergence rate, are investigated, and their influences on crustal shortening partitioning between the lower and upper plates are systematically documented. Numerical modeling results suggest that a strong upper crust of the lower plate, high Moho temperature, and slow convergence rate favor migration of crustal shortening from the lower to the upper plate. Our numerical modeling results compare well with natural observations from the Alpine orogenic system where variable partitioning of crustal deformation between the plates is documented.

  19. Modeling and 2-D discrete simulation of dislocation dynamics for plastic deformation of metal

    NASA Astrophysics Data System (ADS)

    Liu, Juan; Cui, Zhenshan; Ou, Hengan; Ruan, Liqun

    2013-05-01

    Two methods are employed in this paper to investigate the dislocation evolution during plastic deformation of metal. One method is dislocation dynamic simulation of two-dimensional discrete dislocation dynamics (2D-DDD), and the other is dislocation dynamics modeling by means of nonlinear analysis. As screw dislocation is prone to disappear by cross-slip, only edge dislocation is taken into account in simulation. First, an approach of 2D-DDD is used to graphically simulate and exhibit the collective motion of a large number of discrete dislocations. In the beginning, initial grains are generated in the simulation cells according to the mechanism of grain growth and the initial dislocation is randomly distributed in grains and relaxed under the internal stress. During the simulation process, the externally imposed stress, the long range stress contribution of all dislocations and the short range stress caused by the grain boundaries are calculated. Under the action of these forces, dislocations begin to glide, climb, multiply, annihilate and react with each other. Besides, thermal activation process is included. Through the simulation, the distribution of dislocation and the stress-strain curves can be obtained. On the other hand, based on the classic dislocation theory, the variation of the dislocation density with time is described by nonlinear differential equations. Finite difference method (FDM) is used to solve the built differential equations. The dislocation evolution at a constant strain rate is taken as an example to verify the rationality of the model.

  20. Efficient finite element modeling of scattering for 2D and 3D problems

    NASA Astrophysics Data System (ADS)

    Wilcox, Paul D.; Velichko, Alexander

    2010-03-01

    The scattering of waves by defects is central to ultrasonic NDE and SHM. In general, scattering problems must be modeled using direct numerical methods such as finite elements (FE), which is very computationally demanding. The most efficient way is to only model the scatterer itself and a minimal region of the surrounding host medium, and this was previously demonstrated for 2-dimensional (2D) bulk wave scattering problems in isotropic media. An encircling array of monopole and dipole sources is used to inject an arbitrary wavefront onto the scatterer and the scattered field is monitored by a second encircling array of monitoring points. From this data, the scattered field can be projected out to any point in space. If the incident wave is chosen to be a plane wave incident from a given angle and the scattered field is projected to distant points in the far-field of the scatterer, the far-field scattering or S-matrix may be obtained, which encodes all the available scattering information. In this paper, the technique is generalized to any elastic wave geometry in both 2D and 3D, where the latter can include guided wave scattering problems. A further refinement enables the technique to be employed with free FE meshes of triangular or tetrahedral elements.

  1. Laser irradiated fluorescent perfluorocarbon microparticles in 2-D and 3-D breast cancer cell models

    PubMed Central

    Niu, Chengcheng; Wang, Long; Wang, Zhigang; Xu, Yan; Hu, Yihe; Peng, Qinghai

    2017-01-01

    Perfluorocarbon (PFC) droplets were studied as new generation ultrasound contrast agents via acoustic or optical droplet vaporization (ADV or ODV). Little is known about the ODV irradiated vaporization mechanisms of PFC-microparticle complexs and the stability of the new bubbles produced. In this study, fluorescent perfluorohexane (PFH) poly(lactic-co-glycolic acid) (PLGA) particles were used as a model to study the process of particle vaporization and bubble stability following excitation in two-dimensional (2-D) and three-dimensional (3-D) cell models. We observed localization of the fluorescent agent on the microparticle coating material initially and after vaporization under fluorescence microscopy. Furthermore, the stability and growth dynamics of the newly created bubbles were observed for 11 min following vaporization. The particles were co-cultured with 2-D cells to form 3-D spheroids and could be vaporized even when encapsulated within the spheroids via laser irradiation, which provides an effective basis for further work. PMID:28262671

  2. A 2D Electromechanical Model of Human Atrial Tissue Using the Discrete Element Method.

    PubMed

    Brocklehurst, Paul; Adeniran, Ismail; Yang, Dongmin; Sheng, Yong; Zhang, Henggui; Ye, Jianqiao

    2015-01-01

    Cardiac tissue is a syncytium of coupled cells with pronounced intrinsic discrete nature. Previous models of cardiac electromechanics often ignore such discrete properties and treat cardiac tissue as a continuous medium, which has fundamental limitations. In the present study, we introduce a 2D electromechanical model for human atrial tissue based on the discrete element method (DEM). In the model, single-cell dynamics are governed by strongly coupling the electrophysiological model of Courtemanche et al. to the myofilament model of Rice et al. with two-way feedbacks. Each cell is treated as a viscoelastic body, which is physically represented by a clump of nine particles. Cell aggregations are arranged so that the anisotropic nature of cardiac tissue due to fibre orientations can be modelled. Each cell is electrically coupled to neighbouring cells, allowing excitation waves to propagate through the tissue. Cell-to-cell mechanical interactions are modelled using a linear contact bond model in DEM. By coupling cardiac electrophysiology with mechanics via the intracellular Ca(2+) concentration, the DEM model successfully simulates the conduction of cardiac electrical waves and the tissue's corresponding mechanical contractions. The developed DEM model is numerically stable and provides a powerful method for studying the electromechanical coupling problem in the heart.

  3. A 2D Electromechanical Model of Human Atrial Tissue Using the Discrete Element Method

    PubMed Central

    2015-01-01

    Cardiac tissue is a syncytium of coupled cells with pronounced intrinsic discrete nature. Previous models of cardiac electromechanics often ignore such discrete properties and treat cardiac tissue as a continuous medium, which has fundamental limitations. In the present study, we introduce a 2D electromechanical model for human atrial tissue based on the discrete element method (DEM). In the model, single-cell dynamics are governed by strongly coupling the electrophysiological model of Courtemanche et al. to the myofilament model of Rice et al. with two-way feedbacks. Each cell is treated as a viscoelastic body, which is physically represented by a clump of nine particles. Cell aggregations are arranged so that the anisotropic nature of cardiac tissue due to fibre orientations can be modelled. Each cell is electrically coupled to neighbouring cells, allowing excitation waves to propagate through the tissue. Cell-to-cell mechanical interactions are modelled using a linear contact bond model in DEM. By coupling cardiac electrophysiology with mechanics via the intracellular Ca2+ concentration, the DEM model successfully simulates the conduction of cardiac electrical waves and the tissue's corresponding mechanical contractions. The developed DEM model is numerically stable and provides a powerful method for studying the electromechanical coupling problem in the heart. PMID:26583141

  4. Model based 3D CS-catheter tracking from 2D X-ray projections: binary versus attenuation models.

    PubMed

    Haase, Christian; Schäfer, Dirk; Dössel, Olaf; Grass, Michael

    2014-04-01

    Tracking the location of medical devices in interventional X-ray data solves different problems. For example the motion information of the devices is used to determine cardiac or respiratory motion during X-ray guided procedures or device features are used as landmarks to register images. In this publication an approach using a 3D deformable catheter model is presented and used to track a coronary sinus (CS) catheter in 3D plus time through a complete rotational angiography sequence. The benefits of using voxel based models with attenuation information for 2D/3D registration are investigated in comparison to binary catheter models. The 2D/3D registration of the model allows to extract a 3D catheter shape from every individual 2D projection. The tracking accuracy is evaluated on simulated and clinical rotational angiography data of the contrast enhanced left atrium. The quantitative evaluation of the experiments delivers an average registration accuracy for all catheter electrodes of 0.23 mm in 2D and 0.95 mm in 3D when using an attenuation model of the catheter. The overall tracking accuracy is lower when using binary catheter models. Copyright © 2014 Elsevier Ltd. All rights reserved.

  5. Tropical Oceanic Precipitation Processes over Warm Pool: 2D and 3D Cloud Resolving Model Simulations

    NASA Technical Reports Server (NTRS)

    Tao, W.- K.; Johnson, D.

    1998-01-01

    Rainfall is a key link in the hydrologic cycle as well as the primary heat source for the atmosphere, The vertical distribution of convective latent-heat release modulates the large-scale circulations of the tropics, Furthermore, changes in the moisture distribution at middle and upper levels of the troposphere can affect cloud distributions and cloud liquid water and ice contents. How the incoming solar and outgoing longwave radiation respond to these changes in clouds is a major factor in assessing climate change. Present large-scale weather and climate models simulate cloud processes only crudely, reducing confidence in their predictions on both global and regional scales. One of the most promising methods to test physical parameterizations used in General Circulation Models (GCMS) and climate models is to use field observations together with Cloud Resolving Models (CRMs). The CRMs use more sophisticated and physically realistic parameterizations of cloud microphysical processes, and allow for their complex interactions with solar and infrared radiative transfer processes. The CRMs can reasonably well resolve the evolution, structure, and life cycles of individual clouds and cloud systems, The major objective of this paper is to investigate the latent heating, moisture and momenti,im budgets associated with several convective systems developed during the TOGA COARE IFA - westerly wind burst event (late December, 1992). The tool for this study is the Goddard Cumulus Ensemble (CCE) model which includes a 3-class ice-phase microphysical scheme, The model domain contains 256 x 256 grid points (using 2 km resolution) in the horizontal and 38 grid points (to a depth of 22 km depth) in the vertical, The 2D domain has 1024 grid points. The simulations are performed over a 7 day time period. We will examine (1) the precipitation processes (i.e., condensation/evaporation) and their interaction with warm pool; (2) the heating and moisture budgets in the convective and

  6. Tropical Oceanic Precipitation Processes over Warm Pool: 2D and 3D Cloud Resolving Model Simulations

    NASA Technical Reports Server (NTRS)

    Tao, W.- K.; Johnson, D.

    1998-01-01

    Rainfall is a key link in the hydrologic cycle as well as the primary heat source for the atmosphere, The vertical distribution of convective latent-heat release modulates the large-scale circulations of the tropics, Furthermore, changes in the moisture distribution at middle and upper levels of the troposphere can affect cloud distributions and cloud liquid water and ice contents. How the incoming solar and outgoing longwave radiation respond to these changes in clouds is a major factor in assessing climate change. Present large-scale weather and climate models simulate cloud processes only crudely, reducing confidence in their predictions on both global and regional scales. One of the most promising methods to test physical parameterizations used in General Circulation Models (GCMS) and climate models is to use field observations together with Cloud Resolving Models (CRMs). The CRMs use more sophisticated and physically realistic parameterizations of cloud microphysical processes, and allow for their complex interactions with solar and infrared radiative transfer processes. The CRMs can reasonably well resolve the evolution, structure, and life cycles of individual clouds and cloud systems, The major objective of this paper is to investigate the latent heating, moisture and momenti,im budgets associated with several convective systems developed during the TOGA COARE IFA - westerly wind burst event (late December, 1992). The tool for this study is the Goddard Cumulus Ensemble (CCE) model which includes a 3-class ice-phase microphysical scheme, The model domain contains 256 x 256 grid points (using 2 km resolution) in the horizontal and 38 grid points (to a depth of 22 km depth) in the vertical, The 2D domain has 1024 grid points. The simulations are performed over a 7 day time period. We will examine (1) the precipitation processes (i.e., condensation/evaporation) and their interaction with warm pool; (2) the heating and moisture budgets in the convective and

  7. 2-D Modeling of Nanoscale MOSFETs: Non-Equilibrium Green's Function Approach

    NASA Technical Reports Server (NTRS)

    Svizhenko, Alexei; Anantram, M. P.; Govindan, T. R.; Biegel, Bryan

    2001-01-01

    We have developed physical approximations and computer code capable of realistically simulating 2-D nanoscale transistors, using the non-equilibrium Green's function (NEGF) method. This is the most accurate full quantum model yet applied to 2-D device simulation. Open boundary conditions and oxide tunneling are treated on an equal footing. Electrons in the ellipsoids of the conduction band are treated within the anisotropic effective mass approximation. Electron-electron interaction is treated within Hartree approximation by solving NEGF and Poisson equations self-consistently. For the calculations presented here, parallelization is performed by distributing the solution of NEGF equations to various processors, energy wise. We present simulation of the "benchmark" MIT 25nm and 90nm MOSFETs and compare our results to those from the drift-diffusion simulator and the quantum-corrected results available. In the 25nm MOSFET, the channel length is less than ten times the electron wavelength, and the electron scattering time is comparable to its transit time. Our main results are: (1) Simulated drain subthreshold current characteristics are shown, where the potential profiles are calculated self-consistently by the corresponding simulation methods. The current predicted by our quantum simulation has smaller subthreshold slope of the Vg dependence which results in higher threshold voltage. (2) When gate oxide thickness is less than 2 nm, gate oxide leakage is a primary factor which determines off-current of a MOSFET (3) Using our 2-D NEGF simulator, we found several ways to drastically decrease oxide leakage current without compromising drive current. (4) Quantum mechanically calculated electron density is much smaller than the background doping density in the poly silicon gate region near oxide interface. This creates an additional effective gate voltage. Different ways to. include this effect approximately will be discussed.

  8. Locally adaptive 2D-3D registration using vascular structure model for liver catheterization.

    PubMed

    Kim, Jihye; Lee, Jeongjin; Chung, Jin Wook; Shin, Yeong-Gil

    2016-03-01

    Two-dimensional-three-dimensional (2D-3D) registration between intra-operative 2D digital subtraction angiography (DSA) and pre-operative 3D computed tomography angiography (CTA) can be used for roadmapping purposes. However, through the projection of 3D vessels, incorrect intersections and overlaps between vessels are produced because of the complex vascular structure, which makes it difficult to obtain the correct solution of 2D-3D registration. To overcome these problems, we propose a registration method that selects a suitable part of a 3D vascular structure for a given DSA image and finds the optimized solution to the partial 3D structure. The proposed algorithm can reduce the registration errors because it restricts the range of the 3D vascular structure for the registration by using only the relevant 3D vessels with the given DSA. To search for the appropriate 3D partial structure, we first construct a tree model of the 3D vascular structure and divide it into several subtrees in accordance with the connectivity. Then, the best matched subtree with the given DSA image is selected using the results from the coarse registration between each subtree and the vessels in the DSA image. Finally, a fine registration is conducted to minimize the difference between the selected subtree and the vessels of the DSA image. In experimental results obtained using 10 clinical datasets, the average distance errors in the case of the proposed method were 2.34±1.94mm. The proposed algorithm converges faster and produces more correct results than the conventional method in evaluations on patient datasets.

  9. Dynamical modeling of sub-grid scales in 2D turbulence

    NASA Astrophysics Data System (ADS)

    Laval, Jean-Philippe; Dubrulle, Bérengère; Nazarenko, Sergey

    2000-08-01

    We develop a new numerical method which treats resolved and sub-grid scales as two different fluid components evolving according to their own dynamical equations. These two fluids are nonlinearly interacting and can be transformed one into another when their scale becomes comparable to the grid size. Equations describing the two-fluid dynamics were rigorously derived from Euler equations [B. Dubrulle, S. Nazarenko, Physica D 110 (1997) 123-138] and they do not involve any adjustable parameters. The main assumption of such a derivation is that the large-scale vortices are so strong that they advect the sub-grid scales as a passive scalar, and the interactions of small scales with small and intermediate scales can be neglected. As a test for our numerical method, we performed numerical simulations of 2D turbulence with a spectral gap, and we found a good agreement with analytical results obtained for this case by Nazarenko and Laval [Non-local 2D turbulence and passive scalars in Batchelor’s regime, J. Fluid Mech., in press]. We used the two-fluid method to study three typical problems in 2D dynamics of incompressible fluids: decaying turbulence, vortex merger and forced turbulence. The two-fluid simulations performed on at 128 2 and 256 2 resolution were compared with pseudo-spectral simulations using hyperviscosity performed at the same and at much higher resolution. This comparison shows that performance of the two-fluid method is much better than one of the pseudo-spectral method at the same resolution and comparable computational cost. The most significant improvement is observed in modeling of the small-scale component, so that effective inertial interval increases by about two decades compared to the high-resolution pseudo-spectral method. Using the two-fluid method, we demonstrated that the k-3 tail always exists for the energy spectrum, although its amplitude is slowly decreasing in decaying turbulence.

  10. 2-D Modeling of Nanoscale MOSFETs: Non-Equilibrium Green's Function Approach

    NASA Technical Reports Server (NTRS)

    Svizhenko, Alexei; Anantram, M. P.; Govindan, T. R.; Biegel, Bryan

    2001-01-01

    We have developed physical approximations and computer code capable of realistically simulating 2-D nanoscale transistors, using the non-equilibrium Green's function (NEGF) method. This is the most accurate full quantum model yet applied to 2-D device simulation. Open boundary conditions and oxide tunneling are treated on an equal footing. Electrons in the ellipsoids of the conduction band are treated within the anisotropic effective mass approximation. Electron-electron interaction is treated within Hartree approximation by solving NEGF and Poisson equations self-consistently. For the calculations presented here, parallelization is performed by distributing the solution of NEGF equations to various processors, energy wise. We present simulation of the "benchmark" MIT 25nm and 90nm MOSFETs and compare our results to those from the drift-diffusion simulator and the quantum-corrected results available. In the 25nm MOSFET, the channel length is less than ten times the electron wavelength, and the electron scattering time is comparable to its transit time. Our main results are: (1) Simulated drain subthreshold current characteristics are shown, where the potential profiles are calculated self-consistently by the corresponding simulation methods. The current predicted by our quantum simulation has smaller subthreshold slope of the Vg dependence which results in higher threshold voltage. (2) When gate oxide thickness is less than 2 nm, gate oxide leakage is a primary factor which determines off-current of a MOSFET (3) Using our 2-D NEGF simulator, we found several ways to drastically decrease oxide leakage current without compromising drive current. (4) Quantum mechanically calculated electron density is much smaller than the background doping density in the poly silicon gate region near oxide interface. This creates an additional effective gate voltage. Different ways to. include this effect approximately will be discussed.

  11. 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.

  12. A Bayesian approach to modeling 2D gravity data using polygon states

    NASA Astrophysics Data System (ADS)

    Titus, W. J.; Titus, S.; Davis, J. R.

    2015-12-01

    We present a Bayesian Markov chain Monte Carlo (MCMC) method for the 2D gravity inversion of a localized subsurface object with constant density contrast. Our models have four parameters: the density contrast, the number of vertices in a polygonal approximation of the object, an upper bound on the ratio of the perimeter squared to the area, and the vertices of a polygon container that bounds the object. Reasonable parameter values can be estimated prior to inversion using a forward model and geologic information. In addition, we assume that the field data have a common random uncertainty that lies between two bounds but that it has no systematic uncertainty. Finally, we assume that there is no uncertainty in the spatial locations of the measurement stations. For any set of model parameters, we use MCMC methods to generate an approximate probability distribution of polygons for the object. We then compute various probability distributions for the object, including the variance between the observed and predicted fields (an important quantity in the MCMC method), the area, the center of area, and the occupancy probability (the probability that a spatial point lies within the object). In addition, we compare probabilities of different models using parallel tempering, a technique which also mitigates trapping in local optima that can occur in certain model geometries. We apply our method to several synthetic data sets generated from objects of varying shape and location. We also analyze a natural data set collected across the Rio Grande Gorge Bridge in New Mexico, where the object (i.e. the air below the bridge) is known and the canyon is approximately 2D. Although there are many ways to view results, the occupancy probability proves quite powerful. We also find that the choice of the container is important. In particular, large containers should be avoided, because the more closely a container confines the object, the better the predictions match properties of object.

  13. Three-dimensional nonequilibrium Potts systems with magnetic friction.

    PubMed

    Li, Linjun; Pleimling, Michel

    2016-04-01

    We study the nonequilibrium steady states that emerge when two interacting three-dimensional Potts blocks slide on each other. As at equilibrium the Potts model exhibits different types of phase transitions for different numbers q of spin states, we consider the following three cases: q=2 (i.e., the Ising case), q=3, and q=9, which at equilibrium yield, respectively, a second-order phase transition, a weak first-order transition, and a strong first-order transition. In our study we focus on the anisotropic character of the steady states that result from the relative motion and discuss the change in finite-size signatures when changing the number q of spin states.

  14. Three-dimensional nonequilibrium Potts systems with magnetic friction

    NASA Astrophysics Data System (ADS)

    Li, Linjun; Pleimling, Michel

    2016-04-01

    We study the nonequilibrium steady states that emerge when two interacting three-dimensional Potts blocks slide on each other. As at equilibrium the Potts model exhibits different types of phase transitions for different numbers q of spin states, we consider the following three cases: q =2 (i.e., the Ising case), q =3 , and q =9 , which at equilibrium yield, respectively, a second-order phase transition, a weak first-order transition, and a strong first-order transition. In our study we focus on the anisotropic character of the steady states that result from the relative motion and discuss the change in finite-size signatures when changing the number q of spin states.

  15. Be2D: A model to understand the distribution of meteoric 10Be in soilscapes

    NASA Astrophysics Data System (ADS)

    Campforts, Benjamin; Vanacker, Veerle; Vanderborght, Jan; Govers, Gerard

    2016-04-01

    Cosmogenic nuclides have revolutionised our understanding of earth surface process rates. They have become one of the standard tools to quantify soil production by weathering, soil redistribution and erosion. Especially Beryllium-10 has gained much attention due to its long half-live and propensity to be relatively conservative in the landscape. The latter makes 10Be an excellent tool to assess denudation rates over the last 1000 to 100 × 103 years, bridging the anthropogenic and geological time scale. Nevertheless, the mobility of meteoric 10Be in soil systems makes translation of meteoric 10Be inventories into erosion and deposition rates difficult. Here we present a coupled soil hillslope model, Be2D, that is applied to synthetic and real topography to address the following three research questions. (i) What is the influence of vertical meteoric Be10 mobility, caused by chemical mobility, clay translocation and bioturbation, on its lateral redistribution over the soilscape, (ii) How does vertical mobility influence erosion rates and soil residence times inferred from meteoric 10Be inventories and (iii) To what extent can a tracer with a half-life of 1.36 Myr be used to distinguish between natural and human-disturbed soil redistribution rates? The model architecture of Be2D is designed to answer these research questions. Be2D is a dynamic model including physical processes such as soil formation, physical weathering, clay migration, bioturbation, creep, overland flow and tillage erosion. Pathways of meteoric 10Be mobility are simulated using a two step approach which is updated each timestep. First, advective and diffusive mobility of meteoric 10Be is simulated within the soil profile and second, lateral redistribution because of lateral soil fluxes is calculated. The performance and functionality of the model is demonstrated through a number of synthetic and real model runs using existing datasets of meteoric 10Be from case-studies in southeastern US. Brute

  16. Estimating nitrogen losses in furrow irrigated soil amended by compost using HYDRUS-2D model

    NASA Astrophysics Data System (ADS)

    Iqbal, Shahid; Guber, Andrey; Zaman Khan, Haroon; ullah, Ehsan

    2014-05-01

    Furrow irrigation commonly results in high nitrogen (N) losses from soil profile via deep infiltration. Estimation of such losses and their reduction is not a trivial task because furrow irrigation creates highly nonuniform distribution of soil water that leads to preferential water and N fluxes in soil profile. Direct measurements of such fluxes are impractical. The objective of this study was to assess applicability of HYDRUS-2D model for estimating nitrogen balance in manure amended soil under furrow irrigation. Field experiments were conducted in a sandy loam soil amended by poultry manure compost (PMC) and pressmud compost (PrMC) fertilizers. The PMC and PrMC contained 2.5% and 0.9% N and were applied at 5 rates: 2, 4, 6, 8 and 10 ton/ha. Plots were irrigated starting from 26th day from planting using furrows with 1x1 ridge to furrow aspect ratio. Irrigation depths were 7.5 cm and time interval between irrigations varied from 8 to 15 days. Results of the field experiments showed that approximately the same corn yield was obtained with considerably higher N application rates using PMC than using PrMC as a fertilizer. HYDRUS-2D model was implemented to evaluate N fluxes in soil amended by PMC and PrMC fertilizers. Nitrogen exchange between two pools of organic N (compost and soil) and two pools of mineral N (soil NH4-N and soil NO3-N) was modeled using mineralization and nitrification reactions. Sources of mineral N losses from soil profile included denitrification, root N uptake and leaching with deep infiltration of water. HYDRUS-2D simulations showed that the observed increases in N root water uptake and corn yields associated with compost application could not be explained by the amount of N added to soil profile with the compost. Predicted N uptake by roots significantly underestimated the field data. Good agreement between simulated and field-estimated values of N root uptake was achieved when the rate of organic N mineralization was increased

  17. Destabilization of survival factor MEF2D mRNA by neurotoxin in models of Parkinson's disease.

    PubMed

    Wang, Bao; Cai, Zhibiao; Lu, Fangfang; Li, Chen; Zhu, Xiaofei; Su, Linna; Gao, Guodong; Yang, Qian

    2014-09-01

    Progressive loss of dopaminergic (DA) neurons in the substantial nigra pars compacta (SNc) is an important pathological feature in Parkinson's disease (PD). Loss of transcription factor myocyte enhancer factor 2D (MEF2D), a key neuronal survival factor, has been shown to underlie the loss of DA neurons in SNc and the pathogenic process of PD. It is known that PD-associated neurotoxins reduce the level of MEF2D protein to trigger neuronal death. Although neurotoxins clearly destabilize MEF2D by post-translational mechanisms, it is not known whether regulation of MEF2D mRNA contributes to neurotoxin-induced decrease in MEF2D protein. In this work, we showed that MPP(+), the toxic metabolite of MPTP, caused a significant decrease in the half-life and total level of MEF2D mRNA in a DA neuronal cell line, SN4741 cells. Quantitative PCR analysis of the SNc DA neurons captured by immune-laser capture microdissection showed that exposure to MPTP led to a marked reduction in the level of MEF2D mRNA in SNc DA neurons compared to controls. Down-regulation of MEF2D mRNA alone reduced the viability of SN4741 cells and sensitized the cells to MPP(+)-induced toxicity. These results suggest that destabilization and reduction in MEF2D mRNA is in part responsible for neurotoxin-induced decrease in MEF2D protein and neuronal viability. Myocyte enhancer factor 2D (MEF2D) plays an important role in neuronal survival. How MEF2D mRNA is deregulated under toxic stress is unclear. We found that PD-associated neurotoxins destabilize MEF2D mRNA and reduce its level in vitro and in vivo. Reduction in MEF2D mRNA is sufficient to sensitize model cells to neurotoxin-induced toxicity, suggesting that destabilization of MEF2D mRNA is part of the mechanism by which neurotoxins trigger deregulation of neuronal survival.

  18. A computationally efficient 2D hydraulic approach for global flood hazard modeling

    NASA Astrophysics Data System (ADS)

    Begnudelli, L.; Kaheil, Y.; Sanders, B. F.

    2014-12-01

    We present a physically-based flood hazard model that incorporates two main components: a hydrologic model and a hydraulic model. For hydrology we use TOPNET, a more comprehensive version of the original TOPMODEL. To simulate flood propagation, we use a 2D Godunov-type finite volume shallow water model. Physically-based global flood hazard simulation poses enormous computational challenges stemming from the increasingly fine resolution of available topographic data which represents the key input. Parallel computing helps to distribute the computational cost, but the computationally-intensive hydraulic model must be made far faster and agile for global-scale feasibility. Here we present a novel technique for hydraulic modeling whereby the computational grid is much coarser (e.g., 5-50 times) than the available topographic data, but the coarse grid retains the storage and conveyance (cross-sectional area) of the fine resolution data. This allows the 2D hydraulic model to be run on extremely large domains (e.g. thousands km2) with a single computational processor, and opens the door to global coverage with parallel computing. The model also downscales the coarse grid results onto the high-resolution topographic data to produce fine-scale predictions of flood depths and velocities. The model achieves computational speeds typical of very coarse grids while achieving an accuracy expected of a much finer resolution. In addition, the model has potential for assimilation of remotely sensed water elevations, to define boundary conditions based on water levels or river discharges and to improve model results. The model is applied to two river basins: the Susquehanna River in Pennsylvania, and the Ogeechee River in Florida. The two rivers represent different scales and span a wide range of topographic characteristics. Comparing spatial resolutions ranging between 30 m to 500 m in both river basins, the new technique was able to reduce simulation runtime by at least 25 fold

  19. Brief Communication: 2-D numerical modeling of the transformation mechanism of a braided channel

    NASA Astrophysics Data System (ADS)

    Xiao, Y.; Yang, S. F.; Shao, X.; Chen, W. X.; Xu, X. M.

    2014-05-01

    This paper investigates the controls on the transformation mechanism among different channel patterns. A 2-D depth-averaged numerical model is applied to produce the evolution of channel patterns with complex interactions among water flow, sediment transport, and bank erosion. Changes of the variables as discharge, sediment supply, and vegetation are considered in the numerical experiments, leading to the transformation from a braided pattern into a meandering one. What controls the transformation is discussed with the numerical results: vegetation helps stabilize the cut bank and bar surface, but is not a key in the transition; a decrease in discharge and sediment supply could lead a braided pattern to a meandering one. The conclusion is in agreement with various previous field work, confirming the two dimensional model's potential in predicting the transition between different rivers and improving understanding of patterning processes.

  20. Comparative modeling of vertical and planar organic phototransistors with 2D drift-diffusion simulations

    NASA Astrophysics Data System (ADS)

    Bezzeccheri, E.; Colasanti, S.; Falco, A.; Liguori, R.; Rubino, A.; Lugli, P.

    2016-05-01

    Vertical Organic Transistors and Phototransistors have been proven to be promising technologies due to the advantages of reduced channel length and larger sensitive area with respect to planar devices. Nevertheless, a real improvement of their performance is subordinate to the quantitative description of their operation mechanisms. In this work, we present a comparative study on the modeling of vertical and planar Organic Phototransistor (OPT) structures. Computer-based simulations of the devices have been carried out with Synopsys Sentaurus TCAD in a 2D Drift-Diffusion framework. The photoactive semiconductor material has been modeled using the virtual semiconductor approach as the archetypal P3HT:PC61BM bulk heterojunction. It has been found that both simulated devices have comparable electrical and optical characteristics, accordingly to recent experimental reports on the subject.

  1. Spin-spin interaction effect in 2D Extended Hubbard Model

    NASA Astrophysics Data System (ADS)

    Zouhair, A.; Harir, S.; Bennai, M.; Boughaleb, Y.

    2014-09-01

    Using an exact diagonlization for finite square lattice and taking into account the periodic boundary conditions in the two directions, we study the spin-spin interaction effect on some local electronic properties for antiferromagnetic correlated electrons system. We have considered an Extended Hubbard Model (EHM) including on-site coulomb interaction energy U and spin-spin interaction term J. The diagonlization of this 2D EHM model allows us to study J effect on some local properties for finite square lattice. The analysis of the obtained results shows that the introduction of spin-spin interaction induces a supplementary conductivity for antiferromagnetic correlated electrons system, even in the strong on-site interaction regime.

  2. An investigation of DTNS2D for use as an incompressible turbulence modelling test-bed

    NASA Technical Reports Server (NTRS)

    Steffen, Christopher J., Jr.

    1992-01-01

    This paper documents an investigation of a two dimensional, incompressible Navier-Stokes solver for use as a test-bed for turbulence modelling. DTNS2D is the code under consideration for use at the Center for Modelling of Turbulence and Transition (CMOTT). This code was created by Gorski at the David Taylor Research Center and incorporates the pseudo compressibility method. Two laminar benchmark flows are used to measure the performance and implementation of the method. The classical solution of the Blasius boundary layer is used for validating the flat plate flow, while experimental data is incorporated in the validation of backward facing step flow. Velocity profiles, convergence histories, and reattachment lengths are used to quantify these calculations. The organization and adaptability of the code are also examined in light of the role as a numerical test-bed.

  3. Dynamics of a 2D Piecewise Linear Braess Paradox Model: Effect of the Third Partition

    NASA Astrophysics Data System (ADS)

    Avrutin, Viktor; Dibak, Christoph; Dal Forno, Arianna; Merlone, Ugo

    In this work, we investigate the dynamics of a piecewise linear 2D discontinuous map modeling a simple network showing the Braess paradox. This paradox represents an example in which adding a new route to a specific congested transportation network makes all the travelers worse off in terms of their individual travel time. In the particular case in which the modeled network corresponds to a binary choice situation, the map is defined on two partitions and its dynamics has already been described. In the general case corresponding to a ternary choice, a third partition appears leading to significantly more complex bifurcation structures formed by border collision bifurcations of stable cycles with points located in all three partitions. Considering a map taking a constant value on one of the partitions, we provide a first systematic description of possible dynamics for this case.

  4. Optimizing QSAR models for predicting ligand binding to the drug-metabolizing cytochrome P450 isoenzyme CYP2D6.

    PubMed

    Saraceno, Marilena; Massarelli, Ilaria; Imbriani, Marcello; James, Thomas L; Bianucci, Anna M

    2011-08-01

    The cytochrome P450 isozyme CYP2D6 binds a large variety of drugs, oxidizing many of them, and plays a crucial role in establishing in vivo drug levels, especially in multidrug regimens. The current study aimed to develop reliable predictive models for estimating the CYP2D6 inhibition properties of drug candidates. Quantitative structure-activity relationship (QSAR) studies utilizing 51 known CYP2D6 inhibitors were carried out. Performance achieved using models based on two-dimensional (2D) molecular descriptors was compared with performance using models entailing additional molecular descriptors that depend upon the three-dimensional (3D) structure of ligands. To properly compute the descriptors, all the 3D inhibitor structures were optimized such that induced-fit binding of the ligand to the active site was accommodated. CODESSA software was used to obtain equations for correlating the structural features of the ligands to their pharmacological effects on CYP2D6 (inhibition). The predictive power of all the QSAR models obtained was estimated by applying rigorous statistical criteria. To assess the robustness and predictability of the models, predictions were carried out on an additional set of known molecules (prediction set). The results showed that only models incorporating 3D descriptors in addition to 2D molecular descriptors possessed the requisite high predictive power for CYP2D6 inhibition.

  5. Preliminary results for model identification in characterizing 2-D topographic road profiles

    NASA Astrophysics Data System (ADS)

    Kern, Joshua V.; Ferris, John B.

    2006-05-01

    Load data representing severe customer usage is needed throughout a chassis development program; the majority of these chassis loads originate with the excitation from the road. These chassis loads are increasingly derived from vehicle simulations. Simulating a vehicle traversing long roads is simply impractical, however, and a greatly reduced set of characteristic roads must be found. In order to characterize a road, certain modeling assumptions must be made. Several models have been proposed making various assumptions about the properties that road profiles possess. The literature in this field is reviewed before focusing on two modeling assumptions of particular interest: the stationarity of the signal (homogeneity of the road) and the corresponding interval over which previous data points are correlated to the current data point. In this work, 2-D topographic road profiles are considered to be signals that are realizations of a stochastic process. The objective of this work is to investigate the stationarity assumption and the interval of influence for several carefully controlled sections of highway pavement in the United States. Two statistical techniques are used in analyzing these data: the autocorrelation and the partial autocorrelation. It is shown that the road profile signals in their original form are not stationary and have an extremely long interval of influence on the order of 25m. By differencing the data, however, it is often possible to generate stationary residuals and a very short interval of influence on the order of 250mm. By examining the autocorrelation and the partial autocorrelation, various versions of ARIMA models appear to be appropriate for further modeling. Implications to modeling the signals as Markov Chains are also discussed. In this way, roads can be characterized by the model architecture and the particular parameterization of the model. Any synthetic road realized from a particular model represents all profiles in this set

  6. The development and testing of a 2D laboratory seismic modelling system for heterogeneous structure investigations

    NASA Astrophysics Data System (ADS)

    Mo, Yike; Greenhalgh, Stewart A.; Robertsson, Johan O. A.; Karaman, Hakki

    2015-05-01

    Lateral velocity variations and low velocity near-surface layers can produce strong scattered and guided waves which interfere with reflections and lead to severe imaging problems in seismic exploration. In order to investigate these specific problems by laboratory seismic modelling, a simple 2D ultrasonic model facility has been recently assembled within the Wave Propagation Lab at ETH Zurich. The simulated geological structures are constructed from 2 mm thick metal and plastic sheets, cut and bonded together. The experiments entail the use of a piezoelectric source driven by a pulse amplifier at ultrasonic frequencies to generate Lamb waves in the plate, which are detected by piezoelectric receivers and recorded digitally on a National Instruments recording system, under LabVIEW software control. The 2D models employed were constructed in-house in full recognition of the similitude relations. The first heterogeneous model features a flat uniform low velocity near-surface layer and deeper dipping and flat interfaces separating different materials. The second model is comparable but also incorporates two rectangular shaped inserts, one of low velocity, the other of high velocity. The third model is identical to the second other than it has an irregular low velocity surface layer of variable thickness. Reflection as well as transmission experiments (crosshole & vertical seismic profiling) were performed on each model. The two dominant Lamb waves recorded are the fundamental symmetric mode (non-dispersive) and the fundamental antisymmetric (flexural) dispersive mode, the latter normally being absent when the source transducer is located on a model edge but dominant when it is on the flat planar surface of the plate. Experimental group and phase velocity dispersion curves were determined and plotted for both modes in a uniform aluminium plate. For the reflection seismic data, various processing techniques were applied, as far as pre-stack Kirchhoff migration. The

  7. Turbulence modeling for subsonic separated flows over 2-D airfoils and 3-D wings

    NASA Astrophysics Data System (ADS)

    Rosen, Aaron M.

    Accurate predictions of turbulent boundary layers and flow separation through computational fluid dynamics (CFD) are becoming more and more essential for the prediction of loads in the design of aerodynamic flight components. Standard eddy viscosity models used in many commercial codes today do not capture the nonequilibrium effects seen in a separated flow and thus do not generally make accurate separation predictions. Part of the reason for this is that under nonequilibrium conditions such as a strong adverse pressure gradient, the history effects of the flow play an important role in the growth and decay of turbulence. More recent turbulence models such as Olsen and Coakley's Lag model and Lillard's lagRST model seek to simulate these effects by lagging the turbulent variables when nonequilibrium effects become important. The purpose of the current research is to assess how these nonequilibrium turbulence models capture the separated regions on various 2-D airfoils and 3-D wings. Nonequilibrium models including the Lag model and the lagRST model are evaluated in comparison with three baseline models (Spalart-Allmaras, Wilcox's k-omega, and Menter's SST) using a modified version of the OVERFLOW code. Tuning the model coefficients of the Lag and lagRST models is also explored. Results show that the various lagRST formulations display an improvement in velocity profile predictions over the standard RANS models, but have trouble capturing the edge of the boundary layer. Experimental separation location measurements were not available, but several trends are noted which may be useful to tuning the model coefficients in the future.

  8. 2D-photochemical modeling of Saturn’s stratosphere: hydrocarbon and water distributions

    NASA Astrophysics Data System (ADS)

    Hue, Vincent; Cavalié, Thibault; Hersant, Franck; Dobrijevic, Michel; Greathouse, Thomas; Lellouch, Emmanuel; Hartogh, Paul; Cassidy, Timothy; Spiga, Aymeric; Guerlet, Sandrine; Sylvestre, Melody

    2014-11-01

    Saturn’s axial tilt of 27° produces seasons in a similar way as on Earth. The seasonal forcing over Saturn’s 30 years period influences the production/loss of the major atmospheric absorbers and coolants through photochemistry, and influences therefore Saturn’s stratospheric temperatures. We have developed a 2D time-dependent photochemical model of Saturn’s atmosphere [Hue et al., in prep.], coupled to a radiative-climate model [Greathouse et al., 2008] to study seasonal effects on its atmospheric composition. Cassini spacecraft has revealed that the distribution of hydrocarbons in Saturn’s stratosphere [Guerlet et al., 2009] differs from pure photochemical predictions, i.e. without meridional transport [Moses et al., 2005]. Differences between the observed distribution of hydrocarbons and 2D-photochemical predictions are likely to be an indicator of dynamical forcing.Disentangling the origin of water in the stratosphere of this planet has been a long-term issue. Due to Saturn’s cold tropopause trap, which acts as a transport barrier, the water vapor observed by the Infrared Space Observatory (ISO) [Feuchtgruber et al., 1997] has an external origin. Three external sources have been identified: (i) permanent flux from interplanetary dust particles, (ii) local sources form planetary environments (rings, satellites), (iii) large cometary impacts, similar to Shoemaker-Levy 9 on Jupiter. Previous observations of Saturn with Herschel’s Hsso program [Hartogh et al., 2009] led to the detection of a water torus around Saturn [Hartogh et al., 2011], fed by Enceladus’ geysers. A substantial fraction of this torus is predicted to be a local source of water for Saturn’s and its satellites, as it will spread in this system [Cassidy et al., 2010]. Using the new 2D-photochemical model, we test here the validity of Enceladus’ torus as the source of Saturn’s stratospheric water.References : Hue et al., in prep. Greathouse et al., 2008. AGU Fall Meeting

  9. Accelerating numerical modeling of wave propagation through 2-D anisotropic materials using OpenCL.

    PubMed

    Molero, Miguel; Iturrarán-Viveros, Ursula

    2013-03-01

    We present an implementation of the numerical modeling of elastic waves propagation, in 2D anisotropic materials, using the new parallel computing devices (PCDs). Our study is aimed both to model laboratory experiments and explore the capabilities of the emerging PCDs by discussing performance issues. In the experiments a sample plate of an anisotropic material placed inside a water tank is rotated and, for every angle of rotation it is subjected to an ultrasonic wave (produced by a large source transducer) that propagates in the water and through the material producing some reflection and transmission signals that are recording by a "point-like" receiver. This experiment is numerically modeled by running a finite difference code covering a set of angles θ∈[-50°, 50°], and recorded the signals for the transmission and reflection results. Transversely anisotropic and weakly orthorhombic materials are considered. We accelerated the computation using an open-source toolkit called PyOpenCL, which lets one to easily access the OpenCL parallel computation API's from the high-level programming environment of Python. A speedup factor over 19 using the GPU is obtained when compared with the execution of the same program in parallel using a CPU multi-core (in this case we use the 4-cores that has the CPU). The performance for different graphic cards and operating systems is included together with the full 2-D finite difference code with PyOpenCL. Copyright © 2012 Elsevier B.V. All rights reserved.

  10. 2d axisymmetric "beam-bulk" modelling of the generation of runaway electrons by streamers.

    NASA Astrophysics Data System (ADS)

    Chanrion, Olivier; Bonaventura, Zdenek; Bourdon, Anne; Neubert, Torsten

    2017-04-01

    We present results from a 2d axisymmetric numerical model of streamers based on a "beam-bulk" approach which describes cold electrons with a fluid model and high energy electrons with a particle model. The interest is motivated by the generation of runaway electrons by streamers which may participate in the recently observed TGFs and which challenge the modelling. Runaway electrons are known to be generated from streamers when the electric field in its negative tip is of sufficient magnitude. After overtaking the streamer tip, runaways can affect the streamer propagation ahead and may produce high energy photons through the bremsstrahlung process. In conventional model of streamers, the evolution of the streamer discharge is mostly governed by cold electrons. By including runaway electrons, we model their production, their impact on the discharge propagation and can address their role in TGFs. Results of streamer propagation in leader electric field show that the runaway electrons accelerate the streamers, reduce the electric field in its tip and enlarge its radius by pre-ionizing the gas ahead. We observed that if we increase the electric field, the discharge is getting more diffuse, with a pattern driven by the increase in runaway induced ionisation.

  11. The combined effect of attraction and orientation zones in 2D flocking models

    NASA Astrophysics Data System (ADS)

    Iliass, Tarras; Cambui, Dorilson

    2016-01-01

    In nature, many animal groups, such as fish schools or bird flocks, clearly display structural order and appear to move as a single coherent entity. In order to understand the complex motion of these systems, we study the Vicsek model of self-propelled particles (SPP) which is an important tool to investigate the behavior of collective motion of live organisms. This model reproduces the biological behavior patterns in the two-dimensional (2D) space. Within the framework of this model, the particles move with the same absolute velocity and interact locally in the zone of orientation by trying to align their direction with that of the neighbors. In this paper, we model the collective movement of SPP using an agent-based model which follows biologically motivated behavioral rules, by adding a second region called the attraction zone, where each particles move towards each other avoiding being isolated. Our main goal is to present a detailed numerical study on the effect of the zone of attraction on the kinetic phase transition of our system. In our study, the consideration of this zone seems to play an important role in the cohesion. Consequently, in the directional orientation, the zone that we added forms the compact particle group. In our simulation, we show clearly that the model proposed here can produce two collective behavior patterns: torus and dynamic parallel group. Implications of these findings are discussed.

  12. Coronary arteries motion modeling on 2D x-ray images

    NASA Astrophysics Data System (ADS)

    Gao, Yang; Sundar, Hari

    2012-02-01

    During interventional procedures, 3D imaging modalities like CT and MRI are not commonly used due to interference with the surgery and radiation exposure concerns. Therefore, real-time information is usually limited and building models of cardiac motion are difficult. In such case, vessel motion modeling based on 2-D angiography images become indispensable. Due to issues with existing vessel segmentation algorithms and the lack of contrast in occluded vessels, manual segmentation of certain branches is usually necessary. In addition, such occluded branches are the most important vessels during coronary interventions and obtaining motion models for these can greatly help in reducing the procedure time and radiation exposure. Segmenting different cardiac phases independently does not guarantee temporal consistency and is not efficient for occluded branches required manual segmentation. In this paper, we propose a coronary motion modeling system which extracts the coronary tree for every cardiac phase, maintaining the segmentation by tracking the coronary tree during the cardiac cycle. It is able to map every frame to the specific cardiac phase, thereby inferring the shape information of the coronary arteries using the model corresponding to its phase. Our experiments show that our motion modeling system can achieve promising results with real-time performance.

  13. An improved transmission line matrix model for the 2D ideal wedge benchmark problem

    NASA Astrophysics Data System (ADS)

    Scott, I. J. G.; de Cogan, D.

    2008-04-01

    The numerical modelling of acoustic propagation in underwater environments using transmission line matrix (TLM) has received little attention for some time. This has been due, in part, to the need for an open boundary description, also known as a 'perfectly matched load' or PML, and the requirement for an accurate description of non-uniform bounding walls. The first of these problems has been solved by many researchers in subsequent years. The paper describes a novel solution to the second problem, allowing the incorporation of boundary-conforming Cartesian meshes into TLM schemes for acoustic propagation. This and a related technique are compared using the Buckingham and Tolstoy ideal 2D wedge benchmark test.

  14. Robust autonomous model learning from 2D and 3D data sets.

    PubMed

    Langs, Georg; Donner, René; Peloschek, Philipp; Bischof, Horst

    2007-01-01

    In this paper we propose a weakly supervised learning algorithm for appearance models based on the minimum description length (MDL) principle. From a set of training images or volumes depicting examples of an anatomical structure, correspondences for a set of landmarks are established by group-wise registration. The approach does not require any annotation. In contrast to existing methods no assumptions about the topology of the data are made, and the topology can change throughout the data set. Instead of a continuous representation of the volumes or images, only sparse finite sets of interest points are used to represent the examples during optimization. This enables the algorithm to efficiently use distinctive points, and to handle texture variations robustly. In contrast to standard elasticity based deformation constraints the MDL criterion accounts for systematic deformations typical for training sets stemming from medical image data. Experimental results are reported for five different 2D and 3D data sets.

  15. RG flow from ϕ 4 theory to the 2D Ising model

    NASA Astrophysics Data System (ADS)

    Anand, Nikhil; Genest, Vincent X.; Katz, Emanuel; Khandker, Zuhair U.; Walters, Matthew T.

    2017-08-01

    We study 1+1 dimensional ϕ 4 theory using the recently proposed method of conformal truncation. Starting in the UV CFT of free field theory, we construct a complete basis of states with definite conformal Casimir, C . We use these states to express the Hamiltonian of the full interacting theory in lightcone quantization. After truncating to states with C\\le C_{\\max } , we numerically diagonalize the Hamiltonian at strong coupling and study the resulting IR dynamics. We compute non-perturbative spectral densities of several local operators, which are equivalent to real-time, infinite-volume correlation functions. These spectral densities, which include the Zamolodchikov C-function along the full RG flow, are calculable at any value of the coupling. Near criticality, our numerical results reproduce correlation functions in the 2D Ising model.

  16. 2D double interaction method for modeling small particles contaminating microstructures located on substrates

    NASA Astrophysics Data System (ADS)

    Albella, P.; Moreno, F.; Saiz, J. M.; González, F.

    2007-07-01

    An interaction model developed in previous research [de la Peña JL, González F, Saiz JM, Moreno F, Valle PJ. Sizing particles on substrates. A general method for oblique incidence. J Appl Phys 1999; 85:432] is extended to the study of two-scaled systems consisting of particles located on larger structures. Far-field scattering patterns produced by these systems can be obtained by coherent addition of different electromagnetic contributions, each one obtained from an independent isolated particle calculation. Results are performed on a 2D scheme, where they can be easily compared with those given by an exact method. This analysis shows some features of the scattering patterns that can be obtained with high reliability. Research on this kind of systems can be applied to 3D situations like particle substrate contamination and particle particle contamination.

  17. Calibration Of 2D Hydraulic Inundation Models In The Floodplain Region Of The Lower Tagus River

    NASA Astrophysics Data System (ADS)

    Pestanana, R.; Matias, M.; Canelas, R.; Araujo, A.; Roque, D.; Van Zeller, E.; Trigo-Teixeira, A.; Ferreira, R.; Oliveira, R.; Heleno, S.

    2013-12-01

    In terms of inundated area, the largest floods in Portugal occur in the Lower Tagus River. On average, the river overflows every 2.5 years, at times blocking roads and causing important agricultural damages. This paper focus on the calibration of 2D-horizontal flood simulation models for the floods of 2001 and 2006 on a 70-km stretch of the Lower Tagus River. Flood extent maps, derived from ERS SAR and ENVISAT ASAR imagery were compared with the flood extent maps obtained for each simulation, to calibrate roughness coefficients. The combination of the calibration results from the 2001 and 2006 floods provided a preliminary Manning coefficient map of the study area.

  18. Frustrating a correlated superconductor: the 2D Attractive Hubbard Model in an external magnetic field

    NASA Astrophysics Data System (ADS)

    Zhao, Hongbo; Engelbrecht, Jan R.

    2000-03-01

    At the Mean Field level (G. Murthy and R. Shankar, J. Phys. Condens. Matter, 7) (1995), the frustration due to an external field first makes the uniform BCS ground state unstable to an incommensurate (qne0) superconducting state and then to a spin-polarized Fermi Liquid state. Our interest is how fluctuations modify this picture, as well as the normal state of this system which has a quantum critical point. We use the Fluctuation-Exchange Approximation for the 2D Attractive Hubbard Model, to study this system beyond the Mean-Field level. Earlier work in zero field has shown that this numerical method successfully captures the critical scaling of the KT superconducting transition upon cooling in the normal state. Here we investigate how the pair-breaking external field modifies this picture, and the development of incommensurate pairing.

  19. An application of the distributed hydrologic model CASC2D to a tropical montane watershed

    NASA Astrophysics Data System (ADS)

    Marsik, Matt; Waylen, Peter

    2006-11-01

    SummaryIncreased stormflow in the Quebrada Estero watershed (2.5 km 2), in the northwestern Central Valley tectonic depression of Costa Rica, reportedly has caused flooding of the city of San Ramón in recent decades. Although scientifically untested, urban expansion was deemed the cause and remedial measures were recommended by the Programa de Investigación en Desarrollo Humano Sostenible (ProDUS). CASC2D, a physically-based, spatially explicit hydrologic model, was constructed and calibrated to a June 10th 2002 storm that delivered 110.5 mm of precipitation in 4.5 h visibly exceeded the bankfull stage (0.9 m) of the Quebrada flooding portions of San Ramón. The calibrated hydrograph showed a peak discharge 16.68% (2.5 m 3 s -1) higher, an above flood stage duration 20% shorter, and time to peak discharge 11 min later than the same observed discharge hydrograph characteristics. Simulations of changing land cover conditions from 1979 to 1999 showed an increase also in the peak discharge, above flood stage duration, and time to peak discharge. Analysis using a modified location quotient identified increased urbanization in lower portions of the watershed over the time period studied. These results suggest that increased urbanization in the Quebrada Estero watershed have increased flooding peaks, and durations above threshold, confirming the ProDUS report. These results and the CASC2D model offer an easy-to-use, pragmatic planning tool for policymakers in San Ramón to assess future development scenarios and their potential flooding impacts to San Ramón.

  20. Assessment of the Impacts of Compensation Flow Changes Upon Instream Habitat Using 2D Modelling

    NASA Astrophysics Data System (ADS)

    Mould, D. C.; Lane, S. N.; Christmas, M.

    2004-05-01

    Many millstone-grit rivers in northern England are impounded. In such cases the water company in the area has to release compensation flows from the reservoirs, traditionally to meet industrial needs: these flows are rarely set with ecology in mind; and have commonly involved constant flow. Dam overtopping may create spates, but spawning in many fish species is prompted by a spate flow in the early autumn when dams are rarely full enough to overtop. Such flows are important for fine sediment flushing and controlling the wetted useable area for spawning. Classical physical habitat modelling for instream habitat has been largely reliant upon 1D approaches, such as the Instream Flow Incremental Methodology (IFIM). Here we use a 2D finite element model (FESWMS), to simulate changes in instream habitat with variations in the compensation flow regimes. The spatial resolution of 2D models can be adapted to the scale of fish habitats so providing better representation of the reach-scale flow processes (such as slack water in the margins, wetting and drying) than the 1D case. The model is applied to the Rivers Rivelin and Loxley in Sheffield, Northern England. At the confluence of the two rivers, the compensation flow level is set at 30.6 Thousand Cubic Metres per Day (TCMD). Due to historical reasons, the compensation is not divided equally, as the Loxley receives 28 TCMD whilst the Rivelin receives only 2.6 TCMD. The model is used to simulate a transfer of 6 TCMD from the Loxley to the Rivelin. After validation, model predictions are combined with available habitat requirement data (e.g. velocity and depth needs) to develop an index of change in habitat suitability in terms of first order variables (e.g. velocity, depth and wetted useable area). This suggests that the change in compensation may significantly improve instream ecology in relation to macroinvertebrates, brown trout (Salmo trutta) and bullhead (Cottus gobio) in the Rivelin without causing detrimental impacts

  1. Thermochemical Nonequilibrium 2D Modeling of Nitrogen Inductively Coupled Plasma Flow

    NASA Astrophysics Data System (ADS)

    Yu, Minghao; Yusuke, Takahashi; Hisashi, Kihara; Ken-ichi, Abe; Kazuhiko, Yamada; Takashi, Abe; Satoshi, Miyatani

    2015-09-01

    Two-dimensional (2D) numerical simulations of thermochemical nonequilibrium inductively coupled plasma (ICP) flows inside a 10-kW inductively coupled plasma wind tunnel (ICPWT) were carried out with nitrogen as the working gas. Compressible axisymmetric Navier-Stokes (N-S) equations coupled with magnetic vector potential equations were solved. A four-temperature model including an improved electron-vibration relaxation time was used to model the internal energy exchange between electron and heavy particles. The third-order accuracy electron transport properties (3rd AETP) were applied to the simulations. A hybrid chemical kinetic model was adopted to model the chemical nonequilibrium process. The flow characteristics such as thermal nonequilibrium, inductive discharge, effects of Lorentz force were made clear through the present study. It was clarified that the thermal nonequilibrium model played an important role in properly predicting the temperature field. The prediction accuracy can be improved by applying the 3rd AETP to the simulation for this ICPWT. supported by Grant-in-Aid for Scientific Research (No. 23560954), sponsored by the Japan Society for the Promotion of Science

  2. Modeling radiative transfer in real gases: An assessment of existing methods in 2D enclosures

    SciTech Connect

    Goutiere, V.; Charette, A.; Liu, F.

    1999-07-01

    In order to model efficiently the radiative transfer in a real participating gas, various methods have been developed during the last few decades. Each method has its own formulation and leads to different accuracies and computation times. Most of the studies reported in the literature concern specific real gas models, and very few are devoted to an extended comparison of these models. The present study is a 2D assessment of some of the most up-to-date real gas methods: the cumulative-k method (CK), the statistical narrow-band model (SNB), two hybrid SNB-CK methods, the spectral line based weighted sum of gray gases method (SLW) and the exponential wide band model (EWB). Four cases are considered: one homogeneous and isothermal case with a single participating gas (H{sub 2}O), and one homogeneous and non-isothermal case with a mixture of CO{sub 2} and H{sub 2}O. Although the SNB and SNB-CK methods are the most accurate methods, the SLW method seems actually the best deal between accuracy and computation time.

  3. Analysis of a 2D simulation model of biofilms with autonomous cells

    NASA Astrophysics Data System (ADS)

    Bhandar, Anand; Tatek, Yergou; Slater, Gary

    2006-03-01

    Biofilms are substances consisting of a large number of microorganisms that grow on surfaces in contact with liquids. They can be found growing in water pipes, on surgical instruments or on tooth surfaces. Mathematical models have been used for the last three decades in order to improve our understanding of their growth and behavior. We have designed and implemented a new Monte Carlo model based on the life of autonomous cells and investigated the static and dynamic characteristics of the resulting bacterial populations. Each cell is modeled as an autonomous agent whose behavior is controlled by thermodynamic parameters, mechanical properties, physiological rules and environmental conditions. In the 2D version studied, a cell is represented by a closed chain of self-avoiding beads linked together using the bond fluctuation algorithm. The cell is controlled both by the rigidity of its membrane and a pressure difference. The model is complemented by key features such as the processes of cell division, growth and death, attractive interactions between the cell and the surface, and the explicit presence of nutrient diffusion. Tuning model parameters leads to the growth and maturation of various types of biofilms. Typical colonies incorporating these and other important characteristics of biofilms such as the exopolymeric substance (EPS), metabolism and waste production, cell motility and chemotaxy, and cell mutation will be presented.

  4. Spin Circuit Model for 2D Channels with Spin-Orbit Coupling

    PubMed Central

    Hong, Seokmin; Sayed, Shehrin; Datta, Supriyo

    2016-01-01

    In this paper we present a general theory for an arbitrary 2D channel with “spin momentum locking” due to spin-orbit coupling. It is based on a semiclassical model that classifies all the channel electronic states into four groups based on the sign of the z-component of the spin (up (U), down (D)) and the sign of the x-component of the velocity (+, −). This could be viewed as an extension of the standard spin diffusion model which uses two separate electrochemical potentials for U and D states. Our model uses four: U+, D+, U−, and D−. We use this formulation to develop an equivalent spin circuit that is also benchmarked against a full non-equilibrium Green’s function (NEGF) model. The circuit representation can be used to interpret experiments and estimate important quantities of interest like the charge to spin conversion ratio or the maximum spin current that can be extracted. The model should be applicable to topological insulator surface states with parallel channels as well as to other layered structures with interfacial spin-orbit coupling. PMID:26932563

  5. Chemometric modelling based on 2D-fluorescence spectra without a calibration measurement.

    PubMed

    Solle, D; Geissler, D; Stärk, E; Scheper, T; Hitzmann, B

    2003-01-22

    2D fluorescence spectra provide information from intracellular compounds. Fluorophores like trytophan, tyrosine and phenylalanin as well as NADH and flavins make the corresponding measurement systems very important for bioprocess supervision and control. The evaluation is usually based on chemometric modelling using for their calibration procedure off-line measurements of the desired process variables. Due to the data driven approach lots of off-line measurements are required. Here a methodology is presented, which enables to perform a calibration procedure of chemometric models without any further measurement. The necessary information for the calibration procedure is provided by means of the a priori knowledge about the process, i.e. a mathematical model, whose model parameters are estimated during the calibration procedure, as well as the fact that the substrate should be consumed at the end of the process run. The new methodology for chemometric calibration is applied for a batch cultivation of aerobically grown S. cerevisiae on the glucose Schatzmann medium. As will be presented the chemometric models, which are determined by this method, can be used for prediction during new process runs. The MATHLAB routine is free available on request from the authors.

  6. Spin Circuit Model for 2D Channels with Spin-Orbit Coupling.

    PubMed

    Hong, Seokmin; Sayed, Shehrin; Datta, Supriyo

    2016-03-02

    In this paper we present a general theory for an arbitrary 2D channel with "spin momentum locking" due to spin-orbit coupling. It is based on a semiclassical model that classifies all the channel electronic states into four groups based on the sign of the z-component of the spin (up (U), down (D)) and the sign of the x-component of the velocity (+, -). This could be viewed as an extension of the standard spin diffusion model which uses two separate electrochemical potentials for U and D states. Our model uses four: U+, D+, U-, and D-. We use this formulation to develop an equivalent spin circuit that is also benchmarked against a full non-equilibrium Green's function (NEGF) model. The circuit representation can be used to interpret experiments and estimate important quantities of interest like the charge to spin conversion ratio or the maximum spin current that can be extracted. The model should be applicable to topological insulator surface states with parallel channels as well as to other layered structures with interfacial spin-orbit coupling.

  7. Field Evaluation of a Novel 2D Preferential Flow Snowpack Hydrology Model

    NASA Astrophysics Data System (ADS)

    Leroux, N.; Pomeroy, J. W.; Kinar, N. J.

    2015-12-01

    Accurate estimation of snowmelt flux is of primary importance for runoff hydrograph prediction, which is used for water management and flood forecasting. Lateral flows and preferential flow pathways in porous media flow have proven critical for improving soil and groundwater flow models, but though many physically-based layered snowmelt models have been developed, only 1D matrix flow is accounted for in these models. Therefore, there is a need for snowmelt models that include these processes so as to examine the potential to improve snowmelt hydrological modelling. A 2D model is proposed that enables an improved understanding of energy and water flows within deep heterogeneous snowpacks, including those on slopes. A dual pathway theory is presented that simulates the formation of preferential flow paths, vertical and lateral water flows through the snow matrix and flow fingers, internal energy fluxes, melt, wet snow metamorphism, and internal refreezing. The dual pathway model utilizes an explicit finite volume method to solve for the energy and water flux equations over a non-orthogonal grid. It was run and evaluated using in-situ data collected from snowpit - accessed gravimetric, thermometric, photographic, and dielectric observations and novel non-invasive acoustic observations of layering, temperature, flowpath geometry, density and wetness at the Fortress Mountain Snow Laboratory, Alberta, Canada. The melt of a natural snowpack was artificially generated after detailed observation of snowpack initial conditions such as snow layer properties, temperature, and liquid water content. Snowpack ablation and liquid water content distribution over time were then measured and used for model parameterization and validation. Energy available at the snow surface and soil slope angle were set as mondel inputs. Model verification was based on snowpack property evolution. The heterogeneous flow model can be an important tool to help understand snowmelt flow processes, how

  8. Model-based segmentation and quantification of subcellular structures in 2D and 3D fluorescent microscopy images

    NASA Astrophysics Data System (ADS)

    Wörz, Stefan; Heinzer, Stephan; Weiss, Matthias; Rohr, Karl

    2008-03-01

    We introduce a model-based approach for segmenting and quantifying GFP-tagged subcellular structures of the Golgi apparatus in 2D and 3D microscopy images. The approach is based on 2D and 3D intensity models, which are directly fitted to an image within 2D circular or 3D spherical regions-of-interest (ROIs). We also propose automatic approaches for the detection of candidates, for the initialization of the model parameters, and for adapting the size of the ROI used for model fitting. Based on the fitting results, we determine statistical information about the spatial distribution and the total amount of intensity (fluorescence) of the subcellular structures. We demonstrate the applicability of our new approach based on 2D and 3D microscopy images.

  9. Topology, Structure and Functionality: Analysis, Modelling and Experimentation of Dense Granular Deformation in 2D and 3D

    DTIC Science & Technology

    2015-01-05

    Modelling and Experimentation of Dense Granular Defonnation Sb. GRANT NUMBER in 2D and 3D Sc. PROGRAM ELEMENT NUMBER 611102 6. AUTHORS Sd. PROJECT...Structure and Functionality: Analysis,Modelling and Experimentation of Dense Granular Deformation in 2D and 3D Report Title This project, joint with...none) Enter List of papers submitted or published that acknowledge ARO support from the start of the project to the date of this printing . List the

  10. A new model for two-dimensional numerical simulation of pseudo-2D gas-solids fluidized beds

    SciTech Connect

    Li, Tingwen; Zhang, Yongmin

    2013-10-11

    Pseudo-two dimensional (pseudo-2D) fluidized beds, for which the thickness of the system is much smaller than the other two dimensions, is widely used to perform fundamental studies on bubble behavior, solids mixing, or clustering phenomenon in different gas-solids fluidization systems. The abundant data from such experimental systems are very useful for numerical model development and validation. However, it has been reported that two-dimensional (2D) computational fluid dynamic (CFD) simulations of pseudo-2D gas-solids fluidized beds usually predict poor quantitative agreement with the experimental data, especially for the solids velocity field. In this paper, a new model is proposed to improve the 2D numerical simulations of pseudo-2D gas-solids fluidized beds by properly accounting for the frictional effect of the front and back walls. Two previously reported pseudo-2D experimental systems were simulated with this model. Compared to the traditional 2D simulations, significant improvements in the numerical predictions have been observed and the predicted results are in better agreement with the available experimental data.

  11. Transectional heat transfer in thermoregulating bigeye tuna (Thunnus obesus) - a 2D heat flux model.

    PubMed

    Boye, Jess; Musyl, Michael; Brill, Richard; Malte, Hans

    2009-11-01

    We developed a 2D heat flux model to elucidate routes and rates of heat transfer within bigeye tuna Thunnus obesus Lowe 1839 in both steady-state and time-dependent settings. In modeling the former situation, we adjusted the efficiencies of heat conservation in the red and the white muscle so as to make the output of the model agree as closely as possible with observed cross-sectional isotherms. In modeling the latter situation, we applied the heat exchanger efficiencies from the steady-state model to predict the distribution of temperature and heat fluxes in bigeye tuna during their extensive daily vertical excursions. The simulations yielded a close match to the data recorded in free-swimming fish and strongly point to the importance of the heat-producing and heat-conserving properties of the white muscle. The best correspondence between model output and observed data was obtained when the countercurrent heat exchangers in the blood flow pathways to the red and white muscle retained 99% and 96% (respectively) of the heat produced in these tissues. Our model confirms that the ability of bigeye tuna to maintain elevated muscle temperatures during their extensive daily vertical movements depends on their ability to rapidly modulate heating and cooling rates. This study shows that the differential cooling and heating rates could be fully accounted for by a mechanism where blood flow to the swimming muscles is either exclusively through the heat exchangers or completely shunted around them, depending on the ambient temperature relative to the body temperature. Our results therefore strongly suggest that such a mechanism is involved in the extensive physiological thermoregulatory abilities of endothermic bigeye tuna.

  12. Model-guided respiratory organ motion prediction of the liver from 2D ultrasound.

    PubMed

    Preiswerk, Frank; De Luca, Valeria; Arnold, Patrik; Celicanin, Zarko; Petrusca, Lorena; Tanner, Christine; Bieri, Oliver; Salomir, Rares; Cattin, Philippe C

    2014-07-01

    With the availability of new and more accurate tumour treatment modalities such as high-intensity focused ultrasound or proton therapy, accurate target location prediction has become a key issue. Various approaches for diverse application scenarios have been proposed over the last decade. Whereas external surrogate markers such as a breathing belt work to some extent, knowledge about the internal motion of the organs inherently provides more accurate results. In this paper, we combine a population-based statistical motion model and information from 2d ultrasound sequences in order to predict the respiratory motion of the right liver lobe. For this, the motion model is fitted to a 3d exhalation breath-hold scan of the liver acquired before prediction. Anatomical landmarks tracked in the ultrasound images together with the model are then used to reconstruct the complete organ position over time. The prediction is both spatial and temporal, can be computed in real-time and is evaluated on ground truth over long time scales (5.5 min). The method is quantitatively validated on eight volunteers where the ultrasound images are synchronously acquired with 4D-MRI, which provides ground-truth motion. With an average spatial prediction accuracy of 2.4 mm, we can predict tumour locations within clinically acceptable margins.

  13. 2d Affine XY-Spin Model/4d Gauge Theory Duality and Deconfinement

    SciTech Connect

    Anber, Mohamed M.; Poppitz, Erich; Unsal, Mithat; /SLAC /Stanford U., Phys. Dept. /San Francisco State U.

    2012-08-16

    We introduce a duality between two-dimensional XY-spin models with symmetry-breaking perturbations and certain four-dimensional SU(2) and SU(2) = Z{sub 2} gauge theories, compactified on a small spatial circle R{sup 1,2} x S{sup 1}, and considered at temperatures near the deconfinement transition. In a Euclidean set up, the theory is defined on R{sup 2} x T{sup 2}. Similarly, thermal gauge theories of higher rank are dual to new families of 'affine' XY-spin models with perturbations. For rank two, these are related to models used to describe the melting of a 2d crystal with a triangular lattice. The connection is made through a multi-component electric-magnetic Coulomb gas representation for both systems. Perturbations in the spin system map to topological defects in the gauge theory, such as monopole-instantons or magnetic bions, and the vortices in the spin system map to the electrically charged W-bosons in field theory (or vice versa, depending on the duality frame). The duality permits one to use the two-dimensional technology of spin systems to study the thermal deconfinement and discrete chiral transitions in four-dimensional SU(N{sub c}) gauge theories with n{sub f} {ge} 1 adjoint Weyl fermions.

  14. Marine Controlled-Source Electromagnetic 2D Inversion for synthetic models.

    NASA Astrophysics Data System (ADS)

    Liu, Y.; Li, Y.

    2016-12-01

    We present a 2D inverse algorithm for frequency domain marine controlled-source electromagnetic (CSEM) data, which is based on the regularized Gauss-Newton approach. As a forward solver, our parallel adaptive finite element forward modeling program is employed. It is a self-adaptive, goal-oriented grid refinement algorithm in which a finite element analysis is performed on a sequence of refined meshes. The mesh refinement process is guided by a dual error estimate weighting to bias refinement towards elements that affect the solution at the EM receiver locations. With the use of the direct solver (MUMPS), we can effectively compute the electromagnetic fields for multi-sources and parametric sensitivities. We also implement the parallel data domain decomposition approach of Key and Ovall (2011), with the goal of being able to compute accurate responses in parallel for complicated models and a full suite of data parameters typical of offshore CSEM surveys. All minimizations are carried out by using the Gauss-Newton algorithm and model perturbations at each iteration step are obtained by using the Inexact Conjugate Gradient iteration method. Synthetic test inversions are presented.

  15. Field-induced magnetization jumps and quantum criticality in the 2D J-Q model

    NASA Astrophysics Data System (ADS)

    Iaizzi, Adam; Sandvik, Anders

    The J-Q model is a `designer hamiltonian' formed by adding a four spin `Q' term to the standard antiferromagnetic S = 1 / 2 Heisenberg model. The Q term drives a quantum phase transition to a valence-bond solid (VBS) state: a non-magnetic state with a pattern of local singlets which breaks lattice symmetries. The elementary excitations of the VBS are triplons, i.e. gapped S=1 quasiparticles. There is considerable interest in the quantum phase transition between the Néel and VBS states as an example of deconfined quantum criticality. Near the phase boundary, triplons deconfine into pairs of bosonic spin-1/2 excitations known as spinons. Using exact diagonalization and the stochastic series expansion quantum monte carlo method, we study the 2D J-Q model in the presence of an external magnetic field. We use the field to force a nonzero density of magnetic excitations at T=0 and look for signatures of Bose-Einstein condensation of spinons. At higher magnetic fields, there is a jump in the induced magnetization caused by the onset of an effective attractive interaction between magnons on a ferromagnetic background. We characterize the first order quantum phase transition and determine the minimum value of the coupling ratio q ≡ Q / J required to produce this jump. Funded by NSF DMR-1410126.

  16. 2D Unstructured Finite Volume Lattice Boltzmann Model for Flow with Complex Geometric Boundaries

    NASA Astrophysics Data System (ADS)

    Chen, Leitao; Schaefer, Laura

    2013-11-01

    Many of the numerical issues of LBM (lattice Boltzmann method) are not yet fully solved. One of the issues is its inability of handling complex geometric boundaries. Some published work, which is based on collision-streaming discretization of the LBE and corresponding lattice-like mesh, introduced successful treatments for curved boundaries. However, those schemes are not applicable to the boundaries with large curvature like porous media since the lattice-like mesh is not able to recognize it. In order to solve this issue, a 2D FVM (finite volume method)-based numerical framework is proposed, which completely uncouples the lattice structure and the spatial discretization and therefore brings the freedom of using any type of lattice structure while keeping the basic framework unchanged. The model is solved on an unstructured triangular mesh and triangular control volume. Boundary schemes of isothermal and thermal flow for the new numerical framework are also studied. Finally, a variety of isothermal and thermal flow problems are simulated and compared with other work. The proposed model can simulate the flow with a complex geometry to the desired accuracy in addition to complementing the simple geometry of the existing LB model.

  17. Simulation of abrasive flow machining process for 2D and 3D mixture models

    NASA Astrophysics Data System (ADS)

    Dash, Rupalika; Maity, Kalipada

    2015-12-01

    Improvement of surface finish and material removal has been quite a challenge in a finishing operation such as abrasive flow machining (AFM). Factors that affect the surface finish and material removal are media viscosity, extrusion pressure, piston velocity, and particle size in abrasive flow machining process. Performing experiments for all the parameters and accurately obtaining an optimized parameter in a short time are difficult to accomplish because the operation requires a precise finish. Computational fluid dynamics (CFD) simulation was employed to accurately determine optimum parameters. In the current work, a 2D model was designed, and the flow analysis, force calculation, and material removal prediction were performed and compared with the available experimental data. Another 3D model for a swaging die finishing using AFM was simulated at different viscosities of the media to study the effects on the controlling parameters. A CFD simulation was performed by using commercially available ANSYS FLUENT. Two phases were considered for the flow analysis, and multiphase mixture model was taken into account. The fluid was considered to be a

  18. Initial results with the LLNL 2-D chemical-radiative-transport model of the troposphere and stratosphere

    SciTech Connect

    Wuebbles, D.J.; Connell, P.S.; Grant, K.E.; Tarp, R.; Taylor, K.E.

    1987-09-01

    Significant progress has been made at LLNL in the development of a zonally averaged (two-dimensional) chemical-radiative-transport model of the troposphere and stratosphere. Although further model development and refinement is being planned the LLNL 2-D model is currently ready to be applied to appropriately designed research studies of stratospheric chemical processes and interactions. Several such studies are now underway. This paper provides a description of the existing 2-D model and discusses some of the pertinent results for evaluating the capabilities of the model. Special attempts at improving the timing of the model are also discussed. 6 figs.

  19. Generalized Mechanistic Model for the Chemical Vapor Deposition of 2D Transition Metal Dichalcogenide Monolayers.

    PubMed

    Govind Rajan, Ananth; Warner, Jamie H; Blankschtein, Daniel; Strano, Michael S

    2016-04-26

    Transition metal dichalcogenides (TMDs) like molybdenum disulfide (MoS2) and tungsten disulfide (WS2) are layered materials capable of growth to one monolayer thickness via chemical vapor deposition (CVD). Such CVD methods, while powerful, are notoriously difficult to extend across different reactor types and conditions, with subtle variations often confounding reproducibility, particularly for 2D TMD growth. In this work, we formulate the first generalized TMD synthetic theory by constructing a thermodynamic and kinetic growth mechanism linked to CVD reactor parameters that is predictive of specific geometric shape, size, and aspect ratio from triangular to hexagonal growth, depending on specific CVD reactor conditions. We validate our model using experimental data from Wang et al. (Chem. Mater. 2014, 26, 6371-6379) that demonstrate the systemic evolution of MoS2 morphology down the length of a flow CVD reactor where variations in gas phase concentrations can be accurately estimated using a transport model (CSulfur = 9-965 μmol/m(3); CMoO3 = 15-16 mmol/m(3)) under otherwise isothermal conditions (700 °C). A stochastic model which utilizes a site-dependent activation energy barrier based on the intrinsic TMD bond energies and a series of Evans-Polanyi relations leads to remarkable, quantitative agreement with both shape and size evolution along the reactor. The model is shown to extend to the growth of WS2 at 800 °C and MoS2 under varied process conditions. Finally, a simplified theory is developed to translate the model into a "kinetic phase diagram" of the growth process. The predictive capability of this model and its extension to other TMD systems promise to significantly increase the controlled synthesis of such materials.

  20. Automatic 3D high-fidelity traffic interchange modeling using 2D road GIS data

    NASA Astrophysics Data System (ADS)

    Wang, Jie; Shen, Yuzhong

    2011-03-01

    3D road models are widely used in many computer applications such as racing games and driving simulations. However, almost all high-fidelity 3D road models were generated manually by professional artists at the expense of intensive labor. There are very few existing methods for automatically generating 3D high-fidelity road networks, especially for those existing in the real world. Real road network contains various elements such as road segments, road intersections and traffic interchanges. Among them, traffic interchanges present the most challenges to model due to their complexity and the lack of height information (vertical position) of traffic interchanges in existing road GIS data. This paper proposes a novel approach that can automatically produce 3D high-fidelity road network models, including traffic interchange models, from real 2D road GIS data that mainly contain road centerline information. The proposed method consists of several steps. The raw road GIS data are first preprocessed to extract road network topology, merge redundant links, and classify road types. Then overlapped points in the interchanges are detected and their elevations are determined based on a set of level estimation rules. Parametric representations of the road centerlines are then generated through link segmentation and fitting, and they have the advantages of arbitrary levels of detail with reduced memory usage. Finally a set of civil engineering rules for road design (e.g., cross slope, superelevation) are selected and used to generate realistic road surfaces. In addition to traffic interchange modeling, the proposed method also applies to other more general road elements. Preliminary results show that the proposed method is highly effective and useful in many applications.

  1. 2D dynamical magma propagation modeling: application to the 2001 Mount Etna eruption

    NASA Astrophysics Data System (ADS)

    Pinel, Virginie; Carrara, Alexandre; Maccaferri, Francesco; Rivalta, Eleonora; Corbi, Fabio

    2016-04-01

    Numerical and analog studies of dike propagation in a stress field induced by volcanic edifice construction have shown that surface loading tends both to attract the magma and to reduce its velocity. Available numerical models can either calculate the trajectory or the velocity of the ascending dikes, but not both of them simultaneously. We developed a hybrid model of dyke propagation in two dimensions solving both for the magma trajectory and velocity as a function of the source overpressure, the magma physical properties (density and viscosity) as well as the crustal density and stress field. We first calculate a dyke trajectory in 2D and secondly run a 1D dynamical model of dyke propagation along this trajectory taken into account the influence of the stress field seen by the magma along this path. This model is used to characterize the influence of surface load on magma migration towards the surface and compared to previous results obtained by analog modeling.We find that the amplitude of dyke deflection and magma velocity variation depend on the ratio between the dyke driving pressure (source overpressure as well buoyancy) and the stress field perturbation. Our model is then applied to the July 2001 eruption of Etna, where the final dyke deflection had been previously interpreted as due to the topographic load by Bonaccorso et al. [2010]. We show that the velocity decrease observed during the last stage of the propagation can also be attributed to the local stress field. We use the dyke propagation duration to estimate the magma overpressure at the dyke bottom to be less than 4 MPa.

  2. 2D application of a friction-limited model for debris flow propagation

    NASA Astrophysics Data System (ADS)

    Jaboyedoff, M.; Demierre, J.; Rudaz, B.

    2012-04-01

    Debris flows are each year responsible of severe infrastructure damages and human losses. Accurate simulation of this phenomenon allows for prevention of risks related to such events and can help for a sustainable territorial planning. A simple and intuitive 2-D debris flow model is developed using MatLab. It is based on the coupling of a mass point motion along the slope and the flattening of a volume linked to this mass point. Three main parameters have to be tuned in order to obtain a realistic prediction: the basal friction angle, the flattening coefficient and the debris flow maximum velocity. The model enables to simulate the location of the debris as a function of time and thus predict an important parameter of debris flow events, the runout distance. This tool allows for rapid calculations and has the advantage to use parameters that are easily assessable, such as the thickness of the debris flow deposit. The model is applied and compared to a debris flow event that occurred in Switzerland (Fully, VS) in October 2000. Following heavy rainfall and a hydroelectric pipe failure, a morainic deposit failed and propagated as a debris flow, reaching human-occupied areas (vineyards and roads). The event is well documented, with the initiation point, the flow velocity and runout distance known. A good agreement is found between the model prediction and the data from the debris flow event described above. This shows that the developed simple model can be an efficient tool to predict important debris flow characteristics, such as the runout distance. A further development would be to implement a 3-D model based on this approach

  3. On the assimilation of SWOT type data into 2D shallow-water models

    NASA Astrophysics Data System (ADS)

    Frédéric, Couderc; Denis, Dartus; Pierre-André, Garambois; Ronan, Madec; Jérôme, Monnier; Jean-Paul, Villa

    2013-04-01

    In river hydraulics, assimilation of water level measurements at gauging stations is well controlled, while assimilation of images is still delicate. In the present talk, we address the richness of satellite mapped information to constrain a 2D shallow-water model, but also related difficulties. 2D shallow models may be necessary for small scale modelling in particular for low-water and flood plain flows. Since in both cases, the dynamics of the wet-dry front is essential, one has to elaborate robust and accurate solvers. In this contribution we introduce robust second order, stable finite volume scheme [CoMaMoViDaLa]. Comparisons of real like tests cases with more classical solvers highlight the importance of an accurate flood plain modelling. A preliminary inverse study is presented in a flood plain flow case, [LaMo] [HoLaMoPu]. As a first step, a 0th order data processing model improves observation operator and produces more reliable water level derived from rough measurements [PuRa]. Then, both model and flow behaviours can be better understood thanks to variational sensitivities based on a gradient computation and adjoint equations. It can reveal several difficulties that a model designer has to tackle. Next, a 4D-Var data assimilation algorithm used with spatialized data leads to improved model calibration and potentially leads to identify river discharges. All the algorithms are implemented into DassFlow software (Fortran, MPI, adjoint) [Da]. All these results and experiments (accurate wet-dry front dynamics, sensitivities analysis, identification of discharges and calibration of model) are currently performed in view to use data from the future SWOT mission. [CoMaMoViDaLa] F. Couderc, R. Madec, J. Monnier, J.-P. Vila, D. Dartus, K. Larnier. "Sensitivity analysis and variational data assimilation for geophysical shallow water flows". Submitted. [Da] DassFlow - Data Assimilation for Free Surface Flows. Computational software http

  4. 2D subglacial drainage system model applied to a catchment of the Greenland ice sheet

    NASA Astrophysics Data System (ADS)

    Werder, M. A.; Joughin, I. R.; Hewitt, I.; Bamber, J. L.; van den Broeke, M. R.; Flowers, G. E.; Schoof, C.; Shean, D. E.

    2012-12-01

    We present results from a 2D glacial drainage system model (GlaDS, see last paragraph for model details) applied to a 3000 km2 catchment of the Greenland ice sheet in the vicinity of the lake studied by Das et al. (2008). We run the model for the 2009 and 2010 melt seasons using new bed and surface DEMs and force it with input from a distributed surface mass balance model driven with RACMO data (van den Broeke et al., 2009). The water is routed to the subglacial system either through crevasses, moulins or lakes as determined from satellite imagery. The model calculates subglacial water pressure which is fed into a sliding law and used as a proxy for ice flow speed. We compare these modelled ice flow speeds to measurements of speed derived from TerraSAR-X at 11-day intervals. The model produces a switch from a inefficient distributed system in winter to an efficient and arborescent channelized system as surface water input increases. Channels form predominately where water input to the bed is large and localized, i.e. at moulins and lakes. High subglacial water pressures accompany this winter-summer switch causing a speedup of ice flow. Diurnal variations in water input lead to variations of water pressure in the vicinity of channels, the size of the area affected being dependent on storage and conductivity of the distributed system. We compare the model results to the measured data and discuss their agreements and discrepancies. The GlaDS model is a new two dimensional numerical model of glacier hydrology which combines distributed and channelized drainage at the ice-bed interface coupled to an englacial water routing and storage component (Hewitt et al., 2012). Notably the model determines the location of the channels as part of the solution by allowing R-channels to form on any of the edges of the used, unstructured triangular grid. The distributed system is represented by a water sheet which is a continuum description of a linked-cavity system and exchanges

  5. Effects of CYP2D6 Status on Harmaline Metabolism, Pharmacokinetics and Pharmacodynamics, and a Pharmacogenetics-Based Pharmacokinetic Model

    PubMed Central

    Wu, Chao; Jiang, Xi-Ling; Shen, Hong-Wu; Yu, Ai-Ming

    2009-01-01

    Harmaline is a β-carboline alkaloid showing neuroprotective and neurotoxic properties. Our recent studies have revealed an important role for cytochrome P450 2D6 (CYP2D6) in harmaline O-demethylation. This study, therefore, aimed to delineate the effects of CYP2D6 phenotype/genotype on harmaline metabolism, pharmacokinetics (PK) and pharmacodynamics (PD), and to develop a pharmacogenetics mechanism-based compartmental PK model. In vitro kinetic studies on metabolite formation in human CYP2D6 extensive metabolizer (EM) and poor metabolizer (PM) hepatocytes indicated that harmaline O-demethylase activity (Vmax/Km) was about 9-fold higher in EM hepatocytes. Substrate depletion showed mono-exponential decay trait, and estimated in vitro harmaline clearance (CLint, μL/min/106 cells) was significantly lower in PM hepatocytes (28.5) than EM hepatocytes (71.1). In vivo studies in CYP2D6-humanized and wild-type mouse models showed that wild-type mice were subjected to higher and longer exposure to harmaline (5 and 15 mg/kg; i.v. and i.p.), and more severe hypothermic responses. The PK/PD data were nicely described by our pharmacogenetics-based PK model involving the clearance of drug by CYP2D6 (CLCYP2D6) and other mechanisms (CLother), and an indirect response PD model, respectively. Wild-type mice were also more sensitive to harmaline in marble-burying tests, as manifested by significantly lower ED50 and steeper Hill slope. These findings suggest that distinct CYP2D6 status may cause considerable variations in harmaline metabolism, PK and PD. In addition, the pharmacogenetics-based PK model may be extended to define PK difference caused by other polymorphic drug-metabolizing enzyme in different populations. PMID:19445902

  6. MAST-2D diffusive model for flood prediction on domains with triangular Delaunay unstructured meshes

    NASA Astrophysics Data System (ADS)

    Aricò, C.; Sinagra, M.; Begnudelli, L.; Tucciarelli, T.

    2011-11-01

    A new methodology for the solution of the 2D diffusive shallow water equations over Delaunay unstructured triangular meshes is presented. Before developing the new algorithm, the following question is addressed: it is worth developing and using a simplified shallow water model, when well established algorithms for the solution of the complete one do exist? The governing Partial Differential Equations are discretized using a procedure similar to the linear conforming Finite Element Galerkin scheme, with a different flux formulation and a special flux treatment that requires Delaunay triangulation but entire solution monotonicity. A simple mesh adjustment is suggested, that attains the Delaunay condition for all the triangle sides without changing the original nodes location and also maintains the internal boundaries. The original governing system is solved applying a fractional time step procedure, that solves consecutively a convective prediction system and a diffusive correction system. The non linear components of the problem are concentrated in the prediction step, while the correction step leads to the solution of a linear system of the order of the number of computational cells. A semi-analytical procedure is applied for the solution of the prediction step. The discretized formulation of the governing equations allows to handle also wetting and drying processes without any additional specific treatment. Local energy dissipations, mainly the effect of vertical walls and hydraulic jumps, can be easily included in the model. Several numerical experiments have been carried out in order to test (1) the stability of the proposed model with regard to the size of the Courant number and to the mesh irregularity, (2) its computational performance, (3) the convergence order by means of mesh refinement. The model results are also compared with the results obtained by a fully dynamic model. Finally, the application to a real field case with a Venturi channel is presented.

  7. 2D spectral element modeling of GPR wave propagation in inhomogeneous media

    NASA Astrophysics Data System (ADS)

    Zarei, Sajad; Oskooi, Behrooz; Amini, Navid; Dalkhani, Amin Rahimi

    2016-10-01

    We present a spectral element method, for simulation of ground-penetrating radar (GPR) in two dimensions. The technique is based upon a weak formulation of the equations of Maxwell and combines the flexibility of the elemental-based methods with the accuracy of the spectral based methods. The wave field on the elements is discretized using high-degree Lagrange interpolation and integration over an element is accomplished based upon the Gauss-Lobatto-Legendre integration rule. As a result, the mass matrix and the damping matrix are always diagonal, which drastically reduces the computational cost. We first develop the formulation of 2D spectral element method (SEM) in the time-domain based on Maxwell's equations. The presented formulation is with matrix notation that simplifies the implementation of the relations in computer programs, especially in MATLAB application. We discuss the differences between spectral element method and finite-element method in the time-domain. Also, we show that the SEM numerical dispersion is much lower than FEM. To absorb waves at the edges of the modeling domain, we implement first order Clayton and Engquist absorbing boundary conditions (CE-ABC) introduced in numerical finite-difference modeling of seismic wave propagation. We used the SEM to simulate a complex model to show its abilities and limitations. As well as, one distinct advantage of SEM is that we can easily define our model features in nodal points, because the integration points and the interpolation points are similar that makes it very flexible in simulation of complex models.

  8. A friction to flow constitutive law and its application to a 2-D modeling of earthquakes

    NASA Astrophysics Data System (ADS)

    Shimamoto, Toshihiko; Noda, Hiroyuki

    2014-11-01

    Establishment of a constitutive law from friction to high-temperature plastic flow has long been a challenging task for solving problems such as modeling earthquakes and plate interactions. Here we propose an empirical constitutive law that describes this transitional behavior using only friction and flow parameters, with good agreements with experimental data on halite shear zones. The law predicts steady state and transient behaviors, including the dependence of the shear resistance of fault on slip rate, effective normal stress, and temperature. It also predicts a change in velocity weakening to velocity strengthening with increasing temperature, similar to the changes recognized for quartz and granite gouge under hydrothermal conditions. A slight deviation from the steady state friction law due to the involvement of plastic deformation can cause a large change in the velocity dependence. We solved seismic cycles of a fault across the lithosphere with the law using a 2-D spectral boundary integral equation method, revealing dynamic rupture extending into the aseismic zone and rich evolution of interseismic creep including slow slip prior to earthquakes. Seismic slip followed by creep is consistent with natural pseudotachylytes overprinted with mylonitic deformation. Overall fault behaviors during earthquake cycles are insensitive to transient flow parameters. The friction-to-flow law merges "Christmas tree" strength profiles of the lithosphere and rate dependency fault models used for earthquake modeling on a unified basis. Strength profiles were drawn assuming a strain rate for the flow regime, but we emphasize that stress distribution evolves reflecting the fault behavior. A fault zone model was updated based on the earthquake modeling.

  9. Forward modeling of total magnetic anomaly over a pseudo-2D underground ferromagnetic pipeline

    NASA Astrophysics Data System (ADS)

    Guo, Zhi-Yong; Liu, De-Jun; Pan, Qi; Zhang, Ying-Ying

    2015-02-01

    Magnetic anomalies are formed by the superposition of earth's magnetic field and the induced field of an underground ferromagnetic pipeline. To analyze the influence of all factors on the detected magnetic anomalies, a forward model is established in this paper. A numerical integration method, magnetic dipole reconstruction (MDR), for magnetic anomaly forward modeling is proposed, and a series of calculations is performed between model parameters of the pipeline, the geomagnetic field, the measuring trace, and total magnetic anomaly (TMA). The influence of model parameters on the shape, amplitude, and magnetic width is then analyzed. Results show that the shape of TMA curve is primarily influenced by the magnetic inclination and relative azimuth of the pipeline. The amplitude is linearly related to geomagnetic intensity and pipeline parameters including diameter, thickness, and susceptibility, and decreases in inverse proportion to increase in distance between the pipeline's axis and measurement plane; it decreases in a cosine manner with decrease in inclination and relative azimuth. The magnetic width is less affected by the geomagnetic intensity and pipeline parameters, but does increase with increase in distance between the pipeline's axis and measurement plane, and decreases with decreasing inclination and relative azimuth. The MDR method effectively simulates the distributions of TMA caused by various models of pseudo-2D underground ferrous pipeline. Magnetic anomaly detection (MAD) does not effectively estimate existence or orientation of pipeline that are deeply-buried, slender or with axes parallel to the earth's magnetic field in the low magnetic latitude area. Rough measurement of magnetic anomaly is necessary before the orientation of the underground pipeline is identified, followed by exact measurements along the perpendicular direction of the axis of pipeline to accurately locate underground pipeline.

  10. Multi-GPU accelerated multi-spin Monte Carlo simulations of the 2D Ising model

    NASA Astrophysics Data System (ADS)

    Block, Benjamin; Virnau, Peter; Preis, Tobias

    2010-09-01

    A Modern Graphics Processing unit (GPU) is able to perform massively parallel scientific computations at low cost. We extend our implementation of the checkerboard algorithm for the two-dimensional Ising model [T. Preis et al., Journal of Chemical Physics 228 (2009) 4468-4477] in order to overcome the memory limitations of a single GPU which enables us to simulate significantly larger systems. Using multi-spin coding techniques, we are able to accelerate simulations on a single GPU by factors up to 35 compared to an optimized single Central Processor Unit (CPU) core implementation which employs multi-spin coding. By combining the Compute Unified Device Architecture (CUDA) with the Message Parsing Interface (MPI) on the CPU level, a single Ising lattice can be updated by a cluster of GPUs in parallel. For large systems, the computation time scales nearly linearly with the number of GPUs used. As proof of concept we reproduce the critical temperature of the 2D Ising model using finite size scaling techniques.

  11. Optimal implicit 2-D finite differences to model wave propagation in poroelastic media

    NASA Astrophysics Data System (ADS)

    Itzá, Reymundo; Iturrarán-Viveros, Ursula; Parra, Jorge O.

    2016-08-01

    Numerical modeling of seismic waves in heterogeneous porous reservoir rocks is an important tool for the interpretation of seismic surveys in reservoir engineering. We apply globally optimal implicit staggered-grid finite differences (FD) to model 2-D wave propagation in heterogeneous poroelastic media at a low-frequency range (<10 kHz). We validate the numerical solution by comparing it to an analytical-transient solution obtaining clear seismic wavefields including fast P and slow P and S waves (for a porous media saturated with fluid). The numerical dispersion and stability conditions are derived using von Neumann analysis, showing that over a wide range of porous materials the Courant condition governs the stability and this optimal implicit scheme improves the stability of explicit schemes. High-order explicit FD can be replaced by some lower order optimal implicit FD so computational cost will not be as expensive while maintaining the accuracy. Here, we compute weights for the optimal implicit FD scheme to attain an accuracy of γ = 10-8. The implicit spatial differentiation involves solving tridiagonal linear systems of equations through Thomas' algorithm.

  12. 2D positive streamer modelling in NTP air under extreme pulse fronts. What about runaway electrons?

    NASA Astrophysics Data System (ADS)

    Marode, E.; Dessante, Ph; Tardiveau, P.

    2016-12-01

    Using a 2D model, an attempt is made to understand the properties and aspects of a diffuse discharge, appearing in a positive point-to-plane gap submitted to very high voltage pulses. After presenting the model, comparisons between the computed low and high pulse heights of 10 kV and 50 kV, respectively, will be shown and analysed. A streamer ionising wave is still formed, but its role in ionising a region of low field is replaced by the role of providing a plasma within which the electrons will benefit from the presence of a high electrical field meant to induce strong electron collision activities. A comparison between the aspect of the computed and experimental discharge carried out in the same conditions at 50 kV will be presented, which seems to be in agreement with the diffuse aspect. Although the difference in order of magnitude of the speed of development and the height of the current must be underlined, similarities between the structures of both situations will, however, be recognised. A high probability of obtaining highly energetic electrons and runaways (RAEs) will also be derived following a simple approach.

  13. Beyond Flood Hazard Maps: Detailed Flood Characterization with Remote Sensing, GIS and 2d Modelling

    NASA Astrophysics Data System (ADS)

    Santillan, J. R.; Marqueso, J. T.; Makinano-Santillan, M.; Serviano, J. L.

    2016-09-01

    Flooding is considered to be one of the most destructive among many natural disasters such that understanding floods and assessing the risks associated to it are becoming more important nowadays. In the Philippines, Remote Sensing (RS) and Geographic Information System (GIS) are two main technologies used in the nationwide modelling and mapping of flood hazards. Although the currently available high resolution flood hazard maps have become very valuable, their use for flood preparedness and mitigation can be maximized by enhancing the layers of information these maps portrays. In this paper, we present an approach based on RS, GIS and two-dimensional (2D) flood modelling to generate new flood layers (in addition to the usual flood depths and hazard layers) that are also very useful in flood disaster management such as flood arrival times, flood velocities, flood duration, flood recession times, and the percentage within a given flood event period a particular location is inundated. The availability of these new layers of flood information are crucial for better decision making before, during, and after occurrence of a flood disaster. The generation of these new flood characteristic layers is illustrated using the Cabadbaran River Basin in Mindanao, Philippines as case study area. It is envisioned that these detailed maps can be considered as additional inputs in flood disaster risk reduction and management in the Philippines.

  14. A 2D mechanical-magneto-thermal model for direction-dependent magnetoelectric effect in laminates

    NASA Astrophysics Data System (ADS)

    Zhang, Shunzu; Yao, Hong; Gao, Yuanwen

    2017-04-01

    A two dimensional (2D) mechanical-magneto-thermal model of direction-dependent magnetoelectric (ME) effect in Terfenol-D/PZT/Terfenol-D laminated composites is established. The expressions of ME coefficient at low and resonance frequencies are derived by the average field method, respectively. The prediction of theoretical model presents a good agreement with the experimental data. The combined effect of orientation-dependent stress and magnetic fields, as well as operating temperature on ME coefficient is discussed. It is shown that ME effect presents a significantly nonlinear change with the increasing pre-stress under different loading angles. There exists an optimal angle and value of pre-stress corresponding to the best ME effect, improving the angle of pre-stress can get more prominent ME coupling than in x axis state. Note that an optimal angle of magnetic field gradually increases with the rise of pre-stress, which can further lead to the enhancement of ME coefficient. Meanwhile, reducing the operating temperature can enhance ME coefficient. Furthermore, resonance frequency, affected by pre-stress, magnetic field and temperature via ; ΔE effect;, can enhance ME coefficient about 100 times than that at low frequency.

  15. A model for human cytochrome P450 2D6 based on homology modeling and NMR studies of substrate binding.

    PubMed

    Modi, S; Paine, M J; Sutcliffe, M J; Lian, L Y; Primrose, W U; Wolf, C R; Roberts, G C

    1996-04-09

    The cytochrome P450 responsible for the debrisoquine/sparteine polymorphism (P450 2D6) has been produced in large quantities by expression of a modified cDNA in baculovirus. A polyhistidine extension was incorporated at the C-terminus of the expressed protein, which, after purification of the protein on a nickel-agarose column, could be removed proteolytically by treatment with thrombin. Purified yields of P450 2D6 were 2.4 mg from 700 mL of cell culture. The protein had a greater than 90% heme content and was fully active, having no residual absorbance at 420 nm in the reduced CO complex. The quantities produced allowed direct study of the interaction of the substrate codeine with the enzyme by paramagnetic relaxation effects on the NMR spectrum of the substrate. Distances between the heme iron atom and substrate protons were calculated from these experiments, and the orientation of the substrate in the binding pocket was determined. This showed that codeine was bound with the methoxy group of the molecule closest to the heme iron (iron-methyl proton distance of 3.1 +/- 0.1 A), consistent with the observed O-demethylation to morphine. A model of the complex Of P450 2D6 with codeine was built from a multiple sequence and structure alignment of the known crystal structures for P450s, incorporating the experimental constraints derived from the NMR studies. This showed that the overall fold Of P450 2D6 is more similar to that of P450 BM3 than to either P450 cam or P450 terp. Codeine binds to P450 2D6 so that the methoxy group is directly above the A ring of the heme, while the basic nitrogen interacts with the carboxylate of aspartate 301.

  16. The success of Fermi gas model for overall scaling of 2D metal-to-insulator transition data

    NASA Astrophysics Data System (ADS)

    Cheremisin, M. V.

    2017-03-01

    The melting condition for two-dimensional Wigner solid (Platzman and Fukuyama, 1974) [14] is shown to contain an error of a factor of π. The analysis of experimental data for apparent 2D metal-to-insulator transition shows that the Wigner solidification (Tanatar and Ceperley, 1989) [16] has been never achieved. Within routine Fermi gas model both the metallic and insulating behavior of different 2D system for actual range of carrier densities and temperatures is explained.

  17. Robust initialization for 2D/3D registration of knee implant models to single-plane fluoroscopy

    NASA Astrophysics Data System (ADS)

    Hermans, J.; Claes, P.; Bellemans, J.; Vandermeulen, D.; Suetens, P.

    2007-03-01

    A fully automated initialization method is proposed for the 2D/3D registration of 3D CAD models of knee implant components to a single-plane calibrated fluoroscopy. The algorithm matches edge segments, detected in the fluoroscopy image, with pre-computed libraries of expected 2D silhouettes of the implant components. Each library entry represents a different combination of out-of-plane registration transformation parameters. Library matching is performed by computing point-based 2D/2D registrations in between each library entry and each detected edge segment in the fluoroscopy image, resulting in an estimate of the in-plane registration transformation parameters. Point correspondences for registration are established by template matching of the bending patterns on the contours. A matching score for each individual 2D/2D registration is computed by evaluating the transformed library entry in an edge-encoded (characteristic) image, which is derived from the original fluoroscopy image. A matching scores accumulator is introduced to select and suggest one or more initial pose estimates. The proposed method is robust against occlusions and partial segmentations. Validation results are shown on simulated fluoroscopy images. In all cases a library match is found for each implant component which is very similar to the shape information in the fluoroscopy. The feasibility of the proposed method is demonstrated by initializing an intensity-based 2D/3D registration method with the automatically obtained estimation of the registration transformation parameters.

  18. Lithospheric architecture of the Levant Basin (Eastern Mediterranean region): A 2D modeling approach

    NASA Astrophysics Data System (ADS)

    Inati, Lama; Zeyen, Hermann; Nader, Fadi Henri; Adelinet, Mathilde; Sursock, Alexandre; Rahhal, Muhsin Elie; Roure, François

    2016-12-01

    This paper discusses the deep structure of the lithosphere underlying the easternmost Mediterranean region, in particular the Levant Basin and its margins, where the nature of the crust, continental versus oceanic, remains debated. Crustal thickness and the depth of the lithosphere-asthenosphere boundary (LAB) as well as the crustal density distribution were calculated by integrating surface heat flow data, free-air gravity anomaly, geoid and topography. Accordingly, two-dimensional, lithospheric models of the study area are discussed, demonstrating the presence of a progressively attenuated crystalline crust from E to W (average thickness from 35 to 8 km). The crystalline crust is best interpreted as a strongly thinned continental crust under the Levant Basin, represented by two distinct components, an upper and a lower crust. Further to the west, the Herodotus Basin is believed to be underlain by an oceanic crust, with a thickness between 6 and 10 km. The Moho under the Arabian Plate is 35-40 km deep and becomes shallower towards the Mediterranean coast. It appears to be situated at depths ranging between 20 and 23 km below the Levant Basin and 26 km beneath the Herodotus Basin, based on our proposed models. At the Levantine margin, the thinning of the crust in the transitional domain between the onshore and the offshore is gradual, indicating successive extensional regimes that did not reach the beak up stage. In addition, the depth to LAB is around 120 km under the Arabian and the Eurasian Plates, 150 km under the Levant Basin, and it plunges to 180 km under the Herodotus Basin. This study shows that detailed 2D lithosphere modeling using integrated geophysical data can help understand the mechanisms responsible for the modelled lithospheric architecture when constrained with geological findings.

  19. Evidence of a glass transition in a ten-state non-mean-field Potts glass.

    PubMed

    Andrist, Ruben S; Larson, Derek; Katzgraber, Helmut G

    2011-03-01

    Potts glasses are prototype models that have been used to understand the structural glass transition. However, in finite space dimensions a glass transition remains to be detected in the 10-state Potts glass. Using a one-dimensional model with long-range power-law interactions we present evidence that a glass transition below the upper critical dimension can exist for short-range systems at low enough temperatures. Gaining insights into the structural glass transition for short-range systems using spin models is thus potentially possible, yet difficult.

  20. Adaptation of a 2-D Photochemical Model to Improve Our Understanding of Saturn's Atmosphere

    NASA Astrophysics Data System (ADS)

    Edgington, Scott G.; Simon-Miller, A. A.; Achterberg, R.; Bjoraker, G.; Romani, P.; Flasar, F. M.; Colwell, J.

    2006-09-01

    We report progress in adapting a two dimensional photochemical model to Saturn. Previously, this model was applied to Jupiter (Edgington, et al., 2001) to track tracers such as ammonia in the Jovian troposphere. The chemistry portion of this model has the ability to model ammonia, phosphine, and hydrocarbon photochemical families (Edgington, et al., 1999). The transport portion is based on the transport model used to model the evolution of materials deposited by Comet Shoemaker-Levy 9 (Friedson, et al., 1999). The model is used to look at the variation of several molecules in Saturn's atmosphere accounting for the filtering of ultraviolet photons by Saturn's rings as measured by Cassini/UVIS and the thermal structure observed by Cassini/CIRS. We compare results from this model to the abundances of several molecules, e.g. propane (Simon-Miller, et al., 2005) and phosphine, derived from Cassini/CIRS, HST/FOS, and ISO data sets. Composition differences between the northern ring-shadowed atmophere and the nominal sunlit atmosphere will be examined. More research into Saturn's zonal averaged meridional circulation is needed. Edgington, S.G., et al., 1999. Ammonia and eddy mixing variations in the southern hemisphere of Jupiter from HST Faint Object Spectrograph Observations. Icarus, 142, 342-357. Edgington, S.G., West, R.A., Friedson, A.J., and Atreya, S.K., 2001. A 2-D photochemical model with meridional circulation and microphysics. Jupiter: Planet, Satellites, and Magnetosphere - Boulder, CO, June 25-30. Friedson, A.J.; West, R.A.; Hronek, A.K.; Larsen, N.A.; and Dalal, N., 1999. Transport and Mixing in Jupiter's Stratosphere Inferred from Comet S-L9 Dust Migration. Icarus, 138, 141-156. Simon-Miller, A.A., et al., 2005. Cassini CIRS Measurements of Benzene, Propane and Carbon Dioxide on Saturn. B.A.A.S. 37, 682. The research described in this paper was carried out at the Jet Propulsion Laboratory, California Institute of Technology, under a contract with the

  1. Hydraulic Modeling of Alluvial Fans along the Truckee Canal using the 2-Dimensional Model SRH2D

    NASA Astrophysics Data System (ADS)

    Wright, J.; Kallio, R.; Sankovich, V.

    2013-12-01

    Alluvial fans are gently sloping, fan-shaped landforms created by sediment deposition at the ends of mountain valleys. Their gentle slopes and scenic vistas are attractive to developers. Unfortunately, alluvial fans are highly flood-prone, and the flow paths of flood events are highly variable, thereby placing human developments at risk. Many studies have been performed on alluvial fans in the arid west because of the uncertainty of their flow paths and flood extents. Most of these studies have been focused on flood elevations and mitigation. This study is not focused on the flood elevations. Rather, it is focused on the attenuation effects of alluvial fans on floods entering and potentially failing a Reclamation canal. The Truckee Canal diverts water from the Truckee River to Lahontan Reservoir. The drainage areas along the canal are alluvial fans with complex distributary channel networks . Ideally, in nature, the sediment grain-size distribution along the alluvial fan flow paths would provide enough infiltration and subsurface storage to attenuate floods entering the canal and reduce risk to low levels. Human development, however, can prevent the natural losses from occurring due to concentrated flows within the alluvial fan. While the concentrated flows might mitigate flood risk inside the fan, they do not lower the flood risk of the canal. A 2-dimensional hydraulic model, SRH-2D, was coupled to a 1-dimensional rainfall-runoff model to estimate the flood attenuation effects of the alluvial fan network surrounding an 11 mile stretch of the Truckee Canal near Fernley, Nevada. Floods having annual exceedance probabilities ranging from 1/10 to 1/100 were computed and analyzed. SRH-2D uses a zonal approach for modeling river systems, allowing areas to be divided into separate zones based on physical parameters such as surface roughness and infiltration. One of the major features of SRH-2D is the adoption of an unstructured hybrid mixed element mesh, which is based

  2. Land use regression models for total particle number concentrations using 2D, 3D and semantic parameters

    NASA Astrophysics Data System (ADS)

    Ghassoun, Yahya; Löwner, Marc-Oliver

    2017-10-01

    Total particle number concentration (TNC) was studied in a 1 × 2 km area in Berlin, the capital of Germany by three Land Use Regression models (LUR). The estimation of TNC was established and compared using one 2D-LUR and two 3D-LUR models. All models predict total number concentrations TNC by using urban morphological (2D resp. 3D) and additional semantical parameters. 2D and semantical parameters were derived from Open Street Map data (OSM) whereas 3D parameters were derived from a CityGML-based 3D city model. While the models are capable to depict the spatial variation of TNC across the study area, the two 3D-LUR showed better results than the 2D-LUR. The 2D-LUR model explained 74% of the variance of TNC for the full data set with root mean square error (RMSE) of 4014 cm-3 while the 3D-LUR explained 79% of the variance with an RMSE of 3477 cm-3. The further introduction of a new spatial parameter, the Frontal Area Index (FAI) that represents the dynamic factor wind direction enhanced the 3D-LUR to explain 82% of the variance with RMSE of 3389 cm-3. Furthermore, the semantical parameters (e.g. streets type) played a significant role in all models.

  3. 2D Biotope Mapping Using Combined LIDAR, Topographic Survey And Segmented 1D Flow Modelling

    NASA Astrophysics Data System (ADS)

    Entwistle, N. S.; Heritage, G. L.; Milan, D. J.

    2009-12-01

    Reach averaged habitat availability models such as PHABSIM are limited due principally to their failure to adequately map hydraulic habitat distribution at a representative scale. A lack of morphologic data, represented in the form of sparse geometric cross-sections fails to generate the necessary detail. Advances in data collection, improved spatial modelling algorithms and the advent of cross-section based segmentation routines in 1D hydraulic models provides the opportunity to revisit the issue of hydraulic habitat mapping and modelling. This paper presents a combined technique for habitat characterisation at the sub-bar scale is presented for the River Rede, Northumberland, UK. Terrestrial LIDAR data of floodplain, banks and exposed bar surfaces at an average 0.05 m spacing are combined with sparser total station survey data of submerged morphologic features. These data are interpolated to create a uniform DEM grid at 0.2 m spacing (adequate to detect the smallest variation in hydraulic habitat in this system). The data grid were then imported into the HECRAS 1D hydraulic model to generate a 2 m spaced series of cross-sections along a 220 m sinuous single thread reach exhibiting pool - riffle point-bar morphology. The hydraulic segmentation routine then generated estimates of depth averaged flow velocity, flow depth and sub unit discharge for 40 sub-divisions of the flow width for a series of flows from 0.5 m3s-1 up to bankfull flow of approximately 9 m3s-1. The resultant hydraulic data were exported in the project coordinate system and plotted to reveal the 2D pattern of hydraulic biotopes present across the range of flows modelled. The results reveal broadly realistic patterns consistent with previous empirical studies and compare well with LIDAR based biotope maps. Analysis of the temporal pattern of biotope change indicates that biotope diversity and complexity is at a maximum at lower flows and across shallower area (riffles) and that these dominate the

  4. Combining multitracing and 2D-modelling to identify the dynamic of heavy metals during flooding.

    NASA Astrophysics Data System (ADS)

    Hissler, C.; Hostache, R.; Matgen, P.; Tosheva, Z.; David, E.; Bates, P.; Stille, P.

    2012-04-01

    to assess the risk of floodplain contamination in heavy metal due to river sediment deposition and to heavy metal partitioning between particulate and dissolved phases. We focus on a multidisciplinary approach combining environmental geochemistry (multitracing) and hydraulic modelling (using TELEMAC-2D). One important single flood event was selected to illustrate this innovative approach. During the entire flood, the river water was sampled every hour in order to collect the particulate and the dissolved fractions. All the tracers were analyzed in both fractions. An important set of hydrological and sedimentological data are used to reach a more efficient calibration of the TELEMAC modelling system. In addition to standard techniques of hydrochemistry, new approaches of in situ suspended sediment transport monitoring will help getting new insights on the hydraulic system behaviour.

  5. Numerical solution of polarization saturation/dielectric breakdown model in 2D finite piezoelectric media

    NASA Astrophysics Data System (ADS)

    Fan, Cui-Ying; Zhao, Ming-Hao; Zhou, You-He

    2009-09-01

    The polarization saturation (PS) model [Gao, H., Barnett, D.M., 1996. An invariance property of local energy release rates in a strip saturation model of piezoelectric fracture. Int. J. Fract. 79, R25-R29; Gao, H., Zhang, T.Y., Tong, P., 1997. Local and global energy release rates for an electrically yielded crack in a piezoelectric ceramic. J. Mech. Phys. Solids 45, 491-510], and the dielectric breakdown (DB) model [Zhang, T.Y., Zhao, M.H., Cao, C.F., 2005. The strip dielectric breakdown model. Int. J. Fract. 132, 311-327] explain very well some experimental observations of fracture of piezoelectric ceramics. In this paper, the nonlinear hybrid extended displacement discontinuity-fundamental solution method (NLHEDD-FSM) is presented for numerical analysis of both the PS and DB models of two-dimensional (2D) finite piezoelectric media under impermeable and semi-permeable electric boundary conditions. In this NLHEDD-FSM, the solution is expressed approximately by a linear combination of fundamental solutions of the governing equations, which includes the extended point force fundamental solutions with sources placed at chosen points outside the domain of the problem under consideration, and the extended Crouch fundamental solutions with extended displacement discontinuities placed on the crack and the electric yielding zone. The coefficients of the fundamental solutions are determined by letting the approximated solution satisfy certain conditions on the boundary of the domain, on the crack face and the electric yielding zone. The zero electric displacement intensity factor in the PS model or the zero electric field strength intensity factor in the DB model at the outer tips of the electric yielding zone is used as a supplementary condition to determine the size of the electric yielding zone. Iteration approaches are adopted in the NLHEDD-FSM. The electric yielding zone is determined, and the extended intensity factors and the local J-integral are calculated for

  6. Electrical resistivity tomography applied to a complex lava dome: 2D and 3D models comparison

    NASA Astrophysics Data System (ADS)

    Portal, Angélie; Fargier, Yannick; Lénat, Jean-François; Labazuy, Philippe

    2015-04-01

    The study of volcanic domes growth (e.g. St. Helens, Unzen, Montserrat) shows that it is often characterized by a succession of extrusion phases, dome explosions and collapse events. Lava dome eruptive activity may last from days to decades. Therefore, their internal structure, at the end of the eruption, is complex and includes massive extrusions and lava lobes, talus and pyroclastic deposits as well as hydrothermal alteration. The electrical resistivity tomography (ERT) method, initially developed for environmental and engineering exploration, is now commonly used for volcano structure imaging. Because a large range of resistivity values is often observed in volcanic environments, the method is well suited to study the internal structure of volcanic edifices. We performed an ERT survey on an 11ka years old trachytic lava dome, the Puy de Dôme volcano (French Massif Central). The analysis of a recent high resolution DEM (LiDAR 0.5 m), as well as other geophysical data, strongly suggest that the Puy de Dôme is a composite dome. 11 ERT profiles have been carried out, both at the scale of the entire dome (base diameter of ~2 km and height of 400 m) on the one hand, and at a smaller scale on the summit part on the other hand. Each profile is composed of 64 electrodes. Three different electrode spacing have been used depending on the study area (35 m for the entire dome, 10 m and 5 m for its summit part). Some profiles were performed with half-length roll-along acquisitions, in order to keep a good trade-off between depth of investigation and resolution. Both Wenner-alpha and Wenner-Schlumberger protocols were used. 2-D models of the electrical resistivity distribution were computed using RES2DINV software. In order to constrain inversion models interpretation, the depth of investigation (DOI) method was applied to those results. It aims to compute a sensitivity index on inversion results, illustrating how the data influence the model and constraining models

  7. Modeling of two-storey precast school building using Ruaumoko 2D program

    SciTech Connect

    Hamid, N. H.; Tarmizi, L. H.; Ghani, K. D.

    2015-05-15

    The long-distant earthquake loading from Sumatra and Java Island had caused some slight damages to precast and reinforced concrete buildings in West Malaysia such as cracks on wall panels, columns and beams. Subsequently, the safety of existing precast concrete building is needed to be analyzed because these buildings were designed using BS 8110 which did not include the seismic loading in the design. Thus, this paper emphasizes on the seismic performance and dynamic behavior of precast school building constructed in Malaysia under three selected past earthquakes excitations ; El Centro 1940 North-South, El Centro East-West components and San Fernando 1971 using RUAUMOKO 2D program. This program is fully utilized by using prototype precast school model and dynamic non-linear time history analysis. From the results, it can be concluded that two-storey precast school building has experienced severe damage and partial collapse especially at beam-column joint under San Fernando and El Centro North-South Earthquake as its exceeds the allowable inter-storey drift and displacement as specified in Eurocode 8. The San Fernando earthquake has produced a massive destruction to the precast building under viscous damping, ξ = 5% and this building has generated maximum building displacement of 435mm, maximum building drift of 0.68% and maximum bending moment at 8458kNm.

  8. GPU computing with OpenCL to model 2D elastic wave propagation: exploring memory usage

    NASA Astrophysics Data System (ADS)

    Iturrarán-Viveros, Ursula; Molero-Armenta, Miguel

    2015-01-01

    Graphics processing units (GPUs) have become increasingly powerful in recent years. Programs exploring the advantages of this architecture could achieve large performance gains and this is the aim of new initiatives in high performance computing. The objective of this work is to develop an efficient tool to model 2D elastic wave propagation on parallel computing devices. To this end, we implement the elastodynamic finite integration technique, using the industry open standard open computing language (OpenCL) for cross-platform, parallel programming of modern processors, and an open-source toolkit called [Py]OpenCL. The code written with [Py]OpenCL can run on a wide variety of platforms; it can be used on AMD or NVIDIA GPUs as well as classical multicore CPUs, adapting to the underlying architecture. Our main contribution is its implementation with local and global memory and the performance analysis using five different computing devices (including Kepler, one of the fastest and most efficient high performance computing technologies) with various operating systems.

  9. Spot size variation FCS in simulations of the 2D Ising model

    NASA Astrophysics Data System (ADS)

    Burns, Margaret C.; Nouri, Mariam; Veatch, Sarah L.

    2016-06-01

    Spot variation fluorescence correlation spectroscopy (svFCS) was developed to study the movement and organization of single molecules in plasma membranes. This experimental technique varies the size of an illumination area while measuring correlations in time using standard fluorescence correlation methods. Frequently, this data is interpreted using the assumption that correlation measurements reflect the dynamics of single molecule motions, and not motions of the average composition. Here, we explore how svFCS measurements report on the dynamics of components diffusing within simulations of a 2D Ising model with a conserved order parameter. Simulated correlation functions report on both the fast dynamics of single component mobility and the slower dynamics of the average composition. Over a range of simulation conditions, a conventional svFCS analysis suggests the presence of anomalous diffusion even though single molecule motions are nearly Brownian in these simulations. This misinterpretation is most significant when the surface density of the fluorescent label is elevated, therefore we suggest future measurements be made over a range of tracer densities. Some simulation conditions reproduce qualitative features of published svFCS experimental data. Overall, this work emphasizes the need to probe membranes using multiple complimentary experimental methodologies in order to draw conclusions regarding the nature of spatial and dynamical heterogeneity in these systems.

  10. Modeling of two-storey precast school building using Ruaumoko 2D program

    NASA Astrophysics Data System (ADS)

    Hamid, N. H.; Tarmizi, L. H.; Ghani, K. D.

    2015-05-01

    The long-distant earthquake loading from Sumatra and Java Island had caused some slight damages to precast and reinforced concrete buildings in West Malaysia such as cracks on wall panels, columns and beams. Subsequently, the safety of existing precast concrete building is needed to be analyzed because these buildings were designed using BS 8110 which did not include the seismic loading in the design. Thus, this paper emphasizes on the seismic performance and dynamic behavior of precast school building constructed in Malaysia under three selected past earthquakes excitations ; El Centro 1940 North-South, El Centro East-West components and San Fernando 1971 using RUAUMOKO 2D program. This program is fully utilized by using prototype precast school model and dynamic non-linear time history analysis. From the results, it can be concluded that two-storey precast school building has experienced severe damage and partial collapse especially at beam-column joint under San Fernando and El Centro North-South Earthquake as its exceeds the allowable inter-storey drift and displacement as specified in Eurocode 8. The San Fernando earthquake has produced a massive destruction to the precast building under viscous damping, ξ = 5% and this building has generated maximum building displacement of 435mm, maximum building drift of 0.68% and maximum bending moment at 8458kNm.

  11. Spot size variation FCS in simulations of the 2D Ising model

    PubMed Central

    Burns, Margaret C.; Nouri, Mariam; Veatch, Sarah L.

    2016-01-01

    Spot variation fluorescence correlation spectroscopy (svFCS) was developed to study the movement and organization of single molecules in plasma membranes. This experimental technique varies the size of an illumination area while measuring correlations in time using standard fluorescence correlation methods. Frequently, this data is interpreted using the assumption that correlation measurements reflect the dynamics of single molecule motions, and not motions of the average composition. Here, we explore how svFCS measurements report on the dynamics of components diffusing within simulations of a 2D Ising model with a conserved order parameter. Simulated correlation functions report on both the fast dynamics of single component mobility and the slower dynamics of the average composition. Over a range of simulation conditions, a conventional svFCS analysis suggests the presence of anomalous diffusion even though single molecule motions are nearly Brownian in these simulations. This misinterpretation is most significant when the surface density of the fluorescent label is elevated, therefore we suggest future measurements be made over a range of tracer densities. Some simulation conditions reproduce qualitative features of published svFCS experimental data. Overall, this work emphasizes the need to probe membranes using multiple complimentary experimental methodologies in order to draw conclusions regarding the nature of spatial and dynamical heterogeneity in these systems. PMID:27274570

  12. Modelling 2001 lahars at Popocatépetl volcano using FLO2D numerical code

    NASA Astrophysics Data System (ADS)

    Caballero, L.; Capra, L.

    2013-12-01

    Popocatépetl volcano is located on the central part of the Transmexican Volcanic Belt. It is one of the most active volcanoes in Mexico and endanger more than 25 million people that lives in its surroundings. In the last months, the renewal of its volcanic activity put into alert scientific community. One of the possible scenarios is the 2001 explosive activity, which was characterized by a 8 km eruptive column and the subsequent formation of pumice flows up to 4 km from the crater. Lahars were generated few hours after, remobilizing the new deposits towards NE flank of the volcano, along Huiloac Gorge, almost reaching Santiago Xalitzintla town (Capra et al., 2004). The occurrence of a similar scenario makes very important to reproduce this event to delimitate accurately lahar hazard zones. In this work, 2001 lahar deposit is modeled using FLO2D numerical code. Geophone data is used to reconstruct initial hydrograph and sediment concentration. Sensitivity study of most important parameters used by this code like Manning, and α and β coefficients was conducted in order to achieve a good simulation. Results obtained were compared with field data and demonstrated a good agreement in thickness and flow distribution. A comparison with previously published data with laharZ program (Muñoz-Salinas, 2009) is also made. Additionally, lahars with fluctuating sediment concentrations but with similar volume are simulated to observe the influence of the rheological behavior on lahar distribution.

  13. Optimization of hybrid organic-inorganic interdigitated photovoltaic device structure using a 2D diffusion model.

    PubMed

    Krali, Emiljana; Curry, Richard J

    2011-04-26

    To improve the efficiency of organic photovoltaic devices the inclusion of semiconducting nanoparticles such as PbS has been used to enhance near-infrared absorption. Additionally the use of interdigitated heterojunctions has been explored as a means of improving charge extraction. In this paper we provide a two-dimensional model taking into account these approaches with the aim of predicting an optimized device geometry to maximize the efficiency. The steady-state exciton population has been calculated in each of the active regions taking into account the full optical response based on using a finite difference approach to obtain approximate numerical solutions to the 2D exciton diffusion equation. On the basis of this we calculate the contribution of each active material to the device short circuit current and power conversion efficiency. We show that optimized structures can lead to power conversions efficiencies of ∼50% compared to a maximum of ∼17% for planar heterojunction devices. To achieve this the interdigitated region thickness should be ∼800 nm with PbS and C(60) widths of ∼60 and 20 nm, respectively. Even modest nanopatterning using much thinner active regions provides improvements in efficiency and may be approached using a variety of methods including nanoimprinting lithography, nanotemplating, or the incorporation of presynthesized nanorod structures.

  14. Spot size variation FCS in simulations of the 2D Ising model.

    PubMed

    Burns, Margaret C; Nouri, Mariam; Veatch, Sarah L

    2016-06-02

    Spot variation fluorescence correlation spectroscopy (svFCS) was developed to study the movement and organization of single molecules in plasma membranes. This experimental technique varies the size of an illumination area while measuring correlations in time using standard fluorescence correlation methods. Frequently, this data is interpreted using the assumption that correlation measurements reflect the dynamics of single molecule motions, and not motions of the average composition. Here, we explore how svFCS measurements report on the dynamics of components diffusing within simulations of a 2D Ising model with a conserved order parameter. Simulated correlation functions report on both the fast dynamics of single component mobility and the slower dynamics of the average composition. Over a range of simulation conditions, a conventional svFCS analysis suggests the presence of anomalous diffusion even though single molecule motions are nearly Brownian in these simulations. This misinterpretation is most significant when the surface density of the fluorescent label is elevated, therefore we suggest future measurements be made over a range of tracer densities. Some simulation conditions reproduce qualitative features of published svFCS experimental data. Overall, this work emphasizes the need to probe membranes using multiple complimentary experimental methodologies in order to draw conclusions regarding the nature of spatial and dynamical heterogeneity in these systems.

  15. Stability of superfluid phases in the 2D spin-polarized attractive Hubbard model

    NASA Astrophysics Data System (ADS)

    Kujawa-Cichy, A.; Micnas, R.

    2011-08-01

    We study the evolution from the weak coupling (BCS-like limit) to the strong coupling limit of tightly bound local pairs (LPs) with increasing attraction, in the presence of the Zeeman magnetic field (h) for d=2, within the spin-polarized attractive Hubbard model. The broken symmetry Hartree approximation as well as the strong coupling expansion are used. We also apply the Kosterlitz-Thouless (KT) scenario to determine the phase coherence temperatures. For spin-independent hopping integrals (t↑=t↓), we find no stable homogeneous polarized superfluid (SCM) state in the ground state for the strong attraction and obtain that for a two-component Fermi system on a 2D lattice with population imbalance, phase separation (PS) is favoured for a fixed particle concentration, even on the LP (BEC) side. We also examine the influence of spin-dependent hopping integrals (mass imbalance) on the stability of the SCM phase. We find a topological quantum phase transition (Lifshitz type) from the unpolarized superfluid phase (SC0) to SCM and tricritical points in the h-|U| and t↑/t↓-|U| ground-state phase diagrams. We also construct the finite temperature phase diagrams for both t↑=t↓ and t↑≠t↓ and analyze the possibility of occurrence of a spin-polarized KT superfluid.

  16. The specific edge effects of 2D core/shell model for spin-crossover nanoparticles

    NASA Astrophysics Data System (ADS)

    Muraoka, Azusa; Boukheddaden, Kamel; Linarès, Jorge; Varret, Francois

    2012-02-01

    We analyzed the size effect of spin-crossover nanoparticles at the edges of the 2D square lattices core/shell model, where the edge atoms are constrained to the high spin (HS) state. We performed MC simulations using the Ising-like Hamiltonian, [ H=-J∑(i,j)∑l i'=±1; j'=±1 S( i,j )S( i+i',j+j' ) +( δ2-kBT2g )∑(i,j)S( i,j ) ] The molar entropy change is δS 50J/K/mol, lng=δS/R 6 (R is the perfect gas constant), energy gap is δ=1300K. The HS fixed edges were based on the observation of an increasing residual HS fraction at low temperature upon particle size reduction. This specific boundary condition acts as a negative pressure which shifts downwards the equilibrium temperature. The interplay between the equilibrium temperature (=δ/kBlng) variation and the expected variation of the effective interactions in the system leads to a non-monotonous dependence of the hysteresis loop width upon the particle size. We described how the occurrence condition of the first-order transition has to be adapted to the nanoscale.

  17. Approaches to Modeling Coupled Flow and Reaction in a 2-D Cementation Experiment

    SciTech Connect

    Steefel, Carl; Cochepin, B.; Trotignon, L.; Bildstein, O.; Steefel, C.; Lagneau, V.; van der Lee, J.

    2008-04-01

    Porosity evolution at reactive interfaces is a key process that governs the evolution and performances of many engineered systems that have important applications in earth and environmental sciences. This is the case, for example, at the interface between cement structures and clays in deep geological nuclear waste disposals. Although in a different transport regime, similar questions arise for permeable reactive barriers used for biogeochemical remediation in surface environments. The COMEDIE project aims at investigating the coupling between transport, hydrodynamics and chemistry when significant variations of porosity occur. The present work focuses on a numerical benchmark used as a design exercise for the future COMEDIE-2D experiment. The use of reactive transport simulation tools like Hytec and Crunch provides predictions of the physico-chemical evolutions that are expected during the future experiments in laboratory. Focus is given in this paper on the evolution during the simulated experiment of precipitate, permeability and porosity fields. A first case is considered in which the porosity is constant. Results obtained with Crunch and Hytec are in relatively good agreement. Differences are attributable to the models of reactive surface area taken into account for dissolution/precipitation processes. Crunch and Hytec simulations taking into account porosity variations are then presented and compared. Results given by the two codes are in qualitative agreement, with differences attributable in part to the models of reactive surface area for dissolution/precipitation processes. As a consequence, the localization of secondary precipitates predicted by Crunch leads to lower local porosities than for predictions obtained by Hytec and thus to a stronger coupling between flow and chemistry. This benchmark highlights the importance of the surface area model employed to describe systems in which strong porosity variations occur as a result of dissolution

  18. Advancing Nucleosynthesis in Core-Collapse Supernovae Models Using 2D CHIMERA Simulations

    NASA Astrophysics Data System (ADS)

    Harris, J. A.; Hix, W. R.; Chertkow, M. A.; Bruenn, S. W.; Lentz, E. J.; Messer, O. B.; Mezzacappa, A.; Blondin, J. M.; Marronetti, P.; Yakunin, K.

    2014-01-01

    The deaths of massive stars as core-collapse supernovae (CCSN) serve as a crucial link in understanding galactic chemical evolution since the birth of the universe via the Big Bang. We investigate CCSN in polar axisymmetric simulations using the multidimensional radiation hydrodynamics code CHIMERA. Computational costs have traditionally constrained the evolution of the nuclear composition in CCSN models to, at best, a 14-species α-network. However, the limited capacity of the α-network to accurately evolve detailed composition, the neutronization and the nuclear energy generation rate has fettered the ability of prior CCSN simulations to accurately reproduce the chemical abundances and energy distributions as known from observations. These deficits can be partially ameliorated by "post-processing" with a more realistic network. Lagrangian tracer particles placed throughout the star record the temporal evolution of the initial simulation and enable the extension of the nuclear network evolution by incorporating larger systems in post-processing nucleosynthesis calculations. We present post-processing results of the four ab initio axisymmetric CCSN 2D models of Bruenn et al. (2013) evolved with the smaller α-network, and initiated from stellar metallicity, non-rotating progenitors of mass 12, 15, 20, and 25 M⊙ from Woosley & Heger (2007). As a test of the limitations of post-processing, we provide preliminary results from an ongoing simulation of the 15 M⊙ model evolved with a realistic 150 species nuclear reaction network in situ. With more accurate energy generation rates and an improved determination of the thermodynamic trajectories of the tracer particles, we can better unravel the complicated multidimensional "mass-cut" in CCSN simulations and probe for less energetically significant nuclear processes like the νp-process and the r-process, which require still larger networks.

  19. D Recording for 2d Delivering - the Employment of 3d Models for Studies and Analyses -

    NASA Astrophysics Data System (ADS)

    Rizzi, A.; Baratti, G.; Jiménez, B.; Girardi, S.; Remondino, F.

    2011-09-01

    In the last years, thanks to the advances of surveying sensors and techniques, many heritage sites could be accurately replicated in digital form with very detailed and impressive results. The actual limits are mainly related to hardware capabilities, computation time and low performance of personal computer. Often, the produced models are not visible on a normal computer and the only solution to easily visualized them is offline using rendered videos. This kind of 3D representations is useful for digital conservation, divulgation purposes or virtual tourism where people can visit places otherwise closed for preservation or security reasons. But many more potentialities and possible applications are available using a 3D model. The problem is the ability to handle 3D data as without adequate knowledge this information is reduced to standard 2D data. This article presents some surveying and 3D modeling experiences within the APSAT project ("Ambiente e Paesaggi dei Siti d'Altura Trentini", i.e. Environment and Landscapes of Upland Sites in Trentino). APSAT is a multidisciplinary project funded by the Autonomous Province of Trento (Italy) with the aim documenting, surveying, studying, analysing and preserving mountainous and hill-top heritage sites located in the region. The project focuses on theoretical, methodological and technological aspects of the archaeological investigation of mountain landscape, considered as the product of sequences of settlements, parcelling-outs, communication networks, resources, and symbolic places. The mountain environment preserves better than others the traces of hunting and gathering, breeding, agricultural, metallurgical, symbolic activities characterised by different lengths and environmental impacts, from Prehistory to the Modern Period. Therefore the correct surveying and documentation of this heritage sites and material is very important. Within the project, the 3DOM unit of FBK is delivering all the surveying and 3D material to

  20. 1D and 2D urban dam-break flood modelling in Istanbul, Turkey

    NASA Astrophysics Data System (ADS)

    Ozdemir, Hasan; Neal, Jeffrey; Bates, Paul; Döker, Fatih

    2014-05-01

    Urban flood events are increasing in frequency and severity as a consequence of several factors such as reduced infiltration capacities due to continued watershed development, increased construction in flood prone areas due to population growth, the possible amplification of rainfall intensity due to climate change, sea level rise which threatens coastal development, and poorly engineered flood control infrastructure (Gallegos et al., 2009). These factors will contribute to increased urban flood risk in the future, and as a result improved modelling of urban flooding according to different causative factor has been identified as a research priority (Gallegos et al., 2009; Ozdemir et al. 2013). The flooding disaster caused by dam failures is always a threat against lives and properties especially in urban environments. Therefore, the prediction of dynamics of dam-break flows plays a vital role in the forecast and evaluation of flooding disasters, and is of long-standing interest for researchers. Flooding occurred on the Ayamama River (Istanbul-Turkey) due to high intensity rainfall and dam-breaching of Ata Pond in 9th September 2009. The settlements, industrial areas and transportation system on the floodplain of the Ayamama River were inundated. Therefore, 32 people were dead and millions of Euros economic loses were occurred. The aim of this study is 1 and 2-Dimensional flood modelling of the Ata Pond breaching using HEC-RAS and LISFLOOD-Roe models and comparison of the model results using the real flood extent. The HEC-RAS model solves the full 1-D Saint Venant equations for unsteady open channel flow whereas LISFLOOD-Roe is the 2-D shallow water model which calculates the flow according to the complete Saint Venant formulation (Villanueva and Wright, 2006; Neal et al., 2011). The model consists a shock capturing Godunov-type scheme based on the Roe Riemann solver (Roe, 1981). 3 m high resolution Digital Surface Model (DSM), natural characteristics of the pond

  1. 2D Autocorrelation modeling of the negative inotropic activity of calcium entry blockers using Bayesian-regularized genetic neural networks.

    PubMed

    Caballero, Julio; Garriga, Miguel; Fernández, Michael

    2006-05-15

    Negative inotropic potency of 60 benzothiazepine-like calcium entry blockers (CEBs), Diltiazem analogs, was successfully modeled using Bayesian-regularized genetic neural networks (BRGNNs) and 2D autocorrelation vectors. This approach yielded reliable and robust models whilst by means of a linear genetic algorithm (GA) search routine no multilinear regression model was found describing more than 50% of the training set. On the contrary, the optimum neural network predictor with five inputs described about 84% and 65% variances of 50 randomly selected training and test sets. Autocorrelation vectors in the nonlinear model contained information regarding 2D spatial distributions on the CEB structure of van der Waals volumes, electronegativities, and polarizabilities. However, a sensitivity analysis of the network inputs pointed out to the electronegativity and polarizability 2D topological distributions at substructural fragments of sizes 3 and 4 as the most relevant features governing the nonlinear modeling of the negative inotropic potency.

  2. Simulation of Subgrid Orographic Convection and Precipitation with 2-D Cloud-Resolving Models Embedded in a GCM Grid

    NASA Astrophysics Data System (ADS)

    Jung, J.; Arakawa, A.

    2015-12-01

    Through explicitly resolved cloud-scale processes by embedded 2-D cloud-resolving models (CRMs), the Multiscale Modeling Framework (MMF) known as the superparameterization has been reasonably successful to simulate various atmospheric events over a wide range of time scales. One thing to be justified is, however, if the influence of complex 3-D topography can be adequately represented by the embedded 2-D CRMs. In this study, simulations are performed in the presence of a variety of topography with embedded 3-D and 2-D CRMs in a single-column inactive GCM. Through the comparison between these simulations, it is demonstrated that the 2-D representation of topography is able to simulate the statistics of precipitation due to 3-D topography reasonably well as long as the topographic characteristics, such as the mean and standard deviation, are closely recognized. It is also shown that the use of two perpendicular sets of 2-D representations tends to reduce the error due to a 2-D representation.

  3. Pool Formation in Boulder-Bed Streams: Implications From 1-D and 2-D Numerical Modeling

    NASA Astrophysics Data System (ADS)

    Harrison, L. R.; Keller, E. A.

    2003-12-01

    In mountain rivers of Southern California, boulder-large roughness elements strongly influence flow hydraulics and pool formation and maintenance. In these systems, boulders appear to control the stream morphology by converging flow and producing deep pools during channel forming discharges. Our research goal is to develop quantitative relationships between boulder roughness elements, temporal patterns of scour and fill, and geomorphic processes that are important in producing pool habitat. The longitudinal distribution of shear stress, unit stream power and velocity were estimated along a 48 m reach on Rattlesnake Creek, using the HEC-RAS v 3.0 and River 2-D numerical models. The reach has an average slope of 0.02 and consists of a pool-riffle sequence with a large boulder constriction directly above the pool. Model runs were performed for a range of stream discharges to test if scour and fill thresholds for pool and riffle environments could be identified. Results from the HEC-RAS simulations identified that thresholds in shear stress, unit stream power and mean velocity occur above a discharge of 5.0 cms. Results from the one-dimensional analysis suggest that the reversal in competency is likely due to changes in cross-sectional width at varying flows. River 2-D predictions indicated that strong transverse velocity gradients were present through the pool at higher modeled discharges. At a flow of 0.5 cms (roughly 1/10th bankfull discharge), velocities are estimated at 0.6 m/s and 1.3 m/s for the pool and riffle, respectively. During discharges of 5.15 cms (approximate bankfull discharge), the maximum velocity in the pool center increased to nearly 3.0 m/s, while the maximum velocity over the riffle is estimated at approximately 2.5 cms. These results are consistent with those predicted by HEC-RAS, though the reversal appears to be limited to a narrow jet that occurs through the pool head and pool center. Model predictions suggest that the velocity reversal is

  4. Activating receptor NKG2D targets RAE-1-expressing allogeneic neural precursor cells in a viral model of multiple sclerosis.

    PubMed

    Weinger, Jason G; Plaisted, Warren C; Maciejewski, Sonia M; Lanier, Lewis L; Walsh, Craig M; Lane, Thomas E

    2014-10-01

    Transplantation of major histocompatibility complex-mismatched mouse neural precursor cells (NPCs) into mice persistently infected with the neurotropic JHM strain of mouse hepatitis virus (JHMV) results in rapid rejection that is mediated, in part, by T cells. However, the contribution of the innate immune response to allograft rejection in a model of viral-induced neurological disease has not been well defined. Herein, we demonstrate that the natural killer (NK) cell-expressing-activating receptor NKG2D participates in transplanted allogeneic NPC rejection in mice persistently infected with JHMV. Cultured NPCs derived from C57BL/6 (H-2(b) ) mice express the NKG2D ligand retinoic acid early precursor transcript (RAE)-1 but expression was dramatically reduced upon differentiation into either glia or neurons. RAE-1(+) NPCs were susceptible to NK cell-mediated killing whereas RAE-1(-) cells were resistant to lysis. Transplantation of C57BL/6-derived NPCs into JHMV-infected BALB/c (H-2(d) ) mice resulted in infiltration of NKG2D(+) CD49b(+) NK cells and treatment with blocking antibody specific for NKG2D increased survival of allogeneic NPCs. Furthermore, transplantation of differentiated RAE-1(-) allogeneic NPCs into JHMV-infected BALB/c mice resulted in enhanced survival, highlighting a role for the NKG2D/RAE-1 signaling axis in allograft rejection. We also demonstrate that transplantation of allogeneic NPCs into JHMV-infected mice resulted in infection of the transplanted cells suggesting that these cells may be targets for infection. Viral infection of cultured cells increased RAE-1 expression, resulting in enhanced NK cell-mediated killing through NKG2D recognition. Collectively, these results show that in a viral-induced demyelination model, NK cells contribute to rejection of allogeneic NPCs through an NKG2D signaling pathway. © 2014 AlphaMed Press.

  5. On craton thinning/destruction: Insight from 2D thermal-mechanical numerical modeling

    NASA Astrophysics Data System (ADS)

    Liao, J.

    2014-12-01

    Although most cratons maintain stable, some exceptions are present, such as the North China craton, North Atlantic craton, and Wyoming craton, which have experienced dramatic lithospheric deformation/thinning. Mechanisms triggering cratonic thinning remains enigmatic [Lee et al., 2011]. Using a 2D thermo-mechanical coupled numerical model [Gerya and Yuen, 2007], we investigate two possible mechanisms: (1) stratification of cratonic lithospheric mantle, and (2) rheological weakening due to hydration.Lithospheric mantle stratification is a common feature in cratonic areas which has been demonstrated by geophysical and geochemical studies [Thybo and Perchuc, 1997; Griffin et al., 2004; Romanowicz, 2009; Rychert and Shearer, 2009; Yuan and Romanowicz, 2010]. The influence of lithospheric mantle stratification during craton evolution remains poorly understood. A rheologically weak layer representing hydrated and/or metasomatized composition is implemented in the lithospheric mantle. Our results show that the weak mantle layer changes the dynamics of lithospheric extension by enhancing the deformation of the overlying mantle and crust and inhibiting deformation of the underlying mantle [Liao et al., 2013; Liao and Gerya, 2014]. Modeling results are compared with North China and North Atlantic cratons. Our work indicates that although the presence of a weak layer may not be sufficient to initiate craton deformation, it enhances deformation by lowering the required extensional plate boundary force. Rheological weakening due to hydration is a possible mechanism triggering/enhancing craton deformation, especially for cratons jaxtaposing with a subduction, since water can release from a subducting slab. We investigate the influence of wet mantle flow laws [Hirth and Kohlstedt, 2003], in which a water parameter (i.e. constant water content) is involved. Our results show that wet dislocation alone does not accelerate cratonic deformation significantly. However, if wet diffusion

  6. Facial Sketch Synthesis Using 2D Direct Combined Model-Based Face-Specific Markov Network.

    PubMed

    Tu, Ching-Ting; Chan, Yu-Hsien; Chen, Yi-Chung

    2016-08-01

    A facial sketch synthesis system is proposed, featuring a 2D direct combined model (2DDCM)-based face-specific Markov network. In contrast to the existing facial sketch synthesis systems, the proposed scheme aims to synthesize sketches, which reproduce the unique drawing style of a particular artist, where this drawing style is learned from a data set consisting of a large number of image/sketch pairwise training samples. The synthesis system comprises three modules, namely, a global module, a local module, and an enhancement module. The global module applies a 2DDCM approach to synthesize the global facial geometry and texture of the input image. The detailed texture is then added to the synthesized sketch in a local patch-based manner using a parametric 2DDCM model and a non-parametric Markov random field (MRF) network. Notably, the MRF approach gives the synthesized results an appearance more consistent with the drawing style of the training samples, while the 2DDCM approach enables the synthesis of outcomes with a more derivative style. As a result, the similarity between the synthesized sketches and the input images is greatly improved. Finally, a post-processing operation is performed to enhance the shadowed regions of the synthesized image by adding strong lines or curves to emphasize the lighting conditions. The experimental results confirm that the synthesized facial images are in good qualitative and quantitative agreement with the input images as well as the ground-truth sketches provided by the same artist. The representing power of the proposed framework is demonstrated by synthesizing facial sketches from input images with a wide variety of facial poses, lighting conditions, and races even when such images are not included in the training data set. Moreover, the practical applicability of the proposed framework is demonstrated by means of automatic facial recognition tests.

  7. Dynamical Models of SAURON and CALIFA Galaxies: 1D and 2D Rotational Curves

    NASA Astrophysics Data System (ADS)

    Kalinova, Veselina; van de Ven, G.; Lyubenova, M.; Falcon-Barroso, J.; van den Bosch, R.

    2013-01-01

    The mass of a galaxy is the most important parameter to understand its structure and evolution. The total mass we can infer by constructing dynamical models that fit the motion of the stars and gas in the galaxy. The dark matter content then follows after subtracting the luminous matter inferred from colors and/or spectra. Here, we present the mass distribution of a sample of 18 late-type spiral (Sb-Sd) galaxies, using two-dimensional stellar kinematics obtained with the integral-field spectrograph SAURON. The observed second order velocity moments of these galaxies are fitted with solutions of the Axisymmetric Jeans equations and give us an accurate estimation of the mass-to-light ratio profiles and rotational curves. The rotation curves of the galaxies are obtained by the Asymmetric Drift Correction (ADC) and Multi-Gaussian Expansion (MGE) methods, corresponding to one- and two-dimensional mass distribution. Their comparison shows that the mass distribution based on the 2D stellar kinematics is much more reliable than 1D one. SAURON integral field of view looks at the inner parts of the galaxies in contrast with CALIFA survey. CALIFA survey provides PMAS/PPAK integral-field spectroscopic data of ~ 600 nearby galaxies as part of the Calar Alto Legacy Integral Field Area. We show the first CALIFA dynamical models of different morphological type of galaxies, giving the clue about the mass distribution of galaxies through the whole Hubble sequence and their evolution from the blue cloud to the red sequence.

  8. Export of earthquake-triggered landslides in active mountain ranges: insights from 2D morphodynamic modelling.

    NASA Astrophysics Data System (ADS)

    Croissant, Thomas; Lague, Dimitri; Davy, Philippe; Steer, Philippe

    2016-04-01

    In active mountain ranges, large earthquakes (Mw > 5-6) trigger numerous landslides that impact river dynamics. These landslides bring local and sudden sediment piles that will be eroded and transported along the river network causing downstream changes in river geometry, transport capacity and erosion efficiency. The progressive removal of landslide materials has implications for downstream hazards management and also for understanding landscape dynamics at the timescale of the seismic cycle. The export time of landslide-derived sediments after large-magnitude earthquakes has been studied from suspended load measurements but a full understanding of the total process, including the coupling between sediment transfer and channel geometry change, still remains an issue. Note that the transport of small sediment pulses has been studied in the context of river restoration, but the magnitude of sediment pulses generated by landslides may make the problem different. Here, we study the export of large volumes (>106 m3) of sediments with the 2D hydro-morphodynamic model, Eros. This model uses a new hydrodynamic module that resolves a reduced form of the Saint-Venant equations with a particle method. It is coupled with a sediment transport and lateral and vertical erosion model. Eros accounts for the complex retroactions between sediment transport and fluvial geometry, with a stochastic description of the floods experienced by the river. Moreover, it is able to reproduce several features deemed necessary to study the evacuation of large sediment pulses, such as river regime modification (single-thread to multi-thread), river avulsion and aggradation, floods and bank erosion. Using a synthetic and simple topography we first present how granulometry, landslide volume and geometry, channel slope and flood frequency influence 1) the dominance of pulse advection vs. diffusion during its evacuation, 2) the pulse export time and 3) the remaining volume of sediment in the catchment

  9. Building a 2.5D Digital Elevation Model from 2D Imagery

    NASA Technical Reports Server (NTRS)

    Padgett, Curtis W.; Ansar, Adnan I.; Brennan, Shane; Cheng, Yang; Clouse, Daniel S.; Almeida, Eduardo

    2013-01-01

    When projecting imagery into a georeferenced coordinate frame, one needs to have some model of the geographical region that is being projected to. This model can sometimes be a simple geometrical curve, such as an ellipse or even a plane. However, to obtain accurate projections, one needs to have a more sophisticated model that encodes the undulations in the terrain including things like mountains, valleys, and even manmade structures. The product that is often used for this purpose is a Digital Elevation Model (DEM). The technology presented here generates a high-quality DEM from a collection of 2D images taken from multiple viewpoints, plus pose data for each of the images and a camera model for the sensor. The technology assumes that the images are all of the same region of the environment. The pose data for each image is used as an initial estimate of the geometric relationship between the images, but the pose data is often noisy and not of sufficient quality to build a high-quality DEM. Therefore, the source imagery is passed through a feature-tracking algorithm and multi-plane-homography algorithm, which refine the geometric transforms between images. The images and their refined poses are then passed to a stereo algorithm, which generates dense 3D data for each image in the sequence. The 3D data from each image is then placed into a consistent coordinate frame and passed to a routine that divides the coordinate frame into a number of cells. The 3D points that fall into each cell are collected, and basic statistics are applied to determine the elevation of that cell. The result of this step is a DEM that is in an arbitrary coordinate frame. This DEM is then filtered and smoothed in order to remove small artifacts. The final step in the algorithm is to take the initial DEM and rotate and translate it to be in the world coordinate frame [such as UTM (Universal Transverse Mercator), MGRS (Military Grid Reference System), or geodetic] such that it can be saved in

  10. MAG2D: Interactive 2-1/2-dimensional magnetic modeling program (User's Guide and Documentation for Rev. 1)

    SciTech Connect

    Nutter, C.

    1981-04-01

    MAG2D is an interactive computer program used for modeling 2-1/2-dimensional magnetic data. A forward algorithm is used to give the theoretical attraction of magnetic intensity at a station due to a perturbing body given by the initial model. The resultant model can then be adjusted for a better fit by a combination of manual adjustment, one-dimensional automatic search, and Marquardt inversion. MAG2D has an interactive data management system for data manipulation and display built around subroutines to do a forward problem, a one-dimensional direct search and an inversion. These subroutines were originally separate batch-mode programs.

  11. How to Include Steep Bank Retreat in 2D/3D Morphological Models?

    NASA Astrophysics Data System (ADS)

    Jagers, B.; Spruyt, A.; Mosselman, E.

    2011-12-01

    State-of-the-art 2D/3D morphological models like open source Delft3D include an increasing number of features, such as multiple cohesive and non-cohesive sediment fractions, bed load and separate suspended load (including density effects), sediment fraction interaction processes such as hiding and exposure, ripple and dune predictors, consolidation, and bed composition stratigraphy. However, this and similar models have been developed for simulating morphological changes under the assumption that horizontal scales are large compared to the vertical scale and that the processes affecting the bed are hence dominantly vertical fluxes. However, near banks and steep slopes the processes have a significant horizontal component: a crucial aspect in the simulation of meandering rivers. Although simple or engineering solutions have been added to many of these models to get some erosion of dry areas, scientifically based bank erosion formulations are generally lacking in these models. Although such formulations may be complex and non-deterministic, that is not the main reason why they haven't been implemented: resolving the shift of bank-lines on the grid is the main problem. Defining bank-lines along the nearest grid lines of a rectangular computational grid leads to staircase lines that impede any reasonable determination of the hydraulic loads on the banks. An adaptive curvilinear boundary-fitted grid may at first glance seem to solve this problem, but arbitrary bank retreat and advance deform such a grid prohibitively within a few bank-line update steps and cause stationary features of the landscape (e.g. a bridge or local sediment composition) to move with the grid or to diffuse due to numerical limitations. We have therefore chosen a new approach in which shifting bank-lines are followed as separate moving objects on a fixed grid, using local immersed-boundary techniques to solve the flow and sediment transport in the vicinity of the bank-lines. We show some results

  12. 2D condensation model for the inner Solar Nebula: an enstatite-rich environment

    NASA Astrophysics Data System (ADS)

    Pignatale, F. C.; Liffman, Kurt; Maddison, Sarah T.; Brooks, Geoffrey

    2016-04-01

    Infrared observations provide the dust composition in the protoplanetary discs surface layers, but cannot probe the dust chemistry in the mid-plane, where planet formation occurs. Meteorites show that dynamics was important in determining the dust distribution in the Solar Nebula and needs to be considered if we are to understand the global chemistry in discs. 1D radial condensation sequences can only simulate one disc layer at a time and cannot describe the global chemistry or the complexity of meteorites. To address these limitations, we compute for the first time the 2D distribution of condensates in the inner Solar Nebula using a thermodynamic equilibrium model, and derive time-scales for vertical settling and radial migration of dust. We find two enstatite-rich zones within 1 AU from the young Sun: a band ˜0.1 AU thick in the upper optically-thin layer of the disc interior to 0.8 AU, and in the optically-thick disc mid-plane out to ˜0.4 AU. The two enstatite-rich zones support recent evidence that Mercury and enstatite chondrites (ECs) shared a bulk material with similar composition. Our results are also consistent with infrared observation of protoplanetary disc which show emission of enstatite-rich dust in the inner surface of discs. The resulting chemistry and dynamics suggests that the formation of the bulk material of ECs occurred in the inner surface layer of the disc, within 0.4 AU. We also propose a simple alternative scenario in which gas fractionation and vertical settling of the condensates lead to an enstatite-chondritic bulk material.