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Sample records for random fields reveal

  1. Genomic Diversity within the Genus Pediococcus as Revealed by Randomly Amplified Polymorphic DNA PCR and Pulsed-Field Gel Electrophoresis

    PubMed Central

    Simpson, P. J.; Stanton, C.; Fitzgerald, G. F.; Ross, R. P.

    2002-01-01

    The genomic diversity of 33 previously assigned strains from six species within the genus Pediococcus was assessed by randomly amplified polymorphic DNA (RAPD) PCR and pulsed-field-gel electrophoresis (PFGE). The RAPD PCR patterns produced by two separate random primers, termed P1 (ACGCGCCCT) and P2 (ATGTAACGCC), were compared by the Pearson correlation coefficient and the unweighted pair group method with arithmetic averages clustering algorithm. Pattern variations between repeat samples set a strain discrimination threshold of less than 70% similarity. P1 and P2 primers alone and in combination produced 14, 21, and 28 distinct patterns, respectively. When each strain was assigned with a type strain with which it shared the highest level of similarity, both primers grouped 17 of the 27 strains to their proposed species. PFGE following genomic digestion with the restriction enzymes ApaI, NotI, and AscI produced 30, 32, and 28 distinct macrorestriction patterns, respectively. Specific DNA fragments within the NotI and AscI macrorestriction patterns for each strain were observed that allowed 27 of the 33 strains to be assigned to their proposed species. For example, following digestion with AscI, all Pediococcus parvulus strains were characterized by two DNA fragments, one of approximately 220 kb and another between 700 and 800 kb. The exceptions correlated with those observed with both RAPD PCR primers and included three P. damnosus and two P. pentosaceus strains that grew at temperatures regarded as nonpermissive for their proposed species but not for those with which they grouped. PMID:11823217

  2. Social patterns revealed through random matrix theory

    NASA Astrophysics Data System (ADS)

    Sarkar, Camellia; Jalan, Sarika

    2014-11-01

    Despite the tremendous advancements in the field of network theory, very few studies have taken weights in the interactions into consideration that emerge naturally in all real-world systems. Using random matrix analysis of a weighted social network, we demonstrate the profound impact of weights in interactions on emerging structural properties. The analysis reveals that randomness existing in particular time frame affects the decisions of individuals rendering them more freedom of choice in situations of financial security. While the structural organization of networks remains the same throughout all datasets, random matrix theory provides insight into the interaction pattern of individuals of the society in situations of crisis. It has also been contemplated that individual accountability in terms of weighted interactions remains as a key to success unless segregation of tasks comes into play.

  3. Associative Hierarchical Random Fields.

    PubMed

    Ladický, L'ubor; Russell, Chris; Kohli, Pushmeet; Torr, Philip H S

    2014-06-01

    This paper makes two contributions: the first is the proposal of a new model-The associative hierarchical random field (AHRF), and a novel algorithm for its optimization; the second is the application of this model to the problem of semantic segmentation. Most methods for semantic segmentation are formulated as a labeling problem for variables that might correspond to either pixels or segments such as super-pixels. It is well known that the generation of super pixel segmentations is not unique. This has motivated many researchers to use multiple super pixel segmentations for problems such as semantic segmentation or single view reconstruction. These super-pixels have not yet been combined in a principled manner, this is a difficult problem, as they may overlap, or be nested in such a way that the segmentations form a segmentation tree. Our new hierarchical random field model allows information from all of the multiple segmentations to contribute to a global energy. MAP inference in this model can be performed efficiently using powerful graph cut based move making algorithms. Our framework generalizes much of the previous work based on pixels or segments, and the resulting labelings can be viewed both as a detailed segmentation at the pixel level, or at the other extreme, as a segment selector that pieces together a solution like a jigsaw, selecting the best segments from different segmentations as pieces. We evaluate its performance on some of the most challenging data sets for object class segmentation, and show that this ability to perform inference using multiple overlapping segmentations leads to state-of-the-art results.

  4. On Pfaffian Random Point Fields

    NASA Astrophysics Data System (ADS)

    Kargin, V.

    2014-02-01

    We study Pfaffian random point fields by using the Moore-Dyson quaternion determinants. First, we give sufficient conditions that ensure that a self-dual quaternion kernel defines a valid random point field, and then we prove a CLT for Pfaffian point fields. The proofs are based on a new quaternion extension of the Cauchy-Binet determinantal identity. In addition, we derive the Fredholm determinantal formulas for the Pfaffian point fields which use the quaternion determinant.

  5. Markov random fields reveal an N-terminal double beta-propeller motif as part of a bacterial hybrid two-component sensor system

    PubMed Central

    Menke, Matt; Berger, Bonnie; Cowen, Lenore

    2010-01-01

    The recent explosion in newly sequenced bacterial genomes is outpacing the capacity of researchers to try to assign functional annotation to all the new proteins. Hence, computational methods that can help predict structural motifs provide increasingly important clues in helping to determine how these proteins might function. We introduce a Markov Random Field approach tailored for recognizing proteins that fold into mainly β-structural motifs, and apply it to build recognizers for the β-propeller shapes. As an application, we identify a potential class of hybrid two-component sensor proteins, that we predict contain a double-propeller domain. PMID:20147619

  6. Efficient robust conditional random fields.

    PubMed

    Song, Dongjin; Liu, Wei; Zhou, Tianyi; Tao, Dacheng; Meyer, David A

    2015-10-01

    Conditional random fields (CRFs) are a flexible yet powerful probabilistic approach and have shown advantages for popular applications in various areas, including text analysis, bioinformatics, and computer vision. Traditional CRF models, however, are incapable of selecting relevant features as well as suppressing noise from noisy original features. Moreover, conventional optimization methods often converge slowly in solving the training procedure of CRFs, and will degrade significantly for tasks with a large number of samples and features. In this paper, we propose robust CRFs (RCRFs) to simultaneously select relevant features. An optimal gradient method (OGM) is further designed to train RCRFs efficiently. Specifically, the proposed RCRFs employ the l1 norm of the model parameters to regularize the objective used by traditional CRFs, therefore enabling discovery of the relevant unary features and pairwise features of CRFs. In each iteration of OGM, the gradient direction is determined jointly by the current gradient together with the historical gradients, and the Lipschitz constant is leveraged to specify the proper step size. We show that an OGM can tackle the RCRF model training very efficiently, achieving the optimal convergence rate [Formula: see text] (where k is the number of iterations). This convergence rate is theoretically superior to the convergence rate O(1/k) of previous first-order optimization methods. Extensive experiments performed on three practical image segmentation tasks demonstrate the efficacy of OGM in training our proposed RCRFs.

  7. Maps of random walks on complex networks reveal community structure.

    PubMed

    Rosvall, Martin; Bergstrom, Carl T

    2008-01-29

    To comprehend the multipartite organization of large-scale biological and social systems, we introduce an information theoretic approach that reveals community structure in weighted and directed networks. We use the probability flow of random walks on a network as a proxy for information flows in the real system and decompose the network into modules by compressing a description of the probability flow. The result is a map that both simplifies and highlights the regularities in the structure and their relationships. We illustrate the method by making a map of scientific communication as captured in the citation patterns of >6,000 journals. We discover a multicentric organization with fields that vary dramatically in size and degree of integration into the network of science. Along the backbone of the network-including physics, chemistry, molecular biology, and medicine-information flows bidirectionally, but the map reveals a directional pattern of citation from the applied fields to the basic sciences.

  8. Summer School Effects in a Randomized Field Trial

    ERIC Educational Resources Information Center

    Zvoch, Keith; Stevens, Joseph J.

    2013-01-01

    This field-based randomized trial examined the effect of assignment to and participation in summer school for two moderately at-risk samples of struggling readers. Application of multiple regression models to difference scores capturing the change in summer reading fluency revealed that kindergarten students randomly assigned to summer school…

  9. Random Assignment: Practical Considerations from Field Experiments.

    ERIC Educational Resources Information Center

    Dunford, Franklyn W.

    1990-01-01

    Seven qualitative issues associated with randomization that have the potential to weaken or destroy otherwise sound experimental designs are reviewed and illustrated via actual field experiments. Issue areas include ethics and legality, liability risks, manipulation of randomized outcomes, hidden bias, design intrusiveness, case flow, and…

  10. Random processes, turbulence and disordering fields

    NASA Astrophysics Data System (ADS)

    Domokos, G.; Kovesi-Domokos, S.; Zoltani, C. K.

    1987-10-01

    There are many classical, nonlinear systems exhibiting some kind of chaotic behavior. Examples include the turbulent flow of a fluid, usually described by means of the Navier-Stokes equations, and the behavior of liquids, gases or antiferromagnets above the critical point, etc. In this paper, we reexamine and further develop an approach to the description of such systems. The statistical theory of random process is cast into a Lagrangian form. The formalism requires the existence of an arbitrarily weak random stirring force, playing the role of a disordering field. In scale invariant systems the coupling strength of the weak stirring force can be scaled out and it disappears from the theory.

  11. Random fields at a nonequilibrium phase transition.

    PubMed

    Barghathi, Hatem; Vojta, Thomas

    2012-10-26

    We study nonequilibrium phase transitions in the presence of disorder that locally breaks the symmetry between two equivalent macroscopic states. In low-dimensional equilibrium systems, such random-field disorder is known to have dramatic effects: it prevents spontaneous symmetry breaking and completely destroys the phase transition. In contrast, we show that the phase transition of the one-dimensional generalized contact process persists in the presence of random-field disorder. The ultraslow dynamics in the symmetry-broken phase is described by a Sinai walk of the domain walls between two different absorbing states. We discuss the generality and limitations of our theory, and we illustrate our results by large-scale Monte Carlo simulations.

  12. Gradient Boosting for Conditional Random Fields

    DTIC Science & Technology

    2014-09-23

    Information Processing Systems 26 ( NIPS ’13), pages 647–655. 2013. [4] J. Friedman. Greedy function approximation: a gradient boosting machine. Annals of...and phrases and their compositionality. In Advances in Neural Information Processing Systems 26 ( NIPS ’13), pages 3111–3119. 2013. [15] A. Quattoni, M...Collins, and T. Darrell. Conditional random fields for object recognition. In Advances in Neural Information Processing Systems 17 ( NIPS ’04), pages

  13. Spectral Design in Markov Random Fields

    NASA Astrophysics Data System (ADS)

    Wang, Jiao; Thibault, Jean-Baptiste; Yu, Zhou; Sauer, Ken; Bouman, Charles

    2011-03-01

    Markov random fields (MRFs) have been shown to be a powerful and relatively compact stochastic model for imagery in the context of Bayesian estimation. The simplicity of their conventional embodiment implies local computation in iterative processes and relatively noncommittal statistical descriptions of image ensembles, resulting in stable estimators, particularly under models with strictly convex potential functions. This simplicity may be a liability, however, when the inherent bias of minimum mean-squared error or maximum a posteriori probability (MAP) estimators attenuate all but the lowest spatial frequencies. In this paper we explore generalization of MRFs by considering frequency-domain design of weighting coefficients which describe strengths of interconnections between clique members.

  14. Neutrino Conversions in Solar Random Magnetic Fields

    NASA Astrophysics Data System (ADS)

    Torrente-Lujan, E.

    We consider the effect of a random magnetic field in the convective zone of the Sun on resonant neutrino spin-flavour oscillations. We argue for the existence of a field of strongly chaotic nature at the bottom of the convective zone. The expected signals in the different experiments (SK,GALLEX-SAGE,Homestake) are obtained as a function of the level of noise, regular magnetic field and neutrino mixing parameters. Previous results obtained for small mixing and ad-hoc regular magnetic profiles are reobtained. We find that MSW regions are stable up to very large levels of noise (P=0.7-0.8) and they are acceptable from the point of view of antineutrino production. For strong noise any parameter region (Δm2,sin22θ) is excluded: this model of noisy magnetic field is not compatible with particle physics solutions to the SNP. One is allowed then to reverse the problem and to put limits on r.m.s field strength, correlation length and transition magnetic moments by demanding a solution to the SNP under this scenario.

  15. Biological entity recognition with conditional random fields.

    PubMed

    He, Ying; Kayaalp, Mehmet

    2008-11-06

    Due to the rapid evolution of molecular biology and the lack of naming standards, biological entity recognition (BER) remains a challenging task for information extraction and natural language understanding. In this study, we presented a statistical machine learning approach for extracting features, modeling, and predicting biological named entities. Our approach utilizes UMLS semantic types together with MetaMap, SemRep, and ABGene, as well as the conditional random fields (CRF) framework, and learns both the structure and parameters of a statistical model. Results of this study are competitive with the results of the state of the art tools in this field. Unlike competing similar approaches, the presented method is fully automatic, hence more generalizable and directly transferable to other named entity recognition (NER) problems in medical informatics.

  16. Neutrino conversions in solar random magnetic fields

    NASA Astrophysics Data System (ADS)

    Semikoz, V. B.; Torrente-Lujan, E.

    1999-09-01

    We consider the effect of a random magnetic field in the convective zone of the Sun superimposed to a regular magnetic field on resonant neutrino spin-flavor oscillations. We argue for the existence of a field of strongly chaotic nature at the bottom of the convective zone. In contrast to previous attempts we employ a model motivated regular magnetic field profile: it is a static field solution to the solar equilibrium hydro-magnetic equations. These solutions have been known for a long time in the literature. We show for the first time that in addition they are twisting solutions. In this scenario electron antineutrinos are produced through cascades like νeL-->νμL-- >ν~eR, The detection of ν~eR at Earth would be a long-awaited signature of the Majorana nature of the neutrino. The expected signals in the different experiments (SK, GALLEX-SAGE, Homestake) are obtained as a function of the level of noise, regular magnetic field and neutrino mixing parameters. Previous results obtained for small mixing and ad-hoc regular magnetic profiles are reobtained. We confirm the strong suppression for a large part of the parameter space of the ν~eR-flux for high energy boron neutrinos in agreement with present data of the SK experiment. We find that MSW (Mikheyev-Smirnov-Wolfenstein) regions (Δm2~=10-5 eV2, both small and large mixing solutions) are stable up to very large levels of noise (P=0.7-0.8) but they are acceptable from the point of view of antineutrino production only for moderate levels of noise (P~=0.95). For strong noise and a reasonable regular magnetic field, any parameter region (Δm2, sin 2 2θ) is excluded. As a consequence, we are allowed to reverse the problem and to put limits on the r.m.s. field strength and transition magnetic moments by demanding a particle physics solution to the SNP in this scenario.

  17. Unmixing hyperspectral images using Markov random fields

    SciTech Connect

    Eches, Olivier; Dobigeon, Nicolas; Tourneret, Jean-Yves

    2011-03-14

    This paper proposes a new spectral unmixing strategy based on the normal compositional model that exploits the spatial correlations between the image pixels. The pure materials (referred to as endmembers) contained in the image are assumed to be available (they can be obtained by using an appropriate endmember extraction algorithm), while the corresponding fractions (referred to as abundances) are estimated by the proposed algorithm. Due to physical constraints, the abundances have to satisfy positivity and sum-to-one constraints. The image is divided into homogeneous distinct regions having the same statistical properties for the abundance coefficients. The spatial dependencies within each class are modeled thanks to Potts-Markov random fields. Within a Bayesian framework, prior distributions for the abundances and the associated hyperparameters are introduced. A reparametrization of the abundance coefficients is proposed to handle the physical constraints (positivity and sum-to-one) inherent to hyperspectral imagery. The parameters (abundances), hyperparameters (abundance mean and variance for each class) and the classification map indicating the classes of all pixels in the image are inferred from the resulting joint posterior distribution. To overcome the complexity of the joint posterior distribution, Markov chain Monte Carlo methods are used to generate samples asymptotically distributed according to the joint posterior of interest. Simulations conducted on synthetic and real data are presented to illustrate the performance of the proposed algorithm.

  18. Random Field effects in perpendicular-anisotropy multilayer films

    NASA Astrophysics Data System (ADS)

    Xu, Jian; Silevitch, Daniel; Rosenbaum, Thomas

    With the application of a magnetic field transverse to the magnetic easy axis, randomly-distributed 3D collections of dipole-coupled Ising spins form a realization of the Random-Field Ising Model. Tuning the strength of the site-specific random field, and hence the disorder, via the applied transverse field regulates the domain reversal energetics and hence the macroscopic hysteresis loop. We extend this approach to two dimensions, using sputtered Perpendicular Magnetic Anisotropy (PMA) Co/Pt multilayer thin films. We characterize the coercive fields and hysteresis loops at a series of temperatures and transverse fields.

  19. Ordering and phase transitions in random-field Ising systems

    NASA Technical Reports Server (NTRS)

    Maritan, Amos; Swift, Michael R.; Cieplak, Marek; Chan, Moses H. W.; Cole, Milton W.; Banavar, Jayanth R.

    1991-01-01

    An exact analysis of the Ising model with infinite-range interactions in a random field and a local mean-field theory in three dimensions is carried out leading to a phase diagram with several coexistence surfaces and lines of critical points. The results show that the phase diagram depends crucially on whether the distribution of random fields is symmetric or not. Thus, Ising-like phase transitions in a porous medium (the asymmetric case) are in a different universality class from the conventional random-field model (symmetric case).

  20. Sensing Random Electromagnetic Fields and Applications

    DTIC Science & Technology

    2015-06-23

    negative forces”, Nature Photonics 7, (2013) 6. D. C. Kohlgraf-Owens, S. Sukhov, and A. Dogariu, “ Near - Field Topography of Light”, Optics and Photonics...8. D. C. Kohlgraf-Owens, S. Sukhov, and A. Dogariu, “Discrimination of Field Components in Optical Probe Microscopy ”, Opt. Lett. 37, 3606 (2012) 9...reduces the optical contrast. The addition of more independent fields further reduces this contrast. However, when a fully polarized and coherent REF

  1. Is the Non-Dipole Magnetic Field Random?

    NASA Technical Reports Server (NTRS)

    Walker, Andrew D.; Backus, George E.

    1996-01-01

    Statistical modelling of the Earth's magnetic field B has a long history. In particular, the spherical harmonic coefficients of scalar fields derived from B can be treated as Gaussian random variables. In this paper, we give examples of highly organized fields whose spherical harmonic coefficients pass tests for independent Gaussian random variables. The fact that coefficients at some depth may be usefully summarized as independent samples from a normal distribution need not imply that there really is some physical, random process at that depth. In fact, the field can be extremely structured and still be regarded for some purposes as random. In this paper, we examined the radial magnetic field B(sub r) produced by the core, but the results apply to any scalar field on the core-mantle boundary (CMB) which determines B outside the CMB.

  2. Listening to the noise: random fluctuations reveal gene network parameters.

    PubMed

    Munsky, Brian; Trinh, Brooke; Khammash, Mustafa

    2009-01-01

    The cellular environment is abuzz with noise originating from the inherent random motion of reacting molecules in the living cell. In this noisy environment, clonal cell populations show cell-to-cell variability that can manifest significant phenotypic differences. Noise-induced stochastic fluctuations in cellular constituents can be measured and their statistics quantified. We show that these random fluctuations carry within them valuable information about the underlying genetic network. Far from being a nuisance, the ever-present cellular noise acts as a rich source of excitation that, when processed through a gene network, carries its distinctive fingerprint that encodes a wealth of information about that network. We show that in some cases the analysis of these random fluctuations enables the full identification of network parameters, including those that may otherwise be difficult to measure. This establishes a potentially powerful approach for the identification of gene networks and offers a new window into the workings of these networks.

  3. Effects of random fields in an antiferromagnetic Ising spin glass

    PubMed

    Vieira; Nobre; Yokoi

    2000-05-01

    The effects of random fields on the two-sublattice infinite-ranged Ising spin-glass model are investigated. This model is expected to be appropriate as a mean-field description of antiferromagnetic spin glasses such as FexMn1-xTiO3. Within replica-symmetric calculations, we study the influence of Gaussian and bimodal random fields on the phase transitions and phase diagrams. It is shown that, in the presence of random fields, the first-order transitions are weakened and may become continuous. Also, the antiferromagnetic phases are always destroyed by sufficiently strong random fields. A qualitative comparison with existing experimental results and the limitations of the present calculations are discussed.

  4. Frequency of encounter of aircraft in a random horizontal field

    NASA Technical Reports Server (NTRS)

    Bird, J. D.; Smith, K. A.

    1976-01-01

    Calculations were made of the frequency of encounter as a function of azimuth of encounter of a passing aircraft with the aircraft in a random planar horizontal field. All the field aircraft moved at a constant speed but in random directions. These calculations included the total frequency of encounter with the aircraft of the field and the frequency of encounter with those aircraft of the field which were encountered in the fore quadrant, in the lateral quadrants, and in the rear quadrant; the calculations were made for various speed ratios of the field aircraft and the passing aircraft.

  5. Listening to the Noise: Random Fluctuations Reveal Gene Network Parameters

    NASA Astrophysics Data System (ADS)

    Munsky, Brian; Trinh, Brooke; Khammash, Mustafa

    2010-03-01

    The cellular environment is abuzz with noise originating from the inherent random motion of reacting molecules in the living cell. In this noisy environment, clonal cell populations exhibit cell-to-cell variability that can manifest significant prototypical differences. Noise induced stochastic fluctuations in cellular constituents can be measured and their statistics quantified using flow cytometry, single molecule fluorescence in situ hybridization, time lapse fluorescence microscopy and other single cell and single molecule measurement techniques. We show that these random fluctuations carry within them valuable information about the underlying genetic network. Far from being a nuisance, the ever-present cellular noise acts as a rich source of excitation that, when processed through a gene network, carries its distinctive fingerprint that encodes a wealth of information about that network. We demonstrate that in some cases the analysis of these random fluctuations enables the full identification of network parameters, including those that may otherwise be difficult to measure. We use theoretical investigations to establish experimental guidelines for the identification of gene regulatory networks, and we apply these guideline to experimentally identify predictive models for different regulatory mechanisms in bacteria and yeast.

  6. Statistical analysis of loopy belief propagation in random fields

    NASA Astrophysics Data System (ADS)

    Yasuda, Muneki; Kataoka, Shun; Tanaka, Kazuyuki

    2015-10-01

    Loopy belief propagation (LBP), which is equivalent to the Bethe approximation in statistical mechanics, is a message-passing-type inference method that is widely used to analyze systems based on Markov random fields (MRFs). In this paper, we propose a message-passing-type method to analytically evaluate the quenched average of LBP in random fields by using the replica cluster variation method. The proposed analytical method is applicable to general pairwise MRFs with random fields whose distributions differ from each other and can give the quenched averages of the Bethe free energies over random fields, which are consistent with numerical results. The order of its computational cost is equivalent to that of standard LBP. In the latter part of this paper, we describe the application of the proposed method to Bayesian image restoration, in which we observed that our theoretical results are in good agreement with the numerical results for natural images.

  7. The space transformation in the simulation of multidimensional random fields

    USGS Publications Warehouse

    Christakos, G.

    1987-01-01

    Space transformations are proposed as a mathematically meaningful and practically comprehensive approach to simulate multidimensional random fields. Within this context the turning bands method of simulation is reconsidered and improved in both the space and frequency domains. ?? 1987.

  8. Subpixel translation-registration of random fields

    NASA Technical Reports Server (NTRS)

    Slud, Eric V.

    1988-01-01

    The author examines both theoretically and through a simulation study the feasibility of identifying the location within a large reference gray-level array of a smaller sensed array to an accuracy finer than one pixel. It is assumed that the sensed image before discretization into pixels consists of a translated, but not rotated, section of the reference image with some superposed noise. The theoretical and empirical results show that when the noise has standard deviation no larger than that of a realistic reference field, the upper quartile of the registration error is on the order of 0.25-0.5 pixels.

  9. On the Angle for Stationary Random Fields.

    DTIC Science & Technology

    1985-04-01

    Soltani [15], dealing with regularity and quarter-plane moving average representation; and Miamee [10], where an extension of Szego’s theorem for...lemma. Using Lemma 3.8 above and Theorem 3.4 of Soltani [15] we arrive at the following lemma. 3.9 Lemma. Let X be a stationary field with spectral...Mandrekar [7]. (One can also see Korezlioglu and Loubaton [8], and Miamee [10]). A set of such sufficient conditions is also given by Soltani [15

  10. Aging in the two-dimensional random-field systems

    NASA Astrophysics Data System (ADS)

    Cheng, Xiang; Ma, Tianyu; Urazhdin, Sergei; Boettcher, Stefan

    Random fields introduced into the classical Ising and Heisenberg spin models can roughen the energy landscape, leading to complex nonequilibrium dynamics. The effects of random fields on magnetism have been previously studied in the context of dilute antiferromagnets (AF), impure substrates, and magnetic alloys [ 1 ] . We utilized random-field spin models to simulate the observed magnetic aging in thin-film ferromagnet/antiferromagnet (F/AF) bilayers. Our experiments show extremely slow cooperative relaxation over a wide range of temperatures and magnetic fields [ 2 ] . In our simulations, the experimental system is coarse-grained into a random field Ising model on a 2D square lattice. Monte Carlo simulations indicate that aging processes may be associated with the glassy evolution of the magnetic domain walls, due to the pinning by the random fields. The scaling of the simulated aging agrees well with experiments. Both are consistent with either a small power-law or logarithmic dependence on time. We further discuss the topological effects on aging due to the dimensional crossover from the Ising to the Heisenberg regime. Supported through NSF grant DMR-1207431.

  11. Markov Random Fields, Stochastic Quantization and Image Analysis

    DTIC Science & Technology

    1990-01-01

    Markov random fields based on the lattice Z2 have been extensively used in image analysis in a Bayesian framework as a-priori models for the...of Image Analysis can be given some fundamental justification then there is a remarkable connection between Probabilistic Image Analysis , Statistical Mechanics and Lattice-based Euclidean Quantum Field Theory.

  12. Field-theoretic simulations of random copolymers with structural rigidity.

    PubMed

    Mao, Shifan; MacPherson, Quinn; Qin, Jian; Spakowitz, Andrew J

    2017-04-12

    Copolymers play an important role in a range of soft-materials applications and biological phenomena. Prevalent works on block copolymer phase behavior use flexible chain models and incorporate interactions using a mean-field approximation. However, when phase separation takes place on length scales comparable to a few monomers, the structural rigidity of the monomers becomes important. In addition, concentration fluctuations become significant at short length scales, rendering the mean-field approximation invalid. In this work, we use simulation to address the role of finite monomer rigidity and concentration fluctuations in microphase segregation of random copolymers. Using a field-theoretic Monte-Carlo simulation of semiflexible polymers with random chemical sequences, we generate phase diagrams for random copolymers. We find that the melt morphology of random copolymers strongly depends on chain flexibility and chemical sequence correlation. Chemically anti-correlated copolymers undergo first-order phase transitions to local lamellar structures. With increasing degree of chemical correlation, this first-order phase transition is softened, and melts form microphases with irregular shaped domains. Our simulations in the homogeneous phase exhibit agreement with the density-density correlation from mean-field theory. However, conditions near a phase transition result in deviations between simulation and mean-field theory for the density-density correlation and the critical wavemode. Chain rigidity and sequence randomness lead to frustration in the segregated phase, introducing heterogeneity in the resulting morphologies.

  13. Barkhausen noise in the random field Ising magnet Nd2Fe14B

    NASA Astrophysics Data System (ADS)

    Xu, J.; Silevitch, D. M.; Dahmen, K. A.; Rosenbaum, T. F.

    2015-07-01

    With sintered needles aligned and a magnetic field applied transverse to its easy axis, the rare-earth ferromagnet Nd2Fe14B becomes a room-temperature realization of the random field Ising model. The transverse field tunes the pinning potential of the magnetic domains in a continuous fashion. We study the magnetic domain reversal and avalanche dynamics between liquid helium and room temperatures at a series of transverse fields using a Barkhausen noise technique. The avalanche size and energy distributions follow power-law behavior with a cutoff dependent on the pinning strength dialed in by the transverse field, consistent with theoretical predictions for Barkhausen avalanches in disordered materials. A scaling analysis reveals two regimes of behavior: one at low temperature and high transverse field, where the dynamics are governed by the randomness, and the second at high temperature and low transverse field, where thermal fluctuations dominate the dynamics.

  14. Dynamical properties of random-field Ising model.

    PubMed

    Sinha, Suman; Mandal, Pradipta Kumar

    2013-02-01

    Extensive Monte Carlo simulations are performed on a two-dimensional random field Ising model. The purpose of the present work is to study the disorder-induced changes in the properties of disordered spin systems. The time evolution of the domain growth, the order parameter, and the spin-spin correlation functions are studied in the nonequilibrium regime. The dynamical evolution of the order parameter and the domain growth shows a power law scaling with disorder-dependent exponents. It is observed that for weak random fields, the two-dimensional random field Ising model possesses long-range order. Except for weak disorder, exchange interaction never wins over pinning interaction to establish long-range order in the system.

  15. Rigorously testing multialternative decision field theory against random utility models.

    PubMed

    Berkowitsch, Nicolas A J; Scheibehenne, Benjamin; Rieskamp, Jörg

    2014-06-01

    Cognitive models of decision making aim to explain the process underlying observed choices. Here, we test a sequential sampling model of decision making, multialternative decision field theory (MDFT; Roe, Busemeyer, & Townsend, 2001), on empirical grounds and compare it against 2 established random utility models of choice: the probit and the logit model. Using a within-subject experimental design, participants in 2 studies repeatedly choose among sets of options (consumer products) described on several attributes. The results of Study 1 showed that all models predicted participants' choices equally well. In Study 2, in which the choice sets were explicitly designed to distinguish the models, MDFT had an advantage in predicting the observed choices. Study 2 further revealed the occurrence of multiple context effects within single participants, indicating an interdependent evaluation of choice options and correlations between different context effects. In sum, the results indicate that sequential sampling models can provide relevant insights into the cognitive process underlying preferential choices and thus can lead to better choice predictions.

  16. Two Dimensional Honeycomb Materials: Random Fields, Dissipation and Fluctuations

    NASA Astrophysics Data System (ADS)

    Frederico, T.; Oliveira, O.; de Paula, W.; Hussein, M. S.; Cardoso, T. R.

    2017-02-01

    In this paper, we propose a method to describe the many-body problem of electrons in honeycomb materials via the introduction of random fields which are coupled to the electrons and have a Gaussian distribution. From a one-body approach to the problem, after integrating exactly the contribution of the random fields, one builds a non-hermitian and dissipative effective Hamiltonian with two-body interactions. Our approach introduces besides the usual average over the electron field a second average over the random fields. The interplay of two averages enables the definition of various types of Green's functions which allow the investigation of fluctuation-dissipation characteristics of the interactions that are a manifestation of the many-body problem. In the current work, we study only the dissipative term, through the perturbative analysis of the dynamics associated the effective Hamiltonian generated by two different kinds of couplings. For the cases analyzed, the eigenstates of the effective Hamiltonian are complex and, therefore, some of the states have a finite life time. Moreover, we also investigate, in the mean field approximation, the most general parity conserving coupling to the random fields and compute the width of charge carriers Γ as a function of the Fermi energy E F . The theoretical prediction for Γ( E F ) is compared to the available experimental data for graphene. The good agreement between Γ t h e o and Γ e x p suggests that description of the many-body problem associated to the electrons in honeycomb materials can indeed be done via the introduction of random fields.

  17. Stochastic Simulation of Microseisms Using Theory of Conditional Random Fields

    NASA Astrophysics Data System (ADS)

    Morikawa, H.; Akamatsu, J.; Nishimura, K.; Onoue, K.; Kameda, H.

    -We examine the applicability of conditional stochastic simulation to interpretation of microseisms observed on soft soil sediments at Kushiro, Hokkaido, Japan. The theory of conditional random fields developed by Kameda and Morikawa (1994) is used, which allows one to perform interpolation of a Gaussian stochastic time-space field that is conditioned by realized values of time functions specified at some discrete locations. The applicability is examined by a blind test, that is, by comparing a set of simulated seismograms and recorded ones obtained from three-point array observa tions. A test of fitness was performed by means of the sign test. It is concluded that the method is applicable to interpretation of microseisms, and that the wave field of microseisms can be treated as Gaussian random fields both in time and space.

  18. Using convex quadratic programming to model random media with Gaussian random fields

    SciTech Connect

    Quintanilla, John A.; Jones, W. Max

    2007-04-15

    Excursion sets of Gaussian random fields (GRFs) have been frequently used in the literature to model two-phase random media with measurable phase autocorrelation functions. The goal of successful modeling is finding the optimal field autocorrelation function that best approximates the prescribed phase autocorrelation function. In this paper, we present a technique which uses convex quadratic programming to find the best admissible field autocorrelation function under a prescribed discretization. Unlike previous methods, this technique efficiently optimizes over all admissible field autocorrelation functions, instead of optimizing only over a predetermined parametrized family. The results from using this technique indicate that the GRF model is significantly more versatile than observed in previous studies. An application to modeling a base-catalyzed tetraethoxysilane aerogel system given small-angle neutron scattering data is also presented.

  19. Are Facilitated Mentoring Programs Beneficial? A Randomized Experimental Field Study

    ERIC Educational Resources Information Center

    Egan, Toby Marshall; Song, Zhaoli

    2008-01-01

    Results from a pretest-posttest randomized field experiment study with a control group comparing the impact of high- and low-level-facilitated mentoring programs on new employees' performance and perceptions about their jobs and organization were reported in this paper. Results indicated increases in job satisfaction, organizational commitment,…

  20. A Multisite Cluster Randomized Field Trial of Open Court Reading

    ERIC Educational Resources Information Center

    Borman, Geoffrey D.; Dowling, N. Maritza; Schneck, Carrie

    2008-01-01

    In this article, the authors report achievement outcomes of a multisite cluster randomized field trial of Open Court Reading 2005 (OCR), a K-6 literacy curriculum published by SRA/McGraw-Hill. The participants are 49 first-grade through fifth-grade classrooms from predominantly minority and poor contexts across the nation. Blocking by grade level…

  1. Fuzzy Field Theory as a Random Matrix Model

    NASA Astrophysics Data System (ADS)

    Tekel, Juraj

    This dissertation considers the theory of scalar fields on fuzzy spaces from the point of view of random matrices. First we define random matrix ensembles, which are natural description of such theory. These ensembles are new and the novel feature is a presence of kinetic term in the probability measure, which couples the random matrix to a set of external matrices and thus breaks the original symmetry. Considering the case of a free field ensemble, which is generalization of a Gaussian matrix ensemble, we develop a technique to compute expectation values of the observables of the theory based on explicit Wick contractions and we write down recursion rules for these. We show that the eigenvalue distribution of the random matrix follows the Wigner semicircle distribution with a rescaled radius. We also compute distributions of the matrix Laplacian of the random matrix given by the new term and demonstrate that the eigenvalues of these two matrices are correlated. We demonstrate the robustness of the method by computing expectation values and distributions for more complicated observables. We then consider the ensemble corresponding to an interacting field theory, with a quartic interaction. We use the same method to compute the distribution of the eigenvalues and show that the presence of the kinetic terms rescales the distribution given by the original theory, which is a polynomially deformed Wigner semicircle. We compute the eigenvalue distribution of the matrix Laplacian and the joint distribution up to second order in the correlation and we show that the correlation between the two changes from the free field case. Finally, as an application of these results, we compute the phase diagram of the fuzzy scalar field theory, we find multiscaling which stabilizes this diagram in the limit of large matrices and compare it with the results obtained numerically and by considering the kinetic part as a perturbation.

  2. Driving a Superconductor to Insulator Transition with Random Gauge Fields

    PubMed Central

    Nguyen, H. Q.; Hollen, S. M.; Shainline, J.; Xu, J. M.; Valles, J. M.

    2016-01-01

    Typically the disorder that alters the interference of particle waves to produce Anderson localization is potential scattering from randomly placed impurities. Here we show that disorder in the form of random gauge fields that act directly on particle phases can also drive localization. We present evidence of a superfluid bose glass to insulator transition at a critical level of this gauge field disorder in a nano-patterned array of amorphous Bi islands. This transition shows signs of metallic transport near the critical point characterized by a resistance , indicative of a quantum phase transition. The critical disorder depends on interisland coupling in agreement with recent Quantum Monte Carlo simulations. We discuss how this disorder tuned SIT differs from the common frustration tuned SIT that also occurs in magnetic fields. Its discovery enables new high fidelity comparisons between theoretical and experimental studies of disorder effects on quantum critical systems. PMID:27901081

  3. Driving a Superconductor to Insulator Transition with Random Gauge Fields

    NASA Astrophysics Data System (ADS)

    Nguyen, H. Q.; Hollen, S. M.; Shainline, J.; Xu, J. M.; Valles, J. M.

    2016-11-01

    Typically the disorder that alters the interference of particle waves to produce Anderson localization is potential scattering from randomly placed impurities. Here we show that disorder in the form of random gauge fields that act directly on particle phases can also drive localization. We present evidence of a superfluid bose glass to insulator transition at a critical level of this gauge field disorder in a nano-patterned array of amorphous Bi islands. This transition shows signs of metallic transport near the critical point characterized by a resistance , indicative of a quantum phase transition. The critical disorder depends on interisland coupling in agreement with recent Quantum Monte Carlo simulations. We discuss how this disorder tuned SIT differs from the common frustration tuned SIT that also occurs in magnetic fields. Its discovery enables new high fidelity comparisons between theoretical and experimental studies of disorder effects on quantum critical systems.

  4. Driving a Superconductor to Insulator Transition with Random Gauge Fields.

    PubMed

    Nguyen, H Q; Hollen, S M; Shainline, J; Xu, J M; Valles, J M

    2016-11-30

    Typically the disorder that alters the interference of particle waves to produce Anderson localization is potential scattering from randomly placed impurities. Here we show that disorder in the form of random gauge fields that act directly on particle phases can also drive localization. We present evidence of a superfluid bose glass to insulator transition at a critical level of this gauge field disorder in a nano-patterned array of amorphous Bi islands. This transition shows signs of metallic transport near the critical point characterized by a resistance , indicative of a quantum phase transition. The critical disorder depends on interisland coupling in agreement with recent Quantum Monte Carlo simulations. We discuss how this disorder tuned SIT differs from the common frustration tuned SIT that also occurs in magnetic fields. Its discovery enables new high fidelity comparisons between theoretical and experimental studies of disorder effects on quantum critical systems.

  5. Compound random field models of multiple scale hydraulic conductivity

    SciTech Connect

    Haselow, J.S. ); Brannan, J.R. )

    1992-09-01

    Enormous amounts of hydrologic data are required to accurately simulate subsurface contaminant transport. Effectively supplementing measurements of hydrologic parameters such as permeability and porosity with soft'' information obtained from the interpretation of geologic cores and geophysical logs can improve the simulation of contaminant transport while reducing the measured data that are required. A method is presented herein for generating hydraulic conductivity fields comprised of several geological materials with hydraulic conductivities that can range over several orders of magnitude. This method utilizes indicator fields that are designed to allow random variation at the megascopic scale but are constrained by observations inferred from geophysical logs and geologic core data. The statistical description of random hydraulic conductivity values of distinct geological materials at the macroscopic scale may be obtained by conventional parameter estimation techniques. The combined approach can then be used to generate realizations of a hydraulic conductivity field for subsequent use in flow and transport simulations.

  6. Compound random field models of multiple scale hydraulic conductivity

    SciTech Connect

    Haselow, J.S.; Brannan, J.R.

    1992-09-01

    Enormous amounts of hydrologic data are required to accurately simulate subsurface contaminant transport. Effectively supplementing measurements of hydrologic parameters such as permeability and porosity with ``soft`` information obtained from the interpretation of geologic cores and geophysical logs can improve the simulation of contaminant transport while reducing the measured data that are required. A method is presented herein for generating hydraulic conductivity fields comprised of several geological materials with hydraulic conductivities that can range over several orders of magnitude. This method utilizes indicator fields that are designed to allow random variation at the megascopic scale but are constrained by observations inferred from geophysical logs and geologic core data. The statistical description of random hydraulic conductivity values of distinct geological materials at the macroscopic scale may be obtained by conventional parameter estimation techniques. The combined approach can then be used to generate realizations of a hydraulic conductivity field for subsequent use in flow and transport simulations.

  7. Cosmological fluctuations of a random field and radiation fluid

    SciTech Connect

    Bastero-Gil, Mar; Berera, Arjun; Moss, Ian G.; Ramos, Rudnei O. E-mail: ab@ph.ed.ac.uk E-mail: rudnei@uerj.br

    2014-05-01

    A generalization of the random fluid hydrodynamic fluctuation theory due to Landau and Lifshitz is applied to describe cosmological fluctuations in systems with radiation and scalar fields. The viscous pressures, parametrized in terms of the bulk and shear viscosity coefficients, and the respective random fluctuations in the radiation fluid are combined with the stochastic and dissipative scalar evolution equation. This results in a complete set of equations describing the perturbations in both scalar and radiation fluids. These derived equations are then studied, as an example, in the context of warm inflation. Similar treatments can be done for other cosmological early universe scenarios involving thermal or statistical fluctuations.

  8. Electronic transport in graphene sheets in a random magnetic field

    NASA Astrophysics Data System (ADS)

    Lewenkopf, Caio; Burgos, Rhonald; Warnes, Jesus; Lima, Leandro

    2014-03-01

    We present a theoretical study of the effect of ripples and strain fields in the transport properties of diffusive deposited graphene flakes. Defects in the crystalline structure, adsorbed atomic impurities and charge inhomogeneities at the substrate are believed to be the dominant disorder sources for the electronic transport in graphene at low temperatures. We show that intrinsic ripples also effect the conductivity, in particular, its quantum corrections. To this end, we analyze recent experimental results on the conductivity of rippled monolayer graphene sheets subjected to a strong magnetic field parallel to the graphene-substrate interface, B∥ [M. B. Lundeberg and J. A. Folk, Phys. Rev. Lett. 105, 146804 (2010)]. In this setting, B∥ gives rise to a random magnetic field normal to graphene sheet, that depends on the local curvature of the smooth disordered ripples. The analysis of the weak localization corrections of the magnetoconductance allows to establish the dependence of electronic dephasing rate on the magnitude of the random magnetic field. We compare the results for B∥ with the conductivity and weak localization corrections due to the pseudo-magnetic fields originated by intrinsic ripples and strain fields.

  9. Weak scattering of scalar and electromagnetic random fields

    NASA Astrophysics Data System (ADS)

    Tong, Zhisong

    This dissertation encompasses several studies relating to the theory of weak potential scattering of scalar and electromagnetic random, wide-sense statistically stationary fields from various types of deterministic or random linear media. The proposed theory is largely based on the first Born approximation for potential scattering and on the angular spectrum representation of fields. The main focus of the scalar counterpart of the theory is made on calculation of the second-order statistics of scattered light fields in cases when the scattering medium consists of several types of discrete particles with deterministic or random potentials. It is shown that the knowledge of the correlation properties for the particles of the same and different types, described with the newly introduced pair-scattering matrix, is crucial for determining the spectral and coherence states of the scattered radiation. The approach based on the pair-scattering matrix is then used for solving an inverse problem of determining the location of an "alien" particle within the scattering collection of "normal" particles, from several measurements of the spectral density of scattered light. Weak scalar scattering of light from a particulate medium in the presence of optical turbulence existing between the scattering centers is then approached using the combination of the Born's theory for treating the light interaction with discrete particles and the Rytov's theory for light propagation in extended turbulent medium. It is demonstrated how the statistics of scattered radiation depend on scattering potentials of particles and the power spectra of the refractive index fluctuations of turbulence. This theory is of utmost importance for applications involving atmospheric and oceanic light transmission. The second part of the dissertation includes the theoretical procedure developed for predicting the second-order statistics of the electromagnetic random fields, such as polarization and linear momentum

  10. Conditional random field-based gesture recognition with depth information

    NASA Astrophysics Data System (ADS)

    Chung, Hyunsook; Yang, Hee-Deok

    2013-01-01

    Gesture recognition is useful for human-computer interaction. The difficulty of gesture recognition is that instances of gestures vary both in motion and shape in three-dimensional (3-D) space. We use depth information generated using Microsoft's Kinect in order to detect 3-D human body components and apply a threshold model with a conditional random field in order to recognize meaningful gestures using continuous motion information. Body gesture recognition is achieved through a framework consisting of two steps. First, a human subject is described by a set of features, encoding the angular relationship between body components in 3-D space. Second, a feature vector is recognized using a threshold model with a conditional random field. In order to show the performance of the proposed method, we use a public data set, the Microsoft Research Cambridge-12 Kinect gesture database. The experimental results demonstrate that the proposed method can efficiently and effectively recognize body gestures automatically.

  11. Spectral expansions of tensor-valued random fields

    NASA Astrophysics Data System (ADS)

    Malyarenko, Anatoliy

    2017-01-01

    In this paper, we review the theory of random fields that are defined on the space domain ℝ3, take values in a real finite-dimensional linear space V that consists of tensors of a fixed rank, and are homogeneous and isotropic with respect to an orthogonal representation of a closed subgroup G of the group O(3). A historical introduction, the statement of the problem, some current results, and a sketch of proofs are included.

  12. Ground state nonuniversality in the random-field Ising model

    SciTech Connect

    Duxbury, P. M.; Meinke, J. H.

    2001-09-01

    Two attractive and often used ideas, namely, universality and the concept of a zero-temperature fixed point, are violated in the infinite-range random-field Ising model. In the ground state we show that the exponents can depend continuously on the disorder and so are nonuniversal. However, we also show that at finite temperature the thermal order-parameter exponent 1/2 is restored so that temperature is a relevant variable. Broader implications of these results are discussed.

  13. Liouville Field Theory and Log-Correlated Random Energy Models

    NASA Astrophysics Data System (ADS)

    Cao, Xiangyu; Rosso, Alberto; Santachiara, Raoul; Le Doussal, Pierre

    2017-03-01

    An exact mapping is established between the c ≥25 Liouville field theory (LFT) and the Gibbs measure statistics of a thermal particle in a 2D Gaussian free field plus a logarithmic confining potential. The probability distribution of the position of the minimum of the energy landscape is obtained exactly by combining the conformal bootstrap and one-step replica symmetry-breaking methods. Operator product expansions in the LFT allow us to unveil novel universal behaviors of the log-correlated random energy class. High-precision numerical tests are given.

  14. Liouville Field Theory and Log-Correlated Random Energy Models.

    PubMed

    Cao, Xiangyu; Rosso, Alberto; Santachiara, Raoul; Le Doussal, Pierre

    2017-03-03

    An exact mapping is established between the c≥25 Liouville field theory (LFT) and the Gibbs measure statistics of a thermal particle in a 2D Gaussian free field plus a logarithmic confining potential. The probability distribution of the position of the minimum of the energy landscape is obtained exactly by combining the conformal bootstrap and one-step replica symmetry-breaking methods. Operator product expansions in the LFT allow us to unveil novel universal behaviors of the log-correlated random energy class. High-precision numerical tests are given.

  15. Statistical mechanics of the spherical hierarchical model with random fields

    NASA Astrophysics Data System (ADS)

    Metz, Fernando L.; Rocchi, Jacopo; Urbani, Pierfrancesco

    2014-09-01

    We study analytically the equilibrium properties of the spherical hierarchical model in the presence of random fields. The expression for the critical line separating a paramagnetic from a ferromagnetic phase is derived. The critical exponents characterising this phase transition are computed analytically and compared with those of the corresponding D-dimensional short-range model, leading to conclude that the usual mapping between one dimensional long-range models and D-dimensional short-range models holds exactly for this system, in contrast to models with Ising spins. Moreover, the critical exponents of the pure model and those of the random field model satisfy a relationship that mimics the dimensional reduction rule. The absence of a spin-glass phase is strongly supported by the local stability analysis of the replica symmetric saddle-point as well as by an independent computation of the free-energy using a renormalization-like approach. This latter result enlarges the class of random field models for which the spin-glass phase has been recently ruled out.

  16. Localization of disordered bosons and magnets in random fields

    SciTech Connect

    Yu, Xiaoquan; Müller, Markus

    2013-10-15

    We study localization properties of disordered bosons and spins in random fields at zero temperature. We focus on two representatives of different symmetry classes, hard-core bosons (XY magnets) and Ising magnets in random transverse fields, and contrast their physical properties. We describe localization properties using a locator expansion on general lattices. For 1d Ising chains, we find non-analytic behavior of the localization length as a function of energy at ω=0, ξ{sup −1}(ω)=ξ{sup −1}(0)+A|ω|{sup α}, with α vanishing at criticality. This contrasts with the much smoother behavior predicted for XY magnets. We use these results to approach the ordering transition on Bethe lattices of large connectivity K, which mimic the limit of high dimensionality. In both models, in the paramagnetic phase with uniform disorder, the localization length is found to have a local maximum at ω=0. For the Ising model, we find activated scaling at the phase transition, in agreement with infinite randomness studies. In the Ising model long range order is found to arise due to a delocalization and condensation initiated at ω=0, without a closing mobility gap. We find that Ising systems establish order on much sparser (fractal) subgraphs than XY models. Possible implications of these results for finite-dimensional systems are discussed. -- Highlights: •Study of localization properties of disordered bosons and spins in random fields. •Comparison between XY magnets (hard-core bosons) and Ising magnets. •Analysis of the nature of the magnetic transition in strong quenched disorder. •Ising magnets: activated scaling, no closing mobility gap at the transition. •Ising order emerges on sparser (fractal) support than XY order.

  17. Universality in four-dimensional random-field magnets

    NASA Astrophysics Data System (ADS)

    Fytas, Nikolaos G.; Theodorakis, Panagiotis E.

    2015-08-01

    We investigate the universality aspects of the four-dimensional random-field Ising model (RFIM) using numerical simulations at zero temperature. We consider two different, in terms of the field distribution, versions of the model, namely a Gaussian RFIM and an equal-weight trimodal RFIM. By implementing a computational approach that maps the ground-state of the system to the maximum-flow optimization problem of a network, we employ the most up-to-date version of the push-relabel algorithm and simulate large ensembles of disorder realizations of both models for a broad range of random-field values and system sizes. Using as finite-size measures the sample-to-sample fluctuations of the order parameter of the system, we propose, for both types of distributions, estimates of the critical field hc and the critical exponent ν of the correlation length, the latter suggesting that the two models in four dimensions share the same universality class.

  18. Condensation of Helium in Aerogel and Athermal Dynamics of the Random-Field Ising Model

    NASA Astrophysics Data System (ADS)

    Aubry, Geoffroy J.; Bonnet, Fabien; Melich, Mathieu; Guyon, Laurent; Spathis, Panayotis; Despetis, Florence; Wolf, Pierre-Etienne

    2014-08-01

    High resolution measurements reveal that condensation isotherms of He4 in high porosity silica aerogel become discontinuous below a critical temperature. We show that this behavior does not correspond to an equilibrium phase transition modified by the disorder induced by the aerogel structure, but to the disorder-driven critical point predicted for the athermal out-of-equilibrium dynamics of the random-field Ising model. Our results evidence the key role of nonequilibrium effects in the phase transitions of disordered systems.

  19. Internetwork magnetic field as revealed by two-dimensional inversions

    NASA Astrophysics Data System (ADS)

    Danilovic, S.; van Noort, M.; Rempel, M.

    2016-09-01

    Context. Properties of magnetic field in the internetwork regions are still fairly unknown because of rather weak spectropolarimetric signals. Aims: We address the matter by using the two-dimensional (2D) inversion code, which is able to retrieve the information on smallest spatial scales up to the diffraction limit, while being less susceptible to noise than most of the previous methods used. Methods: Performance of the code and the impact of various effects on the retrieved field distribution is tested first on the realistic magneto-hydrodynamic (MHD) simulations. The best inversion scenario is then applied to the real data obtained by Spectropolarimeter (SP) on board Hinode. Results: Tests on simulations show that: (1) the best choice of node position ensures a decent retrieval of all parameters; (2) the code performs well for different configurations of magnetic field; (3) slightly different noise levels or slightly different defocus included in the spatial point spread function (PSF) produces no significant effect on the results; and (4) temporal integration shifts the field distribution to a stronger, more horizontally inclined field. Conclusions: Although the contribution of the weak field is slightly overestimated owing to noise, 2D inversions are able to recover well the overall distribution of the magnetic field strength. Application of the 2D inversion code on the Hinode SP internetwork observations reveals a monotonic field strength distribution. The mean field strength at optical depth unity is ~ 130 G. At higher layers, field strength drops as the field becomes more horizontal. Regarding the distribution of the field inclination, tests show that we cannot directly retrieve it with the observations and tools at hand, however, the obtained distributions are consistent with those expected from simulations with a quasi-isotropic field inclination after accounting for observational effects.

  20. Applications of random field theory to functional connectivity.

    PubMed

    Worsley, K J; Cao, J; Paus, T; Petrides, M; Evans, A C

    1998-01-01

    Functional connectivity between two voxels or regions of voxels can be measured by the correlation between voxel measurements from either PET CBF or BOLD fMRI images in 3D. We propose to look at the entire 6D matrix of correlations between all voxels and search for 6D local maxima. The main result is a new theoretical formula based on random field theory for the p-value of these local maxima, which distinguishes true correlations from background noise. This can be applied to crosscorrelations between two different sets of images--such as activations under two different tasks, as well as autocorrelations within the same set of images.

  1. Measuring marine oil spill extent by Markov Random Fields

    NASA Astrophysics Data System (ADS)

    Moctezuma, Miguel; Parmiggiani, Flavio; Lopez Lopez, Ludwin

    2014-10-01

    The Deepwater Horizon oil spill of the Gulf of Mexico in the spring of 2010 was the largest accidental marine oil spill in the history of the petroleum industry. An immediate request, after the accident, was to detect the oil slick and to measure its extent: SAR images were the obvious tool to be employed for the task. This paper presents a processing scheme based on Markov Random Fields (MRF) theory. MRF theory describes the global information by probability terms involving local neighborhood representations of the SAR backscatter data. The random degradation introduced by speckle noise is dealt with a pre-processing stage which applies a nonlinear diffusion filter. Spatial context attributes are structured by the Bayes equation derived from a Maximum-A-Posteriori (MAP) estimation. The probability terms define an objective function of a MRF model whose goal is to detect contours and fine structures. The markovian segmentation problem is solved with a numerical optimization method. The scheme was applied to an Envisat/ASAR image over the Gulf of Mexico of May 9, 2010, when the oil spill was already fully developed. The final result was obtained with 51 recursion cycles, where, at each step, the segmentation consists of a 3-class label field (open sea and two oil slick thicknesses). Both the MRF model and the parameters of the stochastic optimization procedure will be provided, together with the area measurement of the two kinds of oil slick.

  2. Nonequilibrium phase transitions in lattice systems with random-field competing kinetics

    NASA Astrophysics Data System (ADS)

    López-Lacomba, A. I.; Marro, J.

    1992-10-01

    We study a class of lattice interacting-spin systems evolving stochastically under the simultaneous operation of several spin-flip mechanisms, each acting independently and responding to a different applied magnetic field. This induces an extra randomness which may occur in real systems, e.g., a magnetic system under the action of a field varying with a much shorter period than the mean time between successive transitions. Such a situation-in which one may say in some sense that frustration has a dynamical origin- may also be viewed as a nonequilibrium version of the random-field Ising model. By following a method of investigating stationary probability distributions in systems with competing kinetics [P. L. Garrido and J. Marro, Phys. Rev. Lett. 62, 1929 (1989)], we solve one-dimensional lattices supporting different field distributions and transition rates for the elementary kinetical processes, thus revealing a rich variety of phase transitions and critical phenomena. Some exact results for lattices of arbitrary dimension, and comparisons with the standard quenched and annealed random-field models, and with a nonequilibrium diluted antiferromagnetic system, are also reported.

  3. Clustering, randomness and regularity in cloud fields. I - Theoretical considerations. II - Cumulus cloud fields

    NASA Technical Reports Server (NTRS)

    Weger, R. C.; Lee, J.; Zhu, Tianri; Welch, R. M.

    1992-01-01

    The current controversy existing in reference to the regularity vs. clustering in cloud fields is examined by means of analysis and simulation studies based upon nearest-neighbor cumulative distribution statistics. It is shown that the Poisson representation of random point processes is superior to pseudorandom-number-generated models and that pseudorandom-number-generated models bias the observed nearest-neighbor statistics towards regularity. Interpretation of this nearest-neighbor statistics is discussed for many cases of superpositions of clustering, randomness, and regularity. A detailed analysis is carried out of cumulus cloud field spatial distributions based upon Landsat, AVHRR, and Skylab data, showing that, when both large and small clouds are included in the cloud field distributions, the cloud field always has a strong clustering signal.

  4. Strong disorder effects of a Dirac fermion with a random vector field

    NASA Astrophysics Data System (ADS)

    Fukui, Takahiro

    2003-10-01

    We study a Dirac fermion model with a random vector field, especially paying attention to the strong disorder regime. Applying Bosonization techniques, we first derive an equivalent sine-Gordon model, and next average over the random vector field using the replica approach. The operator product expansion based on the replica action leads to scaling equations of the coupling constants (“fugacities”) with nonlinear terms, if we take into account the fusion of the vertex operators. These equations are converted into a nonlinear diffusion equation known as the Kolmogorov-Petrovsky-Piscounov (KPP) equation. Using the asymptotic solution of the equation, we calculate the spatial correlations of the generalized inverse participation ratios. The scaling exponent thus obtained reproduces the recent numerical calculations of the density correlation function. This implies that the freezing transition has actually revealed itself in such calculations.

  5. Quantum Coherence and Random Fields at Mesoscopic Scales

    SciTech Connect

    Rosenbaum, Thomas F.

    2016-03-01

    We seek to explore and exploit model, disordered and geometrically frustrated magnets where coherent spin clusters stably detach themselves from their surroundings, leading to extreme sensitivity to finite frequency excitations and the ability to encode information. Global changes in either the spin concentration or the quantum tunneling probability via the application of an external magnetic field can tune the relative weights of quantum entanglement and random field effects on the mesoscopic scale. These same parameters can be harnessed to manipulate domain wall dynamics in the ferromagnetic state, with technological possibilities for magnetic information storage. Finally, extensions from quantum ferromagnets to antiferromagnets promise new insights into the physics of quantum fluctuations and effective dimensional reduction. A combination of ac susceptometry, dc magnetometry, noise measurements, hole burning, non-linear Fano experiments, and neutron diffraction as functions of temperature, magnetic field, frequency, excitation amplitude, dipole concentration, and disorder address issues of stability, overlap, coherence, and control. We have been especially interested in probing the evolution of the local order in the progression from spin liquid to spin glass to long-range-ordered magnet.

  6. Fuzzy Markov random fields versus chains for multispectral image segmentation.

    PubMed

    Salzenstein, Fabien; Collet, Christophe

    2006-11-01

    This paper deals with a comparison of recent statistical models based on fuzzy Markov random fields and chains for multispectral image segmentation. The fuzzy scheme takes into account discrete and continuous classes which model the imprecision of the hidden data. In this framework, we assume the dependence between bands and we express the general model for the covariance matrix. A fuzzy Markov chain model is developed in an unsupervised way. This method is compared with the fuzzy Markovian field model previously proposed by one of the authors. The segmentation task is processed with Bayesian tools, such as the well-known MPM (Mode of Posterior Marginals) criterion. Our goal is to compare the robustness and rapidity for both methods (fuzzy Markov fields versus fuzzy Markov chains). Indeed, such fuzzy-based procedures seem to be a good answer, e.g., for astronomical observations when the patterns present diffuse structures. Moreover, these approaches allow us to process missing data in one or several spectral bands which correspond to specific situations in astronomy. To validate both models, we perform and compare the segmentation on synthetic images and raw multispectral astronomical data.

  7. Multicritical behavior in a random-field Ising model under a continuous-field probability distribution.

    PubMed

    Salmon, Octavio R; Crokidakis, Nuno; Nobre, Fernando D

    2009-02-04

    A random-field Ising model that is capable of exhibiting a rich variety of multicritical phenomena, as well as a smearing of such behavior, is investigated. The model consists of an infinite-range-interaction Ising ferromagnet in the presence of a triple Gaussian random magnetic field, which is defined as a superposition of three Gaussian distributions with the same width σ, centered at H = 0 and H = ± H(0), with probabilities p and (1-p)/2, respectively. Such a distribution is very general and recovers, as limiting cases, the trimodal, bimodal and Gaussian probability distributions. In particular, the special case of the random-field Ising model in the presence of a trimodal probability distribution (limit [Formula: see text]) is able to present a rather nontrivial multicritical behavior. It is argued that the triple Gaussian probability distribution is appropriate for a physical description of some diluted antiferromagnets in the presence of a uniform external field, for which the corresponding physical realization consists of an Ising ferromagnet under random fields whose distribution appears to be well represented in terms of a superposition of two parts, namely a trimodal and a continuous contribution. The model is investigated by means of the replica method, and phase diagrams are obtained within the replica-symmetric solution, which is known to be stable for the present system. A rich variety of phase diagrams is presented, with one or two distinct ferromagnetic phases, continuous and first-order transition lines, tricritical, fourth-order, critical end points and many other interesting multicritical phenomena. Additionally, the present model carries the possibility of destroying such multicritical phenomena due to an increase in the randomness, i.e. increasing σ, which represents a very common feature in real systems.

  8. A Markov random field approach for microstructure synthesis

    NASA Astrophysics Data System (ADS)

    Kumar, A.; Nguyen, L.; DeGraef, M.; Sundararaghavan, V.

    2016-03-01

    We test the notion that many microstructures have an underlying stationary probability distribution. The stationary probability distribution is ubiquitous: we know that different windows taken from a polycrystalline microstructure are generally ‘statistically similar’. To enable computation of such a probability distribution, microstructures are represented in the form of undirected probabilistic graphs called Markov Random Fields (MRFs). In the model, pixels take up integer or vector states and interact with multiple neighbors over a window. Using this lattice structure, algorithms are developed to sample the conditional probability density for the state of each pixel given the known states of its neighboring pixels. The sampling is performed using reference experimental images. 2D microstructures are artificially synthesized using the sampled probabilities. Statistical features such as grain size distribution and autocorrelation functions closely match with those of the experimental images. The mechanical properties of the synthesized microstructures were computed using the finite element method and were also found to match the experimental values.

  9. Cover estimation and payload location using Markov random fields

    NASA Astrophysics Data System (ADS)

    Quach, Tu-Thach

    2014-02-01

    Payload location is an approach to find the message bits hidden in steganographic images, but not necessarily their logical order. Its success relies primarily on the accuracy of the underlying cover estimators and can be improved if more estimators are used. This paper presents an approach based on Markov random field to estimate the cover image given a stego image. It uses pairwise constraints to capture the natural two-dimensional statistics of cover images and forms a basis for more sophisticated models. Experimental results show that it is competitive against current state-of-the-art estimators and can locate payload embedded by simple LSB steganography and group-parity steganography. Furthermore, when combined with existing estimators, payload location accuracy improves significantly.

  10. Random Fields, Topology, and the Imry-Ma Argument

    NASA Astrophysics Data System (ADS)

    Proctor, Thomas C.; Garanin, Dmitry A.; Chudnovsky, Eugene M.

    2014-03-01

    We consider an n-component fixed-length order parameter interacting with a weak random field in d =1, 2, 3 dimensions. Relaxation from the initially ordered state and spin-spin correlation functions are studied on lattices containing hundreds of millions of sites. At n≤d the presence of topological defects leads to strong metastability and glassy behavior, with the final state depending on the initial condition. At n=d+1, when topological structures are nonsingular, the system possesses a weak metastability. At n>d+1, when topological objects are absent, the final, lowest-energy state is independent of the initial condition. It is characterized by the exponential decay of correlations that agrees quantitatively with the theory based upon the Imry-Ma argument.

  11. Vehicle track segmentation using higher order random fields

    DOE PAGES

    Quach, Tu -Thach

    2017-01-09

    Here, we present an approach to segment vehicle tracks in coherent change detection images, a product of combining two synthetic aperture radar images taken at different times. The approach uses multiscale higher order random field models to capture track statistics, such as curvatures and their parallel nature, that are not currently utilized in existing methods. These statistics are encoded as 3-by-3 patterns at different scales. The model can complete disconnected tracks often caused by sensor noise and various environmental effects. Coupling the model with a simple classifier, our approach is effective at segmenting salient tracks. We improve the F-measure onmore » a standard vehicle track data set to 0.963, up from 0.897 obtained by the current state-of-the-art method.« less

  12. A dissipative random velocity field for fully developed fluid turbulence

    NASA Astrophysics Data System (ADS)

    Chevillard, Laurent; Pereira, Rodrigo; Garban, Christophe

    2016-11-01

    We investigate the statistical properties, based on numerical simulations and analytical calculations, of a recently proposed stochastic model for the velocity field of an incompressible, homogeneous, isotropic and fully developed turbulent flow. A key step in the construction of this model is the introduction of some aspects of the vorticity stretching mechanism that governs the dynamics of fluid particles along their trajectory. An additional further phenomenological step aimed at including the long range correlated nature of turbulence makes this model depending on a single free parameter that can be estimated from experimental measurements. We confirm the realism of the model regarding the geometry of the velocity gradient tensor, the power-law behaviour of the moments of velocity increments, including the intermittent corrections, and the existence of energy transfers across scales. We quantify the dependence of these basic properties of turbulent flows on the free parameter and derive analytically the spectrum of exponents of the structure functions in a simplified non dissipative case. A perturbative expansion shows that energy transfers indeed take place, justifying the dissipative nature of this random field.

  13. Glaucoma progression detection using nonlocal Markov random field prior.

    PubMed

    Belghith, Akram; Bowd, Christopher; Medeiros, Felipe A; Balasubramanian, Madhusudhanan; Weinreb, Robert N; Zangwill, Linda M

    2014-10-01

    Glaucoma is neurodegenerative disease characterized by distinctive changes in the optic nerve head and visual field. Without treatment, glaucoma can lead to permanent blindness. Therefore, monitoring glaucoma progression is important to detect uncontrolled disease and the possible need for therapy advancement. In this context, three-dimensional (3-D) spectral domain optical coherence tomography (SD-OCT) has been commonly used in the diagnosis and management of glaucoma patients. We present a new framework for detection of glaucoma progression using 3-D SD-OCT images. In contrast to previous works that use the retinal nerve fiber layer thickness measurement provided by commercially available instruments, we consider the whole 3-D volume for change detection. To account for the spatial voxel dependency, we propose the use of the Markov random field (MRF) model as a prior for the change detection map. In order to improve the robustness of the proposed approach, a nonlocal strategy was adopted to define the MRF energy function. To accommodate the presence of false-positive detection, we used a fuzzy logic approach to classify a 3-D SD-OCT image into a "non-progressing" or "progressing" glaucoma class. We compared the diagnostic performance of the proposed framework to the existing methods of progression detection.

  14. Glaucoma progression detection using nonlocal Markov random field prior

    PubMed Central

    Belghith, Akram; Bowd, Christopher; Medeiros, Felipe A.; Balasubramanian, Madhusudhanan; Weinreb, Robert N.; Zangwill, Linda M.

    2014-01-01

    Abstract. Glaucoma is neurodegenerative disease characterized by distinctive changes in the optic nerve head and visual field. Without treatment, glaucoma can lead to permanent blindness. Therefore, monitoring glaucoma progression is important to detect uncontrolled disease and the possible need for therapy advancement. In this context, three-dimensional (3-D) spectral domain optical coherence tomography (SD-OCT) has been commonly used in the diagnosis and management of glaucoma patients. We present a new framework for detection of glaucoma progression using 3-D SD-OCT images. In contrast to previous works that use the retinal nerve fiber layer thickness measurement provided by commercially available instruments, we consider the whole 3-D volume for change detection. To account for the spatial voxel dependency, we propose the use of the Markov random field (MRF) model as a prior for the change detection map. In order to improve the robustness of the proposed approach, a nonlocal strategy was adopted to define the MRF energy function. To accommodate the presence of false-positive detection, we used a fuzzy logic approach to classify a 3-D SD-OCT image into a “non-progressing” or “progressing” glaucoma class. We compared the diagnostic performance of the proposed framework to the existing methods of progression detection. PMID:26158069

  15. Effect of magnetic helicity upon rectilinear propagation of charged particles in random magnetic fields

    NASA Technical Reports Server (NTRS)

    Earl, James A.

    1992-01-01

    When charged particles spiral along a large constant magnetic field, their trajectories are scattered by any random field components that are superposed on the guiding field. If the random field configuration embodies helicity, the scattering is asymmetrical with respect to a plane perpendicular to the guiding field, for particles moving into the forward hemisphere are scattered at different rates from those moving into the backward hemisphere. This asymmetry gives rise to new terms in the transport equations that describe propagation of charged particles. Helicity has virtually no impact on qualitative features of the diffusive mode of propagation. However, characteristic velocities of the coherent modes that appear after a highly anisotropic injection exhibit an asymmetry related to helicity. Explicit formulas, which embody the effects of helicity, are given for the anisotropies, the coefficient diffusion, and the coherent velocities. Predictions derived from these expressions are in good agreement with Monte Carlo simulations of particle transport, but the simulations reveal certain phenomena whose explanation calls for further analytical work.

  16. Gaussian conditional random fields for regression in remote sensing

    NASA Astrophysics Data System (ADS)

    Radosavljevic, Vladan

    In recent years many remote sensing instruments of various properties have been employed in an attempt to better characterize important geophysical phenomena. Satellite instruments provide an exceptional opportunity for global long-term observations of the land, the biosphere, the atmosphere, and the oceans. The collected data are used for estimation and better understanding of geophysical parameters such as land cover type, atmospheric properties, or ocean temperature. Achieving accurate estimations of such parameters is an important requirement for development of models able to predict global climate changes. One of the most challenging climate research problems is estimation of global composition, load, and variability of aerosols, small airborne particles that reflect and absorb incoming solar radiation. The existing algorithm for aerosol prediction from satellite observations is deterministic and manually tuned by domain scientist. In contrast to domain-driven method, we show that aerosol prediction is achievable by completely data-driven approaches. These statistical methods consist of learning of nonlinear regression models to predict aerosol load using the satellite observations as inputs. Measurements from unevenly distributed ground-based sites over the world are used as proxy to ground-truth outputs. Although statistical methods achieve better accuracy than deterministic method this setup is appropriate when data are independently and identically distributed (IID). The IID assumption is often violated in remote sensing where data exhibit temporal, spatial, or spatio-temporal dependencies. In such cases, the traditional supervised learning approaches could result in a model with degraded accuracy. Conditional random fields (CRF) are widely used for predicting output variables that have some internal structure. Most of the CRF research has been done on structured classification where the outputs are discrete. We propose a CRF model for continuous outputs

  17. Adaptive Thouless-Anderson-Palmer approach to inverse Ising problems with quenched random fields

    NASA Astrophysics Data System (ADS)

    Huang, Haiping; Kabashima, Yoshiyuki

    2013-06-01

    The adaptive Thouless-Anderson-Palmer equation is derived for inverse Ising problems in the presence of quenched random fields. We test the proposed scheme on Sherrington-Kirkpatrick, Hopfield, and random orthogonal models and find that the adaptive Thouless-Anderson-Palmer approach allows accurate inference of quenched random fields whose distribution can be either Gaussian or bimodal. In particular, another competitive method for inferring external fields, namely, the naive mean field method with diagonal weights, is compared and discussed.

  18. Infinite hidden conditional random fields for human behavior analysis.

    PubMed

    Bousmalis, Konstantinos; Zafeiriou, Stefanos; Morency, Louis-Philippe; Pantic, Maja

    2013-01-01

    Hidden conditional random fields (HCRFs) are discriminative latent variable models that have been shown to successfully learn the hidden structure of a given classification problem (provided an appropriate validation of the number of hidden states). In this brief, we present the infinite HCRF (iHCRF), which is a nonparametric model based on hierarchical Dirichlet processes and is capable of automatically learning the optimal number of hidden states for a classification task. We show how we learn the model hyperparameters with an effective Markov-chain Monte Carlo sampling technique, and we explain the process that underlines our iHCRF model with the Restaurant Franchise Rating Agencies analogy. We show that the iHCRF is able to converge to a correct number of represented hidden states, and outperforms the best finite HCRFs--chosen via cross-validation--for the difficult tasks of recognizing instances of agreement, disagreement, and pain. Moreover, the iHCRF manages to achieve this performance in significantly less total training, validation, and testing time.

  19. Gaussian Random Field: Physical Origin of Sersic Profiles

    NASA Astrophysics Data System (ADS)

    Cen, Renyue

    2014-08-01

    While the Sersic profile family provides adequate fits for the surface brightness profiles of observed galaxies, its physical origin is unknown. We show that if the cosmological density field is seeded by random Gaussian fluctuations, as in the standard cold dark matter model, galaxies with steep central profiles have simultaneously extended envelopes of shallow profiles in the outskirts, whereas galaxies with shallow central profiles are accompanied by steep density profiles in the outskirts. These properties are in accord with those of the Sersic profile family. Moreover, galaxies with steep central profiles form their central regions in smaller denser subunits that possibly merge subsequently, which naturally leads to the formation of bulges. In contrast, galaxies with shallow central profiles form their central regions in a coherent fashion without significant substructure, a necessary condition for disk galaxy formation. Thus, the scenario is self-consistent with respect to the correlation between observed galaxy morphology and the Sersic index. We further predict that clusters of galaxies should display a similar trend, which should be verifiable observationally.

  20. Conditional random fields for pattern recognition applied to structured data

    SciTech Connect

    Burr, Tom; Skurikhin, Alexei

    2015-07-14

    Pattern recognition uses measurements from an input domain, X, to predict their labels from an output domain, Y. Image analysis is one setting where one might want to infer whether a pixel patch contains an object that is “manmade” (such as a building) or “natural” (such as a tree). Suppose the label for a pixel patch is “manmade”; if the label for a nearby pixel patch is then more likely to be “manmade” there is structure in the output domain that can be exploited to improve pattern recognition performance. Modeling P(X) is difficult because features between parts of the model are often correlated. Therefore, conditional random fields (CRFs) model structured data using the conditional distribution P(Y|X = x), without specifying a model for P(X), and are well suited for applications with dependent features. This paper has two parts. First, we overview CRFs and their application to pattern recognition in structured problems. Our primary examples are image analysis applications in which there is dependence among samples (pixel patches) in the output domain. Second, we identify research topics and present numerical examples.

  1. GAUSSIAN RANDOM FIELD: PHYSICAL ORIGIN OF SERSIC PROFILES

    SciTech Connect

    Cen, Renyue

    2014-08-01

    While the Sersic profile family provides adequate fits for the surface brightness profiles of observed galaxies, its physical origin is unknown. We show that if the cosmological density field is seeded by random Gaussian fluctuations, as in the standard cold dark matter model, galaxies with steep central profiles have simultaneously extended envelopes of shallow profiles in the outskirts, whereas galaxies with shallow central profiles are accompanied by steep density profiles in the outskirts. These properties are in accord with those of the Sersic profile family. Moreover, galaxies with steep central profiles form their central regions in smaller denser subunits that possibly merge subsequently, which naturally leads to the formation of bulges. In contrast, galaxies with shallow central profiles form their central regions in a coherent fashion without significant substructure, a necessary condition for disk galaxy formation. Thus, the scenario is self-consistent with respect to the correlation between observed galaxy morphology and the Sersic index. We further predict that clusters of galaxies should display a similar trend, which should be verifiable observationally.

  2. Conditional random fields for pattern recognition applied to structured data

    DOE PAGES

    Burr, Tom; Skurikhin, Alexei

    2015-07-14

    Pattern recognition uses measurements from an input domain, X, to predict their labels from an output domain, Y. Image analysis is one setting where one might want to infer whether a pixel patch contains an object that is “manmade” (such as a building) or “natural” (such as a tree). Suppose the label for a pixel patch is “manmade”; if the label for a nearby pixel patch is then more likely to be “manmade” there is structure in the output domain that can be exploited to improve pattern recognition performance. Modeling P(X) is difficult because features between parts of the modelmore » are often correlated. Therefore, conditional random fields (CRFs) model structured data using the conditional distribution P(Y|X = x), without specifying a model for P(X), and are well suited for applications with dependent features. This paper has two parts. First, we overview CRFs and their application to pattern recognition in structured problems. Our primary examples are image analysis applications in which there is dependence among samples (pixel patches) in the output domain. Second, we identify research topics and present numerical examples.« less

  3. On random field Completely Automated Public Turing Test to Tell Computers and Humans Apart generation.

    PubMed

    Kouritzin, Michael A; Newton, Fraser; Wu, Biao

    2013-04-01

    Herein, we propose generating CAPTCHAs through random field simulation and give a novel, effective and efficient algorithm to do so. Indeed, we demonstrate that sufficient information about word tests for easy human recognition is contained in the site marginal probabilities and the site-to-nearby-site covariances and that these quantities can be embedded directly into certain conditional probabilities, designed for effective simulation. The CAPTCHAs are then partial random realizations of the random CAPTCHA word. We start with an initial random field (e.g., randomly scattered letter pieces) and use Gibbs resampling to re-simulate portions of the field repeatedly using these conditional probabilities until the word becomes human-readable. The residual randomness from the initial random field together with the random implementation of the CAPTCHA word provide significant resistance to attack. This results in a CAPTCHA, which is unrecognizable to modern optical character recognition but is recognized about 95% of the time in a human readability study.

  4. Revealing giant internal magnetic fields due to spin fluctuations in magnetically doped colloidal nanocrystals

    NASA Astrophysics Data System (ADS)

    Rice, William D.; Liu, Wenyong; Baker, Thomas A.; Sinitsyn, Nikolai A.; Klimov, Victor I.; Crooker, Scott A.

    2016-02-01

    Strong quantum confinement in semiconductors can compress the wavefunctions of band electrons and holes to nanometre-scale volumes, significantly enhancing interactions between themselves and individual dopants. In magnetically doped semiconductors, where paramagnetic dopants (such as Mn2+, Co2+ and so on) couple to band carriers via strong sp-d spin exchange, giant magneto-optical effects can therefore be realized in confined geometries using few or even single impurity spins. Importantly, however, thermodynamic spin fluctuations become increasingly relevant in this few-spin limit. In nanoscale volumes, the statistical fluctuations of N spins are expected to generate giant effective magnetic fields Beff, which should dramatically impact carrier spin dynamics, even in the absence of any applied field. Here we directly and unambiguously reveal the large Beff that exist in Mn2+-doped CdSe colloidal nanocrystals using ultrafast optical spectroscopy. At zero applied magnetic field, extremely rapid (300-600 GHz) spin precession of photoinjected electrons is observed, indicating Beff ˜ 15 -30 T for electrons. Precession frequencies exceed 2 THz in applied magnetic fields. These signals arise from electron precession about the random fields due to statistically incomplete cancellation of the embedded Mn2+ moments, thereby revealing the initial coherent dynamics of magnetic polaron formation, and highlighting the importance of magnetization fluctuations on carrier spin dynamics in nanomaterials.

  5. Revealing giant internal magnetic fields due to spin fluctuations in magnetically doped colloidal nanocrystals

    DOE PAGES

    Rice, William D.; Liu, Wenyong; Baker, Thomas A.; ...

    2015-11-23

    Strong quantum confinement in semiconductors can compress the wavefunctions of band electrons and holes to nanometre-scale volumes, significantly enhancing interactions between themselves and individual dopants. In magnetically doped semiconductors, where paramagnetic dopants (such as Mn2+, Co2+ and so on) couple to band carriers via strong sp–d spin exchange, giant magneto-optical effects can therefore be realized in confined geometries using few or even single impurity spins. Importantly, however, thermodynamic spin fluctuations become increasingly relevant in this few-spin limit. In nanoscale volumes, the statistical √N fluctuations of N spins are expected to generate giant effective magnetic fields Beff, which should dramatically impactmore » carrier spin dynamics, even in the absence of any applied field. In this paper, we directly and unambiguously reveal the large Beff that exist in Mn2+-doped CdSe colloidal nanocrystals using ultrafast optical spectroscopy. At zero applied magnetic field, extremely rapid (300–600 GHz) spin precession of photoinjected electrons is observed, indicating Beff ~ 15-30 T for electrons. Precession frequencies exceed 2 THz in applied magnetic fields. Finally, these signals arise from electron precession about the random fields due to statistically incomplete cancellation of the embedded Mn2+ moments, thereby revealing the initial coherent dynamics of magnetic polaron formation, and highlighting the importance of magnetization fluctuations on carrier spin dynamics in nanomaterials.« less

  6. Revealing giant internal magnetic fields due to spin fluctuations in magnetically doped colloidal nanocrystals

    SciTech Connect

    Rice, William D.; Liu, Wenyong; Baker, Thomas A.; Sinitsyn, Nikolai A.; Klimov, Victor Ivanovich; Crooker, Scott A.

    2015-11-23

    Strong quantum confinement in semiconductors can compress the wavefunctions of band electrons and holes to nanometre-scale volumes, significantly enhancing interactions between themselves and individual dopants. In magnetically doped semiconductors, where paramagnetic dopants (such as Mn2+, Co2+ and so on) couple to band carriers via strong sp–d spin exchange, giant magneto-optical effects can therefore be realized in confined geometries using few or even single impurity spins. Importantly, however, thermodynamic spin fluctuations become increasingly relevant in this few-spin limit. In nanoscale volumes, the statistical √N fluctuations of N spins are expected to generate giant effective magnetic fields Beff, which should dramatically impact carrier spin dynamics, even in the absence of any applied field. In this paper, we directly and unambiguously reveal the large Beff that exist in Mn2+-doped CdSe colloidal nanocrystals using ultrafast optical spectroscopy. At zero applied magnetic field, extremely rapid (300–600 GHz) spin precession of photoinjected electrons is observed, indicating Beff ~ 15-30 T for electrons. Precession frequencies exceed 2 THz in applied magnetic fields. Finally, these signals arise from electron precession about the random fields due to statistically incomplete cancellation of the embedded Mn2+ moments, thereby revealing the initial coherent dynamics of magnetic polaron formation, and highlighting the importance of magnetization fluctuations on carrier spin dynamics in nanomaterials.

  7. The Sherrington-Kirkpatrick spin glass model in the presence of a random field with a joint Gaussian probability density function for the exchange interactions and random fields

    NASA Astrophysics Data System (ADS)

    Hadjiagapiou, Ioannis A.

    2014-03-01

    The magnetic systems with disorder form an important class of systems, which are under intensive studies, since they reflect real systems. Such a class of systems is the spin glass one, which combines randomness and frustration. The Sherrington-Kirkpatrick Ising spin glass with random couplings in the presence of a random magnetic field is investigated in detail within the framework of the replica method. The two random variables (exchange integral interaction and random magnetic field) are drawn from a joint Gaussian probability density function characterized by a correlation coefficient ρ. The thermodynamic properties and phase diagrams are studied with respect to the natural parameters of both random components of the system contained in the probability density. The de Almeida-Thouless line is explored as a function of temperature, ρ and other system parameters. The entropy for zero temperature as well as for non zero temperatures is partly negative or positive, acquiring positive branches as h0 increases.

  8. Theory and generation of conditional, scalable sub-Gaussian random fields

    NASA Astrophysics Data System (ADS)

    Panzeri, M.; Riva, M.; Guadagnini, A.; Neuman, S. P.

    2016-03-01

    Many earth and environmental (as well as a host of other) variables, Y, and their spatial (or temporal) increments, ΔY, exhibit non-Gaussian statistical scaling. Previously we were able to capture key aspects of such non-Gaussian scaling by treating Y and/or ΔY as sub-Gaussian random fields (or processes). This however left unaddressed the empirical finding that whereas sample frequency distributions of Y tend to display relatively mild non-Gaussian peaks and tails, those of ΔY often reveal peaks that grow sharper and tails that become heavier with decreasing separation distance or lag. Recently we proposed a generalized sub-Gaussian model (GSG) which resolves this apparent inconsistency between the statistical scaling behaviors of observed variables and their increments. We presented an algorithm to generate unconditional random realizations of statistically isotropic or anisotropic GSG functions and illustrated it in two dimensions. Most importantly, we demonstrated the feasibility of estimating all parameters of a GSG model underlying a single realization of Y by analyzing jointly spatial moments of Y data and corresponding increments, ΔY. Here, we extend our GSG model to account for noisy measurements of Y at a discrete set of points in space (or time), present an algorithm to generate conditional realizations of corresponding isotropic or anisotropic random fields, introduce two approximate versions of this algorithm to reduce CPU time, and explore them on one and two-dimensional synthetic test cases.

  9. MRFalign: protein homology detection through alignment of Markov random fields.

    PubMed

    Ma, Jianzhu; Wang, Sheng; Wang, Zhiyong; Xu, Jinbo

    2014-03-01

    Sequence-based protein homology detection has been extensively studied and so far the most sensitive method is based upon comparison of protein sequence profiles, which are derived from multiple sequence alignment (MSA) of sequence homologs in a protein family. A sequence profile is usually represented as a position-specific scoring matrix (PSSM) or an HMM (Hidden Markov Model) and accordingly PSSM-PSSM or HMM-HMM comparison is used for homolog detection. This paper presents a new homology detection method MRFalign, consisting of three key components: 1) a Markov Random Fields (MRF) representation of a protein family; 2) a scoring function measuring similarity of two MRFs; and 3) an efficient ADMM (Alternating Direction Method of Multipliers) algorithm aligning two MRFs. Compared to HMM that can only model very short-range residue correlation, MRFs can model long-range residue interaction pattern and thus, encode information for the global 3D structure of a protein family. Consequently, MRF-MRF comparison for remote homology detection shall be much more sensitive than HMM-HMM or PSSM-PSSM comparison. Experiments confirm that MRFalign outperforms several popular HMM or PSSM-based methods in terms of both alignment accuracy and remote homology detection and that MRFalign works particularly well for mainly beta proteins. For example, tested on the benchmark SCOP40 (8353 proteins) for homology detection, PSSM-PSSM and HMM-HMM succeed on 48% and 52% of proteins, respectively, at superfamily level, and on 15% and 27% of proteins, respectively, at fold level. In contrast, MRFalign succeeds on 57.3% and 42.5% of proteins at superfamily and fold level, respectively. This study implies that long-range residue interaction patterns are very helpful for sequence-based homology detection. The software is available for download at http://raptorx.uchicago.edu/download/. A summary of this paper appears in the proceedings of the RECOMB 2014 conference, April 2-5.

  10. MAGNETIC FIELD LINE RANDOM WALK IN ISOTROPIC TURBULENCE WITH ZERO MEAN FIELD

    SciTech Connect

    Sonsrettee, W.; Ruffolo, D.; Snodin, A. P.; Wongpan, P.; Subedi, P.; Matthaeus, W. H.; Chuychai, P. E-mail: david.ruf@mahidol.ac.th E-mail: pat.wongpan@postgrad.otago.ac.nz E-mail: prasub@udel.edu

    2015-01-01

    In astrophysical plasmas, magnetic field lines often guide the motions of thermal and non-thermal particles. The field line random walk (FLRW) is typically considered to depend on the Kubo number R = (b/B {sub 0})(ℓ{sub ∥}/ℓ ) for rms magnetic fluctuation b, large-scale mean field B {sub 0}, and parallel and perpendicular coherence scales ℓ{sub ∥} and ℓ , respectively. Here we examine the FLRW when R → ∞ by taking B {sub 0} → 0 for finite b{sub z} (fluctuation component along B {sub 0}), which differs from the well-studied route with b{sub z} = 0 or b{sub z} << B {sub 0} as the turbulence becomes quasi-two-dimensional (quasi-2D). Fluctuations with B {sub 0} = 0 are typically isotropic, which serves as a reasonable model of interstellar turbulence. We use a non-perturbative analytic framework based on Corrsin's hypothesis to determine closed-form solutions for the asymptotic field line diffusion coefficient for three versions of the theory, which are directly related to the k {sup –1} or k {sup –2} moment of the power spectrum. We test these theories by performing computer simulations of the FLRW, obtaining the ratio of diffusion coefficients for two different parameterizations of a field line. Comparing this with theoretical ratios, the random ballistic decorrelation version of the theory agrees well with the simulations. All results exhibit an analog to Bohm diffusion. In the quasi-2D limit, previous works have shown that Corrsin-based theories deviate substantially from simulation results, but here we find that as B {sub 0} → 0, they remain in reasonable agreement. We conclude that their applicability is limited not by large R, but rather by quasi-two-dimensionality.

  11. Mean field theory of directed polymers with random complex weights

    NASA Astrophysics Data System (ADS)

    Derrida, B.; Evans, M. R.; Speer, E. R.

    1993-09-01

    We show that for the problem of directed polymers on a tree with i.i.d. random complex weights on each bond, three possible phases can exist; the phase of a particular system is determined by the distribution ρ of the random weights. For each of these three phases, we give the expression of the free energy per unit length in the limit of infinitely long polymers. Our proofs require several hypotheses on the distribution ρ, most importantly, that the amplitude and the phase of each complex weight be statistically independent. The main steps of our proofs use bounds on noninteger moments of the partition function and self averaging properties of the free energy. We illustrate our results by some examples and discuss possible generalizations to a larger class of distributions, to Random Energy Models, and to the finite dimensional case. We note that our results are not in agreement with the predictions of a recent replica approach to a similar problem.

  12. Fernique-type inequalities and moduli of continuity for anisotropic Gaussian random fields

    PubMed Central

    Meerschaert, Mark M.; Wang, Wensheng; Xiao, Yimin

    2013-01-01

    This paper is concerned with sample path properties of anisotropic Gaussian random fields. We establish Fernique-type inequalities and utilize them to study the global and local moduli of continuity for anisotropic Gaussian random fields. Applications to fractional Brownian sheets and to the solutions of stochastic partial differential equations are investigated. PMID:24825922

  13. Magnetic-field-dependent small-angle neutron scattering on random anisotropy ferromagnets

    NASA Astrophysics Data System (ADS)

    Michels, Andreas; Weissmüller, Jörg

    2008-06-01

    We report on the recently developed technique of magnetic-field-dependent small-angle neutron scattering (SANS), with attention to bulk ferromagnets exhibiting random magnetic anisotropy. In these materials, the various magnetic anisotropy fields (magnetocrystalline, magnetoelastic, and/or magnetostatic in origin) perturb the perfectly parallel spin alignment of the idealized ferromagnetic state. By varying the applied magnetic field, one can control one of the ordering terms which competes with the above-mentioned perturbing fields. Experiments which explore the ensuing reaction of the magnetization will therefore provide information not only on the field-dependent spin structure but, importantly, on the underlying magnetic interaction terms. This strategy, which underlies conventional studies of hysteresis loops in magnetometry, is here combined with magnetic SANS. While magnetometry generally records only a single scalar quantity, the integral magnetization, SANS provides access to a vastly richer data set, the Fourier spectrum of the response of the spin system as a function of the magnitude and orientation of the wave vector. The required data-analysis procedures have recently been established, and experiments on a number of magnetic materials, mostly nanocrystalline or nanocomposite metals, have been reported. Here, we summarize the theory of magnetic-field-dependent SANS along with the underlying description of random anisotropy magnets by micromagnetic theory. We review experiments which have explored the magnetic interaction parameters, the value of the exchange-stiffness constant as well as the Fourier components of the magnetic anisotropy field and of the magnetostatic stray field. A model-independent approach, based on the experimental autocorrelation function of the spin misalignment, provides access to the characteristic length of the spin misalignment. The field dependence of this quantity is in quantitative agreement with the predictions of

  14. Clustering, randomness, and regularity in cloud fields: 2. Cumulus cloud fields

    NASA Astrophysics Data System (ADS)

    Zhu, T.; Lee, J.; Weger, R. C.; Welch, R. M.

    1992-12-01

    During the last decade a major controversy has been brewing concerning the proper characterization of cumulus convection. The prevailing view has been that cumulus clouds form in clusters, in which cloud spacing is closer than that found for the overall cloud field and which maintains its identity over many cloud lifetimes. This "mutual protection hypothesis" of Randall and Huffman (1980) has been challenged by the "inhibition hypothesis" of Ramirez et al. (1990) which strongly suggests that the spatial distribution of cumuli must tend toward a regular distribution. A dilemma has resulted because observations have been reported to support both hypotheses. The present work reports a detailed analysis of cumulus cloud field spatial distributions based upon Landsat, Advanced Very High Resolution Radiometer, and Skylab data. Both nearest-neighbor and point-to-cloud cumulative distribution function statistics are investigated. The results show unequivocally that when both large and small clouds are included in the cloud field distribution, the cloud field always has a strong clustering signal. The strength of clustering is largest at cloud diameters of about 200-300 m, diminishing with increasing cloud diameter. In many cases, clusters of small clouds are found which are not closely associated with large clouds. As the small clouds are eliminated from consideration, the cloud field typically tends towards regularity. Thus it would appear that the "inhibition hypothesis" of Ramirez and Bras (1990) has been verified for the large clouds. However, these results are based upon the analysis of point processes. A more exact analysis also is made which takes into account the cloud size distributions. Since distinct clouds are by definition nonoverlapping, cloud size effects place a restriction upon the possible locations of clouds in the cloud field. The net effect of this analysis is that the large clouds appear to be randomly distributed, with only weak tendencies towards

  15. Magnetic Field Line Random Walk in Isotropic Turbulence with Varying Mean Field

    NASA Astrophysics Data System (ADS)

    Sonsrettee, W.; Subedi, P.; Ruffolo, D.; Matthaeus, W. H.; Snodin, A. P.; Wongpan, P.; Chuychai, P.; Rowlands, G.; Vyas, S.

    2016-08-01

    In astrophysical plasmas, the magnetic field line random walk (FLRW) plays an important role in guiding particle transport. The FLRW behavior is scaled by the Kubo number R=(b/{B}0)({{\\ell }}\\parallel /{{\\ell }}\\perp ) for rms magnetic fluctuation b, large-scale mean field {{\\boldsymbol{B}}}0, and coherence scales parallel ({{\\ell }}\\parallel ) and perpendicular ({{\\ell }}\\perp ) to {{\\boldsymbol{B}}}0. Here we use a nonperturbative analytic framework based on Corrsin’s hypothesis, together with direct computer simulations, to examine the R-scaling of the FLRW for varying B 0 with finite b and isotropic fluctuations with {{\\ell }}\\parallel /{{\\ell }}\\perp =1, instead of the well-studied route of varying {{\\ell }}\\parallel /{{\\ell }}\\perp for b \\ll {B}0. The FLRW for isotropic magnetic fluctuations is also of astrophysical interest regarding transport processes in the interstellar medium. With a mean field, fluctuations may have variance anisotropy, so we consider limiting cases of isotropic variance and transverse variance (with b z = 0). We obtain analytic theories, and closed-form solutions for extreme cases. Padé approximants are provided to interpolate all versions of theory and simulations to any B 0. We demonstrate that, for isotropic turbulence, Corrsin-based theories generally work well, and with increasing R there is a transition from quasilinear to Bohm diffusion. This holds even with b z = 0, when different routes to R\\to ∞ are mathematically equivalent; in contrast with previous studies, we find that a Corrsin-based theory with random ballistic decorrelation works well even up to R = 400, where the effects of trapping are barely perceptible in simulation results.

  16. Detection and characterization of regulatory elements using probabilistic conditional random field and hidden Markov models.

    PubMed

    Wang, Hongyan; Zhou, Xiaobo

    2013-04-01

    By altering the electrostatic charge of histones or providing binding sites to protein recognition molecules, Chromatin marks have been proposed to regulate gene expression, a property that has motivated researchers to link these marks to cis-regulatory elements. With the help of next generation sequencing technologies, we can now correlate one specific chromatin mark with regulatory elements (e.g. enhancers or promoters) and also build tools, such as hidden Markov models, to gain insight into mark combinations. However, hidden Markov models have limitation for their character of generative models and assume that a current observation depends only on a current hidden state in the chain. Here, we employed two graphical probabilistic models, namely the linear conditional random field model and multivariate hidden Markov model, to mark gene regions with different states based on recurrent and spatially coherent character of these eight marks. Both models revealed chromatin states that may correspond to enhancers and promoters, transcribed regions, transcriptional elongation, and low-signal regions. We also found that the linear conditional random field model was more effective than the hidden Markov model in recognizing regulatory elements, such as promoter-, enhancer-, and transcriptional elongation-associated regions, which gives us a better choice.

  17. Random field disorder and charge order driven quantum oscillations in cuprates

    NASA Astrophysics Data System (ADS)

    Russo, Antonio; Chakravarty, Sudip

    2016-03-01

    In the pseudogap regime of the cuprates, a period-2 charge order breaks a Z2 symmetry, reflecting a broken translational symmetry. Therefore, the interaction of charge order and quenched disorder due to potential scattering, can, in principle, be treated as a random field Ising model. A numerical analysis of the ground state of such a random field Ising model reveals local, glassy dynamics in both two and three dimensions. The dynamics are treated in the glassy limit as a heat bath which couples to the itinerant electrons, leading to an unusual electronic non-Fermi-liquid. If the dynamics are strong enough, the electron spectral function has no quasiparticle peak and the effective mass diverges at the Fermi surface, precluding quantum oscillations. In contrast to charge density, d -density wave order (reflecting staggered circulating currents) does not directly couple to potential disorder, allowing it to support quantum oscillations. At fourth order in Landau theory, there is a term consisting of the square of the d -density wave order parameter, and the square of the charge order. This coupling could induce parasitic charge order, which may be weak enough for the Fermi liquid behavior to remain uncorrupted. Here, we argue that this distinction must be made clear, as one interprets quantum oscillations in cuprates.

  18. Random field disorder and charge order driven quantum oscillations in cuprates

    NASA Astrophysics Data System (ADS)

    Russo, Antonio; Chakravarty, Sudip

    In the pseudogap regime of the cuprates, charge order breaks a ℤ2 symmetry. Therefore, the interaction of charge order and quenched disorder due to potential scattering, can, in principle, be treated as a random field Ising model. A numerical analysis of the ground state of such a random field Ising model reveals local, glassy dynamics in both 2 D and 3 D . The glassy dynamics are treated as a heat bath which couple to the itinerant electrons, leading to an unusual electronic non-Fermi liquid. If the dynamics are strong enough, the electron spectral function has no quasiparticle peak and the effective mass diverges at the Fermi surface, precluding quantum oscillations. In contrast to charge density, d-density wave order (reflecting staggered circulating currents) does not directly couple to potential disorder, allowing it to support quantum oscillations. At fourth order in Landau theory, there is a term consisting of the square of the d-density wave order parameter, and the square of the charge order. This coupling could induce parasitic charge order, which may be weak enough for the Fermi liquid behavior to remain uncorrupted. Here, we argue that this distinction must be made clear, as one interprets quantum oscillations in cuprates.

  19. The application of the Gibbs-Bogoliubov-Feynman inequality in mean field calculations for Markov random fields.

    PubMed

    Zhang, J

    1996-01-01

    The Gibbs-Bogoliubov-Feynman (GBF) inequality of statistical mechanics is adopted, with an information-theoretic interpretation, as a general optimization framework for deriving and examining various mean field approximations for Markov random fields (MRF's). The efficacy of this approach is demonstrated through the compound Gauss-Markov (CGM) model, comparisons between different mean field approximations, and experimental results in image restoration.

  20. Field assisted spin switching in magnetic random access memory

    NASA Astrophysics Data System (ADS)

    Jeong, W. C.; Park, J. H.; Oh, J. H.; Koh, G. H.; Jeong, G. T.; Jeong, H. S.; Kim, Kinam

    2006-04-01

    A switching method called by field assisted spin switching has been investigated. A field assisted spin switching consists of a metal line induced magnetic field and a spin switching through a magnetic tunnel junction. It is a variation of a current induced switching and assisted by the magnetic field induced by the current-carrying metal line. Various current paths have been tested to investigate how and how much the spin switching contributes to the overall switching and the results will be explained. A computer simulation has been complemented to measure the degree of the thermal effect in the switching.

  1. Combinatorial Markov Random Fields and Their Applications to Information Organization

    DTIC Science & Technology

    2008-02-01

    data clustering —the most important application of unsupervised learning—for which we give some necessary definitions and insights. 2.1 Markov Random...algorithm starts with data instances distributed over k clusters (where k is the desired number of clusters ) and reorga- nizes / updates the clusters ...its original ICM- based version. 4.5 Related work The study of distributional clustering based on co-occurrence data using informa- tion theoretic

  2. Charged Particle Diffusion in Isotropic Random Static Magnetic Fields

    NASA Astrophysics Data System (ADS)

    Subedi, P.; Sonsrettee, W.; Matthaeus, W. H.; Ruffolo, D. J.; Wan, M.; Montgomery, D.

    2013-12-01

    Study of the transport and diffusion of charged particles in a turbulent magnetic field remains a subject of considerable interest. Research has most frequently concentrated on determining the diffusion coefficient in the presence of a mean magnetic field. Here we consider Diffusion of charged particles in fully three dimensional statistically isotropic magnetic field turbulence with no mean field which is pertinent to many astrophysical situations. We classify different regions of particle energy depending upon the ratio of Larmor radius of the charged particle to the characteristic outer length scale of turbulence. We propose three different theoretical models to calculate the diffusion coefficient each applicable to a distinct range of particle energies. The theoretical results are compared with those from computer simulations, showing very good agreement.

  3. Charged Particle Diffusion in Isotropic Random Magnetic Fields

    NASA Astrophysics Data System (ADS)

    Subedi, P.; Sonsrettee, W.; Blasi, P.; Ruffolo, D.; Matthaeus, W. H.; Montgomery, D.; Chuychai, P.; Dmitruk, P.; Wan, M.; Parashar, T. N.; Chhiber, R.

    2017-03-01

    The investigation of the diffusive transport of charged particles in a turbulent magnetic field remains a subject of considerable interest. Research has most frequently concentrated on determining the diffusion coefficient in the presence of a mean magnetic field. Here we consider the diffusion of charged particles in fully three-dimensional isotropic turbulent magnetic fields with no mean field, which may be pertinent to many astrophysical situations. We identify different ranges of particle energy depending upon the ratio of Larmor radius to the characteristic outer length scale of turbulence. Two different theoretical models are proposed to calculate the diffusion coefficient, each applicable to a distinct range of particle energies. The theoretical results are compared to those from computer simulations, showing good agreement.

  4. Modulation of electromagnetic fields by a depolarizer of random polarizer array.

    PubMed

    Ma, Ning; Hanson, Steen G; Wang, Wei

    2016-05-01

    The statistical properties of the electric fields with random changes of the polarization state in space generated by a depolarizer are investigated on the basis of the coherence matrix. The depolarizer is a polarizer array composed of a multitude of contiguous square cells of polarizers with randomly distributed polarization angles, where the incident fields experience a random polarization modulation after passing through the depolarizer. The propagation of the modulated electric fields through any quadratic optical system is examined within the framework of the complex ABCD matrix to show how the degree of coherence and the degree of polarization change on propagation.

  5. Spatio-temporal contextual classification based on Markov random field model. [for thematic mapping

    NASA Technical Reports Server (NTRS)

    Jeon, Byeungwoo; Landgrebe, D. A.

    1991-01-01

    A contextural classifier based on a Markov random field model, which can utilize both spatial and temporal contexts, is investigated. Spatial and temporal neighbors are defined, and the class assignment of each pixel is assumed to be dependent only on the measurement vectors of itself and those of its spatial and temporal neighbors according to the Markov random field property. Only interpixel class dependency context is used in the classification. The joint prior probability of the classes of each pixel and its spatial and temporal neighbors are modeled by a Gibbs random field. The classification is performed in a recursive manner. Experiments with multi-temporal Thematic Mapper data show promising results.

  6. Nonstationary elementary-field light randomly triggered by Poisson impulses.

    PubMed

    Fernández-Pousa, Carlos R

    2013-05-01

    A stochastic theory of nonstationary light describing the random emission of elementary pulses is presented. The emission is governed by a nonhomogeneous Poisson point process determined by a time-varying emission rate. The model describes, in the appropriate limits, stationary, cyclostationary, locally stationary, and pulsed radiation, and reduces to a Gaussian theory in the limit of dense emission rate. The first- and second-order coherence theories are solved after the computation of second- and fourth-order correlation functions by use of the characteristic function. The ergodicity of second-order correlations under various types of detectors is explored and a number of observables, including optical spectrum, amplitude, and intensity correlations, are analyzed.

  7. Long term field evaluation reveals HLB resistance in Citrus relatives

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Citrus huanglongbing (HLB) is a destructive disease with no known cure. To identify sources of HLB resistance in the subfamily Aurantioideae to which citrus belongs, we conducted a six-year field trial under natural disease challenge conditions in an HLB endemic region. The study included 65 Citrus ...

  8. Barkhausen noise in the Random Field Ising Magnet NdFeB

    NASA Astrophysics Data System (ADS)

    Xu, Jian; Silevitch, Daniel; Rosenbaum, Thomas

    2015-03-01

    With the application of a magnetic field transverse to the magnetic easy axis, sintered blocks of the rare-earth ferromagnet Nd2Fe14B form a realization of the Random-Field Ising Model at room temperature. We study domain reversal and avalanche dynamics through an analysis of the Barkhausen noise. Power-law behavior with a cutoff is observed in the avalanche energy spectrum, consistent with theoretical predictions for disordered materials. Two regimes of behavior are found, one at low temperature and high transverse field where the system shows behavior consistent with randomness-dominated dynamics, and a high-temperature, low-transverse-field regime in which thermal fluctuations dominate the dynamics. In the randomness-dominated regime, the critical exponents are consistent with mean-field predictions for heavily disordered system, whereas in the thermal-fluctuation regime, the critical exponents differ substantially from the mean-field predictions.

  9. Statistical properties of the Fraunhofer diffraction field produced by random fractals.

    PubMed

    Uno, K; Uozumi, J; Asakura, T

    1993-05-20

    First-order statistical properties of the speckle field and its intensity in the Fraunhofer diffraction region that is produced by random Koch fractals are investigated by means of computer simulations in comparison with the ordinary fully developed speckle.

  10. Mean-field magnetohydrodynamics associated with random Alfven waves in a plasma with weak magnetic diffusion

    NASA Astrophysics Data System (ADS)

    Hamabata, Hiromitsu; Namikawa, Tomikazu

    1988-02-01

    Using first-order smoothing theory, Fourier analysis and perturbation methods, a new equation is derived governing the evolution of the spectrum tensor (including the energy and helicity spectrum functions) of the random velocity field as well as the ponderomotive and mean electromotive forces generated by random Alfven waves in a plasma with weak magnetic diffusion. The ponderomotive and mean electromotive forces are expressed as series involving spatial derivatives of mean magnetic and velocity fields whose coefficients are associated with the helicity spectrum function of the random velocity field. The effect of microscale random Alfven waves, through ponderomotive and mean electromotive forces generated by them, on the propagation of large-scale Alfven waves is also investigated by solving the mean-field equations, including the transport equation of the helicity spectrum function.

  11. Synchronization in the random-field Kuramoto model on complex networks

    NASA Astrophysics Data System (ADS)

    Lopes, M. A.; Lopes, E. M.; Yoon, S.; Mendes, J. F. F.; Goltsev, A. V.

    2016-07-01

    We study the impact of random pinning fields on the emergence of synchrony in the Kuramoto model on complete graphs and uncorrelated random complex networks. We consider random fields with uniformly distributed directions and homogeneous and heterogeneous (Gaussian) field magnitude distribution. In our analysis, we apply the Ott-Antonsen method and the annealed-network approximation to find the critical behavior of the order parameter. In the case of homogeneous fields, we find a tricritical point above which a second-order phase transition gives place to a first-order phase transition when the network is either fully connected or scale-free with the degree exponent γ >5 . Interestingly, for scale-free networks with 2 <γ ≤5 , the phase transition is of second-order at any field magnitude, except for degree distributions with γ =3 when the transition is of infinite order at Kc=0 independent of the random fields. Contrary to the Ising model, even strong Gaussian random fields do not suppress the second-order phase transition in both complete graphs and scale-free networks, although the fields increase the critical coupling for γ >3 . Our simulations support these analytical results.

  12. Effect of random field disorder on the first order transition in p-spin interaction model

    NASA Astrophysics Data System (ADS)

    Sumedha; Singh, Sushant K.

    2016-01-01

    We study the random field p-spin model with Ising spins on a fully connected graph using the theory of large deviations in this paper. This is a good model to study the effect of quenched random field on systems which have a sharp first order transition in the pure state. For p = 2, the phase-diagram of the model, for bimodal distribution of the random field, has been well studied and is known to undergo a continuous transition for lower values of the random field (h) and a first order transition beyond a threshold, htp(≈ 0.439) . We find the phase diagram of the model, for all p ≥ 2, with bimodal random field distribution, using large deviation techniques. We also look at the fluctuations in the system by calculating the magnetic susceptibility. For p = 2, beyond the tricritical point in the regime of first order transition, we find that for htp < h < 0.447, magnetic susceptibility increases rapidly (even though it never diverges) as one approaches the transition from the high temperature side. On the other hand, for 0.447 < h ≤ 0.5, the high temperature behaviour is well described by the Curie-Weiss law. For all p ≥ 2, we find that for larger magnitudes of the random field (h >ho = 1 / p!), the system does not show ferromagnetic order even at zero temperature. We find that the magnetic susceptibility for p ≥ 3 is discontinuous at the transition point for h

  13. Cauchy-Laguerre Two-Matrix Model and the Meijer-G Random Point Field

    NASA Astrophysics Data System (ADS)

    Bertola, M.; Gekhtman, M.; Szmigielski, J.

    2014-02-01

    We apply the general theory of Cauchy biorthogonal polynomials developed in Bertola et al. (Commun Math Phys 287(3):983-1014, 2009) and Bertola et al. (J Approx Th 162(4):832-867, 2010) to the case associated with Laguerre measures. In particular, we obtain explicit formulae in terms of Meijer-G functions for all key objects relevant to the study of the corresponding biorthogonal polynomials and the Cauchy two-matrix model associated with them. The central theorem we prove is that a scaling limit of the correlation functions for eigenvalues near the origin exists, and is given by a new determinantal two-level random point field, the Meijer-G random field. We conjecture that this random point field leads to a novel universality class of random fields parametrized by exponents of Laguerre weights. We express the joint distributions of the smallest eigenvalues in terms of suitable Fredholm determinants and evaluate them numerically. We also show that in a suitable limit, the Meijer-G random field converges to the Bessel random field and hence the behavior of the eigenvalues of one of the two matrices converges to the one of the Laguerre ensemble.

  14. Random walk study of electron motion in helium in crossed electromagnetic fields

    NASA Technical Reports Server (NTRS)

    Englert, G. W.

    1972-01-01

    Random walk theory, previously adapted to electron motion in the presence of an electric field, is extended to include a transverse magnetic field. In principle, the random walk approach avoids mathematical complexity and concomitant simplifying assumptions and permits determination of energy distributions and transport coefficients within the accuracy of available collisional cross section data. Application is made to a weakly ionized helium gas. Time of relaxation of electron energy distribution, determined by the random walk, is described by simple expressions based on energy exchange between the electron and an effective electric field. The restrictive effect of the magnetic field on electron motion, which increases the required number of collisions per walk to reach a terminal steady state condition, as well as the effect of the magnetic field on electron transport coefficients and mean energy can be quite adequately described by expressions involving only the Hall parameter.

  15. Flexible Representation of Spatio-Temporal Random Fields in the Model Web

    NASA Astrophysics Data System (ADS)

    Gräler, B.; Stasch, C.

    2012-04-01

    The Model Web envisions an infrastructure for coupling environmental models in the Web. In environmental sciences, the phenomena of interest are usually not well-bounded objects, but rather continuous phenomena in space and time. These phenomena are commonly referred to as spatial or spatio-temporal fields and are often modelled as random variables. Currently, spatio-temporal fields are usually represented and exchanged as raster data. Besides the communication overhead this imposes, exchanging rasters has also other drawbacks. For example, the interpolation method used to calculate the raster values as well as the original observations the raster originates from are usually not part of the resulting data. Furthermore, the interpolated values are commonly single moment estimates of the random variables such as their expectation values. Thus, the natural randomness in the interpolated variables and interpolation uncertainties are also not available any more after interpolation. We propose a new model for exchanging spatio-temporal random fields as the original sample data plus information about the model of spatial or spatio-temporal variance describing the random field. This allows to communicate the complete random variables and their associated uncertainties opposed to single estimates. In addition, this approach suggests a particular interpolation method to calculate rasters from the field. The desired raster resolution and projection can then be chosen by the user of the field data. This is advantageous to the classical approach, as transformations between coordinate reference systems typically distort the given raster and changing the raster's resolution usually imposes a second model assumption on the interpolated field data. Using a standardized language to describe spatio-temporal random fields allows for a fully machine readable approach. Depending on the target application, one can thus easily obtain one to several simulations of the field reflecting its

  16. Effective realization of random magnetic fields in compounds with large single-ion anisotropy

    NASA Astrophysics Data System (ADS)

    Herbrych, J.; Kokalj, J.

    2017-03-01

    We show that spin S =1 system with large and random single-ion anisotropy can be at low energies mapped to a S =1 /2 system with random magnetic fields. This is, for example, realized in Ni (Cl1 -xBrx)2-4 SC (NH2)2 compound (DTNX) and therefore it represents a long-sought realization of random local (on-site) magnetic fields in antiferromagnetic systems. We support the mapping by numerical study of S =1 and effective S =1 /2 anisotropic Heisenberg chains and find excellent agreement for static quantities and also for the spin conductivity. Such systems can therefore be used to study the effects of local random magnetic fields on transport properties.

  17. Metastable minima of the Heisenberg spin glass in a random magnetic field

    NASA Astrophysics Data System (ADS)

    Sharma, Auditya; Yeo, Joonhyun; Moore, M. A.

    2016-11-01

    We have studied zero-temperature metastable minima in classical m -vector component spin glasses in the presence of m -component random fields for two models, the Sherrington-Kirkpatrick (SK) model and the Viana-Bray (VB) model. For the SK model we have calculated analytically its complexity (the log of the number of minima) for both the annealed case where one averages the number of minima before taking the log and the quenched case where one averages the complexity itself, both for fields above and below the de Almeida-Thouless (AT) field, which is finite for m >2 . We have done numerical quenches starting from a random initial state (infinite temperature state) by putting spins parallel to their local fields until there is no further decrease of the energy and found that in zero field it always produces minima that have zero overlap with each other. For the m =2 and m =3 cases in the SK model the final energy reached in the quench is very close to the energy Ec at which the overlap of the states would acquire replica symmetry-breaking features. These minima have marginal stability and will have long-range correlations between them. In the SK limit we have analytically studied the density of states ρ (λ ) of the Hessian matrix in the annealed approximation. Despite the fact that in the presence of a random field there are no continuous symmetries, the spectrum extends down to zero with the usual √{λ } form for the density of states for fields below the AT field. However, when the random field is larger than the AT field, there is a gap in the spectrum, which closes up as the AT field is approached. The VB model behaves differently and seems rather similar to studies of the three-dimensional Heisenberg spin glass in a random vector field.

  18. Field transplants reveal summer constraints on a butterfly range expansion.

    PubMed

    Crozier, Lisa G

    2004-09-01

    The geographic ranges of most species are expected to shift to higher elevations and latitudes in response to global warming. But species react to specific environmental changes in individualistic ways, and we are far from a detailed understanding of range-shifts. Summer temperature often limits the ranges of insects and plants, so many range-shifts are expected to track summer warming. I explore this potential range-limiting factor in a case study of a northwardly expanding American butterfly, Atalopedes campestris (Lepidoptera, Hesperiidae). This species has recently colonized the Pacific Northwest, USA, where the mean annual temperature has risen 0.8-1.8 degrees C over the past 100 years. Using field transplant experiments across the current range edge, I measured development time, survivorship, fecundity and predation rates along a naturally occurring thermal gradient of 3 degrees C. Development time was significantly slower outside the current range in eastern Washington (WA), as expected because of cooler temperatures there. Slower development would reduce the number of generations possible per year outside the current range, dramatically lowering the probability that a population could survive there. Differences in survivorship, fecundity and predation rate across the range edge were not significant. The interaction between summer and winter temperature appears to be crucial in defining the current range limit. The estimated difference in temperature required to affect the number of generations is greater than the extent of summer warming observed over the past century, however, and thus historically winter temperature alone probably limited the range in southeastern WA. Nonetheless, extraordinarily warm summers may have improved colonization success, increasing the probability of a range expansion. These results suggest that extreme climatic events may influence rates of response to long-term climate change. They also demonstrate that range-limiting factors

  19. A flash-drag effect in random motion reveals involvement of preattentive motion processing.

    PubMed

    Fukiage, Taiki; Whitney, David; Murakami, Ikuya

    2011-11-11

    The flash-drag (FDE) effect refers to the phenomenon in which the position of a stationary flashed object in one location appears shifted in the direction of nearby motion. Over the past decade, it has been debated how bottom-up and top-down processes contribute to this illusion. In this study, we demonstrate that randomly phase-shifting gratings can produce the FDE. In the random motion sequence we used, the FDE inducer (a sinusoidal grating) jumped to a random phase every 125 ms and stood still until the next jump. Because this random sequence could not be tracked attentively, it was impossible for the observer to discern the jump direction at the time of the flash. By sorting the data based on the flash's onset time relative to each jump time in the random motion sequence, we found that a large FDE with a broad temporal tuning occurred around 50 to 150 ms before the jump and that this effect was not correlated with any other jumps in the past or future. These results suggest that as few as two frames of unpredictable apparent motion can preattentively cause the FDE with a broad temporal tuning.

  20. Phase diagram of the classical Heisenberg model in a trimodal random field distribution

    NASA Astrophysics Data System (ADS)

    Santos-Filho, A.; Albuquerque, D. F. de; Santos-Filho, J. B.; Batista, T. S. Araujo

    2016-11-01

    The classical spin 1 / 2 Heisenberg model on a simple cubic lattice, with fluctuating bond interactions between nearest neighbors and in the presence of a random magnetic field, is investigated by effective field theory based on two-spin cluster. The random field is drawn from the asymmetric and anisotropic trimodal probability distribution. The fluctuating bond is extracted from the symmetric and anisotropic bimodal probability. We estimate the transition temperatures, and the phase diagram in the Tc- h, Tc- p and Tc - α planes. We observe that the temperature of the tricritical point decreases with the increase of disorder in exchange interactions until the system ceases to display tricritical behavior. The disorder of the interactions and reentrant phenomena depends on the trimodal distribution of the random field.

  1. Spectral degree of coherence of a random three-dimensional electromagnetic field.

    PubMed

    Korotkova, Olga; Wolf, Emil

    2004-12-01

    The complex spectral degree of coherence of a general random, statistically stationary electromagnetic field is introduced in a manner similar to the way it is defined for a beamlike field, namely, by means of Young's interference experiment. Both its modulus and its phase are measurable. We illustrate the definition by applying it to blackbody radiation emerging from a cavity. The results are of particular interest for near-field optics.

  2. On the concept of random orientation in far-field electromagnetic scattering by nonspherical particles.

    PubMed

    Mishchenko, Michael I; Yurkin, Maxim A

    2017-02-01

    Although the model of randomly oriented nonspherical particles has been used in a great variety of applications of far-field electromagnetic scattering, it has never been defined in strict mathematical terms. In this Letter, we use the formalism of Euler rigid-body rotations to clarify the concept of statistically random particle orientations and derive its immediate corollaries in the form of the most general mathematical properties of the orientation-averaged extinction and scattering matrices. Our results serve to provide a rigorous mathematical foundation for numerous publications in which the notion of randomly oriented particles and its light-scattering implications have been considered intuitively obvious.

  3. The Effect of the Random Magnetic Field Component on the Parker Instability

    NASA Astrophysics Data System (ADS)

    Kim, Jongsoo; Ryu, Dongsu

    2001-11-01

    The Parker instability is considered to play important roles in the evolution of the interstellar medium. Most studies on the development of the instability so far have been based on an initial equilibrium system with a uniform magnetic field. However, the Galactic magnetic field possesses a random component in addition to the mean uniform component, with comparable strength of the two components. Parker and Jokipii have recently suggested that the random component can suppress the growth of small wavelength perturbations. Here we extend their analysis by including gas pressure, which was ignored in their work, and study the stabilizing effect of the random component in the interstellar gas with finite pressure. Following Parker and Jokipii, we model the magnetic field as a mean azimuthal component, B(z), plus a random radial component, ɛ(z)B(z), where ɛ(z) is a random function of height from the equatorial plane. We show that for the observationally suggested values of <ɛ2>1/2, the tension due to the random component becomes important, so that the growth of the instability is either significantly reduced or completely suppressed. When the instability still works, the radial wavenumber of the most unstable mode is found to be zero. That is, the instability is reduced to be effectively two-dimensional. We discuss briefly the implications of our finding.

  4. First excitations in two- and three-dimensional random-field Ising systems

    NASA Astrophysics Data System (ADS)

    Zumsande, M.; Alava, M. J.; Hartmann, A. K.

    2008-02-01

    We present results on the first excited states for the random-field Ising model. These are based on an exact algorithm, with which we study the excitation energies and the excitation sizes for two- and three-dimensional random-field Ising systems with a Gaussian distribution of the random fields. Our algorithm is based on an approach of Frontera and Vives which, in some cases, does not yield the true first excited states. Using the corrected algorithm, we find that the order disorder phase transition for three dimensions is visible via crossings of the excitation energy curves for different system sizes, while in two dimensions these crossings converge to zero disorder. Furthermore, we obtain in three dimensions a fractal dimension of the excitation cluster of ds = 2.42(2). We also provide analytical droplet arguments to understand the behavior of the excitation energies for small and large disorder as well as close to the critical point.

  5. Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells.

    PubMed

    Deng, Qiaolin; Ramsköld, Daniel; Reinius, Björn; Sandberg, Rickard

    2014-01-10

    Expression from both alleles is generally observed in analyses of diploid cell populations, but studies addressing allelic expression patterns genome-wide in single cells are lacking. Here, we present global analyses of allelic expression across individual cells of mouse preimplantation embryos of mixed background (CAST/EiJ × C57BL/6J). We discovered abundant (12 to 24%) monoallelic expression of autosomal genes and that expression of the two alleles occurs independently. The monoallelic expression appeared random and dynamic because there was considerable variation among closely related embryonic cells. Similar patterns of monoallelic expression were observed in mature cells. Our allelic expression analysis also demonstrates the de novo inactivation of the paternal X chromosome. We conclude that independent and stochastic allelic transcription generates abundant random monoallelic expression in the mammalian cell.

  6. Automated torso organ segmentation from 3D CT images using conditional random field

    NASA Astrophysics Data System (ADS)

    Nimura, Yukitaka; Hayashi, Yuichiro; Kitasaka, Takayuki; Misawa, Kazunari; Mori, Kensaku

    2016-03-01

    This paper presents a segmentation method for torso organs using conditional random field (CRF) from medical images. A lot of methods have been proposed to enable automated extraction of organ regions from volumetric medical images. However, it is necessary to adjust empirical parameters of them to obtain precise organ regions. In this paper, we propose an organ segmentation method using structured output learning which is based on probabilistic graphical model. The proposed method utilizes CRF on three-dimensional grids as probabilistic graphical model and binary features which represent the relationship between voxel intensities and organ labels. Also we optimize the weight parameters of the CRF using stochastic gradient descent algorithm and estimate organ labels for a given image by maximum a posteriori (MAP) estimation. The experimental result revealed that the proposed method can extract organ regions automatically using structured output learning. The error of organ label estimation was 6.6%. The DICE coefficients of right lung, left lung, heart, liver, spleen, right kidney, and left kidney are 0.94, 0.92, 0.65, 0.67, 0.36, 0.38, and 0.37, respectively.

  7. Far-field errors due to random noise in cylindrical near-field measurements

    NASA Astrophysics Data System (ADS)

    Romeu, Jordi; Jofre, Luis; Cardama, Angel

    1992-01-01

    A full characterization of the far-field noise obtained from cylindrical near- to far-field transformation, for a white Gaussian, space stationary, near-field noise is derived. A possible source for such noise is the receiver additive noise. The noise characterization is done by obtaining the autocorrelation of the far-field noise, which is shown to be easily computed during the transformation process. Even for this simple case, the far-field noise has complex behavior dependent on the measurement probe. Once the statistical properties of the far-field noise are determined, it is possible to compute upper and lower bounds for the radiation pattern for a given probability. These bounds define a strip within the radiation pattern with the desired probability. This may be used as part of a complete near-field error analysis of a particular cylindrical near-field facility.

  8. Dynamics of Crowd Behaviors: From Complex Plane to Quantum Random Fields

    NASA Astrophysics Data System (ADS)

    Ivancevic, Vladimir G.; Reid, Darryn J.

    2015-11-01

    The following sections are included: * Complex Plane Dynamics of Crowds and Groups * Introduction * Complex-Valued Dynamics of Crowd and Group Behaviors * Kähler Geometry of Crowd and Group Dynamics * Computer Simulations of Crowds and Croups Dynamics * Braids of Agents' Behaviors in the Complex Plane * Hilbert-Space Control of Crowds and Groups Dynamics * Quantum Random Fields: A Unique Framework for Simulation, Optimization, Control and Learning * Introduction * Adaptive Quantum Oscillator * Optimization and Learning on Banach and Hilbert Spaces * Appendix * Complex-Valued Image Processing * Linear Integral Equations * Riemann-Liouville Fractional Calculus * Rigorous Geometric Quantization * Supervised Machine-Learning Methods * First-Order Logic and Quantum Random Fields

  9. Object-based Conditional Random Fields for Road Extraction from Remote Sensing Image

    NASA Astrophysics Data System (ADS)

    Huang, Zhijian; Xu, Fanjiang; Lu, Lei; Nie, Hongshan

    2014-03-01

    To make full use of spatially contextual information and topological information in the procedure of Object-based Image Analysis (OBIA), an object-based conditional random field is proposed and used for road extraction. Objects are produced with an initial segmentation, then their neighbours are constructed. Each object is represented by three kinds of features, including the colour, the gradient of histogram and the texture. Formulating the road extraction as a binary classification problem, a Conditional Random Fields model learns and is used for inference. The experimental results demonstrate that the proposed method is effective.

  10. Analysis of spanning avalanches in the two-dimensional nonequilibrium zero-temperature random-field Ising model.

    PubMed

    Spasojević, Djordje; Janićević, Sanja; Knežević, Milan

    2014-01-01

    We present a numerical analysis of spanning avalanches in a two-dimensional (2D) nonequilibrium zero-temperature random field Ising model. Finite-size scaling analysis, performed for distribution of the average number of spanning avalanches per single run, spanning avalanche size distribution, average size of spanning avalanche, and contribution of spanning avalanches to magnetization jump, is augmented by analysis of spanning field (i.e., field triggering spanning avalanche), which enabled us to collapse averaged magnetization curves below critical disorder. Our study, based on extensive simulations of sufficiently large systems, reveals the dominant role of subcritical 2D-spanning avalanches in model behavior below and at the critical disorder. Other types of avalanches influence finite systems, but their contribution for large systems remains small or vanish.

  11. MRI-related static magnetic stray fields and postural body sway: a double-blind randomized crossover study.

    PubMed

    van Nierop, Lotte E; Slottje, Pauline; Kingma, Herman; Kromhout, Hans

    2013-07-01

    We assessed postural body sway performance after exposure to movement induced time-varying magnetic fields in the static magnetic stray field in front of a 7 Tesla (T) magnetic resonance imaging scanner. Using a double blind randomized crossover design, 30 healthy volunteers performed two balance tasks (i.e., standing with eyes closed and feet in parallel and then in tandem position) after standardized head movements in a sham, low exposure (on average 0.24 T static magnetic stray field and 0.49 T·s(-1) time-varying magnetic field) and high exposure condition (0.37 T and 0.70 T·s(-1)). Personal exposure to static magnetic stray fields and time-varying magnetic fields was measured with a personal dosimeter. Postural body sway was expressed in sway path, area, and velocity. Mixed-effects model regression analysis showed that postural body sway in the parallel task was negatively affected (P < 0.05) by exposure on all three measures. The tandem task revealed the same trend, but did not reach statistical significance. Further studies are needed to investigate the possibility of independent or synergetic effects of static magnetic stray field and time-varying magnetic field exposure. In addition, practical safety implications of these findings, e.g., for surgeons and others working near magnetic resonance imaging scanners need to be investigated.

  12. Anisotropic four-state clock model in the presence of random fields

    NASA Astrophysics Data System (ADS)

    Salmon, Octavio D. Rodriguez; Nobre, Fernando D.

    2016-02-01

    A four-state clock ferromagnetic model is studied in the presence of different configurations of anisotropies and random fields. The model is considered in the limit of infinite-range interactions, for which the mean-field approach becomes exact. Both representations of Cartesian spin components and two Ising variables are used, in terms of which the physical properties and phase diagrams are discussed. The random fields follow bimodal probability distributions and the richest criticality is found when the fields, applied in the two Ising systems, are not correlated. The phase diagrams present new interesting topologies, with a wide variety of critical points, which are expected to be useful in describing different complex phenomena.

  13. Low-altitude magnetic field measurements by MESSENGER reveal Mercury’s ancient crustal field

    NASA Astrophysics Data System (ADS)

    Johnson, Catherine L.; Phillips, Roger J.; Purucker, Michael E.; Anderson, Brian J.; Byrne, Paul K.; Denevi, Brett W.; Feinberg, Joshua M.; Hauck, Steven A.; Head, James W.; Korth, Haje; James, Peter B.; Mazarico, Erwan; Neumann, Gregory A.; Philpott, Lydia C.; Siegler, Matthew A.; Tsyganenko, Nikolai A.; Solomon, Sean C.

    2015-05-01

    Magnetized rocks can record the history of the magnetic field of a planet, a key constraint for understanding its evolution. From orbital vector magnetic field measurements of Mercury taken by the MErcury Surface, Space ENvironment, GEochemistry, and Ranging (MESSENGER) spacecraft at altitudes below 150 kilometers, we have detected remanent magnetization in Mercury’s crust. We infer a lower bound on the average age of magnetization of 3.7 to 3.9 billion years. Our findings indicate that a global magnetic field driven by dynamo processes in the fluid outer core operated early in Mercury’s history. Ancient field strengths that range from those similar to Mercury’s present dipole field to Earth-like values are consistent with the magnetic field observations and with the low iron content of Mercury’s crust inferred from MESSENGER elemental composition data.

  14. Planetary science. Low-altitude magnetic field measurements by MESSENGER reveal Mercury's ancient crustal field.

    PubMed

    Johnson, Catherine L; Phillips, Roger J; Purucker, Michael E; Anderson, Brian J; Byrne, Paul K; Denevi, Brett W; Feinberg, Joshua M; Hauck, Steven A; Head, James W; Korth, Haje; James, Peter B; Mazarico, Erwan; Neumann, Gregory A; Philpott, Lydia C; Siegler, Matthew A; Tsyganenko, Nikolai A; Solomon, Sean C

    2015-05-22

    Magnetized rocks can record the history of the magnetic field of a planet, a key constraint for understanding its evolution. From orbital vector magnetic field measurements of Mercury taken by the MErcury Surface, Space ENvironment, GEochemistry, and Ranging (MESSENGER) spacecraft at altitudes below 150 kilometers, we have detected remanent magnetization in Mercury's crust. We infer a lower bound on the average age of magnetization of 3.7 to 3.9 billion years. Our findings indicate that a global magnetic field driven by dynamo processes in the fluid outer core operated early in Mercury's history. Ancient field strengths that range from those similar to Mercury's present dipole field to Earth-like values are consistent with the magnetic field observations and with the low iron content of Mercury's crust inferred from MESSENGER elemental composition data.

  15. Nonequilibrium random-field Ising model on a diluted triangular lattice.

    PubMed

    Kurbah, Lobisor; Thongjaomayum, Diana; Shukla, Prabodh

    2015-01-01

    We study critical hysteresis in the random-field Ising model on a two-dimensional periodic lattice with a variable coordination number z(eff) in the range 3≤z(eff)≤6. We find that the model supports critical behavior in the range 4field.

  16. Disorder fingerprint: Intensity distributions in the near field of random media

    NASA Astrophysics Data System (ADS)

    Naraghi, R. Rezvani; Sukhov, S.; Dogariu, A.

    2016-11-01

    The structural morphology of complex dielectric media determines their functionalities by driving the statistical properties of the electromagnetic fields. Our controlled experiments and full electromagnetic calculations that go beyond common dipolar approximations demonstrate that the specific characteristics of disorder lead to non-Rayleigh statistics of detected intensity, which can be directly accessed in the near field of random media and can be unambiguously related to the short-range correlations of disorder.

  17. Stochastic Simulation Techniques for Partition Function Approximation of Gibbs Random Field Images

    DTIC Science & Technology

    1991-06-01

    of Physics C : Solid State Physics , vol. 10, pp. 1379-1388, 1977. [10] F.S. Cohen, "Markov random fields for image modeling and analysis." In Modeling...disorder," Journal of Applied Crystallography, vol. 6, pp. 87-96, 1973. [9] I.G. Enting, "Crystal growth models and Ising models: Disorder points," Journal

  18. Halting the Summer Achievement Slide: A Randomized Field Trial of the KindergARTen Summer Camp

    ERIC Educational Resources Information Center

    Borman, Geoffrey D.; Goetz, Michael E.; Dowling, N. Maritza

    2009-01-01

    In this randomized field trial of KindergARTen Camp, a 6-week summer enrichment program in literacy and the fine arts, we analyzed the summer learning outcomes of 93 treatment and 35 control students from high-poverty schools in Baltimore, Maryland. This experiment offers evidence concerning the causal effect of the program on 5 measures of…

  19. Analysis of a model for transport of charged particles in a random magnetic field

    NASA Technical Reports Server (NTRS)

    Hanson, F. B.; Ramanathan, G. V.; Klimas, A.; Sandri, G.

    1973-01-01

    A model for the transport of charged particles in a random magnetic field is a Volterra integrodifferential equation with a long-range kernel. The integrodifferential equation is solved numerically with the method of Bellman, Kalaba, and Lockett (1966). The results are shown to be in excellent agreement with analytical asymptotic results.-

  20. The Role of Treatment Fidelity on Outcomes during a Randomized Field Trial of an Autism Intervention

    ERIC Educational Resources Information Center

    Mandell, David S; Stahmer, Aubyn C; Shin, Sujie; Xie, Ming; Reisinger, Erica; Marcus, Steven C

    2013-01-01

    This randomized field trial comparing Strategies for Teaching based on Autism Research and Structured Teaching enrolled educators in 33 kindergarten-through-second-grade autism support classrooms and 119 students, aged 5-8 years in the School District of Philadelphia. Students were assessed at the beginning and end of the academic year using the…

  1. Thermal Non-equilibrium Revealed by Periodic Pulses of Random Amplitudes in Solar Coronal Loops

    NASA Astrophysics Data System (ADS)

    Auchère, F.; Froment, C.; Bocchialini, K.; Buchlin, E.; Solomon, J.

    2016-08-01

    We recently detected variations in extreme ultraviolet intensity in coronal loops repeating with periods of several hours. Models of loops including stratified and quasi-steady heating predict the development of a state of thermal non-equilibrium (TNE): cycles of evaporative upflows at the footpoints followed by falling condensations at the apex. Based on Fourier and wavelet analysis, we demonstrate that the observed periodic signals are indeed not signatures of vibrational modes. Instead, superimposed on the power law expected from the stochastic background emission, the power spectra of the time series exhibit the discrete harmonics and continua expected from periodic trains of pulses of random amplitudes. These characteristics reinforce our earlier interpretation of these pulsations as being aborted TNE cycles.

  2. Random transposon mutagenesis of the Saccharopolyspora erythraea genome reveals additional genes influencing erythromycin biosynthesis

    PubMed Central

    Fedashchin, Andrij; Cernota, William H.; Gonzalez, Melissa C.; Leach, Benjamin I.; Kwan, Noelle; Wesley, Roy K.; Weber, J. Mark

    2015-01-01

    A single cycle of strain improvement was performed in Saccharopolyspora erythraea mutB and 15 genotypes influencing erythromycin production were found. Genotypes generated by transposon mutagenesis appeared in the screen at a frequency of ∼3%. Mutations affecting central metabolism and regulatory genes were found, as well as hydrolases, peptidases, glycosyl transferases and unknown genes. Only one mutant retained high erythromycin production when scaled-up from micro-agar plug fermentations to shake flasks. This mutant had a knockout of the cwh1 gene (SACE_1598), encoding a cell-wall-associated hydrolase. The cwh1 knockout produced visible growth and morphological defects on solid medium. This study demonstrated that random transposon mutagenesis uncovers strain improvement-related genes potentially useful for strain engineering. PMID:26468041

  3. A theoretical study of the spin glass-Kondo-magnetic disordered alloys in the presence of a random field

    NASA Astrophysics Data System (ADS)

    Magalhaes, S. G.; Zimmer, F. M.; Coqblin, B.

    2012-12-01

    We study here the influence of a random applied magnetic field on the competition between the Kondo effect, the spin glass phase and a ferromagnetic order in disordered cerium systems such as CeNi1-xCux. The model used here takes an intrasite Kondo coupling and an intersite random coupling; both the intersite random coupling and the random magnetic field are described within the Sherrington-Kirkpatrick model and the one-step replica symmetry breaking procedure is also used here. We present phase diagrams giving Temperature versus the Kondo exchange parameter and the random magnetic field makes decrease particularly the importance of the spin glass and ferromagnetic phases.

  4. Markov random field models for directional field and singularity extraction in fingerprint images.

    PubMed

    Dass, Sarat C

    2004-10-01

    A Bayesian formulation is proposed for reliable and robust extraction of the directional field in fingerprint images using a class of spatially smooth priors. The spatial smoothness allows for robust directional field estimation in the presence of moderate noise levels. Parametric template models are suggested as candidate singularity models for singularity detection. The parametric models enable joint extraction of the directional field and the singularities in fingerprint impressions by dynamic updating of feature information. This allows for the detection of singularities that may have previously been missed, as well as better aligning the directional field around detected singularities. A criteria is presented for selecting an optimal block size to reduce the number of spurious singularity detections. The best rates of spurious detection and missed singularities given by the algorithm are 4.9% and 7.1%, respectively, based on the NIST 4 database.

  5. Controlling dispersion forces between small particles with artificially created random light fields.

    PubMed

    Brügger, Georges; Froufe-Pérez, Luis S; Scheffold, Frank; José Sáenz, Juan

    2015-06-22

    Appropriate combinations of laser beams can be used to trap and manipulate small particles with optical tweezers as well as to induce significant optical binding forces between particles. These interaction forces are usually strongly anisotropic depending on the interference landscape of the external fields. This is in contrast with the familiar isotropic, translationally invariant, van der Waals and, in general, Casimir-Lifshitz interactions between neutral bodies arising from random electromagnetic waves generated by equilibrium quantum and thermal fluctuations. Here we show, both theoretically and experimentally, that dispersion forces between small colloidal particles can also be induced and controlled using artificially created fluctuating light fields. Using optical tweezers as a gauge, we present experimental evidence for the predicted isotropic attractive interactions between dielectric microspheres induced by laser-generated, random light fields. These light-induced interactions open a path towards the control of translationally invariant interactions with tuneable strength and range in colloidal systems.

  6. Controlling dispersion forces between small particles with artificially created random light fields

    PubMed Central

    Brügger, Georges; Froufe-Pérez, Luis S.; Scheffold, Frank; José Sáenz, Juan

    2015-01-01

    Appropriate combinations of laser beams can be used to trap and manipulate small particles with optical tweezers as well as to induce significant optical binding forces between particles. These interaction forces are usually strongly anisotropic depending on the interference landscape of the external fields. This is in contrast with the familiar isotropic, translationally invariant, van der Waals and, in general, Casimir–Lifshitz interactions between neutral bodies arising from random electromagnetic waves generated by equilibrium quantum and thermal fluctuations. Here we show, both theoretically and experimentally, that dispersion forces between small colloidal particles can also be induced and controlled using artificially created fluctuating light fields. Using optical tweezers as a gauge, we present experimental evidence for the predicted isotropic attractive interactions between dielectric microspheres induced by laser-generated, random light fields. These light-induced interactions open a path towards the control of translationally invariant interactions with tuneable strength and range in colloidal systems. PMID:26096622

  7. Random crystal field effect on the magnetic and hysteresis behaviors of a spin-1 cylindrical nanowire

    NASA Astrophysics Data System (ADS)

    Zaim, N.; Zaim, A.; Kerouad, M.

    2017-02-01

    In this work, the magnetic behavior of the cylindrical nanowire, consisting of a ferromagnetic core of spin-1 atoms surrounded by a ferromagnetic shell of spin-1 atoms is studied in the presence of a random crystal field interaction. Based on Metropolis algorithm, the Monte Carlo simulation has been used to investigate the effects of the concentration of the random crystal field p, the crystal field D and the shell exchange interaction Js on the phase diagrams and the hysteresis behavior of the system. Some characteristic behaviors have been found, such as the first and second-order phase transitions joined by tricritical point for appropriate values of the system parameters, triple and isolated critical points can be also found. Depending on the Hamiltonian parameters, single, double and para hysteresis regions are explicitly determined.

  8. The dispersive evolution of charged-particle bunches in random magnetic fields

    NASA Technical Reports Server (NTRS)

    Earl, J. A.

    1985-01-01

    Shortly after a strongly anisotropic beam of charged particles is injected along a guiding magnetic field on which is superimposed a small random conponent, the particle density can be represented by a Gaussian profile whose center moves with the coherent velocity and whose width increases with time at a rate controlled by the coefficient of dispersion. Both parameters depend upon the mean free path, which characterizes scattering by the random fields, and the focusing length, which characterizes spatial variations of the guiding field. These dependencies are known explicitly for the coherent velocity. Formulae for coefficient of dispersion are available only in the limits of very weak and very strong focusing. A new expression for coefficient of dispersion, which spans this gap, is presented.

  9. Characterization of a random anisotropic conductivity field with Karhunen-Loeve methods

    SciTech Connect

    Cherry, Matthew R.; Sabbagh, Harold S.; Pilchak, Adam L.; Knopp, Jeremy S.

    2014-02-18

    While parametric uncertainty quantification for NDE models has been addressed in recent years, the problem of stochastic field parameters such as spatially distributed electrical conductivity has only been investigated minimally in the last year. In that work, the authors treated the field as a one-dimensional random process and Karhunen-Loeve methods were used to discretize this process to make it amenable to UQ methods such as ANOVA expansions. In the present work, we will treat the field as a two dimensional random process, and the eigenvalues and eigenfunctions of the integral operator will be determined via Galerkin methods. The Karhunen-Loeve methods is extended to two dimensions and implemented to represent this process. Several different choices for basis functions will be discussed, as well as convergence criteria for each. The methods are applied to correlation functions collected over electron backscatter data from highly micro textured Ti-7Al.

  10. Generalizing the wavelet-based multifractal formalism to random vector fields: application to three-dimensional turbulence velocity and vorticity data.

    PubMed

    Kestener, Pierre; Arneodo, Alain

    2004-07-23

    We use singular value decomposition techniques to generalize the wavelet transform modulus maxima method to the multifractal analysis of vector-valued random fields. The method is calibrated on synthetic multifractal 2D vector measures and monofractal 3D fractional Brownian vector fields. We report the results of some application to the velocity and vorticity fields issued from 3D isotropic turbulence simulations. This study reveals the existence of an intimate relationship between the singularity spectra of these two vector fields which are found significantly more intermittent than previously estimated from longitudinal and transverse velocity increment statistics.

  11. Methods for testing theory and evaluating impact in randomized field trials

    PubMed Central

    Brown, C. Hendricks; Wang, Wei; Kellam, Sheppard G.; Muthén, Bengt O.; Petras, Hanno; Toyinbo, Peter; Poduska, Jeanne; Ialongo, Nicholas; Wyman, Peter A.; Chamberlain, Patricia; Sloboda, Zili; MacKinnon, David P.; Windham, Amy

    2008-01-01

    Randomized field trials provide unique opportunities to examine the effectiveness of an intervention in real world settings and to test and extend both theory of etiology and theory of intervention. These trials are designed not only to test for overall intervention impact but also to examine how impact varies as a function of individual level characteristics, context, and across time. Examination of such variation in impact requires analytical methods that take into account the trial’s multiple nested structure and the evolving changes in outcomes over time. The models that we describe here merge multilevel modeling with growth modeling, allowing for variation in impact to be represented through discrete mixtures—growth mixture models—and nonparametric smooth functions—generalized additive mixed models. These methods are part of an emerging class of multilevel growth mixture models, and we illustrate these with models that examine overall impact and variation in impact. In this paper, we define intent-to-treat analyses in group-randomized multilevel field trials and discuss appropriate ways to identify, examine, and test for variation in impact without inflating the Type I error rate. We describe how to make causal inferences more robust to misspecification of covariates in such analyses and how to summarize and present these interactive intervention effects clearly. Practical strategies for reducing model complexity, checking model fit, and handling missing data are discussed using six randomized field trials to show how these methods may be used across trials randomized at different levels. PMID:18215473

  12. MODEL OF THE FIELD LINE RANDOM WALK EVOLUTION AND APPROACH TO ASYMPTOTIC DIFFUSION IN MAGNETIC TURBULENCE

    SciTech Connect

    Snodin, A. P.; Ruffolo, D.; Matthaeus, W. H. E-mail: david.ruf@mahidol.ac.th

    2013-01-01

    The turbulent random walk of magnetic field lines plays an important role in the transport of plasmas and energetic particles in a wide variety of astrophysical situations, but most theoretical work has concentrated on determination of the asymptotic field line diffusion coefficient. Here we consider the evolution with distance of the field line random walk using a general ordinary differential equation (ODE), which for most cases of interest in astrophysics describes a transition from free streaming to asymptotic diffusion. By challenging theories of asymptotic diffusion to also describe the evolution, one gains insight on how accurately they describe the random walk process. Previous theoretical work has effectively involved closure of the ODE, often by assuming Corrsin's hypothesis and a Gaussian displacement distribution. Approaches that use quasilinear theory and prescribe the mean squared displacement ({Delta}x {sup 2}) according to free streaming (random ballistic decorrelation, RBD) or asymptotic diffusion (diffusive decorrelation, DD) can match computer simulation results, but only over specific parameter ranges, with no obvious 'marker' of the range of validity. Here we make use of a unified description in which the ODE determines ({Delta}x {sup 2}) self-consistently, providing a natural transition between the assumptions of RBD and DD. We find that the minimum kurtosis of the displacement distribution provides a good indicator of whether the self-consistent ODE is applicable, i.e., inaccuracy of the self-consistent ODE is associated with non-Gaussian displacement distributions.

  13. Comparison of Haemophilus parasuis reference strains and field isolates by using random amplified polymorphic DNA and protein profiles

    PubMed Central

    2012-01-01

    Background Haemophilus parasuis is the causative agent of Glässer’s disease and is a pathogen of swine in high-health status herds. Reports on serotyping of field strains from outbreaks describe that approximately 30% of them are nontypeable and therefore cannot be traced. Molecular typing methods have been used as alternatives to serotyping. This study was done to compare random amplified polymorphic DNA (RAPD) profiles and whole cell protein (WCP) lysate profiles as methods for distinguishing H. parasuis reference strains and field isolates. Results The DNA and WCP lysate profiles of 15 reference strains and 31 field isolates of H. parasuis were analyzed using the Dice and neighbor joining algorithms. The results revealed unique and reproducible DNA and protein profiles among the reference strains and field isolates studied. Simpson’s index of diversity showed significant discrimination between isolates when three 10mer primers were combined for the RAPD method and also when both the RAPD and WCP lysate typing methods were combined. Conclusions The RAPD profiles seen among the reference strains and field isolates did not appear to change over time which may reflect a lack of DNA mutations in the genes of the samples. The recent field isolates had different WCP lysate profiles than the reference strains, possibly because the number of passages of the type strains may affect their protein expression. PMID:22703293

  14. Directed random walks and constraint programming reveal active pathways in hepatocyte growth factor signaling.

    PubMed

    Kittas, Aristotelis; Delobelle, Aurélien; Schmitt, Sabrina; Breuhahn, Kai; Guziolowski, Carito; Grabe, Niels

    2016-01-01

    An effective means to analyze mRNA expression data is to take advantage of established knowledge from pathway databases, using methods such as pathway-enrichment analyses. However, pathway databases are not case-specific and expression data could be used to infer gene-regulation patterns in the context of specific pathways. In addition, canonical pathways may not always describe the signaling mechanisms properly, because interactions can frequently occur between genes in different pathways. Relatively few methods have been proposed to date for generating and analyzing such networks, preserving the causality between gene interactions and reasoning over the qualitative logic of regulatory effects. We present an algorithm (MCWalk) integrated with a logic programming approach, to discover subgraphs in large-scale signaling networks by random walks in a fully automated pipeline. As an exemplary application, we uncover the signal transduction mechanisms in a gene interaction network describing hepatocyte growth factor-stimulated cell migration and proliferation from gene-expression measured with microarray and RT-qPCR using in-house perturbation experiments in a keratinocyte-fibroblast co-culture. The resulting subgraphs illustrate possible associations of hepatocyte growth factor receptor c-Met nodes, differentially expressed genes and cellular states. Using perturbation experiments and Answer Set programming, we are able to select those which are more consistent with the experimental data. We discover key regulator nodes by measuring the frequency with which they are traversed when connecting signaling between receptors and significantly regulated genes and predict their expression-shift consistently with the measured data. The Java implementation of MCWalk is publicly available under the MIT license at: https://bitbucket.org/akittas/biosubg.

  15. Tumor segmentation on FDG-PET: usefulness of locally connected conditional random fields

    NASA Astrophysics Data System (ADS)

    Nishio, Mizuho; Kono, Atsushi K.; Koyama, Hisanobu; Nishii, Tatsuya; Sugimura, Kazuro

    2015-03-01

    This study aimed to develop software for tumor segmentation on 18F-fluorodeoxyglucose (FDG) positron emission tomography (PET). To segment the tumor from the background, we used graph cut, whose segmentation energy was generally divided into two terms: the unary and pairwise terms. Locally connected conditional random fields (LCRF) was proposed for the pairwise term. In LCRF, a three-dimensional cubic window with length L was set for each voxel, and voxels within the window were considered for the pairwise term. To evaluate our method, 64 clinically suspected metastatic bone tumors were tested, which were revealed by FDG-PET. To obtain ground truth, the tumors were manually delineated via consensus of two board-certified radiologists. To compare the LCRF accuracy, other types of segmentation were also applied such as region-growing based on 35%, 40%, and 45% of the tumor maximum standardized uptake value (RG35, RG40, and RG45, respectively), SLIC superpixels (SS), and region-based active contour models (AC). To validate the tumor segmentation accuracy, a dice similarity coefficient (DSC) was calculated between manual segmentation and result of each technique. The DSC difference was tested using the Wilcoxon signed rank test. The mean DSCs of LCRF at L = 3, 5, 7, and 9 were 0.784, 0.801, 0.809, and 0.812, respectively. The mean DSCs of other techniques were RG35, 0.633; RG40, 0.675; RG45, 0.689; SS, 0.709; and AC, 0.758. The DSC differences between LCRF and other techniques were statistically significant (p <0.05). In conclusion, tumor segmentation was more reliably performed with LCRF relative to other techniques.

  16. Analysis and prediction of the critical regions of antimicrobial peptides based on conditional random fields.

    PubMed

    Chang, Kuan Y; Lin, Tung-pei; Shih, Ling-Yi; Wang, Chien-Kuo

    2015-01-01

    Antimicrobial peptides (AMPs) are potent drug candidates against microbes such as bacteria, fungi, parasites, and viruses. The size of AMPs ranges from less than ten to hundreds of amino acids. Often only a few amino acids or the critical regions of antimicrobial proteins matter the functionality. Accurately predicting the AMP critical regions could benefit the experimental designs. However, no extensive analyses have been done specifically on the AMP critical regions and computational modeling on them is either non-existent or settled to other problems. With a focus on the AMP critical regions, we thus develop a computational model AMPcore by introducing a state-of-the-art machine learning method, conditional random fields. We generate a comprehensive dataset of 798 AMPs cores and a low similarity dataset of 510 representative AMP cores. AMPcore could reach a maximal accuracy of 90% and 0.79 Matthew's correlation coefficient on the comprehensive dataset and a maximal accuracy of 83% and 0.66 MCC on the low similarity dataset. Our analyses of AMP cores follow what we know about AMPs: High in glycine and lysine, but low in aspartic acid, glutamic acid, and methionine; the abundance of α-helical structures; the dominance of positive net charges; the peculiarity of amphipathicity. Two amphipathic sequence motifs within the AMP cores, an amphipathic α-helix and an amphipathic π-helix, are revealed. In addition, a short sequence motif at the N-terminal boundary of AMP cores is reported for the first time: arginine at the P(-1) coupling with glycine at the P1 of AMP cores occurs the most, which might link to microbial cell adhesion.

  17. Random walk of magnetic field-lines for different values of the energy range spectral index

    SciTech Connect

    Shalchi, A.; Kourakis, I.

    2007-11-15

    An analytical nonlinear description of field-line wandering in partially statistically magnetic systems was proposed recently. In this article the influence of the wave spectrum in the energy range onto field-line random walk is investigated by applying this formulation. It is demonstrated that in all considered cases we clearly obtain a superdiffusive behavior of the field-lines. If the energy range spectral index exceeds unity a free-streaming behavior of the field-lines can be found for all relevant length-scales of turbulence. Since the superdiffusive results obtained for the slab model are exact, it seems that superdiffusion is the normal behavior of field-line wandering.

  18. A new test statistic for climate models that includes field and spatial dependencies using Gaussian Markov random fields

    DOE PAGES

    Nosedal-Sanchez, Alvaro; Jackson, Charles S.; Huerta, Gabriel

    2016-07-20

    A new test statistic for climate model evaluation has been developed that potentially mitigates some of the limitations that exist for observing and representing field and space dependencies of climate phenomena. Traditionally such dependencies have been ignored when climate models have been evaluated against observational data, which makes it difficult to assess whether any given model is simulating observed climate for the right reasons. The new statistic uses Gaussian Markov random fields for estimating field and space dependencies within a first-order grid point neighborhood structure. We illustrate the ability of Gaussian Markov random fields to represent empirical estimates of fieldmore » and space covariances using "witch hat" graphs. We further use the new statistic to evaluate the tropical response of a climate model (CAM3.1) to changes in two parameters important to its representation of cloud and precipitation physics. Overall, the inclusion of dependency information did not alter significantly the recognition of those regions of parameter space that best approximated observations. However, there were some qualitative differences in the shape of the response surface that suggest how such a measure could affect estimates of model uncertainty.« less

  19. Network Receptive Field Modeling Reveals Extensive Integration and Multi-feature Selectivity in Auditory Cortical Neurons

    PubMed Central

    Willmore, Ben D. B.; Cui, Zhanfeng; Schnupp, Jan W. H.; King, Andrew J.

    2016-01-01

    Cortical sensory neurons are commonly characterized using the receptive field, the linear dependence of their response on the stimulus. In primary auditory cortex neurons can be characterized by their spectrotemporal receptive fields, the spectral and temporal features of a sound that linearly drive a neuron. However, receptive fields do not capture the fact that the response of a cortical neuron results from the complex nonlinear network in which it is embedded. By fitting a nonlinear feedforward network model (a network receptive field) to cortical responses to natural sounds, we reveal that primary auditory cortical neurons are sensitive over a substantially larger spectrotemporal domain than is seen in their standard spectrotemporal receptive fields. Furthermore, the network receptive field, a parsimonious network consisting of 1–7 sub-receptive fields that interact nonlinearly, consistently better predicts neural responses to auditory stimuli than the standard receptive fields. The network receptive field reveals separate excitatory and inhibitory sub-fields with different nonlinear properties, and interaction of the sub-fields gives rise to important operations such as gain control and conjunctive feature detection. The conjunctive effects, where neurons respond only if several specific features are present together, enable increased selectivity for particular complex spectrotemporal structures, and may constitute an important stage in sound recognition. In conclusion, we demonstrate that fitting auditory cortical neural responses with feedforward network models expands on simple linear receptive field models in a manner that yields substantially improved predictive power and reveals key nonlinear aspects of cortical processing, while remaining easy to interpret in a physiological context. PMID:27835647

  20. Network Receptive Field Modeling Reveals Extensive Integration and Multi-feature Selectivity in Auditory Cortical Neurons.

    PubMed

    Harper, Nicol S; Schoppe, Oliver; Willmore, Ben D B; Cui, Zhanfeng; Schnupp, Jan W H; King, Andrew J

    2016-11-01

    Cortical sensory neurons are commonly characterized using the receptive field, the linear dependence of their response on the stimulus. In primary auditory cortex neurons can be characterized by their spectrotemporal receptive fields, the spectral and temporal features of a sound that linearly drive a neuron. However, receptive fields do not capture the fact that the response of a cortical neuron results from the complex nonlinear network in which it is embedded. By fitting a nonlinear feedforward network model (a network receptive field) to cortical responses to natural sounds, we reveal that primary auditory cortical neurons are sensitive over a substantially larger spectrotemporal domain than is seen in their standard spectrotemporal receptive fields. Furthermore, the network receptive field, a parsimonious network consisting of 1-7 sub-receptive fields that interact nonlinearly, consistently better predicts neural responses to auditory stimuli than the standard receptive fields. The network receptive field reveals separate excitatory and inhibitory sub-fields with different nonlinear properties, and interaction of the sub-fields gives rise to important operations such as gain control and conjunctive feature detection. The conjunctive effects, where neurons respond only if several specific features are present together, enable increased selectivity for particular complex spectrotemporal structures, and may constitute an important stage in sound recognition. In conclusion, we demonstrate that fitting auditory cortical neural responses with feedforward network models expands on simple linear receptive field models in a manner that yields substantially improved predictive power and reveals key nonlinear aspects of cortical processing, while remaining easy to interpret in a physiological context.

  1. A model of gene expression based on random dynamical systems reveals modularity properties of gene regulatory networks.

    PubMed

    Antoneli, Fernando; Ferreira, Renata C; Briones, Marcelo R S

    2016-06-01

    Here we propose a new approach to modeling gene expression based on the theory of random dynamical systems (RDS) that provides a general coupling prescription between the nodes of any given regulatory network given the dynamics of each node is modeled by a RDS. The main virtues of this approach are the following: (i) it provides a natural way to obtain arbitrarily large networks by coupling together simple basic pieces, thus revealing the modularity of regulatory networks; (ii) the assumptions about the stochastic processes used in the modeling are fairly general, in the sense that the only requirement is stationarity; (iii) there is a well developed mathematical theory, which is a blend of smooth dynamical systems theory, ergodic theory and stochastic analysis that allows one to extract relevant dynamical and statistical information without solving the system; (iv) one may obtain the classical rate equations form the corresponding stochastic version by averaging the dynamic random variables (small noise limit). It is important to emphasize that unlike the deterministic case, where coupling two equations is a trivial matter, coupling two RDS is non-trivial, specially in our case, where the coupling is performed between a state variable of one gene and the switching stochastic process of another gene and, hence, it is not a priori true that the resulting coupled system will satisfy the definition of a random dynamical system. We shall provide the necessary arguments that ensure that our coupling prescription does indeed furnish a coupled regulatory network of random dynamical systems. Finally, the fact that classical rate equations are the small noise limit of our stochastic model ensures that any validation or prediction made on the basis of the classical theory is also a validation or prediction of our model. We illustrate our framework with some simple examples of single-gene system and network motifs.

  2. Specific-heat exponent and modified hyperscaling in the 4D random-field Ising model

    NASA Astrophysics Data System (ADS)

    Fytas, N. G.; Martín-Mayor, V.; Picco, M.; Sourlas, N.

    2017-03-01

    We report a high-precision numerical estimation of the critical exponent α of the specific heat of the random-field Ising model in four dimensions. Our result α =0.12(1) indicates a diverging specific-heat behavior and is consistent with the estimation coming from the modified hyperscaling relation using our estimate of θ via the anomalous dimensions η and \\barη . Our analysis benefited from a high-statistics zero-temperature numerical simulation of the model for two distributions of the random fields, namely a Gaussian and Poissonian distribution, as well as recent advances in finite-size scaling and reweighting methods for disordered systems. An original estimate of the critical slowing down exponent z of the maximum-flow algorithm used is also provided.

  3. Possible Statistics of Two Coupled Random Fields: Application to Passive Scalar

    NASA Technical Reports Server (NTRS)

    Dubrulle, B.; He, Guo-Wei; Bushnell, Dennis M. (Technical Monitor)

    2000-01-01

    We use the relativity postulate of scale invariance to derive the similarity transformations between two coupled scale-invariant random elds at different scales. We nd the equations leading to the scaling exponents. This formulation is applied to the case of passive scalars advected i) by a random Gaussian velocity field; and ii) by a turbulent velocity field. In the Gaussian case, we show that the passive scalar increments follow a log-Levy distribution generalizing Kraichnan's solution and, in an appropriate limit, a log-normal distribution. In the turbulent case, we show that when the velocity increments follow a log-Poisson statistics, the passive scalar increments follow a statistics close to log-Poisson. This result explains the experimental observations of Ruiz et al. about the temperature increments.

  4. Ordered vs. disordered states of the random-field model in three dimensions

    NASA Astrophysics Data System (ADS)

    Garanin, Dmitry A.; Chudnovsky, Eugene M.

    2015-04-01

    We report numerical investigation of the glassy behavior of random-field exchange models in three dimensions. Correlation of energy with the magnetization for different numbers of spin components has been studied. There is a profound difference between the models with two and three spin components with respect to the stability of the magnetized state due to the different kinds of singularities: vortex loops and hedgehogs, respectively. Memory effects pertinent to such states have been investigated. Insight into the mechanism of the large-scale disordering is provided by numerically implementing the Imry-Ma argument in which the spins follow the random field averaged over correlated volumes. Thermal stability of the magnetized states is investigated by the Monte Carlo method.

  5. Fuzzy-based latent-dynamic conditional random fields for continuous gesture recognition

    NASA Astrophysics Data System (ADS)

    Zhang, Shengjun; He, Xiaohai; Teng, Qizhi

    2012-06-01

    We show an original method for automatic hand gesture recognition that makes use of fuzzified latent-dynamic conditional random fields (LDCRF). In this method, fuzzy linguistic variables are used to model the features of hand gestures and then to modify the potential function in LDCRFs. By combining LDCRFs and fuzzy sets, these fuzzy-based LDCRFs (FLDCRF) have the advantages of LDCRFs in sequence labeling along with the advantage of retaining the imprecise character of gestures. The efficiency of the proposed method was tested with unsegmented gesture sequences in three different hand gesture data sets. The experimental results demonstrate that FLDCRFs compare favorably with support vector machines, hidden conditional random fields, and LDCRFs on hand gesture recognition tasks.

  6. Percolation in sign-symmetric random fields: topological aspects and numerical modeling

    PubMed

    Milovanov; Zimbardo

    2000-07-01

    The topology of percolation in random scalar fields psi(x) with sign symmetry [i.e., that the statistical properties of the functions psi(x) and -psi(x) are identical] is analyzed. Based on methods of general topology, we show that the zero set psi(x)=0 of the n-dimensional (n>/=2) sign-symmetric random field psi(x) contains a (connected) percolating subset under the condition |nablapsi(x)| not equal0 everywhere except in domains of negligible measure. The fractal geometry of percolation is analyzed in more detail in the particular case of the two-dimensional (n=2) fields psi(x). The improved Alexander-Orbach conjecture [Phys. Rev. E 56, 2437 (1997)] is applied analytically to obtain estimates of the main fractal characteristics of the percolating fractal sets generated by the horizontal "cuts," psi(x)=h, of the field psi(x). These characteristics are the Hausdorff fractal dimension of the set, D, and the index of connectivity, straight theta. We advocate an unconventional approach to studying the geometric properties of fractals, which involves methods of homotopic topology. It is shown that the index of connectivity, straight theta, of a fractal set is the topological invariant of this set, i.e., it remains unchanged under the homeomorphic deformations of the fractal. This issue is explicitly used in our study to find the Hausdorff fractal dimension of the single isolevels of the field psi(x), as well as the related geometric quantities. The results obtained are analyzed numerically in the particular case when the random field psi(x) is given by a fractional Brownian surface whose topological properties recover well the main assumptions of our consideration.

  7. A heuristic for the distribution of point counts for random curves over a finite field

    PubMed Central

    Achter, Jeffrey D.; Erman, Daniel; Kedlaya, Kiran S.; Wood, Melanie Matchett; Zureick-Brown, David

    2015-01-01

    How many rational points are there on a random algebraic curve of large genus g over a given finite field ? We propose a heuristic for this question motivated by a (now proven) conjecture of Mumford on the cohomology of moduli spaces of curves; this heuristic suggests a Poisson distribution with mean q+1+1/(q−1). We prove a weaker version of this statement in which g and q tend to infinity, with q much larger than g. PMID:25802415

  8. Motion of a Josephson vortex in the field of a random potential

    SciTech Connect

    Mineev, M.B.; Feigel'man, M.V.; Shmidt, V.V.

    1981-07-01

    We consider the motion and pinning of a Josephson vortex in a field produced by random inhomogeneities in a long junction. We find the distribution function of the force of vortex pinning on the inhomogeneities. We construct the current-voltage characteristic (CVC) of the junction. For inhomogeneities which are weak compared to the ohmic losses the CVC has a single hysteresis, in the opposite case it has two.

  9. Fluorescence microscopy image noise reduction using a stochastically-connected random field model

    PubMed Central

    Haider, S. A.; Cameron, A.; Siva, P.; Lui, D.; Shafiee, M. J.; Boroomand, A.; Haider, N.; Wong, A.

    2016-01-01

    Fluorescence microscopy is an essential part of a biologist’s toolkit, allowing assaying of many parameters like subcellular localization of proteins, changes in cytoskeletal dynamics, protein-protein interactions, and the concentration of specific cellular ions. A fundamental challenge with using fluorescence microscopy is the presence of noise. This study introduces a novel approach to reducing noise in fluorescence microscopy images. The noise reduction problem is posed as a Maximum A Posteriori estimation problem, and solved using a novel random field model called stochastically-connected random field (SRF), which combines random graph and field theory. Experimental results using synthetic and real fluorescence microscopy data show the proposed approach achieving strong noise reduction performance when compared to several other noise reduction algorithms, using quantitative metrics. The proposed SRF approach was able to achieve strong performance in terms of signal-to-noise ratio in the synthetic results, high signal to noise ratio and contrast to noise ratio in the real fluorescence microscopy data results, and was able to maintain cell structure and subtle details while reducing background and intra-cellular noise. PMID:26884148

  10. Random field disorder at an absorbing state transition in one and two dimensions.

    PubMed

    Barghathi, Hatem; Vojta, Thomas

    2016-02-01

    We investigate the behavior of nonequilibrium phase transitions under the influence of disorder that locally breaks the symmetry between two symmetrical macroscopic absorbing states. In equilibrium systems such "random-field" disorder destroys the phase transition in low dimensions by preventing spontaneous symmetry breaking. In contrast, we show here that random-field disorder fails to destroy the nonequilibrium phase transition of the one- and two-dimensional generalized contact process. Instead, it modifies the dynamics in the symmetry-broken phase. Specifically, the dynamics in the one-dimensional case is described by a Sinai walk of the domain walls between two different absorbing states. In the two-dimensional case, we map the dynamics onto that of the well studied low-temperature random-field Ising model. We also study the critical behavior of the nonequilibrium phase transition and characterize its universality class in one dimension. We support our results by large-scale Monte Carlo simulations, and we discuss the applicability of our theory to other systems.

  11. Multisite updating Markov chain Monte Carlo algorithm for morphologically constrained Gibbs random fields

    NASA Astrophysics Data System (ADS)

    Sivakumar, Krishnamoorthy; Goutsias, John I.

    1998-09-01

    We study the problem of simulating a class of Gibbs random field models, called morphologically constrained Gibbs random fields, using Markov chain Monte Carlo sampling techniques. Traditional single site updating Markov chain Monte Carlo sampling algorithm, like the Metropolis algorithm, tend to converge extremely slowly when used to simulate these models, particularly at low temperatures and for constraints involving large geometrical shapes. Moreover, the morphologically constrained Gibbs random fields are not, in general, Markov. Hence, a Markov chain Monte Carlo sampling algorithm based on the Gibbs sampler is not possible. We prose a variant of the Metropolis algorithm that, at each iteration, allows multi-site updating and converges substantially faster than the traditional single- site updating algorithm. The set of sites that are updated at a particular iteration is specified in terms of a shape parameter and a size parameter. Computation of the acceptance probability involves a 'test ratio,' which requires computation of the ratio of the probabilities of the current and new realizations. Because of the special structure of our energy function, this computation can be done by means of a simple; local iterative procedure. Therefore lack of Markovianity does not impose any additional computational burden for model simulation. The proposed algorithm has been used to simulate a number of image texture models, both synthetic and natural.

  12. Spectral turning bands for efficient Gaussian random fields generation on GPUs and accelerators

    NASA Astrophysics Data System (ADS)

    Hunger, L.; Cosenza, B.; Kimeswenger, S.; Fahringer, T.

    2015-11-01

    A random field (RF) is a set of correlated random variables associated with different spatial locations. RF generation algorithms are of crucial importance for many scientific areas, such as astrophysics, geostatistics, computer graphics, and many others. Current approaches commonly make use of 3D fast Fourier transform (FFT), which does not scale well for RF bigger than the available memory; they are also limited to regular rectilinear meshes. We introduce random field generation with the turning band method (RAFT), an RF generation algorithm based on the turning band method that is optimized for massively parallel hardware such as GPUs and accelerators. Our algorithm replaces the 3D FFT with a lower-order, one-dimensional FFT followed by a projection step and is further optimized with loop unrolling and blocking. RAFT can easily generate RF on non-regular (non-uniform) meshes and efficiently produce fields with mesh sizes bigger than the available device memory by using a streaming, out-of-core approach. Our algorithm generates RF with the correct statistical behavior and is tested on a variety of modern hardware, such as NVIDIA Tesla, AMD FirePro and Intel Phi. RAFT is faster than the traditional methods on regular meshes and has been successfully applied to two real case scenarios: planetary nebulae and cosmological simulations.

  13. Schwinger-Dyson equations in large-N quantum field theories and nonlinear random processes

    SciTech Connect

    Buividovich, P. V.

    2011-02-15

    We propose a stochastic method for solving Schwinger-Dyson equations in large-N quantum field theories. Expectation values of single-trace operators are sampled by stationary probability distributions of the so-called nonlinear random processes. The set of all the histories of such processes corresponds to the set of all planar diagrams in the perturbative expansions of the expectation values of singlet operators. We illustrate the method on examples of the matrix-valued scalar field theory and the Weingarten model of random planar surfaces on the lattice. For theories with compact field variables, such as sigma models or non-Abelian lattice gauge theories, the method does not converge in the physically most interesting weak-coupling limit. In this case one can absorb the divergences into a self-consistent redefinition of expansion parameters. A stochastic solution of the self-consistency conditions can be implemented as a 'memory' of the random process, so that some parameters of the process are estimated from its previous history. We illustrate this idea on the two-dimensional O(N) sigma model. The extension to non-Abelian lattice gauge theories is discussed.

  14. Field Line Random Walk in Isotropic Magnetic Turbulence up to Infinite Kubo Number

    NASA Astrophysics Data System (ADS)

    Sonsrettee, W.; Wongpan, P.; Ruffolo, D. J.; Matthaeus, W. H.; Chuychai, P.; Rowlands, G.

    2013-12-01

    In astrophysical plasmas, the magnetic field line random walk (FLRW) plays a key role in the transport of energetic particles. In the present, we consider isotropic magnetic turbulence, which is a reasonable model for interstellar space. Theoretical conceptions of the FLRW have been strongly influenced by studies of the limit of weak fluctuations (or a strong mean field) (e.g, Isichenko 1991a, b). In this case, the behavior of FLRW can be characterized by the Kubo number R = (b/B0)(l_∥ /l_ \\bot ) , where l∥ and l_ \\bot are turbulence coherence scales parallel and perpendicular to the mean field, respectively, and b is the root mean squared fluctuation field. In the 2D limit (R ≫ 1), there has been an apparent conflict between concepts of Bohm diffusion, which is based on the Corrsin's independence hypothesis, and percolative diffusion. Here we have used three non-perturbative analytic techniques based on Corrsin's independence hypothesis for B0 = 0 (R = ∞ ): diffusive decorrelation (DD), random ballistic decorrelation (RBD) and a general ordinary differential equation (ODE), and compared them with direct computer simulations. All the analytical models and computer simulations agree that isotropic turbulence for R = ∞ has a field line diffusion coefficient that is consistent with Bohm diffusion. Partially supported by the Thailand Research Fund, NASA, and NSF.

  15. Fluctuations of the partition function in the generalized random energy model with external field

    NASA Astrophysics Data System (ADS)

    Bovier, Anton; Klimovsky, Anton

    2008-12-01

    We study Derrida's generalized random energy model (GREM) in the presence of uniform external field. We compute the fluctuations of the ground state and of the partition function in the thermodynamic limit for all admissible values of parameters. We find that the fluctuations are described by a hierarchical structure which is obtained by a certain coarse graining of the initial hierarchical structure of the GREM with external field. We provide an explicit formula for the free energy of the model. We also derive some large deviation results providing an expression for the free energy in a class of models with Gaussian Hamiltonians and external field. Finally, we prove that the coarse-grained parts of the system emerging in the thermodynamic limit tend to have a certain optimal magnetization, as prescribed by the strength of the external field and by parameters of the GREM.

  16. Magnetization-driven random-field Ising model at T=0

    NASA Astrophysics Data System (ADS)

    Illa, Xavier; Rosinberg, Martin-Luc; Shukla, Prabodh; Vives, Eduard

    2006-12-01

    We study the hysteretic evolution of the random field Ising model at T=0 when the magnetization M is controlled externally and the magnetic field H becomes the output variable. The dynamics is a simple modification of the single-spin-flip dynamics used in the H -driven situation and consists in flipping successively the spins with the largest local field. This allows one to perform a detailed comparison between the microscopic trajectories followed by the system with the two protocols. Simulations are performed on random graphs with connectivity z=4 (Bethe lattice) and on the three-dimensional cubic lattice. The same internal energy U(M) is found with the two protocols when there is no macroscopic avalanche and it does not depend on whether the microscopic states are stable or not. On the Bethe lattice, the energy inside the macroscopic avalanche also coincides with the one that is computed analytically with the H -driven algorithm along the unstable branch of the hysteresis loop. The output field, defined here as ΔU/ΔM , exhibits very large fluctuations with the magnetization and is not self-averaging. The relation to the experimental situation is discussed.

  17. Multi-fidelity modelling via recursive co-kriging and Gaussian-Markov random fields.

    PubMed

    Perdikaris, P; Venturi, D; Royset, J O; Karniadakis, G E

    2015-07-08

    We propose a new framework for design under uncertainty based on stochastic computer simulations and multi-level recursive co-kriging. The proposed methodology simultaneously takes into account multi-fidelity in models, such as direct numerical simulations versus empirical formulae, as well as multi-fidelity in the probability space (e.g. sparse grids versus tensor product multi-element probabilistic collocation). We are able to construct response surfaces of complex dynamical systems by blending multiple information sources via auto-regressive stochastic modelling. A computationally efficient machine learning framework is developed based on multi-level recursive co-kriging with sparse precision matrices of Gaussian-Markov random fields. The effectiveness of the new algorithms is demonstrated in numerical examples involving a prototype problem in risk-averse design, regression of random functions, as well as uncertainty quantification in fluid mechanics involving the evolution of a Burgers equation from a random initial state, and random laminar wakes behind circular cylinders.

  18. Multi-fidelity modelling via recursive co-kriging and Gaussian–Markov random fields

    PubMed Central

    Perdikaris, P.; Venturi, D.; Royset, J. O.; Karniadakis, G. E.

    2015-01-01

    We propose a new framework for design under uncertainty based on stochastic computer simulations and multi-level recursive co-kriging. The proposed methodology simultaneously takes into account multi-fidelity in models, such as direct numerical simulations versus empirical formulae, as well as multi-fidelity in the probability space (e.g. sparse grids versus tensor product multi-element probabilistic collocation). We are able to construct response surfaces of complex dynamical systems by blending multiple information sources via auto-regressive stochastic modelling. A computationally efficient machine learning framework is developed based on multi-level recursive co-kriging with sparse precision matrices of Gaussian–Markov random fields. The effectiveness of the new algorithms is demonstrated in numerical examples involving a prototype problem in risk-averse design, regression of random functions, as well as uncertainty quantification in fluid mechanics involving the evolution of a Burgers equation from a random initial state, and random laminar wakes behind circular cylinders. PMID:26345079

  19. Polynomial chaos representation of spatio-temporal random fields from experimental measurements

    SciTech Connect

    Das, Sonjoy Ghanem, Roger Finette, Steven

    2009-12-10

    Two numerical techniques are proposed to construct a polynomial chaos (PC) representation of an arbitrary second-order random vector. In the first approach, a PC representation is constructed by matching a target joint probability density function (pdf) based on sequential conditioning (a sequence of conditional probability relations) in conjunction with the Rosenblatt transformation. In the second approach, the PC representation is obtained by having recourse to the Rosenblatt transformation and simultaneously matching a set of target marginal pdfs and target Spearman's rank correlation coefficient (SRCC) matrix. Both techniques are applied to model an experimental spatio-temporal data set, exhibiting strong non-stationary and non-Gaussian features. The data consists of a set of oceanographic temperature records obtained from a shallow-water acoustics transmission experiment. The measurement data, observed over a finite denumerable subset of the indexing set of the random process, is treated as a collection of observed samples of a second-order random vector that can be treated as a finite-dimensional approximation of the original random field. A set of properly ordered conditional pdfs, that uniquely characterizes the target joint pdf, in the first approach and a set of target marginal pdfs and a target SRCC matrix, in the second approach, are estimated from available experimental data. Digital realizations sampled from the constructed PC representations based on both schemes capture the observed statistical characteristics of the experimental data with sufficient accuracy. The relative advantages and disadvantages of the two proposed techniques are also highlighted.

  20. Spatial-Temporal Conditional Random Fields Crop Classification from Terrasar-X Images

    NASA Astrophysics Data System (ADS)

    Kenduiywoa, B. K.; Bargiel, D.; Soergel, U.

    2015-03-01

    The rapid increase in population in the world has propelled pressure on arable land. Consequently, the food basket has continuously declined while global demand for food has grown twofold. There is need to monitor and update agriculture land-cover to support food security measures. This study develops a spatial-temporal approach using conditional random fields (CRF) to classify co-registered images acquired in two epochs. We adopt random forest (RF) as CRF association potential and introduce a temporal potential for mutual crop phenology information exchange between spatially corresponding sites in two epochs. An important component of temporal potential is a transitional matrix that bears intra- and inter-class changes between considered epochs. Conventionally, one matrix has been used in the entire image thereby enforcing stationary transition probabilities in all sites. We introduce a site dependent transition matrix to incorporate phenology information from images. In our study, images are acquired within a vegetation season, thus perceived spectral changes are due to crop phenology. To exploit this phenomena, we develop a novel approach to determine site-wise transition matrix using conditional probabilities computed from two corresponding temporal sites. Conditional probability determines transitions between classes in different epochs and thus we used it to propagate crop phenology information. Classification results show that our approach improved crop discrimination in all epochs compared to state-of-the-art mono-temporal approaches (RF and CRF monotemporal) and existing multi-temporal markov random fields approach by Liu et al. (2008).

  1. Random source generating far field with elliptical flat-topped beam profile

    NASA Astrophysics Data System (ADS)

    Zhang, Yongtao; Cai, Yangjian

    2014-07-01

    Circular and rectangular multi-Gaussian Schell-model (MGSM) sources which generate far fields with circular and rectangular flat-topped beam profiles were introduced just recently (Sahin and Korotkova 2012 Opt. Lett. 37 2970; Korotkova 2014 Opt. Lett. 39 64). In this paper, a random source named an elliptical MGSM source is introduced. An analytical expression for the propagation factor of an elliptical MGSM beam is derived. Furthermore, an analytical propagation formula for an elliptical MGSM beam passing through a stigmatic ABCD optical system is derived, and its propagation properties in free space are studied. It is interesting to find that an elliptical MGSM source generates a far field with an elliptical flat-topped beam profile, being qualitatively different from that of circular and rectangular MGSM sources. The ellipticity and the flatness of the elliptical flat-topped beam profile in the far field are determined by the initial coherence widths and the beam index, respectively.

  2. Heating of a trapped ion by random fields: The influence of the micromotion

    NASA Astrophysics Data System (ADS)

    Brouard, S.; Plata, J.

    2001-04-01

    For an ion in a Paul trap, the effect of the micromotion on the heating by stray electric fields is studied analytically. A sequence of unitary transformations, set up from the solutions to the classical dynamics, leads to the exact quantum time propagator for each realization of the random classical field; subsequently, a statistical average is performed to obtain the fidelity of the motional ground state. In this nonperturbative approach, the role of the micromotion in the depopulation is understood as an effective change in the time dependence of the external field and an intrinsic modulation of the heating rate; it is shown that the consequent enhanced complexity of the dynamics can result in a reduction of the heating time.

  3. Quantum epistemology from subquantum ontology: Quantum mechanics from theory of classical random fields

    NASA Astrophysics Data System (ADS)

    Khrennikov, Andrei

    2017-02-01

    The scientific methodology based on two descriptive levels, ontic (reality as it is) and epistemic (observational), is briefly presented. Following Schrödinger, we point to the possible gap between these two descriptions. Our main aim is to show that, although ontic entities may be unaccessible for observations, they can be useful for clarification of the physical nature of operational epistemic entities. We illustrate this thesis by the concrete example: starting with the concrete ontic model preceding quantum mechanics (the latter is treated as an epistemic model), namely, prequantum classical statistical field theory (PCSFT), we propose the natural physical interpretation for the basic quantum mechanical entity-the quantum state ("wave function"). The correspondence PCSFT ↦ QM is not straightforward, it couples the covariance operators of classical (prequantum) random fields with the quantum density operators. We use this correspondence to clarify the physical meaning of the pure quantum state and the superposition principle-by using the formalism of classical field correlations.

  4. The spectrum of random magnetic fields in the mean field dynamo theory of the Galactic magnetic field

    NASA Technical Reports Server (NTRS)

    Kulsrud, Russell M.; Anderson, Stephen W.

    1992-01-01

    The fluctuation spectrum that must arise in a mean field dynamo generation of galactic fields if the initial field is weak is considered. A kinetic equation for its evolution is derived and solved. The spectrum evolves by transfer of energy from one magnetic mode to another by interaction with turbulent velocity modes. This kinetic equation is valid in the limit that the rate of evolution of the magnetic modes is slower than the reciprocal decorrelation time of the turbulent modes. This turns out to be the case by a factor greater than 3. Most of the fluctuation energy concentrates on small scales, shorter than the hydrodynamic turbulent scales. The fluctuation energy builds up to equipartition with the turbulent energy in times that are short compared to the e-folding time of the mean field. The turbulence becomes strongly modified before the dynamo amplification starts. Thus, the kinematic assumption of the mean dynamo theory is invalid. Thus, the galactic field must have a primordial origin, although it may subsequently be modified by dynamo action.

  5. Field-scale experiments reveal persistent yield gaps in low-input and organic cropping systems.

    PubMed

    Kravchenko, Alexandra N; Snapp, Sieglinde S; Robertson, G Philip

    2017-01-31

    Knowledge of production-system performance is largely based on observations at the experimental plot scale. Although yield gaps between plot-scale and field-scale research are widely acknowledged, their extent and persistence have not been experimentally examined in a systematic manner. At a site in southwest Michigan, we conducted a 6-y experiment to test the accuracy with which plot-scale crop-yield results can inform field-scale conclusions. We compared conventional versus alternative, that is, reduced-input and biologically based-organic, management practices for a corn-soybean-wheat rotation in a randomized complete block-design experiment, using 27 commercial-size agricultural fields. Nearby plot-scale experiments (0.02-ha to 1.0-ha plots) provided a comparison of plot versus field performance. We found that plot-scale yields well matched field-scale yields for conventional management but not for alternative systems. For all three crops, at the plot scale, reduced-input and conventional managements produced similar yields; at the field scale, reduced-input yields were lower than conventional. For soybeans at the plot scale, biological and conventional managements produced similar yields; at the field scale, biological yielded less than conventional. For corn, biological management produced lower yields than conventional in both plot- and field-scale experiments. Wheat yields appeared to be less affected by the experimental scale than corn and soybean. Conventional management was more resilient to field-scale challenges than alternative practices, which were more dependent on timely management interventions; in particular, mechanical weed control. Results underscore the need for much wider adoption of field-scale experimentation when assessing new technologies and production-system performance, especially as related to closing yield gaps in organic farming and in low-resourced systems typical of much of the developing world.

  6. Field-scale experiments reveal persistent yield gaps in low-input and organic cropping systems

    PubMed Central

    Kravchenko, Alexandra N.; Snapp, Sieglinde S.; Robertson, G. Philip

    2017-01-01

    Knowledge of production-system performance is largely based on observations at the experimental plot scale. Although yield gaps between plot-scale and field-scale research are widely acknowledged, their extent and persistence have not been experimentally examined in a systematic manner. At a site in southwest Michigan, we conducted a 6-y experiment to test the accuracy with which plot-scale crop-yield results can inform field-scale conclusions. We compared conventional versus alternative, that is, reduced-input and biologically based–organic, management practices for a corn–soybean–wheat rotation in a randomized complete block-design experiment, using 27 commercial-size agricultural fields. Nearby plot-scale experiments (0.02-ha to 1.0-ha plots) provided a comparison of plot versus field performance. We found that plot-scale yields well matched field-scale yields for conventional management but not for alternative systems. For all three crops, at the plot scale, reduced-input and conventional managements produced similar yields; at the field scale, reduced-input yields were lower than conventional. For soybeans at the plot scale, biological and conventional managements produced similar yields; at the field scale, biological yielded less than conventional. For corn, biological management produced lower yields than conventional in both plot- and field-scale experiments. Wheat yields appeared to be less affected by the experimental scale than corn and soybean. Conventional management was more resilient to field-scale challenges than alternative practices, which were more dependent on timely management interventions; in particular, mechanical weed control. Results underscore the need for much wider adoption of field-scale experimentation when assessing new technologies and production-system performance, especially as related to closing yield gaps in organic farming and in low-resourced systems typical of much of the developing world. PMID:28096409

  7. The random energy model in a magnetic field and joint source channel coding

    NASA Astrophysics Data System (ADS)

    Merhav, Neri

    2008-09-01

    We demonstrate that there is an intimate relationship between the magnetic properties of Derrida’s random energy model (REM) of spin glasses and the problem of joint source-channel coding in Information Theory. In particular, typical patterns of erroneously decoded messages in the coding problem have “magnetization” properties that are analogous to those of the REM in certain phases, where the non-uniformity of the distribution of the source in the coding problem plays the role of an external magnetic field applied to the REM. We also relate the ensemble performance (random coding exponents) of joint source-channel codes to the free energy of the REM in its different phases.

  8. Extracting temporal constraints from clinical research eligibility criteria using conditional random fields.

    PubMed

    Luo, Zhihui; Johnson, Stephen B; Lai, Albert M; Weng, Chunhua

    2011-01-01

    Temporal constraints are present in 38% of clinical research eligibility criteria and are crucial for screening patients. However, eligibility criteria are often written as free text, which is not amenable for computer processing. In this paper, we present an ontology-based approach to extracting temporal information from clinical research eligibility criteria. We generated temporal labels using a frame-based temporal ontology. We manually annotated 150 free-text eligibility criteria using the temporal labels and trained a parser using Conditional Random Fields (CRFs) to automatically extract temporal expressions from eligibility criteria. An evaluation of an additional 60 randomly selected eligibility criteria using manual review achieved an overall precision of 83%, a recall of 79%, and an F-score of 80%. We illustrate the application of temporal extraction with the use cases of question answering and free-text criteria querying.

  9. Layout consistent segmentation of 3-D meshes via conditional random fields and spatial ordering constraints.

    PubMed

    Zouhar, Alexander; Baloch, Sajjad; Tsin, Yanghai; Fang, Tong; Fuchs, Siegfried

    2010-01-01

    We address the problem of 3-D Mesh segmentation for categories of objects with known part structure. Part labels are derived from a semantic interpretation of non-overlapping subsurfaces. Our approach models the label distribution using a Conditional Random Field (CRF) that imposes constraints on the relative spatial arrangement of neighboring labels, thereby ensuring semantic consistency. To this end, each label variable is associated with a rich shape descriptor that is intrinsic to the surface. Randomized decision trees and cross validation are employed for learning the model, which is eventually applied using graph cuts. The method is flexible enough for segmenting even geometrically less structured regions and is robust to local and global shape variations.

  10. Proteomics Analysis with a Nano Random Forest Approach Reveals Novel Functional Interactions Regulated by SMC Complexes on Mitotic Chromosomes*

    PubMed Central

    Ohta, Shinya; Montaño-Gutierrez, Luis F.; de Lima Alves, Flavia; Ogawa, Hiromi; Toramoto, Iyo; Sato, Nobuko; Morrison, Ciaran G.; Takeda, Shunichi; Hudson, Damien F.; Earnshaw, William C.

    2016-01-01

    Packaging of DNA into condensed chromosomes during mitosis is essential for the faithful segregation of the genome into daughter nuclei. Although the structure and composition of mitotic chromosomes have been studied for over 30 years, these aspects are yet to be fully elucidated. Here, we used stable isotope labeling with amino acids in cell culture to compare the proteomes of mitotic chromosomes isolated from cell lines harboring conditional knockouts of members of the condensin (SMC2, CAP-H, CAP-D3), cohesin (Scc1/Rad21), and SMC5/6 (SMC5) complexes. Our analysis revealed that these complexes associate with chromosomes independently of each other, with the SMC5/6 complex showing no significant dependence on any other chromosomal proteins during mitosis. To identify subtle relationships between chromosomal proteins, we employed a nano Random Forest (nanoRF) approach to detect protein complexes and the relationships between them. Our nanoRF results suggested that as few as 113 of 5058 detected chromosomal proteins are functionally linked to chromosome structure and segregation. Furthermore, nanoRF data revealed 23 proteins that were not previously suspected to have functional interactions with complexes playing important roles in mitosis. Subsequent small-interfering-RNA-based validation and localization tracking by green fluorescent protein-tagging highlighted novel candidates that might play significant roles in mitotic progression. PMID:27231315

  11. Aging and random-field magnetism in ferromagnet/antiferromagnet bilayers

    NASA Astrophysics Data System (ADS)

    Ma, Tianyu; Freeman, Ryan; Cheng, Xiang; Boettcher, Stefan; Urazhdin, Sergei

    Exchange interaction at the interface between a ferromagnet (F) and an antiferromagnet (AF) results in a random effective exchange field acting on both F and AF, which can produce complex equilibrium and dynamical states. We utilized anisotropic magnetoresistance to look for signatures of such states in epitaxial Py =Permalloy/Fe50Mn50 and polycrystalline CoO/Py bilayers. For thin AF layers, both systems exhibit slow cooperative aging indicative of a complex glassy state. Aging follows the same small power-law or logarithmic dependence and is observed over a wide range of temperatures and fields, suggesting a universal aging mechanism. Glassy relaxation is not observed at any temperature for AF thickness above 3.5nm. We argue that these observations are inconsistent with the usual ``granular'' and ``domain-state'' models of F/AF systems. We discuss the implications of our results for the random field magnetism, and the relationship between the dimensionality and the topological properties of magnetic systems. Supported by NSF DMR-1504449.

  12. Certified randomness from a two-level system in a relativistic quantum field

    NASA Astrophysics Data System (ADS)

    Thinh, Le Phuc; Bancal, Jean-Daniel; Martín-Martínez, Eduardo

    2016-08-01

    Randomness is an indispensable resource in modern science and information technology. Fortunately, an experimentally simple procedure exists to generate randomness with well-characterized devices: measuring a quantum system in a basis complementary to its preparation. Towards realizing this goal one may consider using atoms or superconducting qubits, promising candidates for quantum information processing. However, their unavoidable interaction with the electromagnetic field affects their dynamics. At large time scales, this can result in decoherence. Smaller time scales in principle avoid this problem, but may not be well analyzed under the usual rotating wave and single mode approximation (RWA and SMA) which break the relativistic nature of quantum field theory. Here, we use a fully relativistic analysis to quantify the information that an adversary with access to the field could get on the result of an atomic measurement. Surprisingly, we find that the adversary's guessing probability is not minimized for atoms initially prepared in the ground state (an intuition derived from the RWA and SMA model).

  13. Ising spin glass under continuous-distribution random magnetic fields: Tricritical points and instability lines.

    PubMed

    Crokidakis, Nuno; Nobre, Fernando D

    2008-04-01

    The effects of random magnetic fields are considered in an Ising spin-glass model defined in the limit of infinite-range interactions. The probability distribution for the random magnetic fields is a double Gaussian, which consists of two Gaussian distributions centered, respectively, at +H0 and -H0, presenting the same width sigma . It is argued that such a distribution is more appropriate for a theoretical description of real systems than its simpler particular two well-known limits, namely, the single Gaussian distribution (sigma>H0) and the bimodal one (sigma=0) . The model is investigated by means of the replica method, and phase diagrams are obtained within the replica-symmetric solution. Critical frontiers exhibiting tricritical points occur for different values of sigma , with the possibility of two tricritical points along the same critical frontier. To our knowledge, it is the first time that such a behavior is verified for a spin-glass model in the presence of a continuous-distribution random field, which represents a typical situation of a real system. The stability of the replica-symmetric solution is analyzed, and the usual Almeida-Thouless instability is verified for low temperatures. It is verified that the higher-temperature tricritical point always appears in the region of stability of the replica-symmetric solution; a condition involving the parameters H0 and sigma , for the occurrence of this tricritical point only, is obtained analytically. Some of our results are discussed in view of experimental measurements available in the literature.

  14. Cosmic rays in a random magnetic field: Breakdown of the quasilinear derivation of the kinetic equation

    NASA Technical Reports Server (NTRS)

    Kaiser, T. B.; Jones, F. C.; Birmingham, T. J.

    1972-01-01

    The problem of deriving a kinetic equation for the cosmic ray distribution function in a random magnetic field is considered. A model is adopted which is mathematically simple but which contains the essential physics. The perturbation expansion upon which the quasi-linear treatment is based is investigated. The existence of resonant particles causes the breakdown of the adiabatic approximation frequently used in this theory. Resonant particles cause a general secular growth of higher order terms in the expansion which invalidates the entire perturbative approach.

  15. Multiple scattering by a collection of randomly located obstacles - numerical implementation of the coherent fields

    NASA Astrophysics Data System (ADS)

    Gustavsson, Magnus; Kristensson, Gerhard; Wellander, Niklas

    2016-12-01

    A numerical implementation of a method to analyze scattering by randomly located obstacles in a slab geometry is presented. In general, the obstacles can be of arbitrary shape, but, in this first implementation, the obstacles are dielectric spheres. The coherent part of the reflected and transmitted intensity at normal incidence is treated. Excellent agreement with numerical results found in the literature of the effective wave number is obtained. Moreover, comparisons with the results of the Bouguer-Beer (B-B) law are made. The present theory also gives a small reflected coherent field, which is not predicted by the Bouguer-Beer law, and these results are discussed in some detail.

  16. Genetic profiling of Klebsiella pneumoniae: comparison of pulsed field gel electrophoresis and random amplified polymorphic DNA

    PubMed Central

    Ashayeri-Panah, Mitra; Eftekhar, Fereshteh; Ghamsari, Maryam Mobarak; Parvin, Mahmood; Feizabadi, Mohammad Mehdi

    2013-01-01

    In this study, the discriminatory power of pulsed field gel electrophoresis (PFGE) and random amplified polymorphic DNA (RAPD) methods for subtyping of 54 clinical isolates of Klebsiella pneumoniae were compared. All isolates were typeable by RAPD, while 3.6% of them were not typeable by PFGE. The repeatability of both typing methods were 100% with satisfying reproducibility (≥ 95%). Although the discriminatory power of PFGE was greater than RAPD, both methods showed sufficient discriminatory power (DI > 0.95) which reflects the heterogeneity among the K. pneumoniae isolates. An optimized RAPD protocol is less technically demanding and time consuming that makes it a reliable typing method and competitive with PFGE. PMID:24516423

  17. Theory of Distribution Estimation of Hyperparameters in Markov Random Field Models

    NASA Astrophysics Data System (ADS)

    Sakamoto, Hirotaka; Nakanishi-Ohno, Yoshinori; Okada, Masato

    2016-06-01

    We investigated the performance of distribution estimation of hyperparameters in Markov random field models proposed by Nakanishi-Ohno et al., http://doi.org/10.1088/1751-8113/47/4/045001, J. Phys. A 47, 045001 (2014) when used to evaluate the confidence of data. We analytically calculated the configurational average, with respect to data, of the negative logarithm of the posterior distribution, which is called free energy based on an analogy with statistical mechanics. This configurational average of free energy shrinks as the amount of data increases. Our results theoretically confirm the numerical results from that previous study.

  18. Conditional Random Field-Based Offline Map Matching for Indoor Environments.

    PubMed

    Bataineh, Safaa; Bahillo, Alfonso; Díez, Luis Enrique; Onieva, Enrique; Bataineh, Ikram

    2016-08-16

    In this paper, we present an offline map matching technique designed for indoor localization systems based on conditional random fields (CRF). The proposed algorithm can refine the results of existing indoor localization systems and match them with the map, using loose coupling between the existing localization system and the proposed map matching technique. The purpose of this research is to investigate the efficiency of using the CRF technique in offline map matching problems for different scenarios and parameters. The algorithm was applied to several real and simulated trajectories of different lengths. The results were then refined and matched with the map using the CRF algorithm.

  19. Conditional Random Field-Based Offline Map Matching for Indoor Environments

    PubMed Central

    Bataineh, Safaa; Bahillo, Alfonso; Díez, Luis Enrique; Onieva, Enrique; Bataineh, Ikram

    2016-01-01

    In this paper, we present an offline map matching technique designed for indoor localization systems based on conditional random fields (CRF). The proposed algorithm can refine the results of existing indoor localization systems and match them with the map, using loose coupling between the existing localization system and the proposed map matching technique. The purpose of this research is to investigate the efficiency of using the CRF technique in offline map matching problems for different scenarios and parameters. The algorithm was applied to several real and simulated trajectories of different lengths. The results were then refined and matched with the map using the CRF algorithm. PMID:27537892

  20. Effects of the random single-ion anisotropy and random magnetic field in the spin-3/2 Blume-Capel model

    NASA Astrophysics Data System (ADS)

    da Silva, W. P.; de Arruda, P. H. Z.; Tunes, T. M.; Godoy, M.; de Arruda, A. S.

    2017-01-01

    We have studied the effects of the random single-ion anisotropy and random magnetic field in the phase diagram and in the thermodynamic properties of the spin-3/2 Blume-Capel model via Curie-Weiss mean-field approximation. The phase diagrams were built in the planes temperature versus single-ion anisotropy, temperature versus magnetic field, temperature versus random parameters and the dependencies of magnetization were plotted versus temperature and single-ion anisotropy. These diagrams show that, in the space (D / J - T / J) , the type (first- or second-order) of the phase transition between the ferromagnetic and paramagnetic phases is dependent on the random parameters. Therefore, within these conditions the model presents tricritical behavior. For large values, and a certain critical value of the random parameters, the phase transition is only of second-order, but it is of first-order within the ordered phase, between the phase with m = 1 / 2 and m = 3 / 2 , which ends in a terminal critical point.

  1. Sharp Trapping Boundaries in the Random Walk of Interplanetary Magnetic Field Lines

    NASA Astrophysics Data System (ADS)

    Ruffolo, D.; Chuychai, P.; Meechai, J.; Pongkitiwanichkul, P.; Kimpraphan, N.; Matthaeus, W. H.; Rowlands, G.

    2004-05-01

    Although magnetic field lines in space are believed to undergo a diffusive random walk in the long-distance limit, observed dropouts of solar energetic particles, as well as computer simulations, indicate sharply defined filaments in which interplanetary magnetic field lines have been temporarily trapped. We identify mechanisms that can explain such sharp boundaries in the framework of 2D+slab turbulence, a model that provides a good explanation of solar wind turbulence spectra and the parallel transport of solar energetic particles. Local trapping boundaries (LTBs) are empirically defined as trajectories of 2D turbulence where the mean 2D field is a local maximum. In computer simulations, the filaments (or ``islands'' in the two dimensions perpendicular to the mean field) that are most resistant to slab diffusion correspond closely to the mathematically defined LTBs, that is, there is a mathematical prescription for defining the trapping regions. Furthermore, we provide computational evidence and a theoretical explanation that strong 2D turbulence can inhibit diffusion due to the slab component. Therefore, while these filaments are basically defined by the small-scale topology of 2D turbulence, there can be sharp trapping boundaries where the 2D field is strongest. This work was supported by the Thailand Research Fund, the Rachadapisek Sompoj Fund of Chulalongkorn University, and NASA Grant NAG5-11603. G.R. thanks Mahidol University for its hospitality and the Thailand Commission for Higher Education for travel support.

  2. An exact solution of solute transport by one-dimensional random velocity fields

    USGS Publications Warehouse

    Cvetkovic, V.D.; Dagan, G.; Shapiro, A.M.

    1991-01-01

    The problem of one-dimensional transport of passive solute by a random steady velocity field is investigated. This problem is representative of solute movement in porous media, for example, in vertical flow through a horizontally stratified formation of variable porosity with a constant flux at the soil surface. Relating moments of particle travel time and displacement, exact expressions for the advection and dispersion coefficients in the Focker-Planck equation are compared with the perturbation results for large distances. The first- and second-order approximations for the dispersion coefficient are robust for a lognormal velocity field. The mean Lagrangian velocity is the harmonic mean of the Eulerian velocity for large distances. This is an artifact of one-dimensional flow where the continuity equation provides for a divergence free fluid flux, rather than a divergence free fluid velocity. ?? 1991 Springer-Verlag.

  3. The diffusive idealization of charged particle transport in random magnetic fields

    NASA Technical Reports Server (NTRS)

    Earl, J. A.

    1974-01-01

    The transport of charged particles diffusing in a random magnetic field parallel to a relatively large guiding field is presented. The same coefficient of diffusion is obtained by three methods. Two corrections must be added to the expression in which the diffusive flux is proportional to the gradient of the density. Explicit expressions are given for a characteristic time and a characteristic length which describe the corrections. The well known divergence of the coefficient of diffusion, which is implied by the quasilinear analysis of pitch angle scattering, does not occur if the scattering rate is finite at 90 deg pitch angle. This effect is illustrated by formulas which give the coefficient of diffusion when the quasilinear expression is perturbed by a variable amount of isotropic scattering.

  4. Mixture model and Markov random field-based remote sensing image unsupervised clustering method

    NASA Astrophysics Data System (ADS)

    Hou, Y.; Yang, Y.; Rao, N.; Lun, X.; Lan, J.

    2011-03-01

    In this paper, a novel method for remote sensing image clustering based on mixture model and Markov random field (MRF) is proposed. A remote sensing image can be considered as Gaussian mixture model. The image clustering result corresponding to the image label field is a MRF. So, the image clustering procedure is transformed to a maximum a posterior (MAP) problem by Bayesian theorem. The intensity difference and the spatial distance between the two pixels in the same clique are introduced into the traditional MRF potential function. The iterative conditional model (ICM) is employed to find the solution of MAP. We use the max entropy criterion to choose the optimal clustering number. In the experiments, the method is compared with the traditional MRF clustering method using ICM and simulated annealing (SA). The results show that this method is better than the traditional MRF model both in noise filtering and miss-classification ratio.

  5. Efficient Semantic Segmentation of Man-Made Scenes Using Fully-Connected Conditional Random Field

    NASA Astrophysics Data System (ADS)

    Li, Weihao; Yang, Michael Ying

    2016-06-01

    In this paper we explore semantic segmentation of man-made scenes using fully connected conditional random field (CRF). Images of man-made scenes display strong contextual dependencies in the spatial structures. Fully connected CRFs can model long-range connections within the image of man-made scenes and make use of contextual information of scene structures. The pairwise edge potentials of fully connected CRF models are defined by a linear combination of Gaussian kernels. Using filter-based mean field algorithm, the inference is very efficient. Our experimental results demonstrate that fully connected CRF performs better than previous state-of-the-art approaches on both eTRIMS dataset and LabelMeFacade dataset.

  6. Markov random field and Gaussian mixture for segmented MRI-based partial volume correction in PET

    NASA Astrophysics Data System (ADS)

    Bousse, Alexandre; Pedemonte, Stefano; Thomas, Benjamin A.; Erlandsson, Kjell; Ourselin, Sébastien; Arridge, Simon; Hutton, Brian F.

    2012-10-01

    In this paper we propose a segmented magnetic resonance imaging (MRI) prior-based maximum penalized likelihood deconvolution technique for positron emission tomography (PET) images. The model assumes the existence of activity classes that behave like a hidden Markov random field (MRF) driven by the segmented MRI. We utilize a mean field approximation to compute the likelihood of the MRF. We tested our method on both simulated and clinical data (brain PET) and compared our results with PET images corrected with the re-blurred Van Cittert (VC) algorithm, the simplified Guven (SG) algorithm and the region-based voxel-wise (RBV) technique. We demonstrated our algorithm outperforms the VC algorithm and outperforms SG and RBV corrections when the segmented MRI is inconsistent (e.g. mis-segmentation, lesions, etc) with the PET image.

  7. 3D Mesh Segmentation Based on Markov Random Fields and Graph Cuts

    NASA Astrophysics Data System (ADS)

    Shi, Zhenfeng; Le, Dan; Yu, Liyang; Niu, Xiamu

    3D Mesh segmentation has become an important research field in computer graphics during the past few decades. Many geometry based and semantic oriented approaches for 3D mesh segmentation has been presented. However, only a few algorithms based on Markov Random Field (MRF) has been presented for 3D object segmentation. In this letter, we present a definition of mesh segmentation according to the labeling problem. Inspired by the capability of MRF combining the geometric information and the topology information of a 3D mesh, we propose a novel 3D mesh segmentation model based on MRF and Graph Cuts. Experimental results show that our MRF-based schema achieves an effective segmentation.

  8. Comment on "Diffusion by a random velocity field" [Phys. Fluids 13, 22 (1970)

    NASA Astrophysics Data System (ADS)

    Saad, Tony; Sutherland, James C.

    2016-11-01

    This comment aims at addressing a mass conservation issue in a paper published in the physics of fluids. The paper [R. H. Kraichnan, "Diffusion by a random velocity field," Phys. Fluids 13(1), 22 (1970)] introduces a novel method to generate synthetic isotropic turbulence for computational purposes. The method has been used in the literature to generate inlet boundary conditions and to model aeroacoustic noise as well as for validation and verification purposes. However, the technique uses a continuous formulation to derive the mass conservation constraint. In this comment, we argue that the continuous constraint is invalid on a discrete grid and provide an alternative derivation using the discrete divergence. In addition, we present an analysis to quantify the impact of a pressure projection on the kinetic energy of a non-solenoidal velocity field.

  9. Glassy phases and driven response of the phase-field-crystal model with random pinning.

    PubMed

    Granato, E; Ramos, J A P; Achim, C V; Lehikoinen, J; Ying, S C; Ala-Nissila, T; Elder, K R

    2011-09-01

    We study the structural correlations and the nonlinear response to a driving force of a two-dimensional phase-field-crystal model with random pinning. The model provides an effective continuous description of lattice systems in the presence of disordered external pinning centers, allowing for both elastic and plastic deformations. We find that the phase-field crystal with disorder assumes an amorphous glassy ground state, with only short-ranged positional and orientational correlations, even in the limit of weak disorder. Under increasing driving force, the pinned amorphous-glass phase evolves into a moving plastic-flow phase and then, finally, a moving smectic phase. The transverse response of the moving smectic phase shows a vanishing transverse critical force for increasing system sizes.

  10. The effect of adiabatic focusing upon charged particle propagation in random magnetic fields

    NASA Technical Reports Server (NTRS)

    Earl, J. A.

    1975-01-01

    Charged particles propagating along the diverging lines of force of a spatially inhomogeneous guiding field were considered as they are scattered by random fields. Their longitudinal transport is described in terms of the eigenfunctions of a Sturm-Liouville operator incorporating the effect of adiabatic focussing along with that of scattering. The relaxation times and characteristic velocities are graphed and tabulated. The particle density is evaluated as a function of space and time for two different regimes. In the first regime (relatively weak focussing), a diffusive mode of propagation is dominant but coherent modes are also dominant. In the second regime (strong focussing), diffusion does not occur and the propagation is purely coherent. This supercoherent mode corresponds exactly to the so-called scatter-free propagation of kilovolt solar flare electrons. On a larger scale, focussed transport provides an interpretation of many observed characteristics of extragalactic radio sources.

  11. Does Encouragement Matter in Improving Gender Imbalances in Technical Fields? Evidence from a Randomized Controlled Trial

    PubMed Central

    Unkovic, Cait; Sen, Maya; Quinn, Kevin M.

    2016-01-01

    Does encouragement help address gender imbalances in technical fields? We present the results of one of the first and largest randomized controlled trials on the topic. Using an applied statistics conference in the social sciences as our context, we randomly assigned half of a pool of 3,945 graduate students to receive two personalized emails encouraging them to apply (n = 1,976) and the other half to receive nothing (n = 1,969). We find a robust, positive effect associated with this simple intervention and suggestive evidence that women responded more strongly than men. However, we find that women’s conference acceptance rates are higher within the control group than in the treated group. This is not the case for men. The reason appears to be that female applicants in the treated group solicited supporting letters at lower rates. Our findings therefore suggest that “low dose” interventions may promote diversity in STEM fields but may also have the potential to expose underlying disparities when used alone or in a non-targeted way. PMID:27097315

  12. Seeking mathematics success for college students: a randomized field trial of an adapted approach

    NASA Astrophysics Data System (ADS)

    Gula, Taras; Hoessler, Carolyn; Maciejewski, Wes

    2015-11-01

    Many students enter the Canadian college system with insufficient mathematical ability and leave the system with little improvement. Those students who enter with poor mathematics ability typically take a developmental mathematics course as their first and possibly only mathematics course. The educational experiences that comprise a developmental mathematics course vary widely and are, too often, ineffective at improving students' ability. This trend is concerning, since low mathematics ability is known to be related to lower rates of success in subsequent courses. To date, little attention has been paid to the selection of an instructional approach to consistently apply across developmental mathematics courses. Prior research suggests that an appropriate instructional method would involve explicit instruction and practising mathematical procedures linked to a mathematical concept. This study reports on a randomized field trial of a developmental mathematics approach at a college in Ontario, Canada. The new approach is an adaptation of the JUMP Math program, an explicit instruction method designed for primary and secondary school curriculae, to the college learning environment. In this study, a subset of courses was assigned to JUMP Math and the remainder was taught in the same style as in the previous years. We found consistent, modest improvement in the JUMP Math sections compared to the non-JUMP sections, after accounting for potential covariates. The findings from this randomized field trial, along with prior research on effective education for developmental mathematics students, suggest that JUMP Math is a promising way to improve college student outcomes.

  13. Effect of psychological skills training during military survival school: a randomized, controlled field study.

    PubMed

    Taylor, Marcus K; Stanfill, Katherine E; Padilla, Genieleah A; Markham, Amanda E; Ward, Michael D; Koehler, Matthew M; Anglero, Antonio; Adams, Barry D

    2011-12-01

    In this randomized, controlled field study, we examined the effects of a brief psychological skills training (PST) intervention on stress responses during military survival school. A second purpose was to build upon prior research in this unique environment by extending the follow-up window to 3 months. Baseline subjective distress (dissociative) symptoms were measured in 65 male military subjects, who were then randomized either to PST or a control group that received no training beyond the normal survival school curriculum. PST received training in arousal control, mental imagery, goal setting, and positive self-talk in two separate 40-minute sessions before stressful field exercises. Stress symptoms were then assessed during a mock-captivity phase of training, as well as 24 hours, 1 month, and 3 months after completion of training. Repeated-measures analyses of variance with follow-up paired t tests examined differences between groups and across time. Survival training precipitated remarkable increases in subjective distress, but few substantive group differences emerged. This study extends prior work quantifying the human stress response to intense military training.

  14. GENERAL: Mean-field Theory for Some Bus Transport Networks with Random Overlapping Clique Structure

    NASA Astrophysics Data System (ADS)

    Yang, Xu-Hua; Sun, Bao; Wang, Bo; Sun, You-Xian

    2010-04-01

    Transport networks, such as railway networks and airport networks, are a kind of random network with complex topology. Recently, more and more scholars paid attention to various kinds of transport networks and try to explore their inherent characteristics. Here we study the exponential properties of a recently introduced Bus Transport Networks (BTNs) evolution model with random overlapping clique structure, which gives a possible explanation for the observed exponential distribution of the connectivities of some BTNs of three major cities in China. Applying mean-field theory, we analyze the BTNs model and prove that this model has the character of exponential distribution of the connectivities, and develop a method to predict the growth dynamics of the individual vertices, and use this to calculate analytically the connectivity distribution and the exponents. By comparing mean-field based theoretic results with the statistical data of real BTNs, we observe that, as a whole, both of their data show similar character of exponential distribution of the connectivities, and their exponents have same order of magnitude, which show the availability of the analytical result of this paper.

  15. Scene-Layout Compatible Conditional Random Field for Classifying Terrestrial Laser Point Clouds

    NASA Astrophysics Data System (ADS)

    Luo, C.; Sohn, G.

    2014-08-01

    Terrestrial Laser Scanning (TLS) rapidly becomes a primary surveying tool due to its fast acquisition of highly dense threedimensional point clouds. For fully utilizing its benefits, developing a robust method to classify many objects of interests from huge amounts of laser point clouds is urgently required. Conditional Random Field (CRF) is a well-known discriminative classifier, which integrates local appearance of the observation (laser point) with spatial interactions among its neighbouring points in classification process. Typical CRFs employ generic label consistency using short-range dependency only, which often causes locality problem. In this paper, we present a multi-range and asymmetric Conditional Random Field (CRF) (maCRF), which adopts a priori information of scene-layout compatibility addressing long-range dependency. The proposed CRF constructs two graphical models, one for enhancing a local labelling smoothness within short-range (srCRF) and the other for favouring a global and asymmetric regularity of spatial arrangement between different object classes within long-range (lrCRF). This maCRF classifier assumes two graphical models (srCRF and lrCRF) are independent of each other. Final labelling decision was accomplished by probabilistically combining prediction results obtained from two CRF models. We validated maCRF's performance with TLS point clouds acquired from RIEGL LMS-Z390i scanner using cross validation. Experiment results demonstrate that synergetic classification improvement can be achievable by incorporating two CRF models.

  16. Parallel and deterministic algorithms from MRFs (Markov Random Fields): Surface reconstruction and integration. Memorandum report

    SciTech Connect

    Geiger, D.; Girosi, F.

    1989-05-01

    In recent years many researchers have investigated the use of Markov random fields (MRFs) for computer vision. They can be applied for example in the output of the visual processes to reconstruct surfaces from sparse and noisy depth data, or to integrate early vision processes to label physical discontinuities. Drawbacks of MRFs models have been the computational complexity of the implementation and the difficulty in estimating the parameters of the model. This paper derives deterministic approximations to MRFs models. One of the considered models is shown to give in a natural way the graduate non convexity (GNC) algorithm. This model can be applied to smooth a field preserving its discontinuities. A new model is then proposed: it allows the gradient of the field to be enhanced at the discontinuities and smoothed elsewhere. All the theoretical results are obtained in the framework of the mean field theory, that is a well known statistical mechanics technique. A fast, parallel, and iterative algorithm to solve the deterministic equations of the two models is presented, together with experiments on synthetic and real images. The algorithm is applied to the problem of surface reconstruction is in the case of sparse data. A fast algorithm is also described that solves the problem of aligning the discontinuities of different visual models with intensity edges via integration.

  17. Genetic analysis of Apuleia leiocarpa as revealed by random amplified polymorphic DNA markers: prospects for population genetic studies.

    PubMed

    Lencina, K H; Konzen, E R; Tsai, S M; Bisognin, D A

    2016-12-19

    Apuleia leiocarpa (Vogel) J.F. MacBride is a hardwood species native to South America, which is at serious risk of extinction. Therefore, it is of prime importance to examine the genetic diversity of this species, information required for developing conservation, sustainable management, and breeding strategies. Although scarcely used in recent years, random amplified polymorphic DNA markers are useful resources for the analysis of genetic diversity and structure of tree species. This study represents the first genetic analysis based on DNA markers in A. leiocarpa that aimed to investigate the levels of polymorphism and to select markers for the precise characterization of its genetic structure. We adapted the original DNA extraction protocol based on cetyltrimethyl ammonium bromide, and describe a simple procedure that can be used to obtain high-quality samples from leaf tissues of this tree. Eighteen primers were selected, revealing 92 bands, from which 75 were polymorphic and 61 were sufficient to represent the overall genetic structure of the population without compromising the precision of the analysis. Some fragments were conserved among individuals, which can be sequenced and used to analyze nucleotide diversity parameters through a wider set of A. leiocarpa individuals and populations. The individuals were separated into 11 distinct groups with variable levels of genetic diversity, which is important for selecting desirable genotypes and for the development of a conservation and sustainable management program. Our results are of prime importance for further investigations concerning the genetic characterization of this important, but vulnerable species.

  18. Spin dynamics of polarons and polaron pairs in a random hyperfine field

    NASA Astrophysics Data System (ADS)

    Roundy, Robert C.

    Spin-dependent recombination of polaron pairs and spin relaxation of a single polaron are the most fundamental processes are responsible for the performance of organic spintronics-based devices such as light-emitting diodes and organic spin valves. In organic materials, with no spin-orbit coupling, both processes are due to random hyperfine fields created by protons neighboring the polaron sites. The essence of spin-dependent recombination is that in order to recombine the pair must be in the singlet state. Hyperfine fields acting on the electron and hole govern the spin-dynamics of localized pairs during the waiting time for recombination. We demonstrate that for certain domain of trapping configurations of hyperfine fields, crossover to the singlet state is quenched. This leads to the blocking of current. The phenomenon of organic magnetoresistance (OMAR) is described by counting the weights of trapping configurations as a function of magnetic field. This explains the universality of the lineshapes of the OMAR curves. In finite samples incomplete averaging over the hyperfine fields gives rise to mesoscopic fluctuations of the current response. We also demonstrate that under the condition of magnetic resonance, new trapping configurations emerge. This leads to nontrivial evolution of current through the sample with microwave power. When discussing spin-relaxation two questions can be asked: (a) How does the local spin polarization decay as a function of distance from the spin-polarized injector? (b) How does the injected spin decay as a function of time after spatial averaging? With regard to (a), we demonstrate that, while decaying exponentially on average, local spin-polarization exhibits giant fluctuations from point to point. Concerning (b), we find that for a spin-carrier which moves diffusively in low dimensions the decay is faster than a simple exponent. The underlying physics for both findings is that in describing spin evolution it is necessary to add up

  19. Effect of platykurtic and leptokurtic distributions in the random-field Ising model: mean-field approach.

    PubMed

    Duarte Queirós, Sílvio M; Crokidakis, Nuno; Soares-Pinto, Diogo O

    2009-07-01

    The influence of the tail features of the local magnetic field probability density function (PDF) on the ferromagnetic Ising model is studied in the limit of infinite range interactions. Specifically, we assign a quenched random field whose value is in accordance with a generic distribution that bears platykurtic and leptokurtic distributions depending on a single parameter tau<3 to each site. For tau<5/3, such distributions, which are basically Student-t and r distribution extended for all plausible real degrees of freedom, present a finite standard deviation, if not the distribution has got the same asymptotic power-law behavior as a alpha-stable Lévy distribution with alpha=(3-tau)/(tau-1). For every value of tau, at specific temperature and width of the distribution, the system undergoes a continuous phase transition. Strikingly, we impart the emergence of an inflexion point in the temperature-PDF width phase diagrams for distributions broader than the Cauchy-Lorentz (tau=2) which is accompanied with a divergent free energy per spin (at zero temperature).

  20. Nonlinear susceptibility of a quantum spin glass under uniform transverse and random longitudinal magnetic fields

    NASA Astrophysics Data System (ADS)

    Magalhaes, S. G.; Morais, C. V.; Zimmer, F. M.; Lazo, M. J.; Nobre, F. D.

    2017-02-01

    The interplay between quantum fluctuations and disorder is investigated in a quantum spin-glass model, in the presence of a uniform transverse field Γ , as well as of a longitudinal random field hi, which follows a Gaussian distribution characterized by a width proportional to Δ . The interactions are infinite-ranged, and the model is studied through the replica formalism, within a one-step replica-symmetry-breaking procedure; in addition, the dependence of the Almeida-Thouless eigenvalue λAT (replicon) on the applied fields is analyzed. This study is motivated by experimental investigations on the LiHoxY1 -xF4 compound, where the application of a transverse magnetic field yields rather intriguing effects, particularly related to the behavior of the nonlinear magnetic susceptibility χ3, which have led to a considerable experimental and theoretical debate. We have analyzed two physically distinct situations, namely, Δ and Γ considered as independent, as well as these two quantities related, as proposed recently by some authors. In both cases, a spin-glass phase transition is found at a temperature Tf, with such phase being characterized by a nontrivial ergodicity breaking; moreover, Tf decreases by increasing Γ towards a quantum critical point at zero temperature. The situation where Δ and Γ are related [Δ ≡Δ (Γ )] appears to reproduce better the experimental observations on the LiHoxY1 -xF4 compound, with the theoretical results coinciding qualitatively with measurements of the nonlinear susceptibility χ3. In this later case, by increasing Γ gradually, χ3 becomes progressively rounded, presenting a maximum at a temperature T* (T*>Tf ), with both the amplitude of the maximum and the value of T* decreasing gradually. Moreover, we also show that the random field is the main responsible for the smearing of the nonlinear susceptibility, acting significantly inside the paramagnetic phase, leading to two regimes delimited by the temperature T*, one for Tf

  1. Table Extraction from Web Pages Using Conditional Random Fields to Extract Toponym Related Data

    NASA Astrophysics Data System (ADS)

    Luthfi Hanifah, Hayyu’; Akbar, Saiful

    2017-01-01

    Table is one of the ways to visualize information on web pages. The abundant number of web pages that compose the World Wide Web has been the motivation of information extraction and information retrieval research, including the research for table extraction. Besides, there is a need for a system which is designed to specifically handle location-related information. Based on this background, this research is conducted to provide a way to extract location-related data from web tables so that it can be used in the development of Geographic Information Retrieval (GIR) system. The location-related data will be identified by the toponym (location name). In this research, a rule-based approach with gazetteer is used to recognize toponym from web table. Meanwhile, to extract data from a table, a combination of rule-based approach and statistical-based approach is used. On the statistical-based approach, Conditional Random Fields (CRF) model is used to understand the schema of the table. The result of table extraction is presented on JSON format. If a web table contains toponym, a field will be added on the JSON document to store the toponym values. This field can be used to index the table data in accordance to the toponym, which then can be used in the development of GIR system.

  2. A Poisson Random Field Framework Bridges Micro- To Macroscopic Scales In Microbial Transport

    NASA Astrophysics Data System (ADS)

    Yeghiazarian, L.; Safwat, A.; Shuster, W.; Samorodnitsky, G.; Whiteaker, T. L.; Maidment, D. R.

    2014-12-01

    Understanding microbial fate and transport in surface water and making accurate predictions is a formidable task. Evidence from experimental and observational studies unequivocally points to temporal and spatial variability in microbial distributions with significant correlation structure; and to the critical role of processes at the microscopic level. The temporal and spatial variability in microbial distributions arises from inherently random environmental factors and processes. Many cannot be described accurately using deterministic methods, necessitating a stochastic approach to microbial modeling. At the same time, microbial tracking studies identified significant spatial and temporal correlations in microbial distributions in streams, and highlighted the necessity of including microbial interactions with sediments, settling and re-suspension in models of microbial transport. Such understanding must be gained from microscopic, particle-scale research, because microdynamic interactions ultimately give rise to phenomena on higher scales. The challenge then is to be able to describe microbial behavior in probabilistic terms to take care of random drivers, while incorporating processes on microscopic scale and bridging the gap to macroscopic entities like concentrations that are used in watershed management. We have derived a stochastic modeling paradigm that bridges microscopic processes to macroscopic manifestation of microbial behavior in time and space, where the Markov behavior of individual microbes collectively translates into a non-homogeneous Poisson random field that describes microbial population dynamics. The Poisson framework is applied to a mixed-use watershed and implemented within ArcGIS, which makes a wealth of geographic, topologic, soil and other information, as well as data from national and regional datasets, instantly available. Probabilities of exceeding microbial safety thresholds are then obtained at any point in time and space in the

  3. Role of polar nanoregions with weak random fields in Pb-based perovskite ferroelectrics

    PubMed Central

    Helal, M. A.; Aftabuzzaman, M.; Tsukada, S.; Kojima, S.

    2017-01-01

    In relaxor ferroelectrics, the role of randomly orientated polar nanoregions (PNRs) with weak random fields (RFs) is one of the most puzzling issues of materials science. The relaxation time of polarization fluctuations of PNRs, which manifests themselves as a central peak (CP) in inelastic light scattering, is the important physical quantity to understand the dynamics of PNRs. Here, the angular and temperature dependences of depolarized and polarized CPs in 0.44Pb(Mg1/3Nb2/3)O3-0.56PbTiO3 single crystals with weak RFs have been studied by Raman and Brillouin scattering, respectively. The CPs observed in Raman scattering show the very clear angular dependence which is consistent with the local tetragonal symmetry. It is different from the well-known local rhombohedral symmetry with strong RFs for Pb(Mg1/3Nb2/3)O3. In Brillouin scattering, depolarized and polarized CPs show two relaxation processes corresponding to transverse and longitudinal fluctuations of PNRs. The remarkable slowing down towards the Curie temperature was observed for transverse fluctuations in local tetragonal symmetry. PMID:28300152

  4. Role of polar nanoregions with weak random fields in Pb-based perovskite ferroelectrics

    NASA Astrophysics Data System (ADS)

    Helal, M. A.; Aftabuzzaman, M.; Tsukada, S.; Kojima, S.

    2017-03-01

    In relaxor ferroelectrics, the role of randomly orientated polar nanoregions (PNRs) with weak random fields (RFs) is one of the most puzzling issues of materials science. The relaxation time of polarization fluctuations of PNRs, which manifests themselves as a central peak (CP) in inelastic light scattering, is the important physical quantity to understand the dynamics of PNRs. Here, the angular and temperature dependences of depolarized and polarized CPs in 0.44Pb(Mg1/3Nb2/3)O3-0.56PbTiO3 single crystals with weak RFs have been studied by Raman and Brillouin scattering, respectively. The CPs observed in Raman scattering show the very clear angular dependence which is consistent with the local tetragonal symmetry. It is different from the well-known local rhombohedral symmetry with strong RFs for Pb(Mg1/3Nb2/3)O3. In Brillouin scattering, depolarized and polarized CPs show two relaxation processes corresponding to transverse and longitudinal fluctuations of PNRs. The remarkable slowing down towards the Curie temperature was observed for transverse fluctuations in local tetragonal symmetry.

  5. T→0 mean-field population dynamics approach for the random 3 -satisfiability problem

    NASA Astrophysics Data System (ADS)

    Zhou, Haijun

    2008-06-01

    During the past decade, phase-transition phenomena in the random 3-satisfiability ( 3 -SAT) problem has been intensively studied by statistical physics methods. In this work, we study the random 3 -SAT problem by the mean-field first-step replica-symmetry-broken cavity theory at the limit of temperature T→0 . The reweighting parameter y of the cavity theory is allowed to approach infinity together with the inverse temperature β with fixed ratio r=y/β . Focusing on the system’s space of satisfiable configurations, we carry out extensive population dynamics simulations using the technique of importance sampling, and we obtain the entropy density s(r) and complexity Σ(r) of zero-energy clusters at different r values. We demonstrate that the population dynamics may reach different fixed points with different types of initial conditions. By knowing the trends of s(r) and Σ(r) with r , we can judge whether a certain type of initial condition is appropriate at a given r value. This work complements and confirms the results of several other very recent theoretical studies.

  6. Pulsed electromagnetic fields on postmenopausal osteoporosis in Southwest China: a randomized, active-controlled clinical trial.

    PubMed

    Liu, Hui-Fang; Yang, Lin; He, Hong-Chen; Zhou, Jun; Liu, Ying; Wang, Chun-Yan; Wu, Yuan-Chao; He, Cheng-Qi

    2013-05-01

    A randomized, active-controlled clinical trial was conducted to examine the effect of pulsed electromagnetic fields (PEMFs) on women with postmenopausal osteoporosis (PMO) in southwest China. Forty-four participants were randomly assigned to receive alendronate or one course of PEMFs treatment. The primary endpoint was the mean percentage change in bone mineral density of the lumbar spine (BMDL), and secondary endpoints were the mean percentage changes in left proximal femur bone mineral density (BMDF), serum 25OH vitamin D3 (25(OH)D) concentrations, total lower-extremity manual muscle test (LE MMT) score, and Berg Balance Scale (BBS) score. The BMDL, BMDF, total LE MMT score and BBS score were recorded at baseline, 5, 12, and 24 weeks. Serum concentrations of 25(OH)D were measured at baseline and 5 weeks. Using a mixed linear model, there was no significant treatment difference between the two groups in the BMDL, BMDF, total LE MMT score, and BBS score (P ≥ 0.05). For 25(OH)D concentrations, the effects were also comparable between the two groups (P ≥ 0.05) with the Mann-Whitney's U-test. These results suggested that a course of PEMFs treatment with specific parameters was as effective as alendronate in treating PMO within 24 weeks.

  7. The role of treatment fidelity on outcomes during a randomized field trial of an autism intervention.

    PubMed

    Mandell, David S; Stahmer, Aubyn C; Shin, Sujie; Xie, Ming; Reisinger, Erica; Marcus, Steven C

    2013-05-01

    This randomized field trial comparing Strategies for Teaching based on Autism Research and Structured Teaching enrolled educators in 33 kindergarten-through-second-grade autism support classrooms and 119 students, aged 5-8 years in the School District of Philadelphia. Students were assessed at the beginning and end of the academic year using the Differential Ability Scales. Program fidelity was measured through video coding and use of a checklist. Outcomes were assessed using linear regression with random effects for classroom and student. Average fidelity was 57% in Strategies for Teaching based on Autism Research classrooms and 48% in Structured Teaching classrooms. There was a 9.2-point (standard deviation = 9.6) increase in Differential Ability Scales score over the 8-month study period, but no main effect of program. There was a significant interaction between fidelity and group. In classrooms with either low or high program fidelity, students in Strategies for Teaching based on Autism Research experienced a greater gain in Differential Ability Scales score than students in Structured Teaching (11.2 vs. 5.5 points and 11.3 vs. 8.9 points, respectively). In classrooms with moderate fidelity, students in Structured Teaching experienced a greater gain than students in Strategies for Teaching based on Autism Research (10.1 vs. 4.4 points). The results suggest significant variability in implementation of evidence-based practices, even with supports, and also suggest the need to address challenging issues related to implementation measurement in community settings.

  8. High energy X-ray phase and dark-field imaging using a random absorption mask.

    PubMed

    Wang, Hongchang; Kashyap, Yogesh; Cai, Biao; Sawhney, Kawal

    2016-07-28

    High energy X-ray imaging has unique advantage over conventional X-ray imaging, since it enables higher penetration into materials with significantly reduced radiation damage. However, the absorption contrast in high energy region is considerably low due to the reduced X-ray absorption cross section for most materials. Even though the X-ray phase and dark-field imaging techniques can provide substantially increased contrast and complementary information, fabricating dedicated optics for high energies still remain a challenge. To address this issue, we present an alternative X-ray imaging approach to produce transmission, phase and scattering signals at high X-ray energies by using a random absorption mask. Importantly, in addition to the synchrotron radiation source, this approach has been demonstrated for practical imaging application with a laboratory-based microfocus X-ray source. This new imaging method could be potentially useful for studying thick samples or heavy materials for advanced research in materials science.

  9. Conditional random fields as classifiers for three-class motor-imagery brain-computer interfaces

    NASA Astrophysics Data System (ADS)

    Awwad Shiekh Hasan, Bashar; Gan, John Q.

    2011-04-01

    Conditional random fields (CRFs) are demonstrated to be a discriminative model able to exploit the temporal properties of EEG data obtained during synchronous three-class motor-imagery-based brain-computer interface experiments. The advantages of CRFs over the hidden Markov model (HMM) are both theoretical and practical. Theoretically, CRFs focus on modeling latent variables (labels) rather than both observation and latent variables. Furthermore, CRFs' loss function is convex, guaranteeing convergence to the global optimum. Practically, CRFs are much less prone to singularity problems. This property allows for the use of both time- and frequency-based features, such as band power. The HMM, on the other hand, requires temporal features such as autoregressive coefficients. A CRF-based classifier is tested on 13 subjects. Significant improvement is found when applying CRFs over HMM- and LDA-based classifiers.

  10. Evaluating Consumer m-Health Services for Promoting Healthy Eating: A Randomized Field Experiment.

    PubMed

    Kato-Lin, Yi-Chin; Padman, Rema; Downs, Julie; Abhishek, Vibhanshu

    2015-01-01

    Mobile apps have great potential to deliver promising interventions to engage consumers and change their health-related behaviors, such as healthy eating. Currently, the interventions for promoting healthy eating are either too onerous to keep consumers engaged or too restrictive to keep consumers connected with healthcare professionals. In addition, while social media allows individuals to receive information from many sources, it is unclear how peer support interacts with professional support in the context of such interventions. This study proposes and evaluates three mobile-enabled interventions to address these challenges. We examine their effects on user engagement and food choices via a 4-month randomized field experiment. Mixed models provide strong evidence of the positive effect of image-based dietitian support and negative effects of peer support, and moderate evidence of the positive effects of mobile-based visual diary, highlighting the value of mobile apps for delivering advanced interventions to engage users and facilitate behavior change.

  11. Scene estimation from speckled synthetic aperture radar imagery: Markov-random-field approach.

    PubMed

    Lankoande, Ousseini; Hayat, Majeed M; Santhanam, Balu

    2006-06-01

    A novel Markov-random-field model for speckled synthetic aperture radar (SAR) imagery is derived according to the physical, spatial statistical properties of speckle noise in coherent imaging. A convex Gibbs energy function for speckled images is derived and utilized to perform speckle-compensating image estimation. The image estimation is formed by computing the conditional expectation of the noisy image at each pixel given its neighbors, which is further expressed in terms of the derived Gibbs energy function. The efficacy of the proposed technique, in terms of reducing speckle noise while preserving spatial resolution, is studied by using both real and simulated SAR imagery. Using a number of commonly used metrics, the performance of the proposed technique is shown to surpass that of existing speckle-noise-filtering methods such as the Gamma MAP, the modified Lee, and the enhanced Frost.

  12. Markov random field model for segmenting large populations of lipid vesicles from micrographs.

    PubMed

    Zupanc, Jernej; Drobne, Damjana; Ster, Branko

    2011-12-01

    Giant unilamellar lipid vesicles, artificial replacements for cell membranes, are a promising tool for in vitro assessment of interactions between products of nanotechnologies and biological membranes. However, the effect of nanoparticles can not be derived from observations on a single specimen, vesicle populations should be observed instead. We propose an adaptation of the Markov random field image segmentation model which allows detection and segmentation of numerous vesicles in micrographs. The reliability of this model with different lighting, blur, and noise characteristics of micrographs is examined and discussed. Moreover, the automatic segmentation is tested on micrographs with thousands of vesicles and the result is compared to that of manual segmentation. The segmentation step presented is part of a methodology we are developing for bio-nano interaction assessment studies on lipid vesicles.

  13. A novel approach to assess the treatment response using Gaussian random field in PET

    PubMed Central

    Wang, Mengdie; Guo, Ning; Hu, Guangshu; El Fakhri, Georges; Zhang, Hui; Li, Quanzheng

    2016-01-01

    Purpose: The assessment of early therapeutic response to anticancer therapy is vital for treatment planning and patient management in clinic. With the development of personal treatment plan, the early treatment response, especially before any anatomically apparent changes after treatment, becomes urgent need in clinic. Positron emission tomography (PET) imaging serves an important role in clinical oncology for tumor detection, staging, and therapy response assessment. Many studies on therapy response involve interpretation of differences between two PET images, usually in terms of standardized uptake values (SUVs). However, the quantitative accuracy of this measurement is limited. This work proposes a statistically robust approach for therapy response assessment based on Gaussian random field (GRF) to provide a statistically more meaningful scale to evaluate therapy effects. Methods: The authors propose a new criterion for therapeutic assessment by incorporating image noise into traditional SUV method. An analytical method based on the approximate expressions of the Fisher information matrix was applied to model the variance of individual pixels in reconstructed images. A zero mean unit variance GRF under the null hypothesis (no response to therapy) was obtained by normalizing each pixel of the post-therapy image with the mean and standard deviation of the pretherapy image. The performance of the proposed method was evaluated by Monte Carlo simulation, where XCAT phantoms (1282 pixels) with lesions of various diameters (2–6 mm), multiple tumor-to-background contrasts (3–10), and different changes in intensity (6.25%–30%) were used. The receiver operating characteristic curves and the corresponding areas under the curve were computed for both the proposed method and the traditional methods whose figure of merit is the percentage change of SUVs. The formula for the false positive rate (FPR) estimation was developed for the proposed therapy response assessment

  14. Growth of 'dizzy dendrites' in a random field of foreign particles

    NASA Astrophysics Data System (ADS)

    Gránásy, László; Pusztai, Tamás; Warren, James A.; Douglas, Jack F.; Börzsönyi, Tamás; Ferreiro, Vincent

    2003-02-01

    Microstructure plays an essential role in determining the properties of crystalline materials. A widely used method to influence microstructure is the addition of nucleating agents. Observations on films formed from clay-polymer blends indicate that particulate additives, in addition to serving as nucleating agents, may also perturb crystal growth, leading to the formation of irregular dendritic morphologies. Here we describe the formation of these 'dizzy dendrites' using a phase-field theory, in which randomly distributed foreign particle inclusions perturb the crystallization by deflecting the tips of the growing dendrite arms. This mechanism of crystallization, which is verified experimentally, leads to a polycrystalline structure dependent on particle configuration and orientation. Using computer simulations we demonstrate that additives of controlled crystal orientation should allow for a substantial manipulation of the crystallization morphology.

  15. A Markov random field approach for modeling spatio-temporal evolution of microstructures

    NASA Astrophysics Data System (ADS)

    Acar, Pinar; Sundararaghavan, Veera

    2016-10-01

    The following problem is addressed: ‘Can one synthesize microstructure evolution over a large area given experimental movies measured over smaller regions?’ Our input is a movie of microstructure evolution over a small sample window. A Markov random field (MRF) algorithm is developed that uses this data to estimate the evolution of microstructure over a larger region. Unlike the standard microstructure reconstruction problem based on stationary images, the present algorithm is also able to reconstruct time-evolving phenomena such as grain growth. Such an algorithm would decrease the cost of full-scale microstructure measurements by coupling mathematical estimation with targeted small-scale spatiotemporal measurements. The grain size, shape and orientation distribution statistics of synthesized polycrystalline microstructures at different times are compared with the original movie to verify the method.

  16. Many-body localization in a long range XXZ model with random-field

    NASA Astrophysics Data System (ADS)

    Li, Bo

    2016-12-01

    Many-body localization (MBL) in a long range interaction XXZ model with random field are investigated. Using the exact diagonal method, the MBL phase diagram with different tuning parameters and interaction range is obtained. It is found that the phase diagram of finite size results supplies strong evidence to confirm that the threshold interaction exponent α = 2. The tuning parameter Δ can efficiently change the MBL edge in high energy density stats, thus the system can be controlled to transfer from thermal phase to MBL phase by changing Δ. The energy level statistics data are consistent with result of the MBL phase diagram. However energy level statistics data cannot detect the thermal phase correctly in extreme long range case.

  17. Suspicious activity recognition in infrared imagery using Hidden Conditional Random Fields for outdoor perimeter surveillance

    NASA Astrophysics Data System (ADS)

    Rogotis, Savvas; Ioannidis, Dimosthenis; Tzovaras, Dimitrios; Likothanassis, Spiros

    2015-04-01

    The aim of this work is to present a novel approach for automatic recognition of suspicious activities in outdoor perimeter surveillance systems based on infrared video processing. Through the combination of size, speed and appearance based features, like the Center-Symmetric Local Binary Patterns, short-term actions are identified and serve as input, along with user location, for modeling target activities using the theory of Hidden Conditional Random Fields. HCRFs are used to directly link a set of observations to the most appropriate activity label and as such to discriminate high risk activities (e.g. trespassing) from zero risk activities (e.g loitering outside the perimeter). Experimental results demonstrate the effectiveness of our approach in identifying suspicious activities for video surveillance systems.

  18. Evaluating Consumer m-Health Services for Promoting Healthy Eating: A Randomized Field Experiment

    PubMed Central

    Kato-Lin, Yi-Chin; Padman, Rema; Downs, Julie; Abhishek, Vibhanshu

    2015-01-01

    Mobile apps have great potential to deliver promising interventions to engage consumers and change their health-related behaviors, such as healthy eating. Currently, the interventions for promoting healthy eating are either too onerous to keep consumers engaged or too restrictive to keep consumers connected with healthcare professionals. In addition, while social media allows individuals to receive information from many sources, it is unclear how peer support interacts with professional support in the context of such interventions. This study proposes and evaluates three mobile-enabled interventions to address these challenges. We examine their effects on user engagement and food choices via a 4-month randomized field experiment. Mixed models provide strong evidence of the positive effect of image-based dietitian support and negative effects of peer support, and moderate evidence of the positive effects of mobile-based visual diary, highlighting the value of mobile apps for delivering advanced interventions to engage users and facilitate behavior change. PMID:26958294

  19. Incorporating conditional random fields and active learning to improve sentiment identification.

    PubMed

    Zhang, Kunpeng; Xie, Yusheng; Yang, Yi; Sun, Aaron; Liu, Hengchang; Choudhary, Alok

    2014-10-01

    Many machine learning, statistical, and computational linguistic methods have been developed to identify sentiment of sentences in documents, yielding promising results. However, most of state-of-the-art methods focus on individual sentences and ignore the impact of context on the meaning of a sentence. In this paper, we propose a method based on conditional random fields to incorporate sentence structure and context information in addition to syntactic information for improving sentiment identification. We also investigate how human interaction affects the accuracy of sentiment labeling using limited training data. We propose and evaluate two different active learning strategies for labeling sentiment data. Our experiments with the proposed approach demonstrate a 5%-15% improvement in accuracy on Amazon customer reviews compared to existing supervised learning and rule-based methods.

  20. SkipCor: Skip-Mention Coreference Resolution Using Linear-Chain Conditional Random Fields

    PubMed Central

    Žitnik, Slavko; Šubelj, Lovro; Bajec, Marko

    2014-01-01

    Coreference resolution tries to identify all expressions (called mentions) in observed text that refer to the same entity. Beside entity extraction and relation extraction, it represents one of the three complementary tasks in Information Extraction. In this paper we describe a novel coreference resolution system SkipCor that reformulates the problem as a sequence labeling task. None of the existing supervised, unsupervised, pairwise or sequence-based models are similar to our approach, which only uses linear-chain conditional random fields and supports high scalability with fast model training and inference, and a straightforward parallelization. We evaluate the proposed system against the ACE 2004, CoNLL 2012 and SemEval 2010 benchmark datasets. SkipCor clearly outperforms two baseline systems that detect coreferentiality using the same features as SkipCor. The obtained results are at least comparable to the current state-of-the-art in coreference resolution. PMID:24956272

  1. System for Detecting Potential Lost Person based on Conditional Random Field

    NASA Astrophysics Data System (ADS)

    Kusuma, R. S.; Saptawati, G. A. P.

    2017-01-01

    Global Positioning System (GPS) technology has been used widely in transsportation industry to help company in managing taxis. The most popular GPS utilization for taxi company is to identify the position of taxis and monitor theirs the mobility. Nowdays, data collected from GPS tracker is combined with data from taxi meter are analyzed to provide region information regarding potential passengers. Zicheng Liao’s proposed a system based on GPS taxi data to detect anomalous area/region which was then interpreted as region with to predict rare passengers. The system was developed based on conditional random field (CRF) method and features position, velocity, passenger loading information. Our research was aimed to develop tool based on GPS data to detect potential lost person. We motivated by Liao research and modified the algorithms and features of CRF. Our experiments showed that the system has precision of 98.86% and recall of 87.478%.

  2. Large-scale magnetic field generation by randomly forced shearing waves.

    PubMed

    Heinemann, T; McWilliams, J C; Schekochihin, A A

    2011-12-16

    A rigorous theory for the generation of a large-scale magnetic field by random nonhelically forced motions of a conducting fluid combined with a linear shear is presented in the analytically tractable limit of low magnetic Reynolds number (Rm) and weak shear. The dynamo is kinematic and due to fluctuations in the net (volume-averaged) electromotive force. This is a minimal proof-of-concept quasilinear calculation aiming to put the shear dynamo, a new effect recently found in numerical experiments, on a firm theoretical footing. Numerically observed scalings of the wave number and growth rate of the fastest-growing mode, previously not understood, are derived analytically. The simplicity of the model suggests that shear dynamo action may be a generic property of sheared magnetohydrodynamic turbulence.

  3. Brain tumor segmentation in 3D MRIs using an improved Markov random field model

    NASA Astrophysics Data System (ADS)

    Yousefi, Sahar; Azmi, Reza; Zahedi, Morteza

    2011-10-01

    Markov Random Field (MRF) models have been recently suggested for MRI brain segmentation by a large number of researchers. By employing Markovianity, which represents the local property, MRF models are able to solve a global optimization problem locally. But they still have a heavy computation burden, especially when they use stochastic relaxation schemes such as Simulated Annealing (SA). In this paper, a new 3D-MRF model is put forward to raise the speed of the convergence. Although, search procedure of SA is fairly localized and prevents from exploring the same diversity of solutions, it suffers from several limitations. In comparison, Genetic Algorithm (GA) has a good capability of global researching but it is weak in hill climbing. Our proposed algorithm combines SA and an improved GA (IGA) to optimize the solution which speeds up the computation time. What is more, this proposed algorithm outperforms the traditional 2D-MRF in quality of the solution.

  4. Document page structure learning for fixed-layout e-books using conditional random fields

    NASA Astrophysics Data System (ADS)

    Tao, Xin; Tang, Zhi; Xu, Canhui

    2013-12-01

    In this paper, a model is proposed to learn logical structure of fixed-layout document pages by combining support vector machine (SVM) and conditional random fields (CRF). Features related to each logical label and their dependencies are extracted from various original Portable Document Format (PDF) attributes. Both local evidence and contextual dependencies are integrated in the proposed model so as to achieve better logical labeling performance. With the merits of SVM as local discriminative classifier and CRF modeling contextual correlations of adjacent fragments, it is capable of resolving the ambiguities of semantic labels. The experimental results show that CRF based models with both tree and chain graph structures outperform the SVM model with an increase of macro-averaged F1 by about 10%.

  5. Segmentation of angiodysplasia lesions in WCE images using a MAP approach with Markov Random Fields.

    PubMed

    Vieira, Pedro M; Goncalves, Bruno; Goncalves, Carla R; Lima, Carlos S

    2016-08-01

    This paper deals with the segmentation of angiodysplasias in wireless capsule endoscopy images. These lesions are the cause of almost 10% of all gastrointestinal bleeding episodes, and its detection using the available software presents low sensitivity. This work proposes an automatic selection of a ROI using an image segmentation module based on the MAP approach where an accelerated version of the EM algorithm is used to iteratively estimate the model parameters. Spatial context is modeled in the prior probability density function using Markov Random Fields. The color space used was CIELab, specially the a component, which highlighted most these type of lesions. The proposed method is the first regarding this specific type of lesions, but when compared to other state-of-the-art segmentation methods, it almost doubles the results.

  6. Anomalous transport in fluid field with random waiting time depending on the preceding jump length

    NASA Astrophysics Data System (ADS)

    Zhang, Hong; Li, Guo-Hua

    2016-11-01

    Anomalous (or non-Fickian) transport behaviors of particles have been widely observed in complex porous media. To capture the energy-dependent characteristics of non-Fickian transport of a particle in flow fields, in the present paper a generalized continuous time random walk model whose waiting time probability distribution depends on the preceding jump length is introduced, and the corresponding master equation in Fourier-Laplace space for the distribution of particles is derived. As examples, two generalized advection-dispersion equations for Gaussian distribution and lévy flight with the probability density function of waiting time being quadratic dependent on the preceding jump length are obtained by applying the derived master equation. Project supported by the Foundation for Young Key Teachers of Chengdu University of Technology, China (Grant No. KYGG201414) and the Opening Foundation of Geomathematics Key Laboratory of Sichuan Province, China (Grant No. scsxdz2013009).

  7. Quantum Phase Transition in the Two-Dimensional Random Transverse-Field Ising Model

    NASA Astrophysics Data System (ADS)

    Pich, C.; Young, A. P.

    1998-03-01

    We study the quantum phase transition in the random transverse-field Ising model by Monte Carlo simulations. In one-dimension it has been established that this system has the following striking behavior: (i) the dynamical exponent is infinite, and (ii) the exponents for the divergence of the average and typical correlation lengths are different. An important issue is whether this behavior is special to one-dimension or whether similar behavior persists in higher dimensions. Here we attempt to answer this question by studies of the two-dimensional model. Our simulations use the Wolff cluster algorithm and the results are analyzed by anisotropic finite size scaling, paying particular attention to the Binder ratio of moments of the order parameter distribution and the distribution of the spin-spin correlation functions for various distances.

  8. Crop Type Mapping from a Sequence of Terrasar-X Images with Dynamic Conditional Random Fields

    NASA Astrophysics Data System (ADS)

    Kenduiywo, B. K.; Bargiel, D.; Soergel, U.

    2016-06-01

    Crop phenology is dynamic as it changes with times of the year. Such biophysical processes also look spectrally different to remote sensing satellites. Some crops may depict similar spectral properties if their phenology coincide, but differ later when their phenology diverge. Thus, conventional approaches that select only images from phenological stages where crops are distinguishable for classification, have low discrimination. In contrast, stacking images within a cropping season limits discrimination to a single feature space that can suffer from overlapping classes. Since crop backscatter varies with time, it can aid discrimination. Therefore, our main objective is to develop a crop sequence classification method using multitemporal TerraSAR-X images. We adopt first order markov assumption in undirected temporal graph sequence. This property is exploited to implement Dynamic Conditional Random Fields (DCRFs). Our DCRFs model has a repeated structure of temporally connected Conditional Random Fields (CRFs). Each node in the sequence is connected to its predecessor via conditional probability matrix. The matrix is computed using posterior class probabilities from association potential. This way, there is a mutual temporal exchange of phenological information observed in TerraSAR-X images. When compared to independent epoch classification, the designed DCRF model improved crop discrimination at each epoch in the sequence. However, government, insurers, agricultural market traders and other stakeholders are interested in the quantity of a certain crop in a season. Therefore, we further develop a DCRF ensemble classifier. The ensemble produces an optimal crop map by maximizing over posterior class probabilities selected from the sequence based on maximum F1-score and weighted by correctness. Our ensemble technique is compared to standard approach of stacking all images as bands for classification using Maximum Likelihood Classifier (MLC) and standard CRFs. It

  9. Spin-glass phase transition and behavior of nonlinear susceptibility in the Sherrington-Kirkpatrick model with random fields

    NASA Astrophysics Data System (ADS)

    Morais, C. V.; Zimmer, F. M.; Lazo, M. J.; Magalhães, S. G.; Nobre, F. D.

    2016-06-01

    The behavior of the nonlinear susceptibility χ3 and its relation to the spin-glass transition temperature Tf in the presence of random fields are investigated. To accomplish this task, the Sherrington-Kirkpatrick model is studied through the replica formalism, within a one-step replica-symmetry-breaking procedure. In addition, the dependence of the Almeida-Thouless eigenvalue λAT (replicon) on the random fields is analyzed. Particularly, in the absence of random fields, the temperature Tf can be traced by a divergence in the spin-glass susceptibility χSG, which presents a term inversely proportional to the replicon λAT. As a result of a relation between χSG and χ3, the latter also presents a divergence at Tf, which comes as a direct consequence of λAT=0 at Tf. However, our results show that, in the presence of random fields, χ3 presents a rounded maximum at a temperature T* which does not coincide with the spin-glass transition temperature Tf (i.e., T*>Tf for a given applied random field). Thus, the maximum value of χ3 at T* reflects the effects of the random fields in the paramagnetic phase instead of the nontrivial ergodicity breaking associated with the spin-glass phase transition. It is also shown that χ3 still maintains a dependence on the replicon λAT, although in a more complicated way as compared with the case without random fields. These results are discussed in view of recent observations in the LiHoxY1 -xF4 compound.

  10. Disordered Route to the Coulomb Quantum Spin Liquid: Random Transverse Fields on Spin Ice in Pr_{2}Zr_{2}O_{7}.

    PubMed

    Wen, J-J; Koohpayeh, S M; Ross, K A; Trump, B A; McQueen, T M; Kimura, K; Nakatsuji, S; Qiu, Y; Pajerowski, D M; Copley, J R D; Broholm, C L

    2017-03-10

    Inelastic neutron scattering reveals a broad continuum of excitations in Pr_{2}Zr_{2}O_{7}, the temperature and magnetic field dependence of which indicate a continuous distribution of quenched transverse fields (Δ) acting on the non-Kramers Pr^{3+} crystal field ground state doublets. Spin-ice correlations are apparent within 0.2 meV of the Zeeman energy. A random phase approximation provides an excellent account of the data with a transverse field distribution ρ(Δ)∝(Δ^{2}+Γ^{2})^{-1}, where Γ=0.27(1)  meV. Established during high temperature synthesis due to an underlying structural instability, it appears disorder in Pr_{2}Zr_{2}O_{7} actually induces a quantum spin liquid.

  11. Disordered Route to the Coulomb Quantum Spin Liquid: Random Transverse Fields on Spin Ice in Pr2Zr2O7

    NASA Astrophysics Data System (ADS)

    Wen, J.-J.; Koohpayeh, S. M.; Ross, K. A.; Trump, B. A.; McQueen, T. M.; Kimura, K.; Nakatsuji, S.; Qiu, Y.; Pajerowski, D. M.; Copley, J. R. D.; Broholm, C. L.

    2017-03-01

    Inelastic neutron scattering reveals a broad continuum of excitations in Pr2Zr2O7, the temperature and magnetic field dependence of which indicate a continuous distribution of quenched transverse fields (Δ ) acting on the non-Kramers Pr3 + crystal field ground state doublets. Spin-ice correlations are apparent within 0.2 meV of the Zeeman energy. A random phase approximation provides an excellent account of the data with a transverse field distribution ρ (Δ )∝(Δ2+Γ2)-1 , where Γ =0.27 (1 ) meV . Established during high temperature synthesis due to an underlying structural instability, it appears disorder in Pr2Zr2O7 actually induces a quantum spin liquid.

  12. Class-specific weighting for Markov random field estimation: application to medical image segmentation.

    PubMed

    Monaco, James P; Madabhushi, Anant

    2012-12-01

    Many estimation tasks require Bayesian classifiers capable of adjusting their performance (e.g. sensitivity/specificity). In situations where the optimal classification decision can be identified by an exhaustive search over all possible classes, means for adjusting classifier performance, such as probability thresholding or weighting the a posteriori probabilities, are well established. Unfortunately, analogous methods compatible with Markov random fields (i.e. large collections of dependent random variables) are noticeably absent from the literature. Consequently, most Markov random field (MRF) based classification systems typically restrict their performance to a single, static operating point (i.e. a paired sensitivity/specificity). To address this deficiency, we previously introduced an extension of maximum posterior marginals (MPM) estimation that allows certain classes to be weighted more heavily than others, thus providing a means for varying classifier performance. However, this extension is not appropriate for the more popular maximum a posteriori (MAP) estimation. Thus, a strategy for varying the performance of MAP estimators is still needed. Such a strategy is essential for several reasons: (1) the MAP cost function may be more appropriate in certain classification tasks than the MPM cost function, (2) the literature provides a surfeit of MAP estimation implementations, several of which are considerably faster than the typical Markov Chain Monte Carlo methods used for MPM, and (3) MAP estimation is used far more often than MPM. Consequently, in this paper we introduce multiplicative weighted MAP (MWMAP) estimation-achieved via the incorporation of multiplicative weights into the MAP cost function-which allows certain classes to be preferred over others. This creates a natural bias for specific classes, and consequently a means for adjusting classifier performance. Similarly, we show how this multiplicative weighting strategy can be applied to the MPM

  13. Stochastic generation of explicit pore structures by thresholding Gaussian random fields

    SciTech Connect

    Hyman, Jeffrey D.; Winter, C. Larrabee

    2014-11-15

    We provide a description and computational investigation of an efficient method to stochastically generate realistic pore structures. Smolarkiewicz and Winter introduced this specific method in pores resolving simulation of Darcy flows (Smolarkiewicz and Winter, 2010 [1]) without giving a complete formal description or analysis of the method, or indicating how to control the parameterization of the ensemble. We address both issues in this paper. The method consists of two steps. First, a realization of a correlated Gaussian field, or topography, is produced by convolving a prescribed kernel with an initial field of independent, identically distributed random variables. The intrinsic length scales of the kernel determine the correlation structure of the topography. Next, a sample pore space is generated by applying a level threshold to the Gaussian field realization: points are assigned to the void phase or the solid phase depending on whether the topography over them is above or below the threshold. Hence, the topology and geometry of the pore space depend on the form of the kernel and the level threshold. Manipulating these two user prescribed quantities allows good control of pore space observables, in particular the Minkowski functionals. Extensions of the method to generate media with multiple pore structures and preferential flow directions are also discussed. To demonstrate its usefulness, the method is used to generate a pore space with physical and hydrological properties similar to a sample of Berea sandstone. -- Graphical abstract: -- Highlights: •An efficient method to stochastically generate realistic pore structures is provided. •Samples are generated by applying a level threshold to a Gaussian field realization. •Two user prescribed quantities determine the topology and geometry of the pore space. •Multiple pore structures and preferential flow directions can be produced. •A pore space based on Berea sandstone is generated.

  14. Effects of Preferential Solvation Revealed by Time-Resolved Magnetic Field Effects.

    PubMed

    Pham, Van Thi Bich; Hoang, Hao Minh; Grampp, Günter; Kattnig, Daniel Rudolf

    2017-03-06

    External magnetic fields can impact recombination yields of photo-induced electron transfer reactions by affecting the spin dynamics in transient, spin-correlated radical pair intermediates. For exciplex-forming donor-acceptor systems, this magnetic field effect (MFE) can be investigated sensitively by studying the delayed recombination fluorescence. Here, we investigate the effect of preferential solvation in micro-heterogeneous solvent mixtures on the radical pair dynamics of the system 9,10-dimethylanthracene (fluorophore) / N,N-dimethylaniline (quencher) by means of time-resolved magnetic field effect (TR-MFE) measurements, wherein the exciplex emission is recorded in the absence and the presence of an external magnetic field using Time-Correlated Single Photon Counting (TCSPC). In micro-heterogeneous environments, the MFE of the exciplex emission occurs on a faster timescale than in iso-dielectric homogeneous solvents. In addition, the local polarity reported by the exciplex is enhanced compared to homogeneous solvent mixtures of the same macroscopic permittivity. Detailed analyses of the TR-MFE reveal that the quenching reaction directly yielding the radical ion pair is favored in micro-heterogeneous environments. This is in stark contrast to homogeneous media, for which the MFE predominantly involves direct formation of the exciplex, its subsequent dissociation to the magneto-sensitive radical pair, and re-encounters. These observations provide evidence for polar micro-domains and enhanced caging, which are shown to have a significant impact on the reaction dynamics in micro-heterogeneous binary solvents.

  15. Effects of Preferential Solvation Revealed by Time-Resolved Magnetic Field Effects

    PubMed Central

    2017-01-01

    External magnetic fields can impact recombination yields of photoinduced electron transfer reactions by affecting the spin dynamics in transient, spin-correlated radical pair intermediates. For exciplex-forming donor–acceptor systems, this magnetic field effect (MFE) can be investigated sensitively by studying the delayed recombination fluorescence. Here, we investigate the effect of preferential solvation in microheterogeneous solvent mixtures on the radical pair dynamics of the system 9,10-dimethylanthracene (fluorophore)/N,N-dimethylaniline (quencher) by means of time-resolved magnetic field effect (TR-MFE) measurements, wherein the exciplex emission is recorded in the absence and the presence of an external magnetic field using time-correlated single photon counting (TCSPC). In microheterogeneous environments, the MFE of the exciplex emission occurs on a faster time scale than in iso-dielectric homogeneous solvents. In addition, the local polarity reported by the exciplex is enhanced compared to homogeneous solvent mixtures of the same macroscopic permittivity. Detailed analyses of the TR-MFE reveal that the quenching reaction directly yielding the radical ion pair is favored in microheterogeneous environments. This is in stark contrast to homogeneous media, for which the MFE predominantly involves direct formation of the exciplex, its subsequent dissociation to the magneto-sensitive radical pair, and re-encounters. These observations provide evidence for polar microdomains and enhanced caging, which are shown to have a significant impact on the reaction dynamics in microheterogeneous binary solvents. PMID:28263599

  16. Multilayer Markov Random Field models for change detection in optical remote sensing images

    NASA Astrophysics Data System (ADS)

    Benedek, Csaba; Shadaydeh, Maha; Kato, Zoltan; Szirányi, Tamás; Zerubia, Josiane

    2015-09-01

    In this paper, we give a comparative study on three Multilayer Markov Random Field (MRF) based solutions proposed for change detection in optical remote sensing images, called Multicue MRF, Conditional Mixed Markov model, and Fusion MRF. Our purposes are twofold. On one hand, we highlight the significance of the focused model family and we set them against various state-of-the-art approaches through a thematic analysis and quantitative tests. We discuss the advantages and drawbacks of class comparison vs. direct approaches, usage of training data, various targeted application fields and different ways of Ground Truth generation, meantime informing the Reader in which roles the Multilayer MRFs can be efficiently applied. On the other hand we also emphasize the differences between the three focused models at various levels, considering the model structures, feature extraction, layer interpretation, change concept definition, parameter tuning and performance. We provide qualitative and quantitative comparison results using principally a publicly available change detection database which contains aerial image pairs and Ground Truth change masks. We conclude that the discussed models are competitive against alternative state-of-the-art solutions, if one uses them as pre-processing filters in multitemporal optical image analysis. In addition, they cover together a large range of applications, considering the different usage options of the three approaches.

  17. The infinite-order conditional random field model for sequential data modeling.

    PubMed

    Chatzis, Sotirios P; Demiris, Yiannis

    2013-06-01

    Sequential data labeling is a fundamental task in machine learning applications, with speech and natural language processing, activity recognition in video sequences, and biomedical data analysis being characteristic examples, to name just a few. The conditional random field (CRF), a log-linear model representing the conditional distribution of the observation labels, is one of the most successful approaches for sequential data labeling and classification, and has lately received significant attention in machine learning as it achieves superb prediction performance in a variety of scenarios. Nevertheless, existing CRF formulations can capture only one- or few-timestep interactions and neglect higher order dependences, which are potentially useful in many real-life sequential data modeling applications. To resolve these issues, in this paper we introduce a novel CRF formulation, based on the postulation of an energy function which entails infinitely long time-dependences between the modeled data. Building blocks of our novel approach are: 1) the sequence memoizer (SM), a recently proposed nonparametric Bayesian approach for modeling label sequences with infinitely long time dependences, and 2) a mean-field-like approximation of the model marginal likelihood, which allows for the derivation of computationally efficient inference algorithms for our model. The efficacy of the so-obtained infinite-order CRF (CRF(∞)) model is experimentally demonstrated.

  18. Super-rough glassy phase of the random field XY model in two dimensions.

    PubMed

    Perret, Anthony; Ristivojevic, Zoran; Le Doussal, Pierre; Schehr, Grégory; Wiese, Kay J

    2012-10-12

    We study both analytically, using the renormalization group (RG) to two loop order, and numerically, using an exact polynomial algorithm, the disorder-induced glass phase of the two-dimensional XY model with quenched random symmetry-breaking fields and without vortices. In the super-rough glassy phase, i.e., below the critical temperature T(c), the disorder and thermally averaged correlation function B(r) of the phase field θ(x), B(r)=([θ(x)-θ(x+r)](2)) behaves, for r > a, as B(r) is approximately equal to A(τ)ln(2)(r/a) where r=|r| and a is a microscopic length scale. We derive the RG equations up to cubic order in τ=(T(c)-T)/T(c) and predict the universal amplitude A(τ)=2τ(2)-2τ(3)+O(τ(4)). The universality of A(τ) results from nontrivial cancellations between nonuniversal constants of RG equations. Using an exact polynomial algorithm on an equivalent dimer version of the model we compute A(τ) numerically and obtain a remarkable agreement with our analytical prediction, up to τ≈0.5.

  19. Temporal coherence of the acoustic field forward propagated through a continental shelf with random internal waves.

    PubMed

    Gong, Zheng; Chen, Tianrun; Ratilal, Purnima; Makris, Nicholas C

    2013-11-01

    An analytical model derived from normal mode theory for the accumulated effects of range-dependent multiple forward scattering is applied to estimate the temporal coherence of the acoustic field forward propagated through a continental-shelf waveguide containing random three-dimensional internal waves. The modeled coherence time scale of narrow band low-frequency acoustic field fluctuations after propagating through a continental-shelf waveguide is shown to decay with a power-law of range to the -1/2 beyond roughly 1 km, decrease with increasing internal wave energy, to be consistent with measured acoustic coherence time scales. The model should provide a useful prediction of the acoustic coherence time scale as a function of internal wave energy in continental-shelf environments. The acoustic coherence time scale is an important parameter in remote sensing applications because it determines (i) the time window within which standard coherent processing such as matched filtering may be conducted, and (ii) the number of statistically independent fluctuations in a given measurement period that determines the variance reduction possible by stationary averaging.

  20. Analysis and Validation of Grid dem Generation Based on Gaussian Markov Random Field

    NASA Astrophysics Data System (ADS)

    Aguilar, F. J.; Aguilar, M. A.; Blanco, J. L.; Nemmaoui, A.; García Lorca, A. M.

    2016-06-01

    Digital Elevation Models (DEMs) are considered as one of the most relevant geospatial data to carry out land-cover and land-use classification. This work deals with the application of a mathematical framework based on a Gaussian Markov Random Field (GMRF) to interpolate grid DEMs from scattered elevation data. The performance of the GMRF interpolation model was tested on a set of LiDAR data (0.87 points/m2) provided by the Spanish Government (PNOA Programme) over a complex working area mainly covered by greenhouses in Almería, Spain. The original LiDAR data was decimated by randomly removing different fractions of the original points (from 10% to up to 99% of points removed). In every case, the remaining points (scattered observed points) were used to obtain a 1 m grid spacing GMRF-interpolated Digital Surface Model (DSM) whose accuracy was assessed by means of the set of previously extracted checkpoints. The GMRF accuracy results were compared with those provided by the widely known Triangulation with Linear Interpolation (TLI). Finally, the GMRF method was applied to a real-world case consisting of filling the LiDAR-derived DSM gaps after manually filtering out non-ground points to obtain a Digital Terrain Model (DTM). Regarding accuracy, both GMRF and TLI produced visually pleasing and similar results in terms of vertical accuracy. As an added bonus, the GMRF mathematical framework makes possible to both retrieve the estimated uncertainty for every interpolated elevation point (the DEM uncertainty) and include break lines or terrain discontinuities between adjacent cells to produce higher quality DTMs.

  1. Segmenting pectoralis muscle on digital mammograms by a Markov random field-maximum a posteriori model

    PubMed Central

    Ge, Mei; Mainprize, James G.; Mawdsley, Gordon E.; Yaffe, Martin J.

    2014-01-01

    Abstract. Accurate and automatic segmentation of the pectoralis muscle is essential in many breast image processing procedures, for example, in the computation of volumetric breast density from digital mammograms. Its segmentation is a difficult task due to the heterogeneity of the region, neighborhood complexities, and shape variability. The segmentation is achieved by pixel classification through a Markov random field (MRF) image model. Using the image intensity feature as observable data and local spatial information as a priori, the posterior distribution is estimated in a stochastic process. With a variable potential component in the energy function, by the maximum a posteriori (MAP) estimate of the labeling image, given the image intensity feature which is assumed to follow a Gaussian distribution, we achieved convergence properties in an appropriate sense by Metropolis sampling the posterior distribution of the selected energy function. By proposing an adjustable spatial constraint, the MRF-MAP model is able to embody the shape requirement and provide the required flexibility for the model parameter fitting process. We demonstrate that accurate and robust segmentation can be achieved for the curving-triangle-shaped pectoralis muscle in the medio-lateral-oblique (MLO) view, and the semielliptic-shaped muscle in cranio-caudal (CC) view digital mammograms. The applicable mammograms can be either “For Processing” or “For Presentation” image formats. The algorithm was developed using 56 MLO-view and 79 CC-view FFDM “For Processing” images, and quantitatively evaluated against a random selection of 122 MLO-view and 173 CC-view FFDM images of both presentation intent types. PMID:26158068

  2. The non-equilibrium allele frequency spectrum in a Poisson random field framework.

    PubMed

    Kaj, Ingemar; Mugal, Carina F

    2016-10-01

    In population genetic studies, the allele frequency spectrum (AFS) efficiently summarizes genome-wide polymorphism data and shapes a variety of allele frequency-based summary statistics. While existing theory typically features equilibrium conditions, emerging methodology requires an analytical understanding of the build-up of the allele frequencies over time. In this work, we use the framework of Poisson random fields to derive new representations of the non-equilibrium AFS for the case of a Wright-Fisher population model with selection. In our approach, the AFS is a scaling-limit of the expectation of a Poisson stochastic integral and the representation of the non-equilibrium AFS arises in terms of a fixation time probability distribution. The known duality between the Wright-Fisher diffusion process and a birth and death process generalizing Kingman's coalescent yields an additional representation. The results carry over to the setting of a random sample drawn from the population and provide the non-equilibrium behavior of sample statistics. Our findings are consistent with and extend a previous approach where the non-equilibrium AFS solves a partial differential forward equation with a non-traditional boundary condition. Moreover, we provide a bridge to previous coalescent-based work, and hence tie several frameworks together. Since frequency-based summary statistics are widely used in population genetics, for example, to identify candidate loci of adaptive evolution, to infer the demographic history of a population, or to improve our understanding of the underlying mechanics of speciation events, the presented results are potentially useful for a broad range of topics.

  3. Transverse eV ion heating by random electric field fluctuations in the plasmasphere

    NASA Astrophysics Data System (ADS)

    Artemyev, A. V.; Mourenas, D.; Agapitov, O. V.; Blum, L.

    2017-02-01

    Charged particle acceleration in the Earth inner magnetosphere is believed to be mainly due to the local resonant wave-particle interaction or particle transport processes. However, the Van Allen Probes have recently provided interesting evidence of a relatively slow transverse heating of eV ions at distances about 2-3 Earth radii during quiet times. Waves that are able to resonantly interact with such very cold ions are generally rare in this region of space, called the plasmasphere. Thus, non-resonant wave-particle interactions are expected to play an important role in the observed ion heating. We demonstrate that stochastic heating by random transverse electric field fluctuations of whistler (and possibly electromagnetic ion cyclotron) waves could explain this weak and slow transverse heating of H+ and O+ ions in the inner magnetosphere. The essential element of the proposed model of ion heating is the presence of trains of random whistler (hiss) wave packets, with significant amplitude modulations produced by strong wave damping, rapid wave growth, or a superposition of wave packets of different frequencies, phases, and amplitudes. Such characteristics correspond to measured characteristics of hiss waves in this region. Using test particle simulations with typical wave and plasma parameters, we demonstrate that the corresponding stochastic transverse ion heating reaches 0.07-0.2 eV/h for protons and 0.007-0.015 eV/h for O+ ions. This global temperature increase of the Maxwellian ion population from an initial Ti˜0.3 eV could potentially explain the observations.

  4. A biorthogonal decomposition for the identification and simulation of non-stationary and non-Gaussian random fields

    SciTech Connect

    Zentner, I.; Ferré, G.; Poirion, F.; Benoit, M.

    2016-06-01

    In this paper, a new method for the identification and simulation of non-Gaussian and non-stationary stochastic fields given a database is proposed. It is based on two successive biorthogonal decompositions aiming at representing spatio–temporal stochastic fields. The proposed double expansion allows to build the model even in the case of large-size problems by separating the time, space and random parts of the field. A Gaussian kernel estimator is used to simulate the high dimensional set of random variables appearing in the decomposition. The capability of the method to reproduce the non-stationary and non-Gaussian features of random phenomena is illustrated by applications to earthquakes (seismic ground motion) and sea states (wave heights).

  5. Spin pair geometry revealed by high-field DEER in the presence of conformational distributions

    NASA Astrophysics Data System (ADS)

    Polyhach, Ye.; Godt, A.; Bauer, C.; Jeschke, G.

    2007-03-01

    Orientation selection on two nitroxide-labelled shape-persistent molecules is demonstrated by high-field pulsed electron-electron double resonance experiments at a frequency of 95 GHz with a commercial spectrometer. The experiments are performed with fixed observer and pump frequencies by variation of the magnetic field, so that the variation of both the dipolar frequencies and the modulation depths can be analyzed. By applying the deadtime-free four-pulse double electron-electron resonance (DEER) sequence, the lineshapes of the dipolar spectra are obtained. In the investigated linear biradical and equilateral triradical the nitroxide labels undergo restricted dynamics, so that their relative orientations are not fixed, but are correlated to some extent. In this situation, the general dependence of the dipolar spectra on the observer field can be satisfyingly modelled by simple geometrical models that involve only one rotational degree of freedom for the biradical and two rotational degrees of freedom for the triradical. A somewhat better agreement of the dipolar lineshapes for the biradical is obtained by simulations based on a molecular dynamics trajectory. For the triradical, small but significant deviations of the lineshape are observed with both models, indicating that the technique can reveal deficiencies in modelling of the conformational ensemble of a macromolecule.

  6. Crystalline Electric-Field Randomness in the Triangular Lattice Spin-Liquid YbMgGaO4

    NASA Astrophysics Data System (ADS)

    Li, Yuesheng; Adroja, Devashibhai; Bewley, Robert I.; Voneshen, David; Tsirlin, Alexander A.; Gegenwart, Philipp; Zhang, Qingming

    2017-03-01

    We apply moderate-high-energy inelastic neutron scattering (INS) measurements to investigate Yb3 + crystalline electric field (CEF) levels in the triangular spin-liquid candidate YbMgGaO4 . Three CEF excitations from the ground-state Kramers doublet are centered at the energies ℏω =39 , 61, and 97 meV in agreement with the effective spin-1 /2 g factors and experimental heat capacity, but reveal sizable broadening. We argue that this broadening originates from the site mixing between Mg2 + and Ga3 + giving rise to a distribution of Yb-O distances and orientations and, thus, of CEF parameters that account for the peculiar energy profile of the CEF excitations. The CEF randomness gives rise to a distribution of the effective spin-1 /2 g factors and explains the unprecedented broadening of low-energy magnetic excitations in the fully polarized ferromagnetic phase of YbMgGaO4 , although a distribution of magnetic couplings due to the Mg /Ga disorder may be important as well.

  7. Phase Transitions in Disordered Systems: The Example of the Random-Field Ising Model in Four Dimensions.

    PubMed

    Fytas, Nikolaos G; Martín-Mayor, Víctor; Picco, Marco; Sourlas, Nicolas

    2016-06-03

    By performing a high-statistics simulation of the D=4 random-field Ising model at zero temperature for different shapes of the random-field distribution, we show that the model is ruled by a single universality class. We compute to a high accuracy the complete set of critical exponents for this class, including the correction-to-scaling exponent. Our results indicate that in four dimensions (i) dimensional reduction as predicted by the perturbative renormalization group does not hold and (ii) three independent critical exponents are needed to describe the transition.

  8. Phase Transitions in Disordered Systems: The Example of the Random-Field Ising Model in Four Dimensions

    NASA Astrophysics Data System (ADS)

    Fytas, Nikolaos G.; Martín-Mayor, Víctor; Picco, Marco; Sourlas, Nicolas

    2016-06-01

    By performing a high-statistics simulation of the D =4 random-field Ising model at zero temperature for different shapes of the random-field distribution, we show that the model is ruled by a single universality class. We compute to a high accuracy the complete set of critical exponents for this class, including the correction-to-scaling exponent. Our results indicate that in four dimensions (i) dimensional reduction as predicted by the perturbative renormalization group does not hold and (ii) three independent critical exponents are needed to describe the transition.

  9. Single image depth estimation based on convolutional neural network and sparse connected conditional random field

    NASA Astrophysics Data System (ADS)

    Zhu, Leqing; Wang, Xun; Wang, Dadong; Wang, Huiyan

    2016-10-01

    Deep convolutional neural networks (DCNNs) have attracted significant interest in the computer vision community in the recent years and have exhibited high performance in resolving many computer vision problems, such as image classification. We address the pixel-level depth prediction from a single image by combining DCNN and sparse connected conditional random field (CRF). Owing to the invariance properties of DCNNs that make them suitable for high-level tasks, their outputs are generally not localized enough for detailed pixel-level regression. A multiscale DCNN and sparse connected CRF are combined to overcome this localization weakness. We have evaluated our framework using the well-known NYU V2 depth dataset, and the results show that the proposed method can improve the depth prediction accuracy both qualitatively and quantitatively, as compared to previous works. This finding shows the potential use of the proposed method in three-dimensional (3-D) modeling or 3-D video production from the given two-dimensional (2-D) images or 2-D videos.

  10. a Method to Estimate Temporal Interaction in a Conditional Random Field Based Approach for Crop Recognition

    NASA Astrophysics Data System (ADS)

    Diaz, P. M. A.; Feitosa, R. Q.; Sanches, I. D.; Costa, G. A. O. P.

    2016-06-01

    This paper presents a method to estimate the temporal interaction in a Conditional Random Field (CRF) based approach for crop recognition from multitemporal remote sensing image sequences. This approach models the phenology of different crop types as a CRF. Interaction potentials are assumed to depend only on the class labels of an image site at two consecutive epochs. In the proposed method, the estimation of temporal interaction parameters is considered as an optimization problem, whose goal is to find the transition matrix that maximizes the CRF performance, upon a set of labelled data. The objective functions underlying the optimization procedure can be formulated in terms of different accuracy metrics, such as overall and average class accuracy per crop or phenological stages. To validate the proposed approach, experiments were carried out upon a dataset consisting of 12 co-registered LANDSAT images of a region in southeast of Brazil. Pattern Search was used as the optimization algorithm. The experimental results demonstrated that the proposed method was able to substantially outperform estimates related to joint or conditional class transition probabilities, which rely on training samples.

  11. Human fixation detection model in video compressed domain based on Markov random field

    NASA Astrophysics Data System (ADS)

    Li, Yongjun; Li, Yunsong; Liu, Weijia; Hu, Jing; Ge, Chiru

    2017-01-01

    Recently, research on and applications of human fixation detection in video compressed domain have gained increasing attention. However, prediction accuracy and computational complexity still remain a challenge. This paper addresses the problem of compressed domain fixations detection in the videos based on residual discrete cosine transform coefficients norm (RDCN) and Markov random field (MRF). RDCN feature is directly extracted from the compressed video with partial decoding and is normalized. After spatial-temporal filtering, the normalized map [Smoothed RDCN (SRDCN) map] is taken to the MRF model, and the optimal binary label map is obtained. Based on the label map and the center saliency map, saliency enhancement and nonsaliency inhibition are done for the SRDCN map, and the final SRDCN-MRF salient map is obtained. Compared with the similar models, we enhance the available energy functions and introduce an energy function that indicates the positional information of the saliency. The procedure is advantageous for improving prediction accuracy and reducing computational complexity. The validation and comparison are made by several accuracy metrics on two ground truth datasets. Experimental results show that the proposed saliency detection model achieves superior performances over several state-of-the-art compressed-domain and pixel-domain algorithms on evaluation metrics. Computationally, our algorithm reduces 26% more computational complexity with comparison to similar algorithms.

  12. An efficient conditional random field approach for automatic and interactive neuron segmentation.

    PubMed

    Uzunbas, Mustafa Gokhan; Chen, Chao; Metaxas, Dimitris

    2016-01-01

    We present a new graphical-model-based method for automatic and interactive segmentation of neuron structures from electron microscopy (EM) images. For automated reconstruction, our learning based model selects a collection of nodes from a hierarchical merging tree as the proposed segmentation. More specifically, this is achieved by training a conditional random field (CRF) whose underlying graph is the watershed merging tree. The maximum a posteriori (MAP) prediction of the CRF is the output segmentation. Our results are comparable to the results of state-of-the-art methods. Furthermore, both the inference and the training are very efficient as the graph is tree-structured. The problem of neuron segmentation requires extremely high segmentation quality. Therefore, proofreading, namely, interactively correcting mistakes of the automatic method, is a necessary module in the pipeline. Based on our efficient tree-structured inference algorithm, we develop an interactive segmentation framework which only selects locations where the model is uncertain for a user to proofread. The uncertainty is measured by the marginals of the graphical model. Only giving a limited number of choices makes the user interaction very efficient. Based on user corrections, our framework modifies the merging tree and thus improves the segmentation globally.

  13. Automatic lung tumor segmentation on PET/CT images using fuzzy Markov random field model.

    PubMed

    Guo, Yu; Feng, Yuanming; Sun, Jian; Zhang, Ning; Lin, Wang; Sa, Yu; Wang, Ping

    2014-01-01

    The combination of positron emission tomography (PET) and CT images provides complementary functional and anatomical information of human tissues and it has been used for better tumor volume definition of lung cancer. This paper proposed a robust method for automatic lung tumor segmentation on PET/CT images. The new method is based on fuzzy Markov random field (MRF) model. The combination of PET and CT image information is achieved by using a proper joint posterior probability distribution of observed features in the fuzzy MRF model which performs better than the commonly used Gaussian joint distribution. In this study, the PET and CT simulation images of 7 non-small cell lung cancer (NSCLC) patients were used to evaluate the proposed method. Tumor segmentations with the proposed method and manual method by an experienced radiation oncologist on the fused images were performed, respectively. Segmentation results obtained with the two methods were similar and Dice's similarity coefficient (DSC) was 0.85 ± 0.013. It has been shown that effective and automatic segmentations can be achieved with this method for lung tumors which locate near other organs with similar intensities in PET and CT images, such as when the tumors extend into chest wall or mediastinum.

  14. Disease named entity recognition by combining conditional random fields and bidirectional recurrent neural networks.

    PubMed

    Wei, Qikang; Chen, Tao; Xu, Ruifeng; He, Yulan; Gui, Lin

    2016-01-01

    The recognition of disease and chemical named entities in scientific articles is a very important subtask in information extraction in the biomedical domain. Due to the diversity and complexity of disease names, the recognition of named entities of diseases is rather tougher than those of chemical names. Although there are some remarkable chemical named entity recognition systems available online such as ChemSpot and tmChem, the publicly available recognition systems of disease named entities are rare. This article presents a system for disease named entity recognition (DNER) and normalization. First, two separate DNER models are developed. One is based on conditional random fields model with a rule-based post-processing module. The other one is based on the bidirectional recurrent neural networks. Then the named entities recognized by each of the DNER model are fed into a support vector machine classifier for combining results. Finally, each recognized disease named entity is normalized to a medical subject heading disease name by using a vector space model based method. Experimental results show that using 1000 PubMed abstracts for training, our proposed system achieves an F1-measure of 0.8428 at the mention level and 0.7804 at the concept level, respectively, on the testing data of the chemical-disease relation task in BioCreative V.Database URL: http://219.223.252.210:8080/SS/cdr.html.

  15. A new method for direction finding based on Markov random field model

    NASA Astrophysics Data System (ADS)

    Ota, Mamoru; Kasahara, Yoshiya; Goto, Yoshitaka

    2015-07-01

    Investigating the characteristics of plasma waves observed by scientific satellites in the Earth's plasmasphere/magnetosphere is effective for understanding the mechanisms for generating waves and the plasma environment that influences wave generation and propagation. In particular, finding the propagation directions of waves is important for understanding mechanisms of VLF/ELF waves. To find these directions, the wave distribution function (WDF) method has been proposed. This method is based on the idea that observed signals consist of a number of elementary plane waves that define wave energy density distribution. However, the resulting equations constitute an ill-posed problem in which a solution is not determined uniquely; hence, an adequate model must be assumed for a solution. Although many models have been proposed, we have to select the most optimum model for the given situation because each model has its own advantages and disadvantages. In the present study, we propose a new method for direction finding of the plasma waves measured by plasma wave receivers. Our method is based on the assumption that the WDF can be represented by a Markov random field model with inference of model parameters performed using a variational Bayesian learning algorithm. Using computer-generated spectral matrices, we evaluated the performance of the model and compared the results with those obtained from two conventional methods.

  16. Disease named entity recognition by combining conditional random fields and bidirectional recurrent neural networks

    PubMed Central

    Wei, Qikang; Chen, Tao; Xu, Ruifeng; He, Yulan; Gui, Lin

    2016-01-01

    The recognition of disease and chemical named entities in scientific articles is a very important subtask in information extraction in the biomedical domain. Due to the diversity and complexity of disease names, the recognition of named entities of diseases is rather tougher than those of chemical names. Although there are some remarkable chemical named entity recognition systems available online such as ChemSpot and tmChem, the publicly available recognition systems of disease named entities are rare. This article presents a system for disease named entity recognition (DNER) and normalization. First, two separate DNER models are developed. One is based on conditional random fields model with a rule-based post-processing module. The other one is based on the bidirectional recurrent neural networks. Then the named entities recognized by each of the DNER model are fed into a support vector machine classifier for combining results. Finally, each recognized disease named entity is normalized to a medical subject heading disease name by using a vector space model based method. Experimental results show that using 1000 PubMed abstracts for training, our proposed system achieves an F1-measure of 0.8428 at the mention level and 0.7804 at the concept level, respectively, on the testing data of the chemical-disease relation task in BioCreative V. Database URL: http://219.223.252.210:8080/SS/cdr.html PMID:27777244

  17. Gene expression based mouse brain parcellation using Markov random field regularized non-negative matrix factorization

    NASA Astrophysics Data System (ADS)

    Pathak, Sayan D.; Haynor, David R.; Thompson, Carol L.; Lein, Ed; Hawrylycz, Michael

    2009-02-01

    Understanding the geography of genetic expression in the mouse brain has opened previously unexplored avenues in neuroinformatics. The Allen Brain Atlas (www.brain-map.org) (ABA) provides genome-wide colorimetric in situ hybridization (ISH) gene expression images at high spatial resolution, all mapped to a common three-dimensional 200μm3 spatial framework defined by the Allen Reference Atlas (ARA) and is a unique data set for studying expression based structural and functional organization of the brain. The goal of this study was to facilitate an unbiased data-driven structural partitioning of the major structures in the mouse brain. We have developed an algorithm that uses nonnegative matrix factorization (NMF) to perform parts based analysis of ISH gene expression images. The standard NMF approach and its variants are limited in their ability to flexibly integrate prior knowledge, in the context of spatial data. In this paper, we introduce spatial connectivity as an additional regularization in NMF decomposition via the use of Markov Random Fields (mNMF). The mNMF algorithm alternates neighborhood updates with iterations of the standard NMF algorithm to exploit spatial correlations in the data. We present the algorithm and show the sub-divisions of hippocampus and somatosensory-cortex obtained via this approach. The results are compared with established neuroanatomic knowledge. We also highlight novel gene expression based sub divisions of the hippocampus identified by using the mNMF algorithm.

  18. Enhancing gene regulatory network inference through data integration with markov random fields.

    PubMed

    Banf, Michael; Rhee, Seung Y

    2017-02-01

    A gene regulatory network links transcription factors to their target genes and represents a map of transcriptional regulation. Much progress has been made in deciphering gene regulatory networks computationally. However, gene regulatory network inference for most eukaryotic organisms remain challenging. To improve the accuracy of gene regulatory network inference and facilitate candidate selection for experimentation, we developed an algorithm called GRACE (Gene Regulatory network inference ACcuracy Enhancement). GRACE exploits biological a priori and heterogeneous data integration to generate high- confidence network predictions for eukaryotic organisms using Markov Random Fields in a semi-supervised fashion. GRACE uses a novel optimization scheme to integrate regulatory evidence and biological relevance. It is particularly suited for model learning with sparse regulatory gold standard data. We show GRACE's potential to produce high confidence regulatory networks compared to state of the art approaches using Drosophila melanogaster and Arabidopsis thaliana data. In an A. thaliana developmental gene regulatory network, GRACE recovers cell cycle related regulatory mechanisms and further hypothesizes several novel regulatory links, including a putative control mechanism of vascular structure formation due to modifications in cell proliferation.

  19. Surface roughness extraction based on Markov random field model in wavelet feature domain

    NASA Astrophysics Data System (ADS)

    Yang, Lei; Lei, Li-qiao

    2014-12-01

    Based on the computer texture analysis method, a new noncontact surface roughness measurement technique is proposed. The method is inspired by the nonredundant directional selectivity and highly discriminative nature of the wavelet representation and the capability of the Markov random field (MRF) model to capture statistical regularities. Surface roughness information contained in the texture features may be extracted based on an MRF stochastic model of textures in the wavelet feature domain. The model captures significant intrascale and interscale statistical dependencies between wavelet coefficients. To investigate the relationship between the texture features and surface roughness Ra, a simple research setup, which consists of a charge-coupled diode camera without a lens and a diode laser, was established, and the laser speckle texture patterns are acquired from some standard grinding surfaces. The research results have illustrated that surface roughness Ra has a good monotonic relationship with the texture features of the laser speckle pattern. If this measuring system is calibrated with the surface standard samples roughness beforehand, the surface roughness actual value Ra can be deduced in the case of the same material surfaces ground at the same manufacture conditions.

  20. Singular-potential random-matrix model arising in mean-field glassy systems.

    PubMed

    Akemann, Gernot; Villamaina, Dario; Vivo, Pierpaolo

    2014-06-01

    We consider an invariant random matrix ensemble where the standard Gaussian potential is distorted by an additional single pole of arbitrary fixed order. Potentials with first- and second-order poles have been considered previously and found applications in quantum chaos and number theory. Here we present an application to mean-field glassy systems. We derive and solve the loop equation in the planar limit for the corresponding class of potentials. We find that the resulting mean or macroscopic spectral density is generally supported on two disconnected intervals lying on the two sides of the repulsive pole, whose edge points can be completely determined imposing the additional constraint of traceless matrices on average. For an unbounded potential with an attractive pole, we also find a possible one-cut solution for certain values of the couplings, which is ruled out when the traceless condition is imposed. Motivated by the calculation of the distribution of the spin-glass susceptibility in the Sherrington-Kirkpatrick spin-glass model, we consider in detail a second-order pole for a zero-trace model and provide the most explicit solution in this case. In the limit of a vanishing pole, we recover the standard semicircle. Working in the planar limit, our results apply to matrices with orthogonal, unitary, and symplectic invariance. Numerical simulations and an independent analytical Coulomb fluid calculation for symmetric potentials provide an excellent confirmation of our results.

  1. Random-field Ising model on isometric lattices: Ground states and non-Porod scattering.

    PubMed

    Bupathy, Arunkumar; Banerjee, Varsha; Puri, Sanjay

    2016-01-01

    We use a computationally efficient graph cut method to obtain ground state morphologies of the random-field Ising model (RFIM) on (i) simple cubic (SC), (ii) body-centered cubic (BCC), and (iii) face-centered cubic (FCC) lattices. We determine the critical disorder strength Δ_{c} at zero temperature with high accuracy. For the SC lattice, our estimate (Δ_{c}=2.278±0.002) is consistent with earlier reports. For the BCC and FCC lattices, Δ_{c}=3.316±0.002 and 5.160±0.002, respectively, which are the most accurate estimates in the literature to date. The small-r behavior of the correlation function exhibits a cusp regime characterized by a cusp exponent α signifying fractal interfaces. In the paramagnetic phase, α=0.5±0.01 for all three lattices. In the ferromagnetic phase, the cusp exponent shows small variations due to the lattice structure. Consequently, the interfacial energy E_{i}(L) for an interface of size L is significantly different for the three lattices. This has important implications for nonequilibrium properties.

  2. Nonparametric Feature Matching Based Conditional Random Fields for Gesture Recognition from Multi-Modal Video.

    PubMed

    Chang, Ju Yong

    2016-08-01

    We present a new gesture recognition method that is based on the conditional random field (CRF) model using multiple feature matching. Our approach solves the labeling problem, determining gesture categories and their temporal ranges at the same time. A generative probabilistic model is formalized and probability densities are nonparametrically estimated by matching input features with a training dataset. In addition to the conventional skeletal joint-based features, the appearance information near the active hand in an RGB image is exploited to capture the detailed motion of fingers. The estimated likelihood function is then used as the unary term for our CRF model. The smoothness term is also incorporated to enforce the temporal coherence of our solution. Frame-wise recognition results can then be obtained by applying an efficient dynamic programming technique. To estimate the parameters of the proposed CRF model, we incorporate the structured support vector machine (SSVM) framework that can perform efficient structured learning by using large-scale datasets. Experimental results demonstrate that our method provides effective gesture recognition results for challenging real gesture datasets. By scoring 0.8563 in the mean Jaccard index, our method has obtained the state-of-the-art results for the gesture recognition track of the 2014 ChaLearn Looking at People (LAP) Challenge.

  3. High energy X-ray phase and dark-field imaging using a random absorption mask

    PubMed Central

    Wang, Hongchang; Kashyap, Yogesh; Cai, Biao; Sawhney, Kawal

    2016-01-01

    High energy X-ray imaging has unique advantage over conventional X-ray imaging, since it enables higher penetration into materials with significantly reduced radiation damage. However, the absorption contrast in high energy region is considerably low due to the reduced X-ray absorption cross section for most materials. Even though the X-ray phase and dark-field imaging techniques can provide substantially increased contrast and complementary information, fabricating dedicated optics for high energies still remain a challenge. To address this issue, we present an alternative X-ray imaging approach to produce transmission, phase and scattering signals at high X-ray energies by using a random absorption mask. Importantly, in addition to the synchrotron radiation source, this approach has been demonstrated for practical imaging application with a laboratory-based microfocus X-ray source. This new imaging method could be potentially useful for studying thick samples or heavy materials for advanced research in materials science. PMID:27466217

  4. Automatic Lung Tumor Segmentation on PET/CT Images Using Fuzzy Markov Random Field Model

    PubMed Central

    Guo, Yu; Feng, Yuanming; Sun, Jian; Lin, Wang; Sa, Yu; Wang, Ping

    2014-01-01

    The combination of positron emission tomography (PET) and CT images provides complementary functional and anatomical information of human tissues and it has been used for better tumor volume definition of lung cancer. This paper proposed a robust method for automatic lung tumor segmentation on PET/CT images. The new method is based on fuzzy Markov random field (MRF) model. The combination of PET and CT image information is achieved by using a proper joint posterior probability distribution of observed features in the fuzzy MRF model which performs better than the commonly used Gaussian joint distribution. In this study, the PET and CT simulation images of 7 non-small cell lung cancer (NSCLC) patients were used to evaluate the proposed method. Tumor segmentations with the proposed method and manual method by an experienced radiation oncologist on the fused images were performed, respectively. Segmentation results obtained with the two methods were similar and Dice's similarity coefficient (DSC) was 0.85 ± 0.013. It has been shown that effective and automatic segmentations can be achieved with this method for lung tumors which locate near other organs with similar intensities in PET and CT images, such as when the tumors extend into chest wall or mediastinum. PMID:24987451

  5. Markov random field-based statistical character structure modeling for handwritten Chinese character recognition.

    PubMed

    Zeng, Jia; Liu, Zhi-Qiang

    2008-05-01

    This paper proposes a statistical-structural character modeling method based on Markov random fields (MRFs) for handwritten Chinese character recognition (HCCR). The stroke relationships of a Chinese character reflect its structure, which can be statistically represented by the neighborhood system and clique potentials within the MRF framework. Based on the prior knowledge of character structures, we design the neighborhood system that accounts for the most important stroke relationships. We penalize the structurally mismatched stroke relationships with MRFs using the prior clique potentials, and derive the likelihood clique potentials from Gaussian mixture models, which encode the large variations of stroke relationships statistically. In the proposed HCCR system, we use the single-site likelihood clique potentials to extract many candidate strokes from character images, and use the pairsite clique potentials to determine the best structural match between the input candidate strokes and the MRF-based character models by relaxation labeling. The experiments on the KAIST character database demonstrate that MRFs can statistically model character structures, and work well in the HCCR system.

  6. Enhancing gene regulatory network inference through data integration with markov random fields

    PubMed Central

    Banf, Michael; Rhee, Seung Y.

    2017-01-01

    A gene regulatory network links transcription factors to their target genes and represents a map of transcriptional regulation. Much progress has been made in deciphering gene regulatory networks computationally. However, gene regulatory network inference for most eukaryotic organisms remain challenging. To improve the accuracy of gene regulatory network inference and facilitate candidate selection for experimentation, we developed an algorithm called GRACE (Gene Regulatory network inference ACcuracy Enhancement). GRACE exploits biological a priori and heterogeneous data integration to generate high- confidence network predictions for eukaryotic organisms using Markov Random Fields in a semi-supervised fashion. GRACE uses a novel optimization scheme to integrate regulatory evidence and biological relevance. It is particularly suited for model learning with sparse regulatory gold standard data. We show GRACE’s potential to produce high confidence regulatory networks compared to state of the art approaches using Drosophila melanogaster and Arabidopsis thaliana data. In an A. thaliana developmental gene regulatory network, GRACE recovers cell cycle related regulatory mechanisms and further hypothesizes several novel regulatory links, including a putative control mechanism of vascular structure formation due to modifications in cell proliferation. PMID:28145456

  7. Random-field Ising model on isometric lattices: Ground states and non-Porod scattering

    NASA Astrophysics Data System (ADS)

    Bupathy, Arunkumar; Banerjee, Varsha; Puri, Sanjay

    2016-01-01

    We use a computationally efficient graph cut method to obtain ground state morphologies of the random-field Ising model (RFIM) on (i) simple cubic (SC), (ii) body-centered cubic (BCC), and (iii) face-centered cubic (FCC) lattices. We determine the critical disorder strength Δc at zero temperature with high accuracy. For the SC lattice, our estimate (Δc=2.278 ±0.002 ) is consistent with earlier reports. For the BCC and FCC lattices, Δc=3.316 ±0.002 and 5.160 ±0.002 , respectively, which are the most accurate estimates in the literature to date. The small-r behavior of the correlation function exhibits a cusp regime characterized by a cusp exponent α signifying fractal interfaces. In the paramagnetic phase, α =0.5 ±0.01 for all three lattices. In the ferromagnetic phase, the cusp exponent shows small variations due to the lattice structure. Consequently, the interfacial energy Ei(L ) for an interface of size L is significantly different for the three lattices. This has important implications for nonequilibrium properties.

  8. Markov random field modeling for three-dimensional reconstruction of the left ventricle in cardiac angiography

    PubMed Central

    Medina, Rubén; Garreau, Mireille; Toro, Javier; Le Breton, Hervé; Coatrieux, Jean-Louis; Jugo, Diego

    2006-01-01

    This paper reports on a method for left ventricle three-dimensional reconstruction from two orthogonal ventriculograms. The proposed algorithm is voxel-based and takes into account the conical projection geometry associated with the biplane image acquisition equipment. The reconstruction process starts with an initial ellipsoidal approximation derived from the input ventriculograms. This model is subsequently deformed in such a way as to match the input projections. To this end, the object is modeled as a three-dimensional Markov-Gibbs random field, and an energy function is defined so that it includes one term that models the projections compatibility and another one that includes the space–time regularity constraints. The performance of this reconstruction method is evaluated by considering the reconstruction of mathematically synthesized phantoms and two 3-D binary databases from two orthogonal synthesized projections. The method is also tested using real biplane ventriculograms. In this case, the performance of the reconstruction is expressed in terms of the projection error, which attains values between 9.50% and 11.78 % for two biplane sequences including a total of 55 images. PMID:16895001

  9. Increasing the maximally random jammed density with electric field to reduce the fat level in chocolate

    NASA Astrophysics Data System (ADS)

    Tao, R.; Tang, H.

    Chocolate is one of the most popular food types and flavors in the world. Unfortunately, at present, chocolate products contain too much fat, leading to obesity. For example, a typical molding chocolate has various fat up to 40% in total and chocolate for covering ice cream has fat 50 -60%. Especially, as children are the leading chocolate consumers, reducing the fat level in chocolate products to make them healthier is important and urgent. While this issue was called into attention and elaborated in articles and books decades ago and led to some patent applications, no actual solution was found unfortunately. Why is reducing fat in chocolate so difficult? What is the underlying physical mechanism? We have found that this issue is deeply related to the basic science of soft matters, especially to their viscosity and maximally random jammed (MRJ) density φx. All chocolate productions are handling liquid chocolate, a suspension with cocoa solid particles in melted fat, mainly cocoa butter. The fat level cannot be lower than 1-φxin order to have liquid chocolate to flow. Here we show that that with application of an electric field to liquid chocolate, we can aggregate the suspended particles into prolate spheroids. This microstructure change reduces liquid chocolate's viscosity along the flow direction and increases its MRJ density significantly. Hence the fat level in chocolate can be effectively reduced. We are looking forward to a new class of healthier and tasteful chocolate coming to the market soon. Dept. of Physics, Temple Univ, Philadelphia, PA 19122.

  10. Polyprenyl Immunostimulant in Feline Rhinotracheitis: Randomized Placebo-Controlled Experimental and Field Safety Studies

    PubMed Central

    Legendre, Alfred M.; Kuritz, Tanya; Heidel, Robert Eric; Baylor, Vivian M.

    2017-01-01

    Feline rhinotracheitis is a ubiquitous disease caused by feline herpesvirus type 1 (FHV-1). The disease is easily transmissible and common in multi-cat environments where even vaccinated cats can develop clinical signs of respiratory or ocular disease or both when exposed to the virus. Prior to the work reported here, there was no licensed treatment for the disease on the market. We hypothesized that polyprenyl immunostimulant (PI), an immunomodulatory veterinary biologic, would be useful in treating feline rhinotracheitis by reducing the severity of respiratory or/and ocular disease. We conducted double-blinded, randomized, placebo-controlled clinical trials in experimentally infected cats to establish the efficacy of PI. Specific pathogen-free cats were administered a placebo (n = 20) or PI (n = 20) starting on the day of FHV-1 experimental challenge. Trained, masked observers applied a standardized scoring system daily in clinical examinations for 14 days after the FHV-1 challenge. The cats treated with PI had significantly lower disease severity scores over the course of the experiment compared to the cats in the placebo group (p = 0.05). The safety studies, including a field safety study involving 390 owned cats in 10 states, showed that PI was safe to use in cats as young as 8 weeks of age. PMID:28289684

  11. Singular-potential random-matrix model arising in mean-field glassy systems

    NASA Astrophysics Data System (ADS)

    Akemann, Gernot; Villamaina, Dario; Vivo, Pierpaolo

    2014-06-01

    We consider an invariant random matrix ensemble where the standard Gaussian potential is distorted by an additional single pole of arbitrary fixed order. Potentials with first- and second-order poles have been considered previously and found applications in quantum chaos and number theory. Here we present an application to mean-field glassy systems. We derive and solve the loop equation in the planar limit for the corresponding class of potentials. We find that the resulting mean or macroscopic spectral density is generally supported on two disconnected intervals lying on the two sides of the repulsive pole, whose edge points can be completely determined imposing the additional constraint of traceless matrices on average. For an unbounded potential with an attractive pole, we also find a possible one-cut solution for certain values of the couplings, which is ruled out when the traceless condition is imposed. Motivated by the calculation of the distribution of the spin-glass susceptibility in the Sherrington-Kirkpatrick spin-glass model, we consider in detail a second-order pole for a zero-trace model and provide the most explicit solution in this case. In the limit of a vanishing pole, we recover the standard semicircle. Working in the planar limit, our results apply to matrices with orthogonal, unitary, and symplectic invariance. Numerical simulations and an independent analytical Coulomb fluid calculation for symmetric potentials provide an excellent confirmation of our results.

  12. Beyond-mean-field corrections within the second random-phase approximation

    NASA Astrophysics Data System (ADS)

    Grasso, M.; Gambacurta, D.; Engel, J.

    2016-06-01

    A subtraction procedure, introduced to overcome double-counting problems in beyond-mean-field theories, is used in the second random-phase approximation (SRPA). Doublecounting problems arise in the energy-density functional framework in all cases where effective interactions tailored at leading order are used for higher-order calculations, such as those done in the SRPA model. It was recently shown that this subtraction procedure also guarantees that the stability condition related to the Thouless theorem is verified in extended RPA models. We discuss applications of the subtraction procedure, introduced within the SRPA model, to the nucleus 16O. The application of the subtraction procedure leads to: (i) stable results that are weakly cutoff dependent; (ii) a considerable upwards correction of the SRPA spectra (which were systematically shifted downwards by several MeV with respect to RPA spectra, in all previous calculations). With this important implementation of the model, many applications may be foreseen to analyze the genuine impact of 2 particle-2 hole configurations (without any cutoff dependences and anomalous shifts) on the excitation spectra of medium-mass and heavy nuclei.

  13. Enhancing gene regulatory network inference through data integration with markov random fields

    DOE PAGES

    Banf, Michael; Rhee, Seung Y.

    2017-02-01

    Here, a gene regulatory network links transcription factors to their target genes and represents a map of transcriptional regulation. Much progress has been made in deciphering gene regulatory networks computationally. However, gene regulatory network inference for most eukaryotic organisms remain challenging. To improve the accuracy of gene regulatory network inference and facilitate candidate selection for experimentation, we developed an algorithm called GRACE (Gene Regulatory network inference ACcuracy Enhancement). GRACE exploits biological a priori and heterogeneous data integration to generate high- confidence network predictions for eukaryotic organisms using Markov Random Fields in a semi-supervised fashion. GRACE uses a novel optimization schememore » to integrate regulatory evidence and biological relevance. It is particularly suited for model learning with sparse regulatory gold standard data. We show GRACE’s potential to produce high confidence regulatory networks compared to state of the art approaches using Drosophila melanogaster and Arabidopsis thaliana data. In an A. thaliana developmental gene regulatory network, GRACE recovers cell cycle related regulatory mechanisms and further hypothesizes several novel regulatory links, including a putative control mechanism of vascular structure formation due to modifications in cell proliferation.« less

  14. A comparative study of energy minimization methods for Markov random fields with smoothness-based priors.

    PubMed

    Szeliski, Richard; Zabih, Ramin; Scharstein, Daniel; Veksler, Olga; Kolmogorov, Vladimir; Agarwala, Aseem; Tappen, Marshall; Rother, Carsten

    2008-06-01

    Among the most exciting advances in early vision has been the development of efficient energy minimization algorithms for pixel-labeling tasks such as depth or texture computation. It has been known for decades that such problems can be elegantly expressed as Markov random fields, yet the resulting energy minimization problems have been widely viewed as intractable. Recently, algorithms such as graph cuts and loopy belief propagation (LBP) have proven to be very powerful: for example, such methods form the basis for almost all the top-performing stereo methods. However, the tradeoffs among different energy minimization algorithms are still not well understood. In this paper we describe a set of energy minimization benchmarks and use them to compare the solution quality and running time of several common energy minimization algorithms. We investigate three promising recent methods graph cuts, LBP, and tree-reweighted message passing in addition to the well-known older iterated conditional modes (ICM) algorithm. Our benchmark problems are drawn from published energy functions used for stereo, image stitching, interactive segmentation, and denoising. We also provide a general-purpose software interface that allows vision researchers to easily switch between optimization methods. Benchmarks, code, images, and results are available at http://vision.middlebury.edu/MRF/.

  15. Service-Oriented Node Scheduling Scheme for Wireless Sensor Networks Using Markov Random Field Model

    PubMed Central

    Cheng, Hongju; Su, Zhihuang; Lloret, Jaime; Chen, Guolong

    2014-01-01

    Future wireless sensor networks are expected to provide various sensing services and energy efficiency is one of the most important criterions. The node scheduling strategy aims to increase network lifetime by selecting a set of sensor nodes to provide the required sensing services in a periodic manner. In this paper, we are concerned with the service-oriented node scheduling problem to provide multiple sensing services while maximizing the network lifetime. We firstly introduce how to model the data correlation for different services by using Markov Random Field (MRF) model. Secondly, we formulate the service-oriented node scheduling issue into three different problems, namely, the multi-service data denoising problem which aims at minimizing the noise level of sensed data, the representative node selection problem concerning with selecting a number of active nodes while determining the services they provide, and the multi-service node scheduling problem which aims at maximizing the network lifetime. Thirdly, we propose a Multi-service Data Denoising (MDD) algorithm, a novel multi-service Representative node Selection and service Determination (RSD) algorithm, and a novel MRF-based Multi-service Node Scheduling (MMNS) scheme to solve the above three problems respectively. Finally, extensive experiments demonstrate that the proposed scheme efficiently extends the network lifetime. PMID:25384005

  16. Impact of Markov Random Field Optimizer on MRI-based Tissue Segmentation in the Aging Brain

    PubMed Central

    Schwarz, Christopher G.; Tsui, Alex; Fletcher, Evan; Singh, Baljeet; DeCarli, Charles; Carmichael, Owen

    2013-01-01

    Automatically segmenting brain magnetic resonance images into grey matter, white matter, and cerebrospinal fluid compartments is a fundamentally important neuroimaging problem whose difficulty is heightened in the presence of aging and neurodegenerative disease. Current methods overlap greatly in terms of identifiable algorithmic components, and the impact of specific components on performance is generally unclear in important real-world scenarios involving serial scanning, multiple scanners, and neurodegenerative disease. Therefore we evaluated the impact that one such component, the Markov Random Field (MRF) optimizer that encourages spatially-smooth tissue labelings, has on brain tissue segmentation performance. Two challenging elderly sets were used to test segmentation consistency across scanners and biological plausibility of tissue change estimates; and a simulated young brain data set was used to test accuracy against ground truth. Comparisons among Graph Cuts (GC), Belief Propagation (BP), and Iterative Conditional Modes (ICM) suggested that in the elderly brain, BP and GC provide the highest segmentation performance, with a slight advantage to BP, and that performance is often superior to that provided by popular methods SPM and FAST. Conversely, SPM and FAST excelled in the young brain, thus emphasizing the unique challenges involved in imaging the aging brain. PMID:22256150

  17. Video object tracking in the compressed domain using spatio-temporal Markov random fields.

    PubMed

    Khatoonabadi, Sayed Hossein; Bajić, Ivan V

    2013-01-01

    Despite the recent progress in both pixel-domain and compressed-domain video object tracking, the need for a tracking framework with both reasonable accuracy and reasonable complexity still exists. This paper presents a method for tracking moving objects in H.264/AVC-compressed video sequences using a spatio-temporal Markov random field (ST-MRF) model. An ST-MRF model naturally integrates the spatial and temporal aspects of the object's motion. Built upon such a model, the proposed method works in the compressed domain and uses only the motion vectors (MVs) and block coding modes from the compressed bitstream to perform tracking. First, the MVs are preprocessed through intracoded block motion approximation and global motion compensation. At each frame, the decision of whether a particular block belongs to the object being tracked is made with the help of the ST-MRF model, which is updated from frame to frame in order to follow the changes in the object's motion. The proposed method is tested on a number of standard sequences, and the results demonstrate its advantages over some of the recent state-of-the-art methods.

  18. Segmentation of anatomical branching structures based on texture features and conditional random field

    NASA Astrophysics Data System (ADS)

    Nuzhnaya, Tatyana; Bakic, Predrag; Kontos, Despina; Megalooikonomou, Vasileios; Ling, Haibin

    2012-02-01

    This work is a part of our ongoing study aimed at understanding a relation between the topology of anatomical branching structures with the underlying image texture. Morphological variability of the breast ductal network is associated with subsequent development of abnormalities in patients with nipple discharge such as papilloma, breast cancer and atypia. In this work, we investigate complex dependence among ductal components to perform segmentation, the first step for analyzing topology of ductal lobes. Our automated framework is based on incorporating a conditional random field with texture descriptors of skewness, coarseness, contrast, energy and fractal dimension. These features are selected to capture the architectural variability of the enhanced ducts by encoding spatial variations between pixel patches in galactographic image. The segmentation algorithm was applied to a dataset of 20 x-ray galactograms obtained at the Hospital of the University of Pennsylvania. We compared the performance of the proposed approach with fully and semi automated segmentation algorithms based on neural network classification, fuzzy-connectedness, vesselness filter and graph cuts. Global consistency error and confusion matrix analysis were used as accuracy measurements. For the proposed approach, the true positive rate was higher and the false negative rate was significantly lower compared to other fully automated methods. This indicates that segmentation based on CRF incorporated with texture descriptors has potential to efficiently support the analysis of complex topology of the ducts and aid in development of realistic breast anatomy phantoms.

  19. CONDENSED MATTER: ELECTRONIC STRUCTURE, ELECTRICAL, MAGNETIC, AND OPTICAL PROPERTIES: Longitudinal-Random-Field Mixed Ising Model with Arbitrary Spins

    NASA Astrophysics Data System (ADS)

    Liang, Ya-Qiu; Wei, Guo-Zhu; Xu, Xiao-Juan; Song, Guo-Li

    2010-05-01

    The longitudinal-random-field mixed Ising model consisting of arbitrary spin values has been studied by the use of an effective field theory with correlations (EFT). The phase diagrams of systems with mixed spins: σ = 1/2, S = 1; σ = 1/2, S = 3/2 are plotted. Not only the discontinuity at T = 0 K, is found when both longitudinal fields are trimodal distributed, but also the tricritical behavior is observed in these phase diagrams between the bimodal and trimodal distributions of longitudinal fields, which is different from the single-spin one. The appearance of tricritical point is independent of the coordination number and spin values.

  20. Ground-penetrating radar reveals ice thickness and undisturbed englacial layers at Kilimanjaro's Northern Ice Field

    NASA Astrophysics Data System (ADS)

    Bohleber, Pascal; Sold, Leo; Hardy, Douglas R.; Schwikowski, Margit; Klenk, Patrick; Fischer, Andrea; Sirguey, Pascal; Cullen, Nicolas J.; Potocki, Mariusz; Hoffmann, Helene; Mayewski, Paul

    2017-02-01

    Although its Holocene glacier history is still subject to debate, the ongoing iconic decline of Kilimanjaro's largest remaining ice body, the Northern Ice Field (NIF), has been documented extensively based on surface and photogrammetric measurements. The study presented here adds, for the first time, ground-penetrating radar (GPR) data at centre frequencies of 100 and 200 MHz to investigate bed topography, ice thickness and internal stratigraphy at NIF. The direct comparison of the GPR signal to the visible glacier stratigraphy at NIF's vertical walls is used to validate ice thickness and reveals that the major internal reflections seen by GPR can be associated with dust layers. Internal reflections can be traced consistently within our 200 MHz profiles, indicating an uninterrupted, spatially coherent internal layering within NIF's central flat area. We show that, at least for the upper 30 m, it is possible to follow isochrone layers between two former NIF ice core drilling sites and a sampling site on NIF's vertical wall. As a result, these isochrone layers provide constraints for future attempts at linking age-depth information obtained from multiple locations at NIF. The GPR profiles reveal an ice thickness ranging between (6.1 ± 0.5) and (53.5 ± 1.0) m. Combining these data with a very high resolution digital elevation model we spatially extrapolate ice thickness and give an estimate of the total ice volume remaining at NIF's southern portion as (12.0 ± 0.3) × 106 m3.

  1. The effects of random field at surface on the magnetic properties in the Ising nanotube and nanowire

    NASA Astrophysics Data System (ADS)

    Kaneyoshi, T.

    2016-12-01

    The phase diagrams and temperature dependences of total magnetization mT in two nanosystems (nanotube and nanowire) with a random magnetic field at the surface shell are studied by the uses of the effective-field theory with correlations. Some characteristic phenomena (reentrant phenomena and unconventional thermal variation of total magnetization) are found in the two systems. They are rather different between the two systems, which mainly come from the structural differences of the cores

  2. Mindfulness Training and Reductions in Teacher Stress and Burnout: Results from Two Randomized, Waitlist-Control Field Trials

    ERIC Educational Resources Information Center

    Roeser, Robert W.; Schonert-Reichl, Kimberly A.; Jha, Amishi; Cullen, Margaret; Wallace, Linda; Wilensky, Rona; Oberle, Eva; Thomson, Kimberly; Taylor, Cynthia; Harrison, Jessica

    2013-01-01

    The effects of randomization to mindfulness training (MT) or to a waitlist-control condition on psychological and physiological indicators of teachers' occupational stress and burnout were examined in 2 field trials. The sample included 113 elementary and secondary school teachers (89% female) from Canada and the United States. Measures were…

  3. Assessment Data-Informed Guidance to Individualize Kindergarten Reading Instruction: Findings from a Cluster-Randomized Control Field Trial

    ERIC Educational Resources Information Center

    Al Otaiba, Stephanie; Connor, Carol M.; Folsom, Jessica S.; Greulich, Luana; Meadows, Jane; Li, Zhi

    2011-01-01

    The purpose of this cluster-randomized control field trial was to examine whether kindergarten teachers could learn to differentiate classroom reading instruction using Individualized Student Instruction for Kindergarten (ISI-K) and to test the efficacy of differentiation on reading outcomes. The study involved 14 schools, 23 ISI-K (n = 305…

  4. Implementing Randomized Controlled Trial Studies in Afterschool Settings: The State of the Field. Afterschool Research Brief. Issue No. 1

    ERIC Educational Resources Information Center

    Vaden-Kiernan, Michael; Jones, Debra Hughes; Rudo, Zena

    2008-01-01

    SEDL is providing analytic and technical support to three large-scale randomized controlled trials assessing the efficacy of promising literacy curriculum in afterschool settings on student academic achievement. In the field of educational research, competition among research organizations and researchers can often impede collaborative efforts in…

  5. Field-Induced Multiple Reentrant Quantum Phase Transitions in Randomly Dimerized Antiferromagnetic S=1/2 Heisenberg Chains

    NASA Astrophysics Data System (ADS)

    Hida, Kazuo

    2006-07-01

    The multiple reentrant quantum phase transitions in the S=1/2 antiferromagnetic Heisenberg chains with random bond alternation in the magnetic field are investigated by the density matrix renormalization group method combined with interchain mean field approximation. It is assumed that odd numbered bonds are antiferromagnetic with strength J and even numbered bonds can take the values JS and JW (JS > J > JW > 0) randomly with the probabilities p and 1- p, respectively. The pure version ( p=0 and 1) of this model has a spin gap but exhibits a field-induced antiferromagnetism in the presence of interchain coupling if Zeeman energy due to the magnetic field exceeds the spin gap. For 0 < p < 1, antiferromagnetism is induced by randomness at the small field region where the ground state is disordered due to the spin gap in the pure version. At the same time, this model exhibits randomness-induced plateaus at several values of magnetization. The antiferromagnetism is destroyed on the plateaus. As a consequence, we find a series of reentrant quantum phase transitions between transverse antiferromagnetic phases and disordered plateau phases with the increase of magnetic field for a moderate strength of interchain coupling. Above the main plateaus, the magnetization curve consists of a series of small plateaus and jumps between them. It is also found that antiferromagnetism is induced by infinitesimal interchain coupling at the jumps between the small plateaus. We conclude that this antiferromagnetism is supported by the mixing of low-lying excited states by the staggered interchain mean field even though the spin correlation function is short ranged in the ground state of each chain.

  6. Implementing Random Assignment: A Computer-Based Approach in a Field Experimental Setting.

    ERIC Educational Resources Information Center

    Dobson, Douglas; Cook, Thomas J.

    1979-01-01

    A major problem in social science research is that of successfully carrying out the random assignment of persons to experimental and control groups. In this study a computer-based random assignment procedure operated successfully on a weekly basis for 17 consecutive weeks in a program serving over 360 ex-offenders. (CTM)

  7. Markov random field-based clustering applied to the segmentation of masses in digital mammograms.

    PubMed

    Suliga, M; Deklerck, R; Nyssen, E

    2008-09-01

    In this paper we propose a new pixel clustering model applied to the analysis of digital mammograms. The clustering represents here the first step in a more general method and aims at the creation of a concise data-set (clusters) for automatic detection and classification of masses, which are typically among the first symptoms analysed in early diagnosis of breast cancer. For the purpose of this work, a set of mammographic images has been employed, that are 12-bit gray level digital scans and as such, are inherently inhomogeneous and affected by the noise resulting from the film scanning. The image pixels are described only by their intensity (gray level), therefore, the available information is limited to one dimension. We propose a Markov random field (MRF)-based technique that is suitable for performing clustering in an environment which is described by poor or limited data. The proposed method is a statistical classification model, that labels the image pixels based on the description of their statistical and contextual information. Apart from evaluating the pixel statistics, that originate from the definition of the K-means clustering scheme, the model expands the analysis by the description of the spatial dependence between pixels and their labels (context), hence leading to the reduction of the inhomogeneity of the output. Moreover, we define a probabilistic description of the model, that is characterised by a remarkable simplicity, such that its realisation can be easily and efficiently implemented in any high- or low-level programming language, thus allowing it to be run on virtually any kind of platform. Finally, we evaluate the algorithm against the classical K-means clustering routine. We point out similarities between the two methods and, moreover, show the advantages and superiority of the MRF scheme.

  8. SAR-based change detection using hypothesis testing and Markov random field modelling

    NASA Astrophysics Data System (ADS)

    Cao, W.; Martinis, S.

    2015-04-01

    The objective of this study is to automatically detect changed areas caused by natural disasters from bi-temporal co-registered and calibrated TerraSAR-X data. The technique in this paper consists of two steps: Firstly, an automatic coarse detection step is applied based on a statistical hypothesis test for initializing the classification. The original analytical formula as proposed in the constant false alarm rate (CFAR) edge detector is reviewed and rewritten in a compact form of the incomplete beta function, which is a builtin routine in commercial scientific software such as MATLAB and IDL. Secondly, a post-classification step is introduced to optimize the noisy classification result in the previous step. Generally, an optimization problem can be formulated as a Markov random field (MRF) on which the quality of a classification is measured by an energy function. The optimal classification based on the MRF is related to the lowest energy value. Previous studies provide methods for the optimization problem using MRFs, such as the iterated conditional modes (ICM) algorithm. Recently, a novel algorithm was presented based on graph-cut theory. This method transforms a MRF to an equivalent graph and solves the optimization problem by a max-flow/min-cut algorithm on the graph. In this study this graph-cut algorithm is applied iteratively to improve the coarse classification. At each iteration the parameters of the energy function for the current classification are set by the logarithmic probability density function (PDF). The relevant parameters are estimated by the method of logarithmic cumulants (MoLC). Experiments are performed using two flood events in Germany and Australia in 2011 and a forest fire on La Palma in 2009 using pre- and post-event TerraSAR-X data. The results show convincing coarse classifications and considerable improvement by the graph-cut post-classification step.

  9. Adaptive multi-GPU Exchange Monte Carlo for the 3D Random Field Ising Model

    NASA Astrophysics Data System (ADS)

    Navarro, Cristóbal A.; Huang, Wei; Deng, Youjin

    2016-08-01

    This work presents an adaptive multi-GPU Exchange Monte Carlo approach for the simulation of the 3D Random Field Ising Model (RFIM). The design is based on a two-level parallelization. The first level, spin-level parallelism, maps the parallel computation as optimal 3D thread-blocks that simulate blocks of spins in shared memory with minimal halo surface, assuming a constant block volume. The second level, replica-level parallelism, uses multi-GPU computation to handle the simulation of an ensemble of replicas. CUDA's concurrent kernel execution feature is used in order to fill the occupancy of each GPU with many replicas, providing a performance boost that is more notorious at the smallest values of L. In addition to the two-level parallel design, the work proposes an adaptive multi-GPU approach that dynamically builds a proper temperature set free of exchange bottlenecks. The strategy is based on mid-point insertions at the temperature gaps where the exchange rate is most compromised. The extra work generated by the insertions is balanced across the GPUs independently of where the mid-point insertions were performed. Performance results show that spin-level performance is approximately two orders of magnitude faster than a single-core CPU version and one order of magnitude faster than a parallel multi-core CPU version running on 16-cores. Multi-GPU performance is highly convenient under a weak scaling setting, reaching up to 99 % efficiency as long as the number of GPUs and L increase together. The combination of the adaptive approach with the parallel multi-GPU design has extended our possibilities of simulation to sizes of L = 32 , 64 for a workstation with two GPUs. Sizes beyond L = 64 can eventually be studied using larger multi-GPU systems.

  10. Enhancing Foster Parent Training with Parent-Child Interaction Therapy: Evidence from a Randomized Field Experiment

    PubMed Central

    Mersky, Joshua P.; Topitzes, James; Janczewski, Colleen E.; McNeil, Cheryl B.

    2015-01-01

    Objective Research indicates that foster parents often do not receive sufficient training and support to help them meet the demands of caring for foster children with emotional and behavioral disturbances. Parent-Child Interaction Therapy (PCIT) is a clinically efficacious intervention for child externalizing problems, and it also has been shown to mitigate parenting stress and enhance parenting attitudes and behaviors. However, PCIT is seldom available to foster families, and it rarely has been tested under intervention conditions that are generalizable to community-based child welfare service contexts. To address this gap, PCIT was adapted and implemented in a field experiment using 2 novel approaches—group-based training and telephone consultation—both of which have the potential to be integrated into usual care. Method This study analyzes 129 foster-parent-child dyads who were randomly assigned to 1 of 3 conditions: (a) waitlist control, (b) brief PCIT, and (c) extended PCIT. Self-report and observational data were gathered at multiple time points up to 14 weeks post baseline. Results Findings from mixed-model, repeated measures analyses indicated that the brief and extended PCIT interventions were associated with a significant decrease in self-reported parenting stress. Results from mixed-effects generalized linear models showed that the interventions also led to significant improvements in observed indicators of positive and negative parenting. The brief course of PCIT was as efficacious as the extended PCIT intervention. Conclusions The findings suggest that usual training and support services can be improved upon by introducing foster parents to experiential, interactive PCIT training. PMID:26977251

  11. Spatial analysis in a Markov random field framework: The case of burning oil wells in Kuwait

    NASA Astrophysics Data System (ADS)

    Dezzani, Raymond J.; Al-Dousari, Ahmad

    This paper discusses a modeling approach for spatial-temporal prediction of environmental phenomena using classified satellite images. This research was prompted by the analysis of change and landscape redistribution of petroleum residues formed from the residue of the burning oil wells in Kuwait (1991). These surface residues have been termed ``tarcrete'' (El-Baz etal. 1994). The tarcrete forms a thick layer over sand and desert pavement covering a significant portion of south-central Kuwait. The purpose of this study is to develop a method that utilizes satellite images from different time steps to examine the rate-of-change of the oil residue deposits and determine where redistribution is are likely to occur. This problem exhibits general characteristics of environmental diffusion and dispersion phenomena so a theoretical framework for a general solution is sought. The use of a lagged-clique, Markov random field framework and entropy measures is deduced to be an effective solution to satisfy the criteria of determination of time-rate-of-change of the surface deposits and to forecast likely locations of redistribution of dispersed, aggraded residues. The method minimally requires image classification, the determination of time stationarity of classes and the measurement of the level of organization of the state-space information derived from the images. Analysis occurs at levels of both the individual pixels and the system to determine specific states and suites of states in space and time. Convergence of the observed landscape disorder with respect to an analytical maximum provide information on the total dispersion of the residual system.

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

    PubMed Central

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

    2016-01-01

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

  13. Detecting Hedge Cues and their Scope in Biomedical Literature with Conditional Random Fields

    PubMed Central

    Agarwal, Shashank; Yu, Hong

    2010-01-01

    Objective Hedging is frequently used in both the biological literature and clinical notes to denote uncertainty or speculation. It is important for text-mining applications to detect hedge cues and their scope; otherwise, uncertain events are incorrectly identified as factual events. However, due to the complexity of language, identifying hedge cues and their scope in a sentence is not a trivial task. Our objective was to develop an algorithm that would automatically detect hedge cues and their scope in biomedical literature. Methodology We used conditional random fields (CRF), a supervised machine-learning algorithm, to train models to detect hedge cue phrases and their scope in biomedical literature. The models were trained on the publicly available BioScope corpus. We evaluated the performance of the CRF models in identifying hedge cue phrases and their scope by calculating recall, precision and F1-score. We compared our models with three competitive baseline systems. Results Our best CRF-based model performed statistically better than the baseline systems, achieving an F1-score of 88% and 86% in detecting hedge cue phrases and their scope in biological literature and an F1-score of 93% and 90% in detecting hedge cue phrases and their scope in clinical notes. Conclusions Our approach is robust, as it can identify hedge cues and their scope in both biological and clinical text. To benefit text-mining applications, our system is publicly available as a Java API and as an online application at http://hedgescope.askhermes.org. To our knowledge, this is the first publicly available system to detect hedge cues and their scope in biomedical literature. PMID:20709188

  14. Genetic diversity among elite Sorghum lines revealed by restriction fragment length polymorphisms and random amplified polymorphic DNAs.

    PubMed

    Vierling, R A; Xiang, Z; Joshi, C P; Gilbert, M L; Nguyen, H T

    1994-02-01

    The genetic diversity of sorghum, as compared to corn, is less well characterized at the genetic and molecular levels despite its worldwide economic importance. The objectives of this study were to: (1) investigate genetic diversity for restriction fragment length polymorphism (RFLPs) and random amplified polymorphic DNAs (RAPDs) in elite sorghum lines, (2) compare similarities based on molecular markers with pedigree relationships, and (3) examine the potential of RFLPs and RAPDs for assigning sorghum lines to the A/B (sterile) and R (restorer) groups. Using four restriction enzymes, polymorphism was detected with 61% of the RFLP probes used, compared to 77% of the random primers. One hundred and sixteen (64%) probe-enzyme combinations yielded multiple-band profiles compared to 98% of the random primers. RFLP profiles generated 290 polymorphic bands compared to 177 polymorphic RAPDs. Pair-wise comparisons of polymorphic RFLPs and RAPDs were used to calculate Nei and Jaccard coefficients. These were employed to generate phenograms using UPGMA and neighborjoining clustering methods. Analysis of RFLP data with Jaccard's coefficient and neighbor-joining clustering produced the phenogram with the closest topology to the known pedigree.

  15. Dynamic full field optical coherence tomography: subcellular metabolic contrast revealed in tissues by interferometric signals temporal analysis

    PubMed Central

    Apelian, Clement; Harms, Fabrice; Thouvenin, Olivier; Boccara, A. Claude

    2016-01-01

    We developed a new endogenous approach to reveal subcellular metabolic contrast in fresh ex vivo tissues taking advantage of the time dependence of the full field optical coherence tomography interferometric signals. This method reveals signals linked with local activity of the endogenous scattering elements which can reveal cells where other OCT-based techniques fail or need exogenous contrast agents. We benefit from the micrometric transverse resolution of full field OCT to image intracellular features. We used this time dependence to identify different dynamics at the millisecond scale on a wide range of organs in normal or pathological conditions. PMID:27446672

  16. Spatial cross modulation method using a random diffuser and phase-only spatial light modulator for constructing arbitrary complex fields.

    PubMed

    Shibukawa, Atsushi; Okamoto, Atsushi; Takabayashi, Masanori; Tomita, Akihisa

    2014-02-24

    We propose a spatial cross modulation method using a random diffuser and a phase-only spatial light modulator (SLM), by which arbitrary complex-amplitude fields can be generated with higher spatial resolution and diffraction efficiency than off-axis and double-phase computer-generated holograms. Our method encodes the original complex object as a phase-only diffusion image by scattering the complex object using a random diffuser. In addition, all incoming light to the SLM is consumed for a single diffraction order, making a diffraction efficiency of more than 90% possible. This method can be applied for holographic data storage, three-dimensional displays, and other such applications.

  17. Some Trends in Radioactive Waste Form Behavior Revealed in Long-Term Field Tests

    SciTech Connect

    Ojovan, M. I.; Ojovan, N. V.; Startceva, I. V.; Barinov, A. S.

    2002-02-25

    Results from long-term field tests with borosilicate glass, cement and bitumen waste forms containing actual intermediate-level radioactive waste are summarized and discussed in the paper. Leaching behavior of the waste forms was evaluated by monitoring the contamination of contacting water. Measured leach rates of the three waste-form materials were in a narrow range in shallow subsurface repositories, but varied in a wide range at an open testing site owing to weathering of bitumen and cement materials. The repositories were opened after 12-year testing for visual examination, sampling and analysis. All retrieved waste forms were in good physical condition. The study has not revealed any negative changes in the waste glass. Some ageing processes were detected in cement and bitumen waste forms, which can positively (bitumen) or negatively (cement) affect physical and containment properties of these waste materials. It has been established that a significant proportion of the radioactive inventory in the bitumen waste form became associated with the bitumen phase. Phase separation of this radioactive bitumen has shown, than the asphaltene fraction is responsible for the major part of the radioactivity retained by the bitumen.

  18. Immunogold Labeling of Amelogenin in Developing Porcine Enamel Revealed by Field Emission Scanning Electron Microscopy

    PubMed Central

    Du, Chang; Fan, Daming; Sun, Zhi; Fan, Yuwei; Lakshminarayanan, Rajamani; Moradian-Oldak, Janet

    2008-01-01

    The present study describes a method using immunohistochemical labeling in combination with high-resolution imaging (field emission scanning electron microscopy) to investigate the spatial localization of amelogenins on apatite crystallites in developing porcine enamel. Cross-sections of developing enamel tissue from freeze-fractured pig third molar were treated with antiserum against recombinant mouse amelogenin and immunoreactivity confirmed by Western blot analysis. The samples were then treated with the goat anti-rabbit IgG conjugated with 10-nm gold particles. The control samples were treated with the secondary antibody only. The in-lens secondary electrons detector and quadrant back-scattering detector were employed to reveal the high-resolution morphology of enamel structures and gold particle distribution. The immunolabeling showed a preference of the gold particle localization along the side faces of the ribbon-like apatite crystals. The preferential localization of amelogenin in vivo on enamel crystals strongly supports its direct function in controlling crystal morphology. PMID:18701812

  19. Geological features of the northeastern Canadian Arctic margin revealed from analysis of potential field data

    NASA Astrophysics Data System (ADS)

    Anudu, Goodluck K.; Stephenson, Randell A.; Macdonald, David I. M.; Oakey, Gordon N.

    2016-11-01

    The northeastern Canadian Arctic margin is bordered to the north by Alpha Ridge, a dominantly magmatic complex within the Amerasia Basin of the Arctic Ocean, which forms part of the High Arctic Large Igneous Province (HALIP). The characteristics of the gravity and magnetic anomaly fields change notably along the Arctic margin, with two main segments recognised. Aeromagnetic and gravity data in the transition zone between these contrasting domains of the Canadian Arctic margin are analysed here in detail. Results obtained using a variety of edge enhancement (derivative) methods highlight several magnetic domains and a major offshore sedimentary basin as well as some known and a number of previously unknown tectonic and magmatic elements. A magmatic intrusion distribution map derived from the edge enhanced magnetic anomaly maps reveals that magmatic rocks are much more widespread in the relatively shallow subsurface than implied by surface geological mapping. Magmatic intrusions (mainly dykes) and other geological structures have NW-SE, NE-SW and N-S major trends. Broad gravity and pseudogravity lows across most of the Sverdrup Basin region are due to thick, less dense sedimentary succession and low magnetised crust. Magnetic and pseudogravity highs observed over Alpha Ridge indicate high crustal magnetisation associated with the occurrence of extensive and voluminous crustal magmatic bodies. Absence of these volcanic and intrusive rocks in the imaged sedimentary basin beneath the northeast Canadian Arctic margin region suggests that the basin probably formed after the cessation of HALIP magmatism.

  20. Sensitivity of the Goldfish Motion Detection System Revealed by Incoherent Random Dot Stimuli: Comparison of Behavioural and Neuronal Data

    PubMed Central

    Masseck, Olivia Andrea; Förster, Sascha; Hoffmann, Klaus-Peter

    2010-01-01

    Background Global motion detection is one of the most important abilities in the animal kingdom to navigate through a 3-dimensional environment. In the visual system of teleost fish direction-selective neurons in the pretectal area (APT) are most important for global motion detection. As in all other vertebrates these neurons are involved in the control of slow phase eye movements during gaze stabilization. In contrast to mammals cortical pathways that might influence motion detection abilities of the optokinetic system are missing in teleost fish. Results To test global motion detection in goldfish we first measured the coherence threshold of random dot patterns to elicit horizontal slow phase eye movements. In addition, the coherence threshold of the optomotor response was determined by the same random dot patterns. In a second approach the coherence threshold to elicit a direction selective response in neurons of the APT was assessed from a neurometric function. Behavioural thresholds and neuronal thresholds to elicit slow phase eye movements were very similar, and ranged between 10% and 20% coherence. In contrast to these low thresholds for the optokinetic reaction and APT neurons the optomotor response could only be elicited by random dot patterns with coherences above 40%. Conclusion Our findings suggest a high sensitivity for global motion in the goldfish optokinetic system. Comparison of neuronal and behavioural thresholds implies a nearly one-to-one transformation of visual neuron performance to the visuo-motor output. In addition, we assume that the optomotor response is not mediated by the optokinetic system, but instead by other motion detection systems with higher coherence thresholds. PMID:20209165

  1. Irrational use of antimalarial drugs in rural areas of eastern Pakistan: a random field study

    PubMed Central

    2012-01-01

    Background Prescription of antimalarial drugs in the absence of malarial disease is a common practice in countries where malaria is endemic. However, unwarranted use of such drugs can cause side effects in some people and is a financial drain on local economies. In this study, we surveyed the prevalence of malaria parasites in humans, and the prevalence of the malaria transmitting mosquito vectors in the study area. We also investigated the use of antimalarial drugs in the local people. We focused on randomly selected rural areas of eastern Pakistan where no malaria cases had been reported since May 2004. Methods Mass blood surveys, active case detection, passive case detection, and vector density surveys were carried out in selected areas of Sargodha district from September 2008 to August 2009. Data pertaining to the quantities and types of antimalarial drugs used in these areas were collected from health centers, pharmacies, and the district CDC program of the Health Department of the Government of the Punjab. Results Seven hundred and forty four blood samples were examined, resulting in a Blood Examination Rate (BER) of 3.18; microscopic analysis of blood smears showed that none of the samples were positive for malaria parasites. Investigation of the mosquito vector density in 43 living rooms (bedrooms or rooms used for sleeping), 23 stores, and 32 animal sheds, revealed no vectors capable of transmitting malaria in these locations. In contrast, the density of Culex mosquitoes was high. Substantial consumption of a variety of antimalarial tablets, syrups, capsules and injections costing around 1000 US$, was documented for the region. Conclusion Use of antimalarial drugs in the absence of malarial infection or the vectors that transmit the disease was common in the study area. Continuous use of such drugs, not only in Pakistan, but in other parts of the world, may lead to drug-induced side effects amongst users. Better training of health care professionals is

  2. Using Coherent Small Angle Xray Scattering to Measure Velocity Fields and Random Motion

    NASA Astrophysics Data System (ADS)

    Lhermitte, Julien

    The dynamics of cross-linked polymers under stress, such as those that make up rubber, are still not well understood. A combination of coherent xray homodyne and heterodyne techniques is used in order to measure fluctuations of the system when stretched. The combination of both techniques allows for the measurement of flow patterns, as well as the random nature of the system. After data analysis, the results show that the measurements successfully captured this flow information. The flow velocity was discovered to have a time-dependent nature similar to that of the stress-strain curve. After the flow velocity was extracted, the random nature of the system was analysed. This random motion was discovered not to be dominated by conventional diffusion, but some slower random process.

  3. Limitations of a True Random Number Generator in a Field Programmable Gate Array

    DTIC Science & Technology

    2007-12-01

    more hardware than addition. The first two numbers for a sequence from a Fibonacci generator must be supplied and generally m is usually chosen as...congruential generator with a lagged Fibonacci generator. The two generators should produce a good random sequence and tested to make sure the resulting...9 Figure 3 Von Neumann and Xor Corrector for Unbiasing Random Sequences ............. 10 Figure 4 Four Bit Linear

  4. Genotoxicity of Thermopsis turcica on Allium cepa L. roots revealed by alkaline comet and random amplified polymorphic DNA assays.

    PubMed

    Ciğerci, İbrahim Hakkı; Cenkci, Süleyman; Kargıoğlu, Mustafa; Konuk, Muhsin

    2016-08-01

    This study was undertaken to evaluate genotoxic potential of Thermopsis turcica aqueous extracts on the roots of onion bulb (Allium cepa L.) by comet assay and random amplified polymorphic DNA technique. The Allium root growth inhibition test indicated that the EC50 and 2×EC50 values were 8 and 16 mg/ml concentrations of T. turcica aqueous extracts, respectively. The negative control (distilled water), positive control (methyl methane sulfonate, 10 mg/l) and 8 and 16 mg/ml concentrations of T. turcica extracts were introduced to the roots of onion bulbs for 24 and 96 h. The root growth, DNA damage in root cells and randomly amplified polymorphic DNA (RAPD) profiles of root tissue were used as endpoints of the genotoxicity. The comet assay clearly indicated that dose-dependent single strand DNA breaks in the root nuclei of onions were determined for the treatment concentrations of T. turcica extracts. In comparison to RAPD profile of negative control group, RAPD polymorphisms became evident as disappearance and/or appearance of RAPD bands in treated roots. The diagnostic and phenetic numerical analyses of RAPD profiles obviously indicated dose-dependent genotoxicity induced by Thermopsis extracts. In conclusion, the results clearly indicated that water extract of T. turcica has genotoxic potential on the roots of onion bulbs as shown by comet assay and RAPD technique.

  5. Segmentation of lung lesions on CT scans using watershed, active contours, and Markov random field

    PubMed Central

    Tan, Yongqiang; Schwartz, Lawrence H.; Zhao, Binsheng

    2013-01-01

    Purpose: Lung lesions vary considerably in size, density, and shape, and can attach to surrounding anatomic structures such as chest wall or mediastinum. Automatic segmentation of the lesions poses a challenge. This work communicates a new three-dimensional algorithm for the segmentation of a wide variety of lesions, ranging from tumors found in patients with advanced lung cancer to small nodules detected in lung cancer screening programs. Methods: The authors’ algorithm uniquely combines the image processing techniques of marker-controlled watershed, geometric active contours as well as Markov random field (MRF). The user of the algorithm manually selects a region of interest encompassing the lesion on a single slice and then the watershed method generates an initial surface of the lesion in three dimensions, which is refined by the active geometric contours. MRF improves the segmentation of ground glass opacity portions of part-solid lesions. The algorithm was tested on an anthropomorphic thorax phantom dataset and two publicly accessible clinical lung datasets. These clinical studies included a same-day repeat CT (prewalk and postwalk scans were performed within 15 min) dataset containing 32 lung lesions with one radiologist's delineated contours, and the first release of the Lung Image Database Consortium (LIDC) dataset containing 23 lung nodules with 6 radiologists’ delineated contours. The phantom dataset contained 22 phantom nodules of known volumes that were inserted in a phantom thorax. Results: For the prewalk scans of the same-day repeat CT dataset and the LIDC dataset, the mean overlap ratios of lesion volumes generated by the computer algorithm and the radiologist(s) were 69% and 65%, respectively. For the two repeat CT scans, the intra-class correlation coefficient (ICC) was 0.998, indicating high reliability of the algorithm. The mean relative difference was −3% for the phantom dataset. Conclusions: The performance of this new segmentation

  6. Statistical Analyses of Brain Surfaces Using Gaussian Random Fields on 2-D Manifolds

    PubMed Central

    Staib, Lawrence H.; Xu, Dongrong; Zhu, Hongtu; Peterson, Bradley S.

    2008-01-01

    Interest in the morphometric analysis of the brain and its subregions has recently intensified because growth or degeneration of the brain in health or illness affects not only the volume but also the shape of cortical and subcortical brain regions, and new image processing techniques permit detection of small and highly localized perturbations in shape or localized volume, with remarkable precision. An appropriate statistical representation of the shape of a brain region is essential, however, for detecting, localizing, and interpreting variability in its surface contour and for identifying differences in volume of the underlying tissue that produce that variability across individuals and groups of individuals. Our statistical representation of the shape of a brain region is defined by a reference region for that region and by a Gaussian random field (GRF) that is defined across the entire surface of the region. We first select a reference region from a set of segmented brain images of healthy individuals. The GRF is then estimated as the signed Euclidean distances between points on the surface of the reference region and the corresponding points on the corresponding region in images of brains that have been coregistered to the reference. Correspondences between points on these surfaces are defined through deformations of each region of a brain into the coordinate space of the reference region using the principles of fluid dynamics. The warped, coregistered region of each subject is then unwarped into its native space, simultaneously bringing into that space the map of corresponding points that was established when the surfaces of the subject and reference regions were tightly coregistered. The proposed statistical description of the shape of surface contours makes no assumptions, other than smoothness, about the shape of the region or its GRF. The description also allows for the detection and localization of statistically significant differences in the shapes of

  7. Stochastic modeling and vibration analysis of rotating beams considering geometric random fields

    NASA Astrophysics Data System (ADS)

    Choi, Chan Kyu; Yoo, Hong Hee

    2017-02-01

    Geometric parameters such as the thickness and width of a beam are random for various reasons including manufacturing tolerance and operation wear. Due to these random parameter properties, the vibration characteristics of the structure are also random. In this paper, we derive equations of motion to conduct stochastic vibration analysis of a rotating beam using the assumed mode method and stochastic spectral method. The accuracy of the proposed method is first verified by comparing analysis results to those obtained with Monte-Carlo simulation (MCS). The efficiency of the proposed method is then compared to that of MCS. Finally, probability densities of various modal and transient response characteristics of rotating beams are obtained with the proposed method.

  8. Genetic diversity and phylogenetic relationship among Tunisian cactus species (Opuntia) as revealed by random amplified microsatellite polymorphism markers.

    PubMed

    Bendhifi Zarroug, M; Baraket, G; Zourgui, L; Souid, S; Salhi Hannachi, A

    2015-02-13

    Opuntia ficus indica is one of the most economically important species in the Cactaceae family. Increased interest in this crop stems from its potential contribution to agricultural diversification, application in the exploitation of marginal lands, and utility as additional income sources for farmers. In Tunisia, O. ficus indica has been affected by drastic genetic erosion resulting from biotic and abiotic stresses. Thus, it is imperative to identify and preserve this germplasm. In this study, we focused on the use of random amplified microsatellite polymorphisms to assess genetic diversity among 25 representatives of Tunisian Opuntia species maintained in the collection of the National Institute of Agronomic Research of Tunisia. Seventy-two DNA markers were screened to discriminate accessions using 16 successful primer combinations. The high percentage of polymorphic band (100%), the resolving power value (5.68), the polymorphic information content (0.94), and the marker index (7.2) demonstrated the efficiency of the primers tested. Therefore, appropriate cluster analysis used in this study illustrated a divergence among the cultivars studied and exhibited continuous variation that occurred independently of geographic origin. O. ficus indica accessions did not cluster separately from the other cactus pear species, indicating that their current taxonomical classifications are not well aligned with their genetic variability or locality of origin.

  9. Diffusion and stochastic island generation in the magnetic field line random walk

    SciTech Connect

    Vlad, M.; Spineanu, F.

    2014-08-10

    The cross-field diffusion of field lines in stochastic magnetic fields described by the 2D+slab model is studied using a semi-analytic statistical approach, the decorrelation trajectory method. We show that field line trapping and the associated stochastic magnetic islands strongly influence the diffusion coefficients, leading to dependences on the parameters that are different from the quasilinear and Bohm regimes. A strong amplification of the diffusion is produced by a small slab field in the presence of trapping. The diffusion regimes are determined and the corresponding physical processes are identified.

  10. The magnetic field of the Large Magellanic Cloud revealed through Faraday rotation.

    PubMed

    Gaensler, B M; Haverkorn, M; Staveley-Smith, L; Dickey, J M; McClure-Griffiths, N M; Dickel, J R; Wolleben, M

    2005-03-11

    We have measured the Faraday rotation toward a large sample of polarized radio sources behind the Large Magellanic Cloud (LMC) to determine the structure of this galaxy's magnetic field. The magnetic field of the LMC consists of a coherent axisymmetric spiral of field strength approximately 1 microgauss. Strong fluctuations in the magnetic field are also seen on small (<0.5 parsec) and large (approximately 100 parsecs) scales. The large bursts of recent star formation and supernova activity in the LMC argue against standard dynamo theory, adding to the growing evidence for rapid field amplification in galaxies.

  11. Magnetic-field-induced ferroelectric polarization reversal in magnetoelectric composites revealed by piezoresponse force microscopy.

    PubMed

    Miao, Hongchen; Zhou, Xilong; Dong, Shuxiang; Luo, Haosu; Li, Faxin

    2014-08-07

    Controlling electric polarization (or magnetization) in multiferroic materials with external magnetic fields (or electric fields) is very important for fundamental physics and spintronic devices. Although there has been some progress on magnetic-field-induced polarization reversal in single-phase multiferroics, such behavior has so far never been realized in composites. Here we show that it is possible to reverse ferroelectric polarization using magnetic fields in a bilayer Terfenol-D/PMN-33%PT composite. We realized this by ferroelectric domain imaging using piezoresponse force microscopy (PFM) under applied magnetic field loading. The internal electric field caused by the magnetoelectric (ME) effect in the PMN-PT crystal is considered as the driving force for the 180° polarization switching, and its existence is verified by switching spectroscopy PFM testing under a series of external magnetic fields. A quantitative method is further suggested to estimate the local ME coefficient based on the switching spectroscopy PFM testing results.

  12. Explaining Feast or Famine in Randomized Field Trials: Medical Science and Criminology Compared.

    ERIC Educational Resources Information Center

    Shepherd, Jonathan P.

    2003-01-01

    Discusses the contrast between the frequency of randomized clinical trials in the health sciences and the relative famine of such studies in criminology. Attributes this difference to the contexts in which research is done and the difference in the status of situational research in the two disciplines. (SLD)

  13. Active drumlin field revealed at the margin of Múlajökull, Iceland: a surge-type glacier

    NASA Astrophysics Data System (ADS)

    Schomacker, A.; Johnson, M. D.; Benediktsson, I.; Ingolfsson, O.; Geiger, A. J.; Ferguson, A.

    2010-12-01

    Recent marginal retreat of Múlajökull, a surge-type, outlet glacier of the Hofsjökull ice cap, central Iceland, has revealed a drumlin field consisting of over 50 drumlins. The drumlins are 90-320 m long, 30-105 m wide, 5-10 m in relief, and composed of multiple beds of till deposited by lodgement and bed deformation. The youngest till layer truncates the older units with an erosion surface that parallels the drumlin form. Thus, the drumlins are built up and formed by a combination of subglacial depositional and erosional processes. Field evidence suggests each till bed to be associated with individual, recent surges. We consider the drumlin field to be active in the sense that the drumlins are shaped by the current glacial regime. The Múlajökull field is the only known active drumlin field and is, therefore, a unique analogue to Pleistocene drumlin fields.

  14. Theory of magnetic field line random walk in noisy reduced magnetohydrodynamic turbulence

    SciTech Connect

    Ruffolo, D.; Matthaeus, W. H.

    2013-01-15

    When a magnetic field consists of a mean part and fluctuations, the stochastic wandering of its field lines is often treated as a diffusive process. Under suitable conditions, a stable value is found for the mean square transverse displacement per unit parallel displacement relative to the mean field. Here, we compute the associated field line diffusion coefficient for a highly anisotropic 'noisy' reduced magnetohydrodynamic model of the magnetic field, which is useful in describing low frequency turbulence in the presence of a strong applied DC mean magnetic field, as may be found, for example, in the solar corona, or in certain laboratory devices. Our approach is nonperturbative, based on Corrsin's independence hypothesis, and makes use of recent advances in understanding factors that control decorrelation over a range of parameters described by the Kubo number. Both Bohm and quasilinear regimes are identified.

  15. Atomic electric fields revealed by a quantum mechanical approach to electron picodiffraction.

    PubMed

    Müller, Knut; Krause, Florian F; Béché, Armand; Schowalter, Marco; Galioit, Vincent; Löffler, Stefan; Verbeeck, Johan; Zweck, Josef; Schattschneider, Peter; Rosenauer, Andreas

    2014-12-15

    By focusing electrons on probes with a diameter of 50 pm, aberration-corrected scanning transmission electron microscopy (STEM) is currently crossing the border to probing subatomic details. A major challenge is the measurement of atomic electric fields using differential phase contrast (DPC) microscopy, traditionally exploiting the concept of a field-induced shift of diffraction patterns. Here we present a simplified quantum theoretical interpretation of DPC. This enables us to calculate the momentum transferred to the STEM probe from diffracted intensities recorded on a pixel array instead of conventional segmented bright-field detectors. The methodical development yielding atomic electric field, charge and electron density is performed using simulations for binary GaN as an ideal model system. We then present a detailed experimental study of SrTiO3 yielding atomic electric fields, validated by comprehensive simulations. With this interpretation and upgraded instrumentation, STEM is capable of quantifying atomic electric fields and high-contrast imaging of light atoms.

  16. Electron random walk and collisional crossover in a gas in presence of electromagnetic waves and magnetostatic fields

    NASA Astrophysics Data System (ADS)

    Bhattacharjee, Sudeep; Dey, Indranuj; Paul, Samit

    2013-04-01

    This paper deals with random walk of electrons and collisional crossover in a gas evolving toward a plasma, in presence of electromagnetic (EM) waves and magnetostatic (B) fields, a fundamental subject of importance in areas requiring generation and confinement of wave assisted plasmas. In presence of EM waves and B fields, the number of collisions N suffered by an electron with neutral gas atoms while diffusing out of the volume during the walk is significantly modified when compared to the conventional field free square law diffusion; N =1.5(Λ /λ)2, where Λ is the characteristic diffusion length and λ is the mean free path. There is a distinct crossover and a time scale associated with the transition from the elastic to inelastic collisions dominated regime, which can accurately predict the breakdown time (τc) and the threshold electric field (EBD) for plasma initiation. The essential features of cyclotron resonance manifested as a sharp drop in τc, lowering of EBD and enhanced electron energy gain is well reproduced in the constrained random walk.

  17. Effects of Gentle Human Touch and Field Massage on Urine Cortisol Level in Premature Infants: A Randomized, Controlled Clinical Trial

    PubMed Central

    Asadollahi, Malihe; Jabraeili, Mahnaz; Mahallei, Majid; Asgari Jafarabadi, Mohammad; Ebrahimi, Sakine

    2016-01-01

    Introduction: Hospitalization in neonatal intensive care unit may leads to many stresses for premature infants. Since premature infants cannot properly process stressors, identifying interventions that reduce the stress level for them is seems necessary. The aim of present study was to compare the effects of Field massage and Gentle Human Touch (GHT) techniques on the urine level of cortisol, as an indicator of stress in preterm infants. Methods: This randomized, controlled clinical trial was carried out in Al-Zahra hospital, Tabriz. A total of 84 premature infants were randomly assigned into three groups. First groups were touched by their mothers three times a day (15 minutes in each session) for 5 days by GHT technique. The second group was received 15 minutes Field massage with sunflower oil three times a day by their mothers for 5 days. The third group received routine care. In all groups, 24-hours urine samples were collected in the first and sixth day after the intervention and analyzed for cortisol level. Data were analyzed by SPSS software. Results: There were significant differences between mean of changes in cortisol level between GHT and control groups and Field massage and control groups (0.026). Conclusion: Although the massage with Field technique resulted in a significant reduction in blood cortisol level, but the GHT technique have also a similar effect. So, both methods are recommended for decreasing of stress in preterm infants. PMID:27752484

  18. A backscatter model for a randomly perturbed periodic surface. [furrowed soils in agricultural fields

    NASA Technical Reports Server (NTRS)

    Ulaby, F. T.; Kouyate, F.; Fung, A. K.

    1981-01-01

    A backscatter model for a randomly perturbed periodic surface has been developed to explain backscatter measurements from a bare soil surface with row structure. It is assumed that the row-direction effect can be included by integrating the scattering coefficient due to the random roughness component over the underlying periodic component of the soil surface. It is found that the row-direction effect is strongly dependent upon the rate of change of this scattering coefficient with the local angle, and that the maximum difference between looking parallel and perpendicular to the row direction occurs around an incidence angle whose tangent is equal to the slope of the periodic surface at the inflection point.

  19. Seismic spatial effects on long-span bridge response in nonstationary inhomogeneous random fields

    NASA Astrophysics Data System (ADS)

    Jiahao, Lin; Yahui, Zhang; Yan, Zhao

    2005-06-01

    The long-span bridge response to nonstationary multiple seismic random excitations is investigated using the PEM (pseudo excitation method). This method transforms the nonstationary random response analysis into ordinary direct dynamic analysis, and therefore, the analysis can be solved conveniently using the Newmark, Wilson-θ schemes or the precise integration method. Numerical results of the seismic response for an actual long-span bridge using the proposed PEM are given and compared with the results based on the conventional stationary analysis. From the numerical comparisons, it was found that both the seismic spatial effect and the nonstationary effect are quite important, and that both stationary and nonstationary seismic analysis should pay special attention to the wave passage effect.

  20. Seismic spatial effects on dynamic response of long-span bridges in stationary inhomogeneous random fields

    NASA Astrophysics Data System (ADS)

    Jiahao, Lin; Yahui, Zhang; Yan, Zhao

    2004-12-01

    The seismic analysis of long-span bridges subjected to multiple ground excitations is an important problem. The conventional response spectrum method neglects the spatial effects of ground motion, and therefore may result in questionable conclusions. The random vibration approach has been regarded as more reliable. Unfortunately, so far, computational difficulties have not yet been satisfactorily resolved. In this paper, an accurate and efficient random vibration approach — pseudo excitation method (PEM), by which the above difficulties are overcome, is presented. It has been successfully used in the three dimensional seismic analysis of a number of long-span bridges with thousands of degrees of freedom and dozens of supports. The numerical results of a typical bridge show that the seismic spatial effects, particularly the wave passage effect, are sometimes quite important in evaluating the safety of long-span bridges.

  1. Testing for a Signal with Unknown Location and Scale in a Stationary Gaussian Random Field

    DTIC Science & Technology

    1994-01-07

    Secondary 60D05, 52A22. Key words and phrases. Euler characteristic, integral geometry, image analysis , Gaussian fields, volume of tubes. SUMMARY We...words and phrases. Euler characteristic, integral geometry. image analysis . Gaussian fields. volume of tubes. 20. AMST RACT (Coith..o an revmreo ef* It

  2. A Deep Conditional Random Field Approach to Transmembrane Topology Prediction and Application to GPCR Three-Dimensional Structure Modeling.

    PubMed

    Wu, Hongjie; Wang, Kun; Lu, Liyao; Xue, Yu; Lyu, Qiang; Jiang, Min

    2016-08-25

    Transmembrane proteins play important roles in cellular energy production, signal transmission, and metabolism. Many shallow machine learning methods have been applied to transmembrane topology prediction, but the performance was limited by the large size of membrane proteins and the complex biological evolution information behind the sequence. In this paper, we proposed a novel deep approach based on conditional random fields named as dCRF-TM for predicting the topology of transmembrane proteins. Conditional random fields take into account more complicated interrelation between residue labels in full-length sequence than HMM and SVM-based methods. Three widely-used datasets were employed in the benchmark. DCRF-TM had the accuracy 95% over helix location prediction and the accuracy 78% over helix number prediction. DCRF-TM demonstrated a more robust performance on large size proteins (>350 residues) against 11 state-of-the-art predictors. Further dCRF-TM was applied to ab initio modeling three-dimensional structures of seven-transmembrane receptors, also known as G protein-coupled receptors. The predictions on 24 solved G protein-coupled receptors and unsolved vasopressin V2 receptor illustrated that dCRF-TM helped abGPCR-I-TASSER to improve TM-score 34.3% rather than using the random transmembrane definition. 2 out of 5 predicted models caught the experimental verified disulfide bond in vasopressin V2 receptor.

  3. The Spectrovideomagnetograph Reveals the True Strength of Quiet Sun Magnetic Fields

    NASA Astrophysics Data System (ADS)

    Zirin, H.; Cameron, R.

    2000-12-01

    We present new observations of weak solar magnetic fields with a technique, which we term the spectro-videomagnetograph (SPVMG) which permits direct measurement of splittings as small as 200 gauss. Using the technique of Stenflo we compared the Stokes V-component for the 5250 and 5247 lines. Contrary to Stenflo's results, we find no evidence for strong fields with small filling factor; i. e., the field strengths measured as 200 gaussare really 200 gauss and not some stronger field partly filling the sample. For the weakest measured fields this cannot be absolutely established, but the evidence supports the existence of field elements at least as weak as 200 gauss. Observations of active regions also yield new results. In many cases of fields near inversion lines, we find doubled sets of Zeeman components, as well as `flags,' broad components, usually confined to one side of the line, extending to displacements corresponding to thousands of gauss, with no corresponding component on the opposite side of the line. We show examples of these spectra, along with slit jaw images, but have only a limited understanding of the field structures they represent. We also have examples of the V-splitting increasing as we approach the inversion line. We are struggling to understand these and will at least show them, with or without explanation. Finally, the regions involving these anomalous Zeeman patterns seem to flare more frequently, although statistics are limited. This work has been supported by the NSF under ATM-9726147.

  4. The role of magnetic fields in starburst galaxies as revealed by OH megamasers

    SciTech Connect

    McBride, James; Quataert, Eliot; Heiles, Carl; Bauermeister, Amber E-mail: eliot@astro.berkeley.edu

    2014-01-10

    We present estimates of magnetic field strengths in the interstellar media of starburst galaxies derived from measurements of Zeeman splitting associated with OH megamasers. The results for eight galaxies with Zeeman detections suggest that the magnetic energy density in the interstellar medium of starburst galaxies is comparable to their hydrostatic gas pressure, as in the Milky Way. We discuss the significant uncertainties in this conclusion, and possible measurements that could reduce these uncertainties. We also compare the Zeeman splitting derived magnetic field estimates to magnetic field strengths estimated using synchrotron fluxes and assuming that the magnetic field and cosmic rays have comparable energy densities, known as the 'minimum energy' argument. We find that the minimum energy argument systematically underestimates magnetic fields in starburst galaxies, and that the conditions that would be required to produce agreement between the minimum energy estimate and the Zeeman derived estimate of interstellar medium magnetic fields are implausible. The conclusion that magnetic fields in starburst galaxies exceed the minimum energy magnetic fields is consistent with starburst galaxies adhering to the linearity of the far-infrared-radio correlation.

  5. Asteroseismology can reveal strong internal magnetic fields in red giant stars.

    PubMed

    Fuller, Jim; Cantiello, Matteo; Stello, Dennis; Garcia, Rafael A; Bildsten, Lars

    2015-10-23

    Internal stellar magnetic fields are inaccessible to direct observations, and little is known about their amplitude, geometry, and evolution. We demonstrate that strong magnetic fields in the cores of red giant stars can be identified with asteroseismology. The fields can manifest themselves via depressed dipole stellar oscillation modes, arising from a magnetic greenhouse effect that scatters and traps oscillation-mode energy within the core of the star. The Kepler satellite has observed a few dozen red giants with depressed dipole modes, which we interpret as stars with strongly magnetized cores. We find that field strengths larger than ~10(5) gauss may produce the observed depression, and in one case we infer a minimum core field strength of ≈10(7) gauss.

  6. Asteroseismology can reveal strong internal magnetic fields in red giant stars

    NASA Astrophysics Data System (ADS)

    Fuller, Jim; Cantiello, Matteo; Stello, Dennis; Garcia, Rafael A.; Bildsten, Lars

    2015-10-01

    Internal stellar magnetic fields are inaccessible to direct observations, and little is known about their amplitude, geometry, and evolution. We demonstrate that strong magnetic fields in the cores of red giant stars can be identified with asteroseismology. The fields can manifest themselves via depressed dipole stellar oscillation modes, arising from a magnetic greenhouse effect that scatters and traps oscillation-mode energy within the core of the star. The Kepler satellite has observed a few dozen red giants with depressed dipole modes, which we interpret as stars with strongly magnetized cores. We find that field strengths larger than ~105 gauss may produce the observed depression, and in one case we infer a minimum core field strength of ≈107 gauss.

  7. Magnetic field alignment of randomly oriented, high aspect ratio silicon microwires into vertically oriented arrays.

    PubMed

    Beardslee, Joseph A; Sadtler, Bryce; Lewis, Nathan S

    2012-11-27

    External magnetic fields have been used to vertically align ensembles of silicon microwires coated with ferromagnetic nickel films. X-ray diffraction and image analysis techniques were used to quantify the degree of vertical orientation of the microwires. The degree of vertical alignment and the minimum field strength required for alignment were evaluated as a function of the wire length, coating thickness, magnetic history, and substrate surface properties. Nearly 100% of 100 μm long, 2 μm diameter, Si microwires that had been coated with 300 nm of Ni could be vertically aligned by a 300 G magnetic field. For wires ranging from 40 to 60 μm in length, as the length of the wire increased, a higher degree of alignment was observed at lower field strengths, consistent with an increase in the available magnetic torque. Microwires that had been exposed to a magnetic sweep up to 300 G remained magnetized and, therefore, aligned more readily during subsequent magnetic field alignment sweeps. Alignment of the Ni-coated Si microwires occurred at lower field strengths on hydrophilic Si substrates than on hydrophobic Si substrates. The magnetic field alignment approach provides a pathway for the directed assembly of solution-grown semiconductor wires into vertical arrays, with potential applications in solar cells as well as in other electronic devices that utilize nano- and microscale components as active elements.

  8. Revealing the band structure of InSb nanowires by high-field magnetotransport in the quasiballistic regime

    NASA Astrophysics Data System (ADS)

    Vigneau, Florian; Gül, Önder; Niquet, Yann-Michel; Car, Diana; Plissard, Sebastien R.; Escoffier, Walter; Bakkers, Erik P. A. M.; Duchemin, Ivan; Raquet, Bertrand; Goiran, Michel

    2016-12-01

    The charge transport properties of individual InSb nanowires based transistors are studied at 4.2 K in the quasiballistic regime. The energy level separations at zero magnetic field are extracted from a bias voltage spectroscopy. The magnetoconductance under a magnetic field applied perpendicularly to the nanowire axis is investigated up to 50 T. Owing to the magnetic reduction of the backscattering, the electronic states of the quasi-one-dimensional electron gas are revealed by Landauer-Büttiker conductance quantization. The results are compared to theoretical predictions revealing the spin and orbital degeneracy lifting. At sufficiently high magnetic field the measurements show the evolution to the quantum Hall effect regime with the formation of Landau orbits and conducting edge states.

  9. SPECTRO-POLARIMETRIC IMAGING REVEALS HELICAL MAGNETIC FIELDS IN SOLAR PROMINENCE FEET

    SciTech Connect

    González, M. J. Martínez; Sainz, R. Manso; Ramos, A. Asensio; Beck, C.; Díaz, A. J.

    2015-03-20

    Solar prominences are clouds of cool plasma levitating above the solar surface and insulated from the million-degree corona by magnetic fields. They form in regions of complex magnetic topology, characterized by non-potential fields, which can evolve abruptly, disintegrating the prominence and ejecting magnetized material into the heliosphere. However, their physics is not yet fully understood because mapping such complex magnetic configurations and their evolution is extremely challenging, and must often be guessed by proxy from photometric observations. Using state-of-the-art spectro-polarimetric data, we reconstruct the structure of the magnetic field in a prominence. We find that prominence feet harbor helical magnetic fields connecting the prominence to the solar surface below.

  10. Targeting early antecedents to prevent tobacco smoking: findings from an epidemiologically based randomized field trial.

    PubMed Central

    Kellam, S G; Anthony, J C

    1998-01-01

    OBJECTIVES: This study examined whether interventions aimed at aggressive/disruptive classroom behavior and poor academic achievement would reduce the incidence of initiation of smoking. METHODS: An epidemiologically based, universal randomized preventive trial involved 2311 children in 2 classroom-based preventive interventions or controls. Each intervention was directed at 1 of the aforementioned 2 antecedents over first and second grades in 19 urban schools. RESULTS: Smoking initiation was reduced in both cohorts for boys assigned to the behavioral intervention. CONCLUSIONS: Targeting early risk antecedents such as aggressive behavior appears to be an important smoking prevention strategy. PMID:9772850

  11. Atomic electric fields revealed by a quantum mechanical approach to electron picodiffraction

    PubMed Central

    Müller, Knut; Krause, Florian F.; Béché, Armand; Schowalter, Marco; Galioit, Vincent; Löffler, Stefan; Verbeeck, Johan; Zweck, Josef; Schattschneider, Peter; Rosenauer, Andreas

    2014-01-01

    By focusing electrons on probes with a diameter of 50 pm, aberration-corrected scanning transmission electron microscopy (STEM) is currently crossing the border to probing subatomic details. A major challenge is the measurement of atomic electric fields using differential phase contrast (DPC) microscopy, traditionally exploiting the concept of a field-induced shift of diffraction patterns. Here we present a simplified quantum theoretical interpretation of DPC. This enables us to calculate the momentum transferred to the STEM probe from diffracted intensities recorded on a pixel array instead of conventional segmented bright-field detectors. The methodical development yielding atomic electric field, charge and electron density is performed using simulations for binary GaN as an ideal model system. We then present a detailed experimental study of SrTiO3 yielding atomic electric fields, validated by comprehensive simulations. With this interpretation and upgraded instrumentation, STEM is capable of quantifying atomic electric fields and high-contrast imaging of light atoms. PMID:25501385

  12. Peaks and dips in Gaussian random fields: a new algorithm for the shear eigenvalues, and the excursion set theory

    NASA Astrophysics Data System (ADS)

    Rossi, Graziano

    2013-04-01

    We present a new algorithm to sample the constrained eigenvalues of the initial shear field associated with Gaussian statistics, called the `peak/dip excursion-set-based' algorithm, at positions which correspond to peaks or dips of the correlated density field. The computational procedure is based on a new formula which extends Doroshkevich's unconditional distribution for the eigenvalues of the linear tidal field, to account for the fact that haloes and voids may correspond to maxima or minima of the density field. The ability to differentiate between random positions and special points in space around which haloes or voids may form (i.e. peaks/dips), encoded in the new formula and reflected in the algorithm, naturally leads to a straightforward implementation of an excursion set model for peaks and dips in Gaussian random fields - one of the key advantages of this sampling procedure. In addition, it offers novel insights into the statistical description of the cosmic web. As a first physical application, we show how the standard distributions of shear ellipticity and prolateness in triaxial models of structure formation are modified by the constraint. In particular, we provide a new expression for the conditional distribution of shape parameters given the density peak constraint, which generalizes some previous literature work. The formula has important implications for the modelling of non-spherical dark matter halo shapes, in relation to their initial shape distribution. We also test and confirm our theoretical predictions for the individual distributions of eigenvalues subjected to the extremum constraint, along with other directly related conditional probabilities. Finally, we indicate how the proposed sampling procedure naturally integrates into the standard excursion set model, potentially solving some of its well-known problems, and into the ellipsoidal collapse framework. Several other ongoing applications and extensions, towards the development of

  13. Near Field Heat Transfer between Random Composite Materials: Applications and Limitations

    NASA Astrophysics Data System (ADS)

    Santiago, Eva Yazmin; Esquivel-Sirvent, Raul

    2017-02-01

    We present a theoretical study of the limits and bounds of using effective medium approximations in the calculation of the near field radiative heat transfer between a composite system made of Au nanoparticles in a SiC host and an homogeneous SiC slab. The effective dielectric function of the composite slab is calculated using three different approximations: Maxwell-Garnett, Bruggeman, and Looyenga's. In addition, we considered an empirical fit to the effective dielectric function by Grundquist and Hunderi. We show that the calculated value of the heat flux in the near field is dependent on the model, and the difference in the effective dielectric function is larger around the plasmonic response of the Au nanoparticles. This, in turn, accounts for the difference in the near field radiative heat flux. For all values of filling fractions, the Looyenga approximation gives a lower bound for the heat flux.

  14. Revisiting the Stark Broadening by fluctuating electric fields using the Continuous Time Random Walk Theory

    NASA Astrophysics Data System (ADS)

    Capes, H.; Christova, M.; Boland, D.; Catoire, F.; Godbert-Mouret, L.; Koubiti, M.; Mekkaoui, A.; Rosato, J.; Marandet, Y.; Stamm, R.

    2010-10-01

    Stark broadening of atomic lines in plasmas is calculated by modelling the plasma stochastic electric field using the CTRW approach [1,2]. This allows retaining non Markovian terms in the Schrödinger equation averaged over the electric field fluctuations. As an application we consider a special case of a non separable CTRW process, the so called Kangaroo process [3]. An analytic expression for the line profile is presented for arbitrary waiting time distribution functions. A preliminary application to the hydrogen Lyman α line is discussed.

  15. Spectral diffusion model of heavy inertial particles in a random velocity field of the continuous medium

    NASA Astrophysics Data System (ADS)

    Derevich, I. V.

    2015-03-01

    Based on the spectral expansion of Euler correlation of the carrier medium the authors have obtained a closed system of functional equations for the Lagrange spectra of heavy inertial particles and the velocity fluctuations of the carrier medium on the particle trajectory. To split the fourth moments the approximation of quasinormality and velocity fluctuations of particles is performed by a random Gaussian process. The approximate self-consistent method is proposed for solving the resulting system of functional equations. The spectrum of Euler correlations of medium velocity fluctuations is modeled by Saffman and Karman distributions. The influence of the spatial microstructure of turbulence, the particles inertia and velocity slip on the intensity of chaotic motion and the coefficient of turbulent diffusion of dispersed particles has been studied.

  16. Semi-automatic measurement of visual verticality perception in humans reveals a new category of visual field dependency.

    PubMed

    Kaleff, C R; Aschidamini, C; Baron, J; Di Leone, C N; Leone, C N; Canavarro, S; Vargas, C D

    2011-08-01

    Previous assessment of verticality by means of rod and rod and frame tests indicated that human subjects can be more (field dependent) or less (field independent) influenced by a frame placed around a tilted rod. In the present study we propose a new approach to these tests. The judgment of visual verticality (rod test) was evaluated in 50 young subjects (28 males, ranging in age from 20 to 27 years) by randomly projecting a luminous rod tilted between -18 and +18° (negative values indicating left tilts) onto a tangent screen. In the rod and frame test the rod was displayed within a luminous fixed frame tilted at +18 or -18°. Subjects were instructed to verbally indicate the rod's inclination direction (forced choice). Visual dependency was estimated by means of a Visual Index calculated from rod and rod and frame test values. Based on this index, volunteers were classified as field dependent, intermediate and field independent. A fourth category was created within the field-independent subjects for whom the amount of correct guesses in the rod and frame test exceeded that of the rod test, thus indicating improved performance when a surrounding frame was present. In conclusion, the combined use of subjective visual vertical and the rod and frame test provides a specific and reliable form of evaluation of verticality in healthy subjects and might be of use to probe changes in brain function after central or peripheral lesions.

  17. Higher Order Cumulant Studies of Ocean Surface Random Fields from Satellite Altimeter Data

    NASA Technical Reports Server (NTRS)

    Cheng, B.

    1996-01-01

    Higher order statistics, especially 2nd order statistics, have been used to study ocean processes for many years in the past, and occupy an appreciable part of the research literature on physical oceanography. They in turn form part of a much larger field of study in statistical fluid mechanics.

  18. THE RADIATIVE TRANSFER OF SYNCHROTRON RADIATION THROUGH A COMPRESSED RANDOM MAGNETIC FIELD

    SciTech Connect

    Cawthorne, T. V.; Hughes, P. A.

    2013-07-01

    This paper examines the radiative transfer of synchrotron radiation in the presence of a magnetic field configuration resulting from the compression of a highly disordered magnetic field. It is shown that, provided Faraday rotation and circular polarization can be neglected, the radiative transfer equations for synchrotron radiation separate for this configuration, and the intensities and polarization values for sources that are uniform on large scales can be found straightforwardly in the case where opacity is significant. Although the emission and absorption coefficients must, in general, be obtained numerically, the process is much simpler than a full numerical solution to the transfer equations. Some illustrative results are given and an interesting effect, whereby the polarization increases while the magnetic field distribution becomes less strongly confined to the plane of compression, is discussed. The results are of importance for the interpretation of polarization near the edges of lobes in radio galaxies and of bright features in the parsec-scale jets of active galactic nuclei, where such magnetic field configurations are believed to exist.

  19. The random field model of the spatial distribution of heavy vehicle loads on long-span bridges

    NASA Astrophysics Data System (ADS)

    Chen, Zhicheng; Bao, Yuequan; Li, Hui

    2016-04-01

    A stochastic model based on Markov random field is proposed to model the spatial distribution of vehicle loads on longspan bridges. The bridge deck is divided into a finite set of discrete grid cells, each cell has two states according to whether the cell is occupied by the heavy vehicle load or not, then a four-neighbor lattice-structured undirected graphical model with each node corresponding to a cell state variable is proposed to model the location distribution of heavy vehicle loads on the bridge deck. The node potential is defined to quantitatively describe the randomness of node state, and the edge potential is defined to quantitatively describe the correlation of the connected node pair. The junction tree algorithm is employed to obtain the systematic solutions of inference problems of the graphical model. A marked random variable is assigned to each node to represent the amplitude of the total weight of vehicle applied on the corresponding cell of the bridge deck. The rationality of the model is validated by a Monte Carlo simulation of a learned model based on monitored data of a cable-stayed bridge.

  20. Theory and implementation of a very high throughput true random number generator in field programmable gate array.

    PubMed

    Wang, Yonggang; Hui, Cong; Liu, Chong; Xu, Chao

    2016-04-01

    The contribution of this paper is proposing a new entropy extraction mechanism based on sampling phase jitter in ring oscillators to make a high throughput true random number generator in a field programmable gate array (FPGA) practical. Starting from experimental observation and analysis of the entropy source in FPGA, a multi-phase sampling method is exploited to harvest the clock jitter with a maximum entropy and fast sampling speed. This parametrized design is implemented in a Xilinx Artix-7 FPGA, where the carry chains in the FPGA are explored to realize the precise phase shifting. The generator circuit is simple and resource-saving, so that multiple generation channels can run in parallel to scale the output throughput for specific applications. The prototype integrates 64 circuit units in the FPGA to provide a total output throughput of 7.68 Gbps, which meets the requirement of current high-speed quantum key distribution systems. The randomness evaluation, as well as its robustness to ambient temperature, confirms that the new method in a purely digital fashion can provide high-speed high-quality random bit sequences for a variety of embedded applications.

  1. Theory and implementation of a very high throughput true random number generator in field programmable gate array

    NASA Astrophysics Data System (ADS)

    Wang, Yonggang; Hui, Cong; Liu, Chong; Xu, Chao

    2016-04-01

    The contribution of this paper is proposing a new entropy extraction mechanism based on sampling phase jitter in ring oscillators to make a high throughput true random number generator in a field programmable gate array (FPGA) practical. Starting from experimental observation and analysis of the entropy source in FPGA, a multi-phase sampling method is exploited to harvest the clock jitter with a maximum entropy and fast sampling speed. This parametrized design is implemented in a Xilinx Artix-7 FPGA, where the carry chains in the FPGA are explored to realize the precise phase shifting. The generator circuit is simple and resource-saving, so that multiple generation channels can run in parallel to scale the output throughput for specific applications. The prototype integrates 64 circuit units in the FPGA to provide a total output throughput of 7.68 Gbps, which meets the requirement of current high-speed quantum key distribution systems. The randomness evaluation, as well as its robustness to ambient temperature, confirms that the new method in a purely digital fashion can provide high-speed high-quality random bit sequences for a variety of embedded applications.

  2. Analysis of biostimulated microbial communities from two field experiments reveals temporal and spatial differences in proteome profiles

    SciTech Connect

    Callister, S.J.; Wilkins, M.J.; Nicora, C.D.; Williams, K.H.; Banfield, J.F.; VerBerkmoes, N.C.; Hettich, R.L.; NGuessan, A.L.; Mouser, P.J.; Elifantz, H.; Smith, R.D.; Lovley, D.R.; Lipton, M.S.; Long, P.E.

    2010-07-15

    Stimulated by an acetate-amendment field experiment conducted in 2007, anaerobic microbial populations in the aquifer at the Rifle Integrated Field Research Challenge site in Colorado reduced mobile U(VI) to insoluble U(IV). During this experiment, planktonic biomass was sampled at various time points to quantitatively evaluate proteomes. In 2008, an acetate-amended field experiment was again conducted in a similar manner to the 2007 experiment. As there was no comprehensive metagenome sequence available for use in proteomics analysis, we systematically evaluated 12 different organism genome sequences to generate sets of aggregate genomes, or “pseudo-metagenomes”, for supplying relative quantitative peptide and protein identifications. Proteomics results support previous observations of the dominance of Geobacteraceae during biostimulation using acetate as sole electron donor, and revealed a shift from an early stage of iron reduction to a late stage of iron reduction. Additionally, a shift from iron reduction to sulfate reduction was indicated by changes in the contribution of proteome information contributed by different organism genome sequences within the aggregate set. In addition, the comparison of proteome measurements made between the 2007 field experiment and 2008 field experiment revealed differences in proteome profiles. These differences may be the result of alterations in abundance and population structure within the planktonic biomass samples collected for analysis.

  3. The many assembly histories of massive void galaxies as revealed by integral field spectroscopy

    NASA Astrophysics Data System (ADS)

    Fraser-McKelvie, Amelia; Pimbblet, Kevin A.; Penny, Samantha J.; Brown, Michael J. I.

    2016-06-01

    We present the first detailed integral field spectroscopy study of nine central void galaxies with M⋆ > 1010 M⊙ using the Wide Field Spectrograph to determine how a range of assembly histories manifest themselves in the current day Universe. While the majority of these galaxies are evolving secularly, we find a range of morphologies, merger histories and stellar population distributions, though similarly low Hα-derived star formation rates (<1 M⊙ yr-1). Two of our nine galaxies host active galactic nuclei, and two have kinematic disruptions to their gas that are not seen in their stellar component. Most massive void galaxies are red and discy, which we attribute to a lack of major mergers. Some have disturbed morphologies and may be in the process of evolving to early-type thanks to ongoing minor mergers at present times, likely fed by tendrils leading off filaments. The diversity in our small galaxy sample, despite being of similar mass and environment means that these galaxies are still assembling at present day, with minor mergers playing an important role in their evolution. We compare our sample to a mass and magnitude-matched sample of field galaxies, using data from the Sydney-AAO Multi-object Integral field spectrograph galaxy survey. We find that despite environmental differences, galaxies of mass M⋆ > 1010 M⊙ have similarly low star formation rates (<3 M⊙ yr-1). The lack of distinction between the star formation rates of the void and field environments points to quenching of massive galaxies being a largely mass-related effect.

  4. Field and laboratory studies reveal interacting effects of stream oxygenation and warming on aquatic ectotherms.

    PubMed

    Verberk, Wilco C E P; Durance, Isabelle; Vaughan, Ian P; Ormerod, Steve J

    2016-05-01

    Aquatic ecological responses to climatic warming are complicated by interactions between thermal effects and other environmental stressors such as organic pollution and hypoxia. Laboratory experiments have demonstrated how oxygen limitation can set heat tolerance for some aquatic ectotherms, but only at unrealistic lethal temperatures and without field data to assess whether oxygen shortages might also underlie sublethal warming effects. Here, we test whether oxygen availability affects both lethal and nonlethal impacts of warming on two widespread Eurasian mayflies, Ephemera danica, Müller 1764 and Serratella ignita (Poda 1761). Mayfly nymphs are often a dominant component of the invertebrate assemblage in streams, and play a vital role in aquatic and riparian food webs. In the laboratory, lethal impacts of warming were assessed under three oxygen conditions. In the field, effects of oxygen availability on nonlethal impacts of warming were assessed from mayfly occurrence in 42 293 UK stream samples where water temperature and biochemical oxygen demand were measured. Oxygen limitation affected both lethal and sublethal impacts of warming in each species. Hypoxia lowered lethal limits by 5.5 °C (±2.13) and 8.2 °C (±0.62) for E. danica and S. ignita respectively. Field data confirmed the importance of oxygen limitation in warmer waters; poor oxygenation drastically reduced site occupancy, and reductions were especially pronounced under warm water conditions. Consequently, poor oxygenation lowered optimal stream temperatures for both species. The broad concordance shown here between laboratory results and extensive field data suggests that oxygen limitation not only impairs survival at thermal extremes but also restricts species abundance in the field at temperatures well below upper lethal limits. Stream oxygenation could thus control the vulnerability of aquatic ectotherms to global warming. Improving water oxygenation and reducing pollution can provide

  5. Methods for conditioning anisotropic, operator-scaling, fractal random fields, and the effect on solute transport simulations

    NASA Astrophysics Data System (ADS)

    Revielle, J.; Benson, D. A.

    2008-12-01

    The fractal scaling of aquifer materials have been observed in many data sets. Typically, the scaling coefficient is different in different directions. To date, only unconditional realizations with these properties can be generated. We present and analyze two methods of creating conditional operator-scaling fractal random fields (OSFRF) which have the ability to condition any number and geometry of measurements into each realization. One method is based on the theory of Orthographic Projection (Feller, 1971) and requires the continuous checking of a conditional probability function. The other method uses a best linear unbiased estimate (i.e., a kriged mean surface between known points) and an unconditional realization to create each conditional field. These two methods are analyzed for computational difficulty and their ability to recreate the desired fractal scaling along different (eigenvector) directions. Finally these methods are applied to a transport experiment through a slab of Massillon sandstone to show the advantage of using conditional OSFRF in solute transport modeling.

  6. Hierarchical Span-Based Conditional Random Fields for Labeling and Segmenting Events in Wearable Sensor Data Streams.

    PubMed

    Adams, Roy J; Saleheen, Nazir; Thomaz, Edison; Parate, Abhinav; Kumar, Santosh; Marlin, Benjamin M

    2016-06-01

    The field of mobile health (mHealth) has the potential to yield new insights into health and behavior through the analysis of continuously recorded data from wearable health and activity sensors. In this paper, we present a hierarchical span-based conditional random field model for the key problem of jointly detecting discrete events in such sensor data streams and segmenting these events into high-level activity sessions. Our model includes higher-order cardinality factors and inter-event duration factors to capture domain-specific structure in the label space. We show that our model supports exact MAP inference in quadratic time via dynamic programming, which we leverage to perform learning in the structured support vector machine framework. We apply the model to the problems of smoking and eating detection using four real data sets. Our results show statistically significant improvements in segmentation performance relative to a hierarchical pairwise CRF.

  7. Hierarchical Span-Based Conditional Random Fields for Labeling and Segmenting Events in Wearable Sensor Data Streams

    PubMed Central

    Adams, Roy J.; Saleheen, Nazir; Thomaz, Edison; Parate, Abhinav; Kumar, Santosh; Marlin, Benjamin M.

    2016-01-01

    The field of mobile health (mHealth) has the potential to yield new insights into health and behavior through the analysis of continuously recorded data from wearable health and activity sensors. In this paper, we present a hierarchical span-based conditional random field model for the key problem of jointly detecting discrete events in such sensor data streams and segmenting these events into high-level activity sessions. Our model includes higher-order cardinality factors and inter-event duration factors to capture domain-specific structure in the label space. We show that our model supports exact MAP inference in quadratic time via dynamic programming, which we leverage to perform learning in the structured support vector machine framework. We apply the model to the problems of smoking and eating detection using four real data sets. Our results show statistically significant improvements in segmentation performance relative to a hierarchical pairwise CRF. PMID:28090606

  8. Bimodal random crystal field distribution effects on the ferrimagnetic mixed spin-1/2 > and spin-3/2 Blume-Capel model

    NASA Astrophysics Data System (ADS)

    Yigit, Ali; Albayrak, Erhan

    2013-03-01

    The effects of bimodal random crystal field on the phase diagrams and magnetization curves of ferrimagnetic mixed spin-1/2 and spin-3/2 Blume-Capel model are examined by using the effective field theory with correlations for honeycomb lattice. The phase diagrams are obtained on the (Δ,kT/|J|), (Δ,Tcomp) and (p,kT/|J|) planes for given values of p and Δ, respectively. The model exhibits only the second-order phase transitions as in the Blume-Capel model with constant crystal fields. In addition, it was found that the model presents one or two compensation temperatures for appropriate values of random crystal field for given probability in contrast to constant crystal field case. Therefore, it is shown that the random crystal field considerably affects the thermal variations of net and sublattice magnetizations.

  9. Hopping conduction and random telegraph signal in an exfoliated multilayer MoS2 field-effect transistor

    NASA Astrophysics Data System (ADS)

    Li, Lijun; Lee, Inyeal; Youn, Doo-Hyeb; Kim, Gil-Ho

    2017-02-01

    We investigate the hopping conduction and random telegraph signal caused by various species of interface charge scatterers in a MoS2 multilayer field-effect transistor. The temperature dependence of the channel resistivity shows that at low temperatures and low carrier densities the carrier transport is via Mott variable range hopping with a hopping length changing from 41 to 80 nm. The hopping conduction was due to electron tunneling through localized band tail states formed by the scatterers located in the vicinity of the MoS2 layer. In the temperature range of 40-70 K, we observed random telegraph signal (RTS) that is caused by the capture and emission of a carrier by the interface traps that are located away from the layer. These traps form strong potential that interact with the layer and change the potential profile of the electron system. The characteristics of RTS depend strongly on gate bias and temperature, as well as the application of a magnetic field.

  10. Hopping conduction and random telegraph signal in an exfoliated multilayer MoS2 field-effect transistor.

    PubMed

    Li, Lijun; Lee, Inyeal; Youn, Doo-Hyeb; Kim, Gil-Ho

    2017-02-17

    We investigate the hopping conduction and random telegraph signal caused by various species of interface charge scatterers in a MoS2 multilayer field-effect transistor. The temperature dependence of the channel resistivity shows that at low temperatures and low carrier densities the carrier transport is via Mott variable range hopping with a hopping length changing from 41 to 80 nm. The hopping conduction was due to electron tunneling through localized band tail states formed by the scatterers located in the vicinity of the MoS2 layer. In the temperature range of 40-70 K, we observed random telegraph signal (RTS) that is caused by the capture and emission of a carrier by the interface traps that are located away from the layer. These traps form strong potential that interact with the layer and change the potential profile of the electron system. The characteristics of RTS depend strongly on gate bias and temperature, as well as the application of a magnetic field.

  11. Detection of built-up area in optical and synthetic aperture radar images using conditional random fields

    NASA Astrophysics Data System (ADS)

    Kenduiywo, Benson Kipkemboi; Tolpekin, Valentyn A.; Stein, Alfred

    2014-01-01

    Classifying built-up areas from satellite images is a challenging task due to spatial and spectral heterogeneity of the classes. In this study, a contextual classification method based on conditional random fields (CRFs) has been used. Spatial and spectral information from blocks of pixels were employed to identify built-up areas. The CRF association potential was based on support vector machines (SVMs), whereas the CRF interaction potential included a data-dependent term using the inverse of the transformed Euclidean distance. In this way, accuracy was stable for a varying smoothness parameter, while preserving class boundaries and aggregating similar labels, and a discontinuity adaptive model was obtained and conditioned on data evidence. The classification was applied on satellite towns around the city of Nairobi, Kenya. The accuracy exceeded that of Markov random fields, SVM, and maximum likelihood classification by 1.13%, 2.22%, and 8.23%, respectively. The CRF method had the lowest fraction of false positives. The study concluded that CRFs can be used to better detect built-up areas. In this way, it provides accurate timely spatial information to urban planners and other professionals.

  12. Bayesian prestack seismic inversion with a self-adaptive Huber-Markov random-field edge protection scheme

    NASA Astrophysics Data System (ADS)

    Tian, Yu-Kun; Zhou, Hui; Chen, Han-Ming; Zou, Ya-Ming; Guan, Shou-Jun

    2013-12-01

    Seismic inversion is a highly ill-posed problem, due to many factors such as the limited seismic frequency bandwidth and inappropriate forward modeling. To obtain a unique solution, some smoothing constraints, e.g., the Tikhonov regularization are usually applied. The Tikhonov method can maintain a global smooth solution, but cause a fuzzy structure edge. In this paper we use Huber-Markov random-field edge protection method in the procedure of inverting three parameters, P-velocity, S-velocity and density. The method can avoid blurring the structure edge and resist noise. For the parameter to be inverted, the Huber-Markov random-field constructs a neighborhood system, which further acts as the vertical and lateral constraints. We use a quadratic Huber edge penalty function within the layer to suppress noise and a linear one on the edges to avoid a fuzzy result. The effectiveness of our method is proved by inverting the synthetic data without and with noises. The relationship between the adopted constraints and the inversion results is analyzed as well.

  13. MODIS 250m burned area mapping based on an algorithm using change point detection and Markov random fields.

    NASA Astrophysics Data System (ADS)

    Mota, Bernardo; Pereira, Jose; Campagnolo, Manuel; Killick, Rebeca

    2013-04-01

    Area burned in tropical savannas of Brazil was mapped using MODIS-AQUA daily 250m resolution imagery by adapting one of the European Space Agency fire_CCI project burned area algorithms, based on change point detection and Markov random fields. The study area covers 1,44 Mkm2 and was performed with data from 2005. The daily 1000 m image quality layer was used for cloud and cloud shadow screening. The algorithm addresses each pixel as a time series and detects changes in the statistical properties of NIR reflectance values, to identify potential burning dates. The first step of the algorithm is robust filtering, to exclude outlier observations, followed by application of the Pruned Exact Linear Time (PELT) change point detection technique. Near-infrared (NIR) spectral reflectance changes between time segments, and post change NIR reflectance values are combined into a fire likelihood score. Change points corresponding to an increase in reflectance are dismissed as potential burn events, as are those occurring outside of a pre-defined fire season. In the last step of the algorithm, monthly burned area probability maps and detection date maps are converted to dichotomous (burned-unburned maps) using Markov random fields, which take into account both spatial and temporal relations in the potential burned area maps. A preliminary assessment of our results is performed by comparison with data from the MODIS 1km active fires and the 500m burned area products, taking into account differences in spatial resolution between the two sensors.

  14. Low-energy structures in strong field ionization revealed by quantum orbits.

    PubMed

    Yan, Tian-Min; Popruzhenko, S V; Vrakking, M J J; Bauer, D

    2010-12-17

    Experiments on atoms in intense laser pulses and the corresponding exact ab initio solutions of the time-dependent Schrödinger equation (TDSE) yield photoelectron spectra with low-energy features that are not reproduced by the otherwise successful work horse of strong field laser physics: the "strong field approximation" (SFA). In the semiclassical limit, the SFA possesses an appealing interpretation in terms of interfering quantum trajectories. It is shown that a conceptually simple extension towards the inclusion of Coulomb effects yields very good agreement with exact TDSE results. Moreover, the Coulomb quantum orbits allow for a physically intuitive interpretation and detailed analysis of all low-energy features in the semiclassical regime, in particular, the recently discovered "low-energy structure" [C. I. Blaga, Nature Phys. 5, 335 (2009) and W. Quan, Phys. Rev. Lett. 103, 093001 (2009).

  15. Gaussian Random Fields Methods for Fork-Join Network with Synchronization Constraints

    DTIC Science & Technology

    2014-12-22

    research papers, under review in Mathematics of Operations Research (minor revision) and Annals of Applied Probability. One paper was on the finalist...2.00 1.00 Hongyuan Lu, Guodong Pang. Heavy Traffic Limits for A Fork-Join Network In the Halfin-Whitt Regime, Annals of Applied Probability (11 2014...fellowships for further studies in science , mathematics, engineering or technology fields: Student Metrics This section only applies to graduating

  16. Effects of Dehydroepiandrosterone Supplementation during Stressful Military Training: A Randomized, Controlled, Double-Blind Field Study

    DTIC Science & Technology

    2011-01-01

    Kettermann A, Longo DL, Metter EJ, Carter HB. 2010. Serum testosterone is associated with aggressive prostate cancer in older men: Results from the... exercise , after which they participated in a highly realistic mock-captivity scenario. Salivary hormones and dissociative symptoms were assessed again...to self-administer accord- ing to the same daily regimen while in the field. At some point during the evasion exercise , each subject was “captured”. At

  17. Genetically engineered maize plants reveal distinct costs and benefits of constitutive volatile emissions in the field.

    PubMed

    Robert, Christelle Aurélie Maud; Erb, Matthias; Hiltpold, Ivan; Hibbard, Bruce Elliott; Gaillard, Mickaël David Philippe; Bilat, Julia; Degenhardt, Jörg; Cambet-Petit-Jean, Xavier; Turlings, Ted Christiaan Joannes; Zwahlen, Claudia

    2013-06-01

    Genetic manipulation of plant volatile emissions is a promising tool to enhance plant defences against herbivores. However, the potential costs associated with the manipulation of specific volatile synthase genes are unknown. Therefore, we investigated the physiological and ecological effects of transforming a maize line with a terpene synthase gene in field and laboratory assays, both above- and below ground. The transformation, which resulted in the constitutive emission of (E)-β-caryophyllene and α-humulene, was found to compromise seed germination, plant growth and yield. These physiological costs provide a possible explanation for the inducibility of an (E)-β-caryophyllene-synthase gene in wild and cultivated maize. The overexpression of the terpene synthase gene did not impair plant resistance nor volatile emission. However, constitutive terpenoid emission increased plant apparency to herbivores, including adults and larvae of the above ground pest Spodoptera frugiperda, resulting in an increase in leaf damage. Although terpenoid overproducing lines were also attractive to the specialist root herbivore Diabrotica virgifera virgifera below ground, they did not suffer more root damage in the field, possibly because of the enhanced attraction of entomopathogenic nematodes. Furthermore, fewer adults of the root herbivore Diabrotica undecimpunctata howardii were found to emerge near plants that emitted (E)-β-caryophyllene and α-humulene. Yet, overall, under the given field conditions, the costs of constitutive volatile production overshadowed its benefits. This study highlights the need for a thorough assessment of the physiological and ecological consequences of genetically engineering plant signals in the field to determine the potential of this approach for sustainable pest management strategies.

  18. Space-time models based on random fields with local interactions

    NASA Astrophysics Data System (ADS)

    Hristopulos, Dionissios T.; Tsantili, Ivi C.

    2016-08-01

    The analysis of space-time data from complex, real-life phenomena requires the use of flexible and physically motivated covariance functions. In most cases, it is not possible to explicitly solve the equations of motion for the fields or the respective covariance functions. In the statistical literature, covariance functions are often based on mathematical constructions. In this paper, we propose deriving space-time covariance functions by solving “effective equations of motion”, which can be used as statistical representations of systems with diffusive behavior. In particular, we propose to formulate space-time covariance functions based on an equilibrium effective Hamiltonian using the linear response theory. The effective space-time dynamics is then generated by a stochastic perturbation around the equilibrium point of the classical field Hamiltonian leading to an associated Langevin equation. We employ a Hamiltonian which extends the classical Gaussian field theory by including a curvature term and leads to a diffusive Langevin equation. Finally, we derive new forms of space-time covariance functions.

  19. Explaining feast or famine in randomized field trials. Medical science and criminology compared.

    PubMed

    Shepherd, Jonathan P

    2003-06-01

    A feast of randomized controlled trials (RCTs) in medical science and comparative famine in criminology can be explained in terms of cultural and structural factors. Of central importance is the context in which the evaluation of interventions is done and the difference in status of situational research in the two disciplines. Evaluation of medical interventions has traditionally been led by practitioner (clinical) academics. This is not the case in criminal justice, where theory has had higher status than intervention research. Medical science has advanced in, or closely associated with, university teaching hospitals, but links between criminology and criminal justice services are far more tenuous. The late development of situational crime prevention seems extraordinary from a medical perspective, as does the absence of university police schools in the United Kingdom and elsewhere. These structural and cultural factors explain concentration of expectation, resource, and RCT productivity in medical science. The Campbell Collaboration and the Academy of Experimental Criminology are forces which are reducing this polarization of feast and famine in RCTs. But unless scientific criminology is embedded in university schools which are responsible for the education and training of law, probation, and police practitioners, convergence in terms of RCTs and implementation of findings in practice seems unlikely.

  20. Stochastic simulation for the propagation of high-frequency acoustic waves through a random velocity field

    NASA Astrophysics Data System (ADS)

    Lu, B.; Darmon, M.; Leymarie, N.; Chatillon, S.; Potel, C.

    2012-05-01

    In-service inspection of Sodium-Cooled Fast Reactors (SFR) requires the development of non-destructive techniques adapted to the harsh environment conditions and the examination complexity. From past experiences, ultrasonic techniques are considered as suitable candidates. The ultrasonic telemetry is a technique used to constantly insure the safe functioning of reactor inner components by determining their exact position: it consists in measuring the time of flight of the ultrasonic response obtained after propagation of a pulse emitted by a transducer and its interaction with the targets. While in-service the sodium flow creates turbulences that lead to temperature inhomogeneities, which translates into ultrasonic velocity inhomogeneities. These velocity variations could directly impact the accuracy of the target locating by introducing time of flight variations. A stochastic simulation model has been developed to calculate the propagation of ultrasonic waves in such an inhomogeneous medium. Using this approach, the travel time is randomly generated by a stochastic process whose inputs are the statistical moments of travel times known analytically. The stochastic model predicts beam deviations due to velocity inhomogeneities, which are similar to those provided by a determinist method, such as the ray method.

  1. Field Trials Reveal Ecotype-Specific Responses to Mycorrhizal Inoculation in Rice

    PubMed Central

    Diedhiou, Abdala Gamby; Mbaye, Fatou Kine; Mbodj, Daouda; Faye, Mathieu Ndigue; Pignoly, Sarah; Ndoye, Ibrahima; Djaman, Koffi; Gaye, Souleymane; Kane, Aboubacry; Laplaze, Laurent; Manneh, Baboucarr; Champion, Antony

    2016-01-01

    The overuse of agricultural chemicals such as fertilizer and pesticides aimed at increasing crop yield results in environmental damage, particularly in the Sahelian zone where soils are fragile. Crop inoculation with beneficial soil microbes appears as a good alternative for reducing agricultural chemical needs, especially for small farmers. This, however, requires selecting optimal combinations of crop varieties and beneficial microbes tested in field conditions. In this study, we investigated the response of rice plants to inoculation with arbuscular mycorrhizal fungi (AMF) and plant growth promoting bacteria (PGPB) under screenhouse and field conditions in two consecutive seasons in Senegal. Evaluation of single and mixed inoculations with AMF and PGPB was conducted on rice (Oryza sativa) variety Sahel 202, on sterile soil under screenhouse conditions. We observed that inoculated plants, especially plants treated with AMF, grew taller, matured earlier and had higher grain yield than the non-inoculated plants. Mixed inoculation trials with two AMF strains were then conducted under irrigated field conditions with four O. sativa varieties, two O. glaberrima varieties and two interspecific NERICA varieties, belonging to 3 ecotypes (upland, irrigated, and rainfed lowland). We observed that the upland varieties had the best responses to inoculation, especially with regards to grain yield, harvest index and spikelet fertility. These results show the potential of using AMF to improve rice production with less chemical fertilizers and present new opportunities for the genetic improvement in rice to transfer the ability of forming beneficial rice-microbe associations into high yielding varieties in order to increase further rice yield potentials. PMID:27907023

  2. Electron Beam Propagation Through a Magnetic Wiggler with Random Field Errors

    DTIC Science & Technology

    1989-08-21

    Another quantity of interest is the vector potential 6.A,.(:) associated with the field error 6B,,,(:). Defining the normalized vector potentials ba = ebA...then follows that the correlation of the normalized vector potential errors is given by 1 . 12 (-a.(zj)a.,(z2)) = a,k,, dz’ , dz" (bBE(z’)bB , (z")) a2...Throughout the following, terms of order O(z:/z) will be neglected. Similarly, for the y-component of the normalized vector potential errors, one

  3. Spectral shifts and switches in random fields upon interaction with negative-phase materials

    SciTech Connect

    Tong Zhisong; Korotkova, Olga

    2010-07-15

    Spectral shifts in stochastic beam-like fields on interaction with layers of positive- and negative-phase materials are examined on the basis of the ABCD-matrix approach and generalized Huygens-Fresnel principle. It is found that boundaries between such materials may cause spectral switches. Effect of absorption of negative-phase materials on the beam spectrum is discussed. Our results may find applications in connection with spectrum-selection optical interconnects, spectrally encoded information transfer, image formation in systems involving negative-phase materials, and geometrically tunable metamaterials.

  4. Skin cancer texture analysis of OCT images based on Haralick, fractal dimension, Markov random field features, and the complex directional field features

    NASA Astrophysics Data System (ADS)

    Raupov, Dmitry S.; Myakinin, Oleg O.; Bratchenko, Ivan A.; Zakharov, Valery P.; Khramov, Alexander G.

    2016-10-01

    In this paper, we propose a report about our examining of the validity of OCT in identifying changes using a skin cancer texture analysis compiled from Haralick texture features, fractal dimension, Markov random field method and the complex directional features from different tissues. Described features have been used to detect specific spatial characteristics, which can differentiate healthy tissue from diverse skin cancers in cross-section OCT images (B- and/or C-scans). In this work, we used an interval type-II fuzzy anisotropic diffusion algorithm for speckle noise reduction in OCT images. The Haralick texture features as contrast, correlation, energy, and homogeneity have been calculated in various directions. A box-counting method is performed to evaluate fractal dimension of skin probes. Markov random field have been used for the quality enhancing of the classifying. Additionally, we used the complex directional field calculated by the local gradient methodology to increase of the assessment quality of the diagnosis method. Our results demonstrate that these texture features may present helpful information to discriminate tumor from healthy tissue. The experimental data set contains 488 OCT-images with normal skin and tumors as Basal Cell Carcinoma (BCC), Malignant Melanoma (MM) and Nevus. All images were acquired from our laboratory SD-OCT setup based on broadband light source, delivering an output power of 20 mW at the central wavelength of 840 nm with a bandwidth of 25 nm. We obtained sensitivity about 97% and specificity about 73% for a task of discrimination between MM and Nevus.

  5. Near-field deformation from the El Mayor-Cucapah earthquake revealed by differential LIDAR.

    PubMed

    Oskin, Michael E; Arrowsmith, J Ramon; Hinojosa Corona, Alejandro; Elliott, Austin J; Fletcher, John M; Fielding, Eric J; Gold, Peter O; Gonzalez Garcia, J Javier; Hudnut, Ken W; Liu-Zeng, Jing; Teran, Orlando J

    2012-02-10

    Large [moment magnitude (M(w)) ≥ 7] continental earthquakes often generate complex, multifault ruptures linked by enigmatic zones of distributed deformation. Here, we report the collection and results of a high-resolution (≥nine returns per square meter) airborne light detection and ranging (LIDAR) topographic survey of the 2010 M(w) 7.2 El Mayor-Cucapah earthquake that produced a 120-kilometer-long multifault rupture through northernmost Baja California, Mexico. This differential LIDAR survey completely captures an earthquake surface rupture in a sparsely vegetated region with pre-earthquake lower-resolution (5-meter-pixel) LIDAR data. The postevent survey reveals numerous surface ruptures, including previously undocumented blind faults within thick sediments of the Colorado River delta. Differential elevation changes show distributed, kilometer-scale bending strains as large as ~10(3) microstrains in response to slip along discontinuous faults cutting crystalline bedrock of the Sierra Cucapah.

  6. Bar-induced Central Star Formation as Revealed by Integral Field Spectroscopy from CALIFA

    NASA Astrophysics Data System (ADS)

    Lin, Lin; Li, Cheng; He, Yanqin; Xiao, Ting; Wang, Enci

    2017-04-01

    We investigate the recent star formation history (SFH) in the inner region of 57 nearly face-on spiral galaxies selected from the Calar Alto Legacy Integral Field Area (CALIFA) survey. For each galaxy, we use the integral field spectroscopy from CALIFA to obtain two-dimensional maps and radial profiles of three parameters that are sensitive indicators of the recent SFH: the 4000 Å break (D n (4000)), and the equivalent width of Hδ absorption ({EW}({{H}}{δ }A)) and Hα emission (EW(Hα)). We have also performed photometric decomposition of bulge/bar/disk components based on SDSS optical image. We identify a class of 17 “turnover” galaxies for which the central region presents a significant drop in D n (4000), and most of them correspondingly show a central upturn in {EW}({{H}}{δ }A) and EW(Hα). This indicates that the central region of the turnover galaxies has experienced star formation in the past 1–2 Gyr, which makes the bulge younger and more star-forming than surrounding regions. We find that almost all (15/17) of the turnover galaxies are barred, while only half of the barred galaxies in our sample (15/32) are classified as a turnover galaxies. This finding provides strong evidence in support of the theoretical expectation that the bar may drive gas from the disk inward to trigger star formation in the galaxy center, an important channel for the growth/rejuvenation of pseudobulges in disk galaxies.

  7. Response bias reveals enhanced attention to inferior visual field in signers of American Sign Language.

    PubMed

    Dye, Matthew W G; Seymour, Jenessa L; Hauser, Peter C

    2016-04-01

    Deafness results in cross-modal plasticity, whereby visual functions are altered as a consequence of a lack of hearing. Here, we present a reanalysis of data originally reported by Dye et al. (PLoS One 4(5):e5640, 2009) with the aim of testing additional hypotheses concerning the spatial redistribution of visual attention due to deafness and the use of a visuogestural language (American Sign Language). By looking at the spatial distribution of errors made by deaf and hearing participants performing a visuospatial selective attention task, we sought to determine whether there was evidence for (1) a shift in the hemispheric lateralization of visual selective function as a result of deafness, and (2) a shift toward attending to the inferior visual field in users of a signed language. While no evidence was found for or against a shift in lateralization of visual selective attention as a result of deafness, a shift in the allocation of attention from the superior toward the inferior visual field was inferred in native signers of American Sign Language, possibly reflecting an adaptation to the perceptual demands imposed by a visuogestural language.

  8. Randomized Controlled Field Trial to Assess the Immunogenicity and Safety of Rift Valley Fever Clone 13 Vaccine in Livestock

    PubMed Central

    Njenga, M. Kariuki; Njagi, Leonard; Thumbi, S. Mwangi; Kahariri, Samuel; Githinji, Jane; Omondi, Eunice; Baden, Amy; Murithi, Mbabu; Paweska, Janusz; Ithondeka, Peter M.; Ngeiywa, Kisa J.; Dungu, Baptiste; Donadeu, Meritxell; Munyua, Peninah M.

    2015-01-01

    Background Although livestock vaccination is effective in preventing Rift Valley fever (RVF) epidemics, there are concerns about safety and effectiveness of the only commercially available RVF Smithburn vaccine. We conducted a randomized controlled field trial to evaluate the immunogenicity and safety of the new RVF Clone 13 vaccine, recently registered in South Africa. Methods In a blinded randomized controlled field trial, 404 animals (85 cattle, 168 sheep, and 151 goats) in three farms in Kenya were divided into three groups. Group A included males and non-pregnant females that were randomized and assigned to two groups; one vaccinated with RVF Clone 13 and the other given placebo. Groups B included animals in 1st half of pregnancy, and group C animals in 2nd half of pregnancy, which were also randomized and either vaccinated and given placebo. Animals were monitored for one year and virus antibodies titers assessed on days 14, 28, 56, 183 and 365. Results In vaccinated goats (N = 72), 72% developed anti-RVF virus IgM antibodies and 97% neutralizing IgG antibodies. In vaccinated sheep (N = 77), 84% developed IgM and 91% neutralizing IgG antibodies. Vaccinated cattle (N = 42) did not develop IgM antibodies but 67% developed neutralizing IgG antibodies. At day 14 post-vaccination, the odds of being seropositive for IgG in the vaccine group was 3.6 (95% CI, 1.5 – 9.2) in cattle, 90.0 (95% CI, 25.1 – 579.2) in goats, and 40.0 (95% CI, 16.5 – 110.5) in sheep. Abortion was observed in one vaccinated goat but histopathologic analysis did not indicate RVF virus infection. There was no evidence of teratogenicity in vaccinated or placebo animals. Conclusions The results suggest RVF Clone 13 vaccine is safe to use and has high (>90%) immunogenicity in sheep and goats but moderate (> 65%) immunogenicity in cattle. PMID:25756501

  9. Approach for fast numerical propagation of uniformly polarized random electromagnetic fields in dispersive linearly birefringent systems.

    PubMed

    Makowski, Piotr L; Domanski, Andrzej W

    2013-09-01

    An efficient simulation technique is proposed for computing propagation of uniformly polarized statistically stationary fields in linear nonimage-forming systems that includes dispersion of linear birefringence to all orders. The method is based on the discrete-time Fourier transformation of modified frequency profiles of the spectral Stokes parameters. It works under the condition that all (linearly) birefringent sections present in the system are described by the same phase birefringence dispersion curve, being a monotonic function of the optical frequency within the bandwidth of the light. We demonstrate the technique as a supplement for the Mueller-Stokes matrix formalism extended to any uniformly polarized polychromatic illumination. Accuracy of its numerical implementation has been verified by using parameters of a Lyot depolarizer made of a highly birefringent and dispersive monomode photonic crystal fiber.

  10. Exact Mapping of the Stochastic Field Theory for Manna Sandpiles to Interfaces in Random Media

    NASA Astrophysics Data System (ADS)

    Le Doussal, Pierre; Wiese, Kay Jörg

    2015-03-01

    We show that the stochastic field theory for directed percolation in the presence of an additional conservation law [the conserved directed-percolation (C-DP) class] can be mapped exactly to the continuum theory for the depinning of an elastic interface in short-range correlated quenched disorder. Along one line of the parameters commonly studied, this mapping leads to the simplest overdamped dynamics. Away from this line, an additional memory term arises in the interface dynamics; we argue that this does not change the universality class. Since C-DP is believed to describe the Manna class of self-organized criticality, this shows that Manna stochastic sandpiles and disordered elastic interfaces (i.e., the quenched Edwards-Wilkinson model) share the same universal large-scale behavior.

  11. Cross-correlation function of acoustic fields generated by random high-frequency sources.

    PubMed

    Godin, Oleg A

    2010-08-01

    Long-range correlations of noise fields in arbitrary inhomogeneous, moving or motionless fluids are studied in the ray approximation. Using the stationary phase method, two-point cross-correlation function of noise is shown to approximate the sum of the deterministic Green's functions describing sound propagation in opposite directions between the two points. Explicit relations between amplitudes of respective ray arrivals in the noise cross-correlation function and the Green's functions are obtained and verified against specific problems allowing an exact solution. Earlier results are extended by simultaneously accounting for sound absorption, arbitrary distribution of noise sources in a volume and on surfaces, and fluid inhomogeneity and motion. The information content of the noise cross-correlation function is discussed from the viewpoint of passive acoustic characterization of inhomogeneous flows.

  12. High-field proton magnetic resonance spectroscopy reveals metabolic effects of normal brain aging.

    PubMed

    Harris, Janna L; Yeh, Hung-Wen; Swerdlow, Russell H; Choi, In-Young; Lee, Phil; Brooks, William M

    2014-07-01

    Altered brain metabolism is likely to be an important contributor to normal cognitive decline and brain pathology in elderly individuals. To characterize the metabolic changes associated with normal brain aging, we used high-field proton magnetic resonance spectroscopy in vivo to quantify 20 neurochemicals in the hippocampus and sensorimotor cortex of young adult and aged rats. We found significant differences in the neurochemical profile of the aged brain when compared with younger adults, including lower aspartate, ascorbate, glutamate, and macromolecules, and higher glucose, myo-inositol, N-acetylaspartylglutamate, total choline, and glutamine. These neurochemical biomarkers point to specific cellular mechanisms that are altered in brain aging, such as bioenergetics, oxidative stress, inflammation, cell membrane turnover, and endogenous neuroprotection. Proton magnetic resonance spectroscopy may be a valuable translational approach for studying mechanisms of brain aging and pathology, and for investigating treatments to preserve or enhance cognitive function in aging.

  13. Trichoderma Biodiversity of Agricultural Fields in East China Reveals a Gradient Distribution of Species

    PubMed Central

    Chen, Jing; Mao, Li-Juan; Feng, Xiao-Xiao; Zhang, Chu-Long; Lin, Fu-Cheng

    2016-01-01

    We surveyed the Trichoderma (Hypocreales, Ascomycota) biodiversity in agricultural fields in four major agricultural provinces of East China. Trichoderma strains were identified based on molecular approaches and morphological characteristics. In three sampled seasons (spring, summer and autumn), 2078 strains were isolated and identified to 17 known species: T. harzianum (429 isolates), T. asperellum (425), T. hamatum (397), T. virens (340), T. koningiopsis (248), T. brevicompactum (73), T. atroviride (73), T. fertile (26), T. longibrachiatum (22), T. pleuroticola (16), T. erinaceum (16), T. oblongisporum (2), T. polysporum (2), T. spirale (2), T. capillare (2), T. velutinum (2), and T. saturnisporum (1). T. harzianum, T. asperellum, T. hamatum, and T. virens were identified as the dominant species with dominance (Y) values of 0.057, 0.052, 0.048, and 0.039, respectively. The species amount, isolate numbers and the dominant species of Trichoderma varied between provinces. Zhejiang Province has shown the highest diversity, which was reflected in the highest species amount (14) and the highest Shannon–Wiener diversity index of Trichoderma haplotypes (1.46). We observed that relative frequencies of T. hamatum and T. koningiopsis under rice soil were higher than those under wheat and maize soil, indicating the preference of Trichoderma to different crops. Remarkable seasonal variation was shown, with summer exhibiting the highest biodiversity of the studied seasons. These results show that Trichoderma biodiversity in agricultural fields varies by region, crop, and season. Zhejiang Province (the southernmost province in the investigated area) had more T. hamatum than Shandong Province (the northernmost province), not only in isolate amounts but also in haplotype amounts. Furthermore, at haplotype level, only T. hamatum showed a gradient distribution from south to north in correspondence analysis among the four dominant species. The above results would contribute to the

  14. Decades of field data reveal that turtles senesce in the wild.

    PubMed

    Warner, Daniel A; Miller, David A W; Bronikowski, Anne M; Janzen, Fredric J

    2016-06-07

    Lifespan and aging rates vary considerably across taxa; thus, understanding the factors that lead to this variation is a primary goal in biology and has ramifications for understanding constraints and flexibility in human aging. Theory predicts that senescence-declining reproduction and increasing mortality with advancing age-evolves when selection against harmful mutations is weaker at old ages relative to young ages or when selection favors pleiotropic alleles with beneficial effects early in life despite late-life costs. However, in many long-lived ectotherms, selection is expected to remain strong at old ages because reproductive output typically increases with age, which may lead to the evolution of slow or even negligible senescence. We show that, contrary to current thinking, both reproduction and survival decline with adult age in the painted turtle, Chrysemys picta, based on data spanning >20 y from a wild population. Older females, despite relatively high reproductive output, produced eggs with reduced hatching success. Additionally, age-specific mark-recapture analyses revealed increasing mortality with advancing adult age. These findings of reproductive and mortality senescence challenge the contention that chelonians do not age and more generally provide evidence of reduced fitness at old ages in nonmammalian species that exhibit long chronological lifespans.

  15. Decades of field data reveal that turtles senesce in the wild

    PubMed Central

    Warner, Daniel A.; Miller, David A. W.; Bronikowski, Anne M.; Janzen, Fredric J.

    2016-01-01

    Lifespan and aging rates vary considerably across taxa; thus, understanding the factors that lead to this variation is a primary goal in biology and has ramifications for understanding constraints and flexibility in human aging. Theory predicts that senescence—declining reproduction and increasing mortality with advancing age—evolves when selection against harmful mutations is weaker at old ages relative to young ages or when selection favors pleiotropic alleles with beneficial effects early in life despite late-life costs. However, in many long-lived ectotherms, selection is expected to remain strong at old ages because reproductive output typically increases with age, which may lead to the evolution of slow or even negligible senescence. We show that, contrary to current thinking, both reproduction and survival decline with adult age in the painted turtle, Chrysemys picta, based on data spanning >20 y from a wild population. Older females, despite relatively high reproductive output, produced eggs with reduced hatching success. Additionally, age-specific mark–recapture analyses revealed increasing mortality with advancing adult age. These findings of reproductive and mortality senescence challenge the contention that chelonians do not age and more generally provide evidence of reduced fitness at old ages in nonmammalian species that exhibit long chronological lifespans. PMID:27140634

  16. Phase transitions in a three-dimensional kinetic spin-1/2 Ising model with random field: effective-field-theory study.

    PubMed

    Costabile, Emanuel; de Sousa, J Ricardo

    2012-01-01

    The dynamical phase transitions of the kinetic Ising model in the presence of a random magnetic field with a bimodal probability distribution is studied by using effective-field theory (EFT) with correlations. We have used a Glauber-type stochastic dynamic to describe the time evolution of the system, where the system strongly depends on the H≡√(c) root mean square deviation of the magnetic field. The EFT dynamic equation is given for the simple cubic lattice (z=6), and the dynamic order parameter is calculated. The system presents ferromagnetic and paramagnetic states for low and high temperatures, respectively. Our results predict first-order transitions at low temperatures and large disorder strengths, which corresponds to the existence of a nonequilibrium tricritical point (TCP) in a phase diagram in the T-H plane. We compare the results with the equilibrium phase diagram, where only the first-order line is different. Our qualitative results are compatible with recent Monte Carlo simulations.

  17. Magnetic field therapy in patients with cytostatics‐induced polyneuropathy: A prospective randomized placebo‐controlled phase‐III study

    PubMed Central

    von Hehn, Ulrike; Mikus, Eberhard; Dertinger, Hermann; Geiger, Georg

    2016-01-01

    No causal treatment for chemotherapy‐induced peripheral neuropathy (CIPN) is known. Therefore, there is an urgent need to develop a therapy for CIPN. Only scarce clinical data are available concerning magnetic field therapy (MFT) in this context. We conducted a unicentric, randomized, double‐blind, placebo‐controlled phase‐III trial of an MFT device versus placebo. In this study, we randomized 44 patients with CIPN to two treatment groups, where 21 patients were treated with MFT (Group 1) and 23 patients received placebo (Group 2). We evaluated the efficacy of MFT at baseline (T1), after 3 weeks of study treatment (T2), and after 3 months of study treatment (T3). The primary endpoint was nerve conduction velocity (NCV), while secondary endpoints were the Common Toxicity Criteria (CTCAE) score and the Pain Detect End Score at T3. Seventeen of the patients in Group 1 and 14 patients in Group 2 completed the respective study treatment. The primary endpoint, significant improvement of NCV at T3, was achieved by MFT (P = 0.015), particularly for sensory neurotoxicity of the peroneal nerve. Also, in respect to the secondary endpoints, significant improvement (P = 0.04) was achieved in terms of the patients’ subjectively perceived neurotoxicity (CTCAE score), but not of neuropathic pain (P = 0.11). From data in the randomized study presented here, a positive effect on the reduction of neurotoxicity can be assumed for the MFT device. Patients with sensory neurotoxicity in the lower limbs, especially, should therefore be offered this therapy. Bioelectromagnetics. 38:85–94, 2017. © 2016 The Authors. Bioelectromagnetics published by Wiley Periodicals, Inc. PMID:27657350

  18. Dark field optical imaging reveals vascular changes in an inducible hamster cheek pouch model during carcinogenesis

    PubMed Central

    Hu, Fangyao; Morhard, Robert; Murphy, Helen A.; Zhu, Caigang; Ramanujam, Nimmi

    2016-01-01

    In this study, we propose a low-cost cross-polarized dark field microscopy system for in vivo vascular imaging to detect head and neck cancer. A simple-to-use Gabor-filter-based image processing technique was developed to objectively and automatically quantify several important vascular features, including tortuosity, length, diameter and area fraction, from vascular images. Simulations were performed to evaluate the accuracies of vessel segmentation and feature extraction for our algorithm. Sensitivity and specificity for vessel segmentation of the Gabor masks both remained above 80% at all contrast levels when compared to gold-standard masks. Errors for vascular feature extraction were under 5%. Moreover, vascular contrast and vessel diameter were identified to be the two primary factors which affected the segmentation accuracies. After our algorithm was validated, we monitored the blood vessels in an inducible hamster cheek pouch carcinogen model over 17 weeks and quantified vascular features during carcinogenesis. A significant increase in vascular tortuosity and a significant decrease in vessel length were observed during carcinogenesis. PMID:27699096

  19. Dynamic physical properties of dissociated tumor cells revealed by dielectrophoretic field-flow fractionation

    PubMed Central

    Shim, Sangjo; Gascoyne, Peter; Noshari, Jamileh; Stemke Hale, Katherine

    2013-01-01

    Metastatic disease results from the shedding of cancer cells from a solid primary tumor, their transport through the cardiovascular system as circulating tumor cells (CTCs) and their engraftment and growth at distant sites. Little is known about the properties and fate of tumor cells as they leave their growth site and travel as single cells. We applied analytical dielectrophoretic field-flow fractionation (dFFF) to study the membrane capacitance, density and hydrodynamic properties together with the size and morphology of cultured tumor cells after they were harvested and placed into single cell suspensions. After detachment, the tumor cells exhibited biophysical properties that changed with time through a process of cytoplasmic shedding whereby membrane and cytoplasm were lost. This process appeared to be distinct from the cell death mechanisms of apoptosis, anoikis and necrosis and it may explain why multiple phenotypes are seen among CTCs isolated from patients and among the tumor cells obtained from ascitic fluid of patients. The implications of dynamic biophysical properties and cytoplasmic loss for CTC migration into small blood vessels in the circulatory system, survival and gene expression are discussed. Because the total capacitance of tumor cells remained higher than blood cells even after they had shed cytoplasm, dFFF offers a compelling, antibody-independent technology for isolating viable CTCs from blood even when they are no larger than peripheral blood mononuclear cells. PMID:21691666

  20. Revealing backward rescattering photoelectron interference of molecules in strong infrared laser fields

    PubMed Central

    Li, Min; Sun, Xufei; Xie, Xiguo; Shao, Yun; Deng, Yongkai; Wu, Chengyin; Gong, Qihuang; Liu, Yunquan

    2015-01-01

    Photoelectrons ionized from atoms and molecules in a strong laser field are either emitted directly or rescattered by the nucleus, both of which can serve as efficiently useful tools for molecular orbital imaging. We measure the photoelectron angular distributions of molecules (N2, O2 and CO2) ionized by infrared laser pulses (1320 nm, 0.2 ~ 1 × 1014 W/cm2) from multiphoton to tunneling regime and observe an enhancement of interference stripes in the tunneling regime. Using a semiclassical rescattering model with implementing the interference effect, we show that the enhancement arises from the sub-laser-cycle holographic interference of the contributions of the back-rescattering and the non-rescattering electron trajectory. It is shown that the low-energy backscattering photoelectron interference patterns have encoded the structural information of the molecular initial orbitals and attosecond time-resolved dynamics of photoelectron, opening new paths in high-resolution imaging of sub-Ångström and sub-femtosecond structural dynamics in molecules. PMID:25687446

  1. Extending the field of play: Revealing the dynamics between sports, health and place.

    PubMed

    Andrews, Gavin J

    2016-11-01

    Although the sub-discipline of sports geography has a long fifty-year history it has been, at best, a sporadic endeavor. Whilst clearly indicating the fundamental geographical qualities of sports, it has never really taking off to the extent that arguably it should have given sport's social profile and importance. In way of a solution this paper presents triple tracks, or ways forward, that might circumvent this academic shortfall and cover some of the missed ground. First, pursuing the health component of sport far more thoroughly and in its very broadest sense, including its public health adoption and specific wellbeing, fitness and aesthetic features. Second, defining sport broadly beyond elite forms to include a wide-range of physical and lifestyle activities that possess elements of personal or interpersonal competition. Third, complementing sports geography by developing 'spatial sports studies' as a more expansive interdisciplinary field of inquiry spanning the health and social sciences. Indeed, these tracks potentially unearth substantial new research capacity by together considering the dynamics between sports, health and place.

  2. Field Flumes to Floodplains: Revealing the Influence of Flow Dynamics in Structuring Aquatic Ecosystems

    NASA Astrophysics Data System (ADS)

    Harvey, J. W.

    2011-12-01

    Decades of research has demonstrated the role of flood pulses in energy flow and nutrient cycling in large rivers. However, the study of hydroecology in small to medium size channels has often focused on static processes occurring during steady channel baseflow. Yet storm dynamics and their ecological effects are key issues for land managers responding to accelerating land use change in urban and agricultural areas, grazing lands, and in forested watersheds. As a means to understand the role of variable flows, researchers are increasingly moving towards study designs that explicitly address natural or experimentally altered flows in streams, or manipulation of flow in controlled "stair step" of experimental discharges in smaller field flumes. Studies often focus on both dissolved and fine particulate materials, their redistribution by stormflow, and physical effects of bedform migration and expansion and contraction of surface-water storage and hyporheic zones. In this framework investigators are seeking not only to identify the factors causing "hot spots" of biogeochemical transformation in streams, but also the "hot moments" related to flow variation and its interactions with geomorphic, sediment, and solute dynamics. Examples illustrating these advancements come from studies of flash floods from urban areas and their effects of solute and sediment dynamics in a 2nd order stream, nitrogen cycling and floodplain dynamics in a 5th order river, and longer term co-evolution of pulsed flow hydraulics, geomorphic form, and sediment and nutrient retention in two contrasting river and wetland corridors in the southwestern U.S. and southern Florida.

  3. Functional electric field changes in photoactivated proteins revealed by ultrafast Stark spectroscopy of the Trp residues

    PubMed Central

    Léonard, Jérémie; Portuondo-Campa, Erwin; Cannizzo, Andrea; van Mourik, Frank; van der Zwan, Gert; Tittor, Jörg; Haacke, Stefan; Chergui, Majed

    2009-01-01

    Ultrafast transient absorption spectroscopy of wild-type bacteriorhodopsin (WT bR) and 2 tryptophan mutants (W86F and W182F) is performed with visible light excitation (pump) and UV probe. The aim is to investigate the photoinduced change in the charge distribution with 50-fs time resolution by probing the effects on the tryptophan absorption bands. A systematic, quantitative comparison of the transient absorption of the 3 samples is carried out. The main result is the absence in the W86F mutant of a transient induced absorption band observed at ≈300–310 nm in WT bR and W182F. A simple model describing the dipolar interaction of the retinal moiety with the 2 tryptophan residues of interest allows us to reproduce the dominant features of the transient signals observed in the 3 samples at ultrashort pump-probe delays. In particular, we show that Trp86 undergoes a significant Stark shift induced by the transient retinal dipole moment. The corresponding transient signal can be isolated by direct subtraction of experimental data obtained for WT bR and W86F. It shows an instantaneous rise, followed by a decay over ≈500 fs corresponding to the isomerization time. Interestingly, it does not decay back to zero, thus revealing a change in the local electrostatic environment that remains long after isomerization, in the K intermediate state of the protein cycle. The comparison of WT bR and W86F also leads to a revised interpretation of the overall transient UV absorption of bR. PMID:19416877

  4. Adaptive control of input field to achieve desired output intensity profile in multimode fiber with random mode coupling.

    PubMed

    Mahalati, Reza Nasiri; Askarov, Daulet; Wilde, Jeffrey P; Kahn, Joseph M

    2012-06-18

    We develop a method for synthesis of a desired intensity profile at the output of a multimode fiber (MMF) with random mode coupling by controlling the input field distribution using a spatial light modulator (SLM) whose complex reflectance is piecewise constant over a set of disjoint blocks. Depending on the application, the desired intensity profile may be known or unknown a priori. We pose the problem as optimization of an objective function quantifying, and derive a theoretical lower bound on the achievable objective function. We present an adaptive sequential coordinate ascent (SCA) algorithm for controlling the SLM, which does not require characterizing the full transfer characteristic of the MMF, and which converges to near the lower bound after one pass over the SLM blocks. This algorithm is faster than optimizations based on genetic algorithms or random assignment of SLM phases. We present simulated and experimental results applying the algorithm to forming spots of light at a MMF output, and describe how the algorithm can be applied to imaging.

  5. On the Calculation of Uncertainty Statistics with Error Bounds for CFD Calculations Containing Random Parameters and Fields

    NASA Technical Reports Server (NTRS)

    Barth, Timothy J.

    2016-01-01

    This chapter discusses the ongoing development of combined uncertainty and error bound estimates for computational fluid dynamics (CFD) calculations subject to imposed random parameters and random fields. An objective of this work is the construction of computable error bound formulas for output uncertainty statistics that guide CFD practitioners in systematically determining how accurately CFD realizations should be approximated and how accurately uncertainty statistics should be approximated for output quantities of interest. Formal error bounds formulas for moment statistics that properly account for the presence of numerical errors in CFD calculations and numerical quadrature errors in the calculation of moment statistics have been previously presented in [8]. In this past work, hierarchical node-nested dense and sparse tensor product quadratures are used to calculate moment statistics integrals. In the present work, a framework has been developed that exploits the hierarchical structure of these quadratures in order to simplify the calculation of an estimate of the quadrature error needed in error bound formulas. When signed estimates of realization error are available, this signed error may also be used to estimate output quantity of interest probability densities as a means to assess the impact of realization error on these density estimates. Numerical results are presented for CFD problems with uncertainty to demonstrate the capabilities of this framework.

  6. Building block extraction and classification by means of Markov random fields using aerial imagery and LiDAR data

    NASA Astrophysics Data System (ADS)

    Bratsolis, E.; Sigelle, M.; Charou, E.

    2016-10-01

    Building detection has been a prominent area in the area of image classification. Most of the research effort is adapted to the specific application requirements and available datasets. Our dataset includes aerial orthophotos (with spatial resolution 20cm), a DSM generated from LiDAR (with spatial resolution 1m and elevation resolution 20 cm) and DTM (spatial resolution 2m) from an area of Athens, Greece. Our aim is to classify these data by means of Markov Random Fields (MRFs) in a Bayesian framework for building block extraction and perform a comparative analysis with other supervised classification techniques namely Feed Forward Neural Net (FFNN), Cascade-Correlation Neural Network (CCNN), Learning Vector Quantization (LVQ) and Support Vector Machines (SVM). We evaluated the performance of each method using a subset of the test area. We present the classified images, and statistical measures (confusion matrix, kappa coefficient and overall accuracy). Our results demonstrate that the MRFs and FFNN perform better than the other methods.

  7. Field-portable-XRF reveals the ubiquity of antimony in plastic consumer products.

    PubMed

    Turner, Andrew; Filella, Montserrat

    2017-02-09

    Very little systematic information exists on the occurrence and concentrations of antimony (Sb) in consumer products. In this study, a Niton XL3t field-portable-X-ray fluorescence (FP-XRF) spectrometer was deployed in situ and in the laboratory to provide quantitative information on Sb dissipated in plastic items and fixtures (including rubber, textile and foamed materials) from the domestic, school, vehicular and office settings. The metalloid was detected in 18% of over 800 measurements performed, with concentrations ranging from about 60 to 60,000μgg(-1). The highest concentrations were encountered in white, electronic casings and in association with similar concentrations of Br, consistent with the use of antimony oxides (e.g. Sb2O3) as synergistic flame retardants. Concentrations above 1000μgg(-1), and with or without Br, were also encountered in paints, piping and hosing, adhesives, whiteboards, Christmas decorations, Lego blocks, document carriers, garden furniture, upholstered products and interior panels of private motor vehicles. Lower concentrations of Sb were encountered in a wide variety of items but its presence (without Br) in food tray packaging, single-use drinks bottles, straws and small toys were of greatest concern from a human health perspective. While the latter observations are consistent with the use of antimony compounds as catalysts in the production of polyethylene terephthalate, co-association of Sb and Br in many products not requiring flame retardancy suggests that electronic casings are widely recycled. Further research is required into the mobility of Sb when dissipated in new, recycled and aged polymeric materials.

  8. Shipboard magnetic field "noise" reveals shallow heavy mineral sediment concentrations in Chesapeake Bay

    USGS Publications Warehouse

    Shah, Anjana K.; Vogt, Peter R.; Rosenbaum, Joseph G.; Newell, Wayne; Cronin, Thomas M.; Willard, Debra A.; Hagen, Rick A.; Brozena, John; Hofstra, Albert

    2012-01-01

    Shipboard magnetic field data collected over Chesapeake Bay exhibit low-amplitude, short-wavelength anomalies that most likely indicate shallow concentrations of heavy mineral sediments. Piston core layers and black sand beach samples exhibit enhanced magnetic susceptibilities and carry remanent magnetization, with mineralogical analyses indicating ilmenite and trace magnetite and/or maghemite and hematite. The anomalies are subtle and would be filtered as noise using traditional approaches, but can instead be highlighted using spectral methods, thus providing nearly continuous coverage along survey tracks. The distribution of the anomalies provides constraints on relevant sorting mechanisms. Comparisons to sonar data and previous grab samples show that two of three areas surveyed exhibit short-wavelength anomalies that are clustered over sand-covered areas, suggesting initial sorting through settling mechanisms. This is supported by a correlation between core magnetic susceptibility and grain size. Near the Choptank River, where sediment resuspension is wave-dominated, anomalies show a sharp decrease with seafloor depth that cannot be explained by signal attenuation alone. In Pocomoke Sound, where both tidal currents and wave-action impact sediment resuspension, anomalies show a more gradual decrease with depth. Near the mouth of the bay, where there is a higher influx of sediments from the continental shelf, short-wavelength anomalies are isolated and do not appear to represent heavy mineral sand concentrations. These combined observations suggest the importance of further sorting by erosional processes in certain parts of the bay. Additionally, comparisons of these data to cores sampling pre-Holocene sediments suggest that the sorting of heavy minerals in higher energy, shallow water environments provides a mechanism for correlations between core magnetic susceptibility and sea-level changes.

  9. Change of translational-rotational coupling in liquids revealed by field-cycling 1H NMR

    NASA Astrophysics Data System (ADS)

    Meier, R.; Schneider, E.; Rössler, E. A.

    2015-01-01

    Applying the field-cycling nuclear magnetic resonance technique, the frequency dependence of the 1H spin-lattice relaxation rate, R 1 ω = T1 - 1 ω , is measured for propylene glycol (PG) which is increasingly diluted with deuterated chloroform. A frequency range of 10 kHz-20 MHz and a broad temperature interval from 220 to about 100 K are covered. The results are compared to those of experiments, where glycerol and o-terphenyl are diluted with their deuterated counter-part. Reflecting intra- as well as intermolecular relaxation, the dispersion curves R 1 ω , x (x denotes mole fraction PG) allow to extract the rotational time constant τrot(T, x) and the self-diffusion coefficient D(T, x) in a single experiment. The Stokes-Einstein-Debye (SED) relation is tested in terms of the quantity D(T, x) τrot(T, x) which provides a measure of an effective hydrodynamic radius or equivalently of the spectral separation of the translational and the rotational relaxation contribution. In contrast to o-terphenyl, glycerol and PG show a spectral separation much larger than suggested by the SED relation. In the case of PG/chloroform mixtures, not only an acceleration of the PG dynamics is observed with increasing dilution but also the spectral separation of rotational and translational relaxation contributions continuously decreases. Finally, following a behavior similar to that of o-terphenyl already at about x = 0.6; i.e., while D(T, x) τrot(T, x) in the mixture is essentially temperature independent, it strongly increases with x signaling thus a change of translational-rotational coupling. This directly reflects the dissolution of the hydrogen-bond network and thus a change of solution structure.

  10. A Gaussian Random Field Approach for Merging Radar and Ground-Based Rainfall Data on Small Spatial and Temporal Scales

    NASA Astrophysics Data System (ADS)

    Krebsbach, K.; Friederichs, P.

    2014-12-01

    The generation of reliable precipitation products that explicitly account for spatial and temporal structures of precipitation events requires a combination of data with a variety of error structures and temporal resolutions. In-situ measurements are relatively accurate, but available only at sparse and irregularly distributed locations, whereas remote measurements cover areas but suffer from spatially and temporally inhomogeneous systematic errors. Besides gauge measurements are available on coarser spatial and temporal resolution in contrast to remote sensing measurements which are given on a fine spatial and temporal resolution. In our study we use precipitation rates from the composit of two X-band radars in Bonn and Jülich in Germany. Our aim is to formulate a statistical space-time model that aggregates and disaggregates precipitation rates from radar and gauge observations. We model a Gaussian random field as underlying process, where we face the task of dealing with a large non-Gaussian data set. To start the analysis of the unadjusted radar rainfall rates, we follow the work of D. Allcroft and C. Glasbey (2003) and transform the data to a truncated Gaussian distribution. The advantage of the latent variable approach is that it takes account of the occurence of rainfall and the intensity using a single process. We proceed by estimating the empirical correlation from these transformed values with maximum likelihood methods and fit a parametric correlation function that gives rise to a Gaussian random field. Since the transformation gives censored values to dry locations, we simulate values for this area that lie below some threshold and extend the Gaussian field to the whole domain. In order to merge gauge and radar data for precipitation, we first aggregate the data to a scale on which the comparison is reasonable and then disaggregate again back to smaller desirable scales. The disaggregation step consists of calculating the difference between radar

  11. Time resolved X-ray Dark-Field Tomography Revealing Water Transport in a Fresh Cement Sample

    PubMed Central

    Prade, Friedrich; Fischer, Kai; Heinz, Detlef; Meyer, Pascal; Mohr, Jürgen; Pfeiffer, Franz

    2016-01-01

    Grating-based X-ray dark-field tomography is a promising technique for biomedical and materials research. Even if the resolution of conventional X-ray tomography does not suffice to resolve relevant structures, the dark-field signal provides valuable information about the sub-pixel microstructural properties of the sample. Here, we report on the potential of X-ray dark-field imaging to be used for time-resolved three-dimensional studies. By repeating consecutive tomography scans on a fresh cement sample, we were able to study the hardening dynamics of the cement paste in three dimensions over time. The hardening of the cement was accompanied by a strong decrease in the dark-field signal pointing to microstructural changes within the cement paste. Furthermore our results hint at the transport of water from certain limestone grains, which were embedded in the sample, to the cement paste during the process of hardening. This is indicated by an increasing scattering signal which was observed for two of the six tested limestone grains. Electron microscopy images revealed a distinct porous structure only for those two grains which supports the following interpretation of our results. When the water filled pores of the limestone grains empty during the experiment the scattering signal of the grains increases. PMID:27357449

  12. Time resolved X-ray Dark-Field Tomography Revealing Water Transport in a Fresh Cement Sample.

    PubMed

    Prade, Friedrich; Fischer, Kai; Heinz, Detlef; Meyer, Pascal; Mohr, Jürgen; Pfeiffer, Franz

    2016-06-30

    Grating-based X-ray dark-field tomography is a promising technique for biomedical and materials research. Even if the resolution of conventional X-ray tomography does not suffice to resolve relevant structures, the dark-field signal provides valuable information about the sub-pixel microstructural properties of the sample. Here, we report on the potential of X-ray dark-field imaging to be used for time-resolved three-dimensional studies. By repeating consecutive tomography scans on a fresh cement sample, we were able to study the hardening dynamics of the cement paste in three dimensions over time. The hardening of the cement was accompanied by a strong decrease in the dark-field signal pointing to microstructural changes within the cement paste. Furthermore our results hint at the transport of water from certain limestone grains, which were embedded in the sample, to the cement paste during the process of hardening. This is indicated by an increasing scattering signal which was observed for two of the six tested limestone grains. Electron microscopy images revealed a distinct porous structure only for those two grains which supports the following interpretation of our results. When the water filled pores of the limestone grains empty during the experiment the scattering signal of the grains increases.

  13. Time resolved X-ray Dark-Field Tomography Revealing Water Transport in a Fresh Cement Sample

    NASA Astrophysics Data System (ADS)

    Prade, Friedrich; Fischer, Kai; Heinz, Detlef; Meyer, Pascal; Mohr, Jürgen; Pfeiffer, Franz

    2016-06-01

    Grating-based X-ray dark-field tomography is a promising technique for biomedical and materials research. Even if the resolution of conventional X-ray tomography does not suffice to resolve relevant structures, the dark-field signal provides valuable information about the sub-pixel microstructural properties of the sample. Here, we report on the potential of X-ray dark-field imaging to be used for time-resolved three-dimensional studies. By repeating consecutive tomography scans on a fresh cement sample, we were able to study the hardening dynamics of the cement paste in three dimensions over time. The hardening of the cement was accompanied by a strong decrease in the dark-field signal pointing to microstructural changes within the cement paste. Furthermore our results hint at the transport of water from certain limestone grains, which were embedded in the sample, to the cement paste during the process of hardening. This is indicated by an increasing scattering signal which was observed for two of the six tested limestone grains. Electron microscopy images revealed a distinct porous structure only for those two grains which supports the following interpretation of our results. When the water filled pores of the limestone grains empty during the experiment the scattering signal of the grains increases.

  14. Random Sampling of Squamate Reptiles in Spanish Natural Reserves Reveals the Presence of Novel Adenoviruses in Lacertids (Family Lacertidae) and Worm Lizards (Amphisbaenia)

    PubMed Central

    Szirovicza, Leonóra; López, Pilar; Kopena, Renáta; Benkő, Mária; Martín, José; Pénzes, Judit J.

    2016-01-01

    Here, we report the results of a large-scale PCR survey on the prevalence and diversity of adenoviruses (AdVs) in samples collected randomly from free-living reptiles. On the territories of the Guadarrama Mountains National Park in Central Spain and of the Chafarinas Islands in North Africa, cloacal swabs were taken from 318 specimens of eight native species representing five squamate reptilian families. The healthy-looking animals had been captured temporarily for physiological and ethological examinations, after which they were released. We found 22 AdV-positive samples in representatives of three species, all from Central Spain. Sequence analysis of the PCR products revealed the existence of three hitherto unknown AdVs in 11 Carpetane rock lizards (Iberolacerta cyreni), nine Iberian worm lizards (Blanus cinereus), and two Iberian green lizards (Lacerta schreiberi), respectively. Phylogeny inference showed every novel putative virus to be a member of the genus Atadenovirus. This is the very first description of the occurrence of AdVs in amphisbaenian and lacertid hosts. Unlike all squamate atadenoviruses examined previously, two of the novel putative AdVs had A+T rich DNA, a feature generally deemed to mirror previous host switch events. Our results shed new light on the diversity and evolution of atadenoviruses. PMID:27399970

  15. Genomic tagging reveals a random association of endogenous PtdIns5P 4-kinases IIα and IIβ and a partial nuclear localization of the IIα isoform

    PubMed Central

    Wang, Minchuan; Bond, Nicholas J.; Letcher, Andrew J.; Richardson, Jonathan P.; Lilley, Kathryn S.; Irvine, Robin F.; Clarke, Jonathan H.

    2010-01-01

    PtdIns5P 4-kinases IIα and IIβ are cytosolic and nuclear respectively when transfected into cells, including DT40 cells [Richardson, Wang, Clarke, Patel and Irvine (2007) Cell. Signalling 19, 1309–1314]. In the present study we have genomically tagged both type II PtdIns5P 4-kinase isoforms in DT40 cells. Immunoprecipitation of either isoform from tagged cells, followed by MS, revealed that they are associated directly with each other, probably by heterodimerization. We quantified the cellular levels of the type II PtdIns5P 4-kinase mRNAs by real-time quantitative PCR and the absolute amount of each isoform in immunoprecipitates by MS using selective reaction monitoring with 14N,13C-labelled internal standard peptides. The results suggest that the dimerization is complete and random, governed solely by the relative concentrations of the two isoforms. Whereas PtdIns5P 4-kinase IIβ is >95% nuclear, as expected, the distribution of PtdIns4P 4-kinase IIα is 60% cytoplasmic (all bound to membranes) and 40% nuclear. In vitro, PtdIns5P 4-kinase IIα was 2000-fold more active as a PtdIns5P 4-kinase than the IIβ isoform. Overall the results suggest a function of PtdIns5P 4-kinase IIβ may be to target the more active IIα isoform into the nucleus. PMID:20569199

  16. High-Throughput Genotyping of Green Algal Mutants Reveals Random Distribution of Mutagenic Insertion Sites and Endonucleolytic Cleavage of Transforming DNA.

    PubMed

    Zhang, Ru; Patena, Weronika; Armbruster, Ute; Gang, Spencer S; Blum, Sean R; Jonikas, Martin C

    2014-04-01

    A high-throughput genetic screening platform in a single-celled photosynthetic eukaryote would be a transformative addition to the plant biology toolbox. Here, we present ChlaMmeSeq (Chlamydomonas MmeI-based insertion site Sequencing), a tool for simultaneous mapping of tens of thousands of mutagenic insertion sites in the eukaryotic unicellular green alga Chlamydomonas reinhardtii. We first validated ChlaMmeSeq by in-depth characterization of individual insertion sites. We then applied ChlaMmeSeq to a mutant pool and mapped 11,478 insertions, covering 39% of annotated protein coding genes. We observe that insertions are distributed in a manner largely indistinguishable from random, indicating that mutants in nearly all genes can be obtained efficiently. The data reveal that sequence-specific endonucleolytic activities cleave the transforming DNA and allow us to propose a simple model to explain the origin of the poorly understood exogenous sequences that sometimes surround insertion sites. ChlaMmeSeq is quantitatively reproducible, enabling its use for pooled enrichment screens and for the generation of indexed mutant libraries. Additionally, ChlaMmeSeq allows genotyping of hits from Chlamydomonas screens on an unprecedented scale, opening the door to comprehensive identification of genes with roles in photosynthesis, algal lipid metabolism, the algal carbon-concentrating mechanism, phototaxis, the biogenesis and function of cilia, and other processes for which C. reinhardtii is a leading model system.

  17. Revisiting the scaling of the specific heat of the three-dimensional random-field Ising model

    NASA Astrophysics Data System (ADS)

    Fytas, Nikolaos G.; Theodorakis, Panagiotis E.; Hartmann, Alexander K.

    2016-09-01

    We revisit the scaling behavior of the specific heat of the three-dimensional random-field Ising model with a Gaussian distribution of the disorder. Exact ground states of the model are obtained using graph-theoretical algorithms for different strengths 𝒩 = 268 3 spins. By numerically differentiating the bond energy with respect to h, a specific-heat-like quantity is obtained whose maximum is found to converge to a constant in the thermodynamic limit. Compared to a previous study following the same approach, we have studied here much larger system sizes with an increased statistical accuracy. We discuss the relevance of our results under the prism of a modified Rushbrooke inequality for the case of a saturating specific heat. Finally, as a byproduct of our analysis, we provide high-accuracy estimates of the critical field h c = 2.279(7) and the critical exponent of the correlation exponent ν = 1.37(1), in excellent agreement to the most recent computations in the literature.

  18. Absence of first order transition in the random crystal field Blume-Capel model on a fully connected graph

    NASA Astrophysics Data System (ADS)

    Sumedha; Jana, Nabin Kumar

    2017-01-01

    In this paper we solve the Blume-Capel model on a complete graph in the presence of random crystal field with a distribution, P≤ft({{ Δ }i}\\right)=pδ ≤ft({{ Δ }i}- Δ \\right)+(1-p)δ ≤ft({{ Δ }i}+ Δ \\right) , using large deviation techniques. We find that the first order transition of the pure system is destroyed for 0.046  <  p  <  0.954 for all values of the crystal field, Δ . The system has a line of continuous transition for this range of p from -∞ < Δ <∞ . For values of p outside this interval, the phase diagram of the system is similar to the pure model, with a tricritical point separating the line of first order and continuous transitions. We find that in this regime, the order vanishes for large Δ for p  <  0.046(and for large - Δ for p  >  0.954) even at zero temperature.

  19. Reducing contralateral SI activity reveals hindlimb receptive fields in the SI forelimb-stump representation of neonatally amputated rats.

    PubMed

    Pluto, Charles P; Chiaia, Nicolas L; Rhoades, Robert W; Lane, Richard D

    2005-09-01

    In adult rats that sustained forelimb amputation on the day of birth, >30% of multiunit recording sites in the forelimb-stump representation of primary somatosensory cortex (SI) also respond to cutaneous hindlimb stimulation when cortical GABA(A+B) receptors are blocked (GRB). This study examined whether hindlimb receptive fields could also be revealed in forelimb-stump sites by reducing one known source of excitatory input to SI GABAergic neurons, the contralateral SI cortex. Corpus callosum projection neurons connect homotopic SI regions, making excitatory contacts onto pyramidal cells and interneurons. Thus in addition to providing monosynaptic excitation in SI, callosal fibers can produce disynaptic inhibition through excitatory synapses with inhibitory interneurons. Based on the latter of these connections, we hypothesized that inactivating the contralateral (intact) SI forelimb region would "unmask" normally suppressed hindlimb responses by reducing the activity of SI GABAergic neurons. The SI forelimb-stump representation was first mapped under normal conditions and then during GRB to identify stump/hindlimb responsive sites. After GRB had dissipated, the contralateral (intact) SI forelimb region was mapped and reversibly inactivated with injections of 4% lidocaine, and selected forelimb-stump sites were retested. Contralateral SI inactivation revealed hindlimb responses in approximately 60% of sites that were stump/hindlimb responsive during GRB. These findings indicate that activity in the contralateral SI contributes to the suppression of reorganized hindlimb receptive fields in neonatally amputated rats.

  20. Effects of resource-building group intervention on career management and mental health in work organizations: randomized controlled field trial.

    PubMed

    Vuori, Jukka; Toppinen-Tanner, Salla; Mutanen, Pertti

    2012-03-01

    A resource-building group intervention was developed to enhance career management, mental health, and job retention in work organizations. The in-company training program provided employees with better preparedness to manage their own careers. The program activities were universally implemented using an organization-level, 2-trainer model with trainers from the human resources management and occupational health services. The study was a within-organizations, randomly assigned field experimental study; it investigated the impacts of the intervention on immediate career management preparedness and later mental health and intentions to retire early. A total of 718 eligible individuals returned a questionnaire in 17 organizations and became voluntary participants. The respondents were randomly assigned to either an intervention (N = 369) or a comparison group (N = 349). Those in the intervention group were invited to group intervention workshops, whereas those in the comparison group received printed information about career and health-related issues. The 7-month follow-up results showed that the program significantly decreased depressive symptoms and intentions to retire early and increased mental resources among the group participants compared to the others. The mediation analyses demonstrated that the increase in career management preparedness as a proximal impact of the intervention mediated the longer term mental health effects. Those who benefited most from the intervention as regards their mental health were employees with elevated levels of depression or exhaustion and younger employees, implying additional benefits of a more targeted use of the intervention. The results demonstrated the benefits of the enhancement of individual-level career management and resilience resources as career and health promotion practice in work organizations.

  1. Möbius-strip-like columnar functional connections are revealed in somato-sensory receptive field centroids

    PubMed Central

    Wright, James Joseph; Bourke, Paul David; Favorov, Oleg Vyachesslavovich

    2014-01-01

    Receptive fields of neurons in the forelimb region of areas 3b and 1 of primary somatosensory cortex, in cats and monkeys, were mapped using extracellular recordings obtained sequentially from nearly radial penetrations. Locations of the field centroids indicated the presence of a functional system in which cortical homotypic representations of the limb surfaces are entwined in three-dimensional Möbius-strip-like patterns of synaptic connections. Boundaries of somatosensory receptive field in nested groups irregularly overlie the centroid order, and are interpreted as arising from the superposition of learned connections upon the embryonic order. Since the theory of embryonic synaptic self-organization used to model these results was devised and earlier used to explain findings in primary visual cortex, the present findings suggest the theory may be of general application throughout cortex and may reveal a modular functional synaptic system, which, only in some parts of the cortex, and in some species, is manifest as anatomical ordering into columns. PMID:25400552

  2. a Comparative Study Between Pair-Point Clique and Multi-Point Clique Markov Random Field Models for Land Cover Classification

    NASA Astrophysics Data System (ADS)

    Hu, B.; Li, P.

    2013-07-01

    Markov random field (MRF) is an effective method for description of local spatial-temporal dependence of image and has been widely used in land cover classification and change detection. However, existing studies only use pair-point clique (PPC) to describe spatial dependence of neighbouring pixels, which may not fully quantify complex spatial relations, particularly in high spatial resolution images. In this study, multi-point clique (MPC) is adopted in MRF model to quantitatively express spatial dependence among pixels. A modified least squares fit (LSF) method based on robust estimation is proposed to calculate potential parameters for MRF models with different types. The proposed MPC-MRF method is evaluated and quantitatively compared with traditional PPCMRF in urban land cover classification using high resolution hyperspectral HYDICE data of Washington DC. The experimental results revealed that the proposed MPC-MRF method outperformed the traditional PPC-MRF method in terms of classification details. The MPC-MRF provides a sophisticated way of describing complex spatial dependence for relevant applications.

  3. Detection, visualization and animation of abnormal anatomic structure with a deformable probabilistic brain atlas based on random vector field transformations.

    PubMed

    Thompson, P M; Toga, A W

    1997-09-01

    This paper describes the design, implementation and preliminary results of a technique for creating a comprehensive probabilistic atlas of the human brain based on high-dimensional vector field transformations. The goal of the atlas is to detect and quantify distributed patterns of deviation from normal anatomy, in a 3-D brain image from any given subject. The algorithm analyzes a reference population of normal scans and automatically generates color-coded probability maps of the anatomy of new subjects. Given a 3-D brain image of a new subject, the algorithm calculates a set of high-dimensional volumetric maps (with typically 384(2) x 256 x 3 approximately 10(8) degrees of freedom) elastically deforming this scan into structural correspondence with other scans, selected one by one from an anatomic image database. The family of volumetric warps thus constructed encodes statistical properties and directional biases of local anatomical variation throughout the architecture of the brain. A probability space of random transformations, based on the theory of anisotropic Gaussian random fields, is then developed to reflect the observed variability in stereotaxic space of the points whose correspondences are found by the warping algorithm. A complete system of 384(2) x 256 probability density functions is computed, yielding confidence limits in stereotaxic space for the location of every point represented in the 3-D image lattice of the new subject's brain. Color-coded probability maps are generated, densely defined throughout the anatomy of the new subject. These indicate locally the probability of each anatomic point being unusually situated, given the distributions of corresponding points in the scans of normal subjects. 3-D MRI and high-resolution cryosection volumes are analyzed from subjects with metastatic tumors and Alzheimer's disease. Gradual variations and continuous deformations of the underlying anatomy are simulated and their dynamic effects on regional

  4. Area-specific modulation of neural activation comparing escitalopram and citalopram revealed by pharmaco-fMRI: a randomized cross-over study.

    PubMed

    Windischberger, Christian; Lanzenberger, Rupert; Holik, Alexander; Spindelegger, Christoph; Stein, Patrycja; Moser, Ulrike; Gerstl, Florian; Fink, Martin; Moser, Ewald; Kasper, Siegfried

    2010-01-15

    Area-specific and stimulation-dependent changes of human brain activation by selective serotonin reuptake inhibitors (SSRI) are an important issue for improved understanding of treatment mechanisms, given the frequent prescription of these drugs in depression and anxiety disorders. The aim of this neuroimaging study was to investigate differences in BOLD-signal caused by administration of the SSRIs escitalopram and citalopram using pharmacological functional magnetic resonance imaging (pharmaco-fMRI). Eighteen healthy subjects participated in a placebo-controlled, randomized, double-blind study in cross-over repeated measures design. Each volunteer performed facial emotional discrimination and a sensorimotor control paradigm during three scanning sessions. Citalopram (20 mg/d), escitalopram (10 mg/d) and placebo were administered for 10 days each with a drug-free period of at least 21 days. Significant pharmacological effects on BOLD-signal were found in the amygdala, medial frontal gyrus, parahippocampal, fusiform and middle temporal gyri. Post-hoc t-tests revealed decreased BOLD-signal in the right amygdala and left parahippocampal gyrus in both pharmacological conditions, compared to placebo. Escitalopram, compared to citalopram, induced a decrease of BOLD-signal in the medial frontal gyrus and an increase in the right fusiform and left parahippocampal gyri. Drug effects were concentrated in brain regions with dense serotonergic projections. Both escitalopram and citalopram attenuated BOLD-signal in the amygdala and parahippocampal cortex to emotionally significant stimuli compared to control stimuli. We believe that reduced reactivity in the medial frontal gyrus found for escitalopram compared to citalopram administration might explain the response differences between study drugs as demonstrated in previous clinical trials.

  5. Fluid circulation and reservoir conditions of the Los Humeros Geothermal Field (LHGF), Mexico, as revealed by a noble gas survey

    NASA Astrophysics Data System (ADS)

    Pinti, Daniele L.; Castro, M. Clara; Lopez-Hernandez, Aida; Han, Guolei; Shouakar-Stash, Orfan; Hall, Chris M.; Ramírez-Montes, Miguel

    2017-03-01

    Los Humeros Geothermal Field (LHGF) is one of four geothermal fields currently operating in Mexico, in exploitation since 1990. Located in a caldera complex filled with very low-permeability rhyolitic ignimbrites that are the reservoir cap-rock, recharge of the geothermal field is both limited and localized. Because of this, planning of any future geothermal exploitation must be based on a clear understanding of the fluid circulation. To this end, a first noble gas survey was carried out in which twenty-two production wells were sampled for He, Ne, Ar, Kr, and Xe isotope analysis. Air-corrected 3He/4He ratios (Rc) measured in the fluid, normalized to the helium atmospheric ratio (Ra; 1.384 × 10- 6), are consistently high across the field, with an average value of 7.03 ± 0.40 Ra. This value is close to that of the sub-continental upper mantle, indicating that LHGF mines heat from an active magmatic system. Freshwater recharge does not significantly affect He isotopic ratios, contributing 1-10% of the total fluid amount. The presence of radiogenic 40Ar* in the fluid suggests a fossil fluid component that might have circulated within the metacarbonate basement with radiogenic argon produced from detrital dispersed illite. Solubility-driven elemental fractionation of Ne/Ar, Kr/Ar, and Xe/Ar confirm extreme boiling in the reservoir. However, a combined analysis of these ratios with 40Ar/36Ar reveals mixing with an air component, possibly introduced by re-injected geothermal fluids.

  6. Sutureless Adult Voluntary Male Circumcision with Topical Anesthetic: A Randomized Field Trial of Unicirc, a Single-Use Surgical Instrument

    PubMed Central

    2016-01-01

    Introduction The World Health Organization has solicited rapid and minimally invasive techniques to facilitate scale-up of voluntary medical male circumcision (VMMC). Study design Non-blinded randomized controlled field trial with 2:1 allocation ratio. Participants 75 adult male volunteers. Setting Outpatient primary care clinic. Intervention Open surgical circumcision under local anesthetic with suturing vs. Unicirc disposable instrument under topical anesthetic and wound sealing with cyanoacrylate tissue adhesive. Primary Outcome Intraoperative duration. Secondary Outcomes Intraoperative and postoperative pain; adverse events; time to healing; patient satisfaction; cosmetic result. Results The intraoperative time was less with the Unicirc technique (median 12 vs. 25 min, p < 0.001). Wound healing and cosmetic results were superior in the Unicirc group. Adverse events were similar in both groups. Conclusions VMMC with Unicirc under topical anesthetic and wound sealing with cyanoacrylate tissue adhesive is rapid, heals by primary intention with superior cosmetic results, and is potentially safer and more cost-effective than open surgical VMMC. Trial Registration Clinicaltrials.gov NCT02443792 PMID:27299735

  7. Asynchronous decoding of finger movements from ECoG signals using long-range dependencies conditional random fields

    NASA Astrophysics Data System (ADS)

    Delgado Saa, Jaime F.; de Pesters, Adriana; Cetin, Mujdat

    2016-06-01

    Objective. In this work we propose the use of conditional random fields with long-range dependencies for the classification of finger movements from electrocorticographic recordings. Approach. The proposed method uses long-range dependencies taking into consideration time-lags between the brain activity and the execution of the motor task. In addition, the proposed method models the dynamics of the task executed by the subject and uses information about these dynamics as prior information during the classification stage. Main results. The results show that incorporating temporal information about the executed task as well as incorporating long-range dependencies between the brain signals and the labels effectively increases the system’s classification performance compared to methods in the state of art. Significance. The method proposed in this work makes use of probabilistic graphical models to incorporate temporal information in the classification of finger movements from electrocorticographic recordings. The proposed method highlights the importance of including prior information about the task that the subjects execute. As the results show, the combination of these two features effectively produce a significant improvement of the system’s classification performance.

  8. Recognition and Evaluation of Clinical Section Headings in Clinical Documents Using Token-Based Formulation with Conditional Random Fields

    PubMed Central

    Dai, Hong-Jie; Syed-Abdul, Shabbir; Chen, Chih-Wei; Wu, Chieh-Chen

    2015-01-01

    Electronic health record (EHR) is a digital data format that collects electronic health information about an individual patient or population. To enhance the meaningful use of EHRs, information extraction techniques have been developed to recognize clinical concepts mentioned in EHRs. Nevertheless, the clinical judgment of an EHR cannot be known solely based on the recognized concepts without considering its contextual information. In order to improve the readability and accessibility of EHRs, this work developed a section heading recognition system for clinical documents. In contrast to formulating the section heading recognition task as a sentence classification problem, this work proposed a token-based formulation with the conditional random field (CRF) model. A standard section heading recognition corpus was compiled by annotators with clinical experience to evaluate the performance and compare it with sentence classification and dictionary-based approaches. The results of the experiments showed that the proposed method achieved a satisfactory F-score of 0.942, which outperformed the sentence-based approach and the best dictionary-based system by 0.087 and 0.096, respectively. One important advantage of our formulation over the sentence-based approach is that it presented an integrated solution without the need to develop additional heuristics rules for isolating the headings from the surrounding section contents. PMID:26380302

  9. Automatic de-identification of electronic medical records using token-level and character-level conditional random fields.

    PubMed

    Liu, Zengjian; Chen, Yangxin; Tang, Buzhou; Wang, Xiaolong; Chen, Qingcai; Li, Haodi; Wang, Jingfeng; Deng, Qiwen; Zhu, Suisong

    2015-12-01

    De-identification, identifying and removing all protected health information (PHI) present in clinical data including electronic medical records (EMRs), is a critical step in making clinical data publicly available. The 2014 i2b2 (Center of Informatics for Integrating Biology and Bedside) clinical natural language processing (NLP) challenge sets up a track for de-identification (track 1). In this study, we propose a hybrid system based on both machine learning and rule approaches for the de-identification track. In our system, PHI instances are first identified by two (token-level and character-level) conditional random fields (CRFs) and a rule-based classifier, and then are merged by some rules. Experiments conducted on the i2b2 corpus show that our system submitted for the challenge achieves the highest micro F-scores of 94.64%, 91.24% and 91.63% under the "token", "strict" and "relaxed" criteria respectively, which is among top-ranked systems of the 2014 i2b2 challenge. After integrating some refined localization dictionaries, our system is further improved with F-scores of 94.83%, 91.57% and 91.95% under the "token", "strict" and "relaxed" criteria respectively.

  10. Microbiological Evaluation of the Efficacy of Soapy Water to Clean Hands: A Randomized, Non-Inferiority Field Trial

    PubMed Central

    Amin, Nuhu; Pickering, Amy J.; Ram, Pavani K.; Unicomb, Leanne; Najnin, Nusrat; Homaira, Nusrat; Ashraf, Sania; Abedin, Jaynal; Islam, M. Sirajul; Luby, Stephen P.

    2014-01-01

    We conducted a randomized, non-inferiority field trial in urban Dhaka, Bangladesh among mothers to compare microbial efficacy of soapy water (30 g powdered detergent in 1.5 L water) with bar soap and water alone. Fieldworkers collected hand rinse samples before and after the following washing regimens: scrubbing with soapy water for 15 and 30 seconds; scrubbing with bar soap for 15 and 30 seconds; and scrubbing with water alone for 15 seconds. Soapy water and bar soap removed thermotolerant coliforms similarly after washing for 15 seconds (mean log10 reduction = 0.7 colony-forming units [CFU], P < 0.001 for soapy water; mean log10 reduction = 0.6 CFU, P = 0.001 for bar soap). Increasing scrubbing time to 30 seconds did not improve removal (P > 0.05). Scrubbing hands with water alone also reduced thermotolerant coliforms (mean log10 reduction = 0.3 CFU, P = 0.046) but was less efficacious than scrubbing hands with soapy water. Soapy water is an inexpensive and microbiologically effective cleansing agent to improve handwashing among households with vulnerable children. PMID:24914003

  11. Detecting brain tumor in computed tomography images using Markov random fields and fuzzy C-means clustering techniques

    SciTech Connect

    Abdulbaqi, Hayder Saad; Jafri, Mohd Zubir Mat; Omar, Ahmad Fairuz; Mustafa, Iskandar Shahrim Bin; Abood, Loay Kadom

    2015-04-24

    Brain tumors, are an abnormal growth of tissues in the brain. They may arise in people of any age. They must be detected early, diagnosed accurately, monitored carefully, and treated effectively in order to optimize patient outcomes regarding both survival and quality of life. Manual segmentation of brain tumors from CT scan images is a challenging and time consuming task. Size and location accurate detection of brain tumor plays a vital role in the successful diagnosis and treatment of tumors. Brain tumor detection is considered a challenging mission in medical image processing. The aim of this paper is to introduce a scheme for tumor detection in CT scan images using two different techniques Hidden Markov Random Fields (HMRF) and Fuzzy C-means (FCM). The proposed method has been developed in this research in order to construct hybrid method between (HMRF) and threshold. These methods have been applied on 4 different patient data sets. The result of comparison among these methods shows that the proposed method gives good results for brain tissue detection, and is more robust and effective compared with (FCM) techniques.

  12. Multimodal Brain-Tumor Segmentation Based on Dirichlet Process Mixture Model with Anisotropic Diffusion and Markov Random Field Prior

    PubMed Central

    Lu, Yisu; Jiang, Jun; Chen, Wufan

    2014-01-01

    Brain-tumor segmentation is an important clinical requirement for brain-tumor diagnosis and radiotherapy planning. It is well-known that the number of clusters is one of the most important parameters for automatic segmentation. However, it is difficult to define owing to the high diversity in appearance of tumor tissue among different patients and the ambiguous boundaries of lesions. In this study, a nonparametric mixture of Dirichlet process (MDP) model is applied to segment the tumor images, and the MDP segmentation can be performed without the initialization of the number of clusters. Because the classical MDP segmentation cannot be applied for real-time diagnosis, a new nonparametric segmentation algorithm combined with anisotropic diffusion and a Markov random field (MRF) smooth constraint is proposed in this study. Besides the segmentation of single modal brain-tumor images, we developed the algorithm to segment multimodal brain-tumor images by the magnetic resonance (MR) multimodal features and obtain the active tumor and edema in the same time. The proposed algorithm is evaluated using 32 multimodal MR glioma image sequences, and the segmentation results are compared with other approaches. The accuracy and computation time of our algorithm demonstrates very impressive performance and has a great potential for practical real-time clinical use. PMID:25254064

  13. COMBAT: Initial experience with a randomized clinical trial of plasma-based resuscitation in the field for traumatic hemorrhagic shock

    PubMed Central

    Chapman, Michael P.; Moore, Ernest E.; Chin, Theresa L; Ghasabyan, Arsen; Chandler, James; Stringham, John; Gonzalez, Eduardo; Moore, Hunter B.; Banerjee, Anirban; Silliman, Christopher C; Sauaia, Angela

    2015-01-01

    The existing evidence shows great promise for plasma as the first resuscitation fluid in both civilian and military trauma. We embarked on the Control of Major Bleeding After Trauma (COMBAT) trial with the support of the Department of Defense, in order to determine if plasma-first resuscitation yields hemostatic and survival benefits. The methodology of the COMBAT study represents not only three years of development work, but the integration of nearly two-decades of technical experience with the design and implementation of other clinical trials and studies. Herein, we describe the key features of the study design, critical personnel and infrastructural elements, and key innovations. We will also briefly outline the systems engineering challenges entailed by this study. COMBAT is a randomized, placebo controlled, semi-blinded prospective Phase IIB clinical trial, conducted in a ground ambulance fleet based at a Level I trauma center, and part of a multicenter collaboration. The primary objective of COMBAT is to determine the efficacy of field resuscitation with plasma first, compared to standard of care (normal saline). To date we have enrolled 30 subjects in the COMBAT study. The ability to achieve intervention with a hemostatic resuscitation agent in the closest possible temporal proximity to injury is critical and represents an opportunity to forestall the evolution of the “bloody vicious cycle”. Thus, the COMBAT model for deploying plasma in first response units should serve as a model for RCTs of other hemostatic resuscitative agents. PMID:25784527

  14. A model-based approach to gene clustering with missing observation reconstruction in a Markov random field framework.

    PubMed

    Blanchet, Juliette; Vignes, Matthieu

    2009-03-01

    The different measurement techniques that interrogate biological systems provide means for monitoring the behavior of virtually all cell components at different scales and from complementary angles. However, data generated in these experiments are difficult to interpret. A first difficulty arises from high-dimensionality and inherent noise of such data. Organizing them into meaningful groups is then highly desirable to improve our knowledge of biological mechanisms. A more accurate picture can be obtained when accounting for dependencies between components (e.g., genes) under study. A second difficulty arises from the fact that biological experiments often produce missing values. When it is not ignored, the latter issue has been solved by imputing the expression matrix prior to applying traditional analysis methods. Although helpful, this practice can lead to unsound results. We propose in this paper a statistical methodology that integrates individual dependencies in a missing data framework. More explicitly, we present a clustering algorithm dealing with incomplete data in a Hidden Markov Random Field context. This tackles the missing value issue in a probabilistic framework and still allows us to reconstruct missing observations a posteriori without imposing any pre-processing of the data. Experiments on synthetic data validate the gain in using our method, and analysis of real biological data shows its potential to extract biological knowledge.

  15. Random field Ising model with conserved kinetics: Super-universality violation, logarithmic growth law and the generalized Tomita sum rule

    NASA Astrophysics Data System (ADS)

    Kumar, Manoj; Banerjee, Varsha; Puri, Sanjay

    2017-01-01

    We perform comprehensive Monte Carlo (MC) simulations to study ordering dynamics in the random field Ising model with conserved order parameter (C-RFIM) in d=2,3 . The observations from this study are: a) For a fixed value of the disorder Δ, the correlation function C(r,t;Δ) exhibits dynamical scaling. b) The scaling function is not robust with respect to Δ, i.e., super-universality (SU) is violated by C(r,t;Δ) . c) At early times, the domains follow the algebraic growth with a disorder-dependent exponent: L(t,Δ)∼ t1/\\bar{z(Δ)} . At late times, there is a crossover to logarithmic growth: L(t,Δ) ∼ (\\ln t)1/\\varphi , where φ is a disorder-independent exponent. d) The small-r behavior of the correlation function exhibits a cusp singularity: 1-C(r) ∼ rα(Δ) , where α is the cusp exponent signifying rough fractal interfaces. e) The corresponding structure factor exhibits a non-Porod tail: S(k,t;Δ)∼ k-(d+α) , and obeys a generalized Tomita sum rule \\int_0^∞ {d}p p1-α≤ft[pd+αf(p)-C\\right]=0 , where f(p) is the appropriate scaling function, and C is a constant.

  16. Segmentation of Image Data from Complex Organotypic 3D Models of Cancer Tissues with Markov Random Fields

    PubMed Central

    Robinson, Sean; Guyon, Laurent; Nevalainen, Jaakko; Toriseva, Mervi

    2015-01-01

    Organotypic, three dimensional (3D) cell culture models of epithelial tumour types such as prostate cancer recapitulate key aspects of the architecture and histology of solid cancers. Morphometric analysis of multicellular 3D organoids is particularly important when additional components such as the extracellular matrix and tumour microenvironment are included in the model. The complexity of such models has so far limited their successful implementation. There is a great need for automatic, accurate and robust image segmentation tools to facilitate the analysis of such biologically relevant 3D cell culture models. We present a segmentation method based on Markov random fields (MRFs) and illustrate our method using 3D stack image data from an organotypic 3D model of prostate cancer cells co-cultured with cancer-associated fibroblasts (CAFs). The 3D segmentation output suggests that these cell types are in physical contact with each other within the model, which has important implications for tumour biology. Segmentation performance is quantified using ground truth labels and we show how each step of our method increases segmentation accuracy. We provide the ground truth labels along with the image data and code. Using independent image data we show that our segmentation method is also more generally applicable to other types of cellular microscopy and not only limited to fluorescence microscopy. PMID:26630674

  17. Robust estimates of divergence times and selection with a poisson random field model: a case study of comparative phylogeographic data.

    PubMed

    Amei, Amei; Smith, Brian Tilston

    2014-01-01

    Mutation frequencies can be modeled as a Poisson random field (PRF) to estimate speciation times and the degree of selection on newly arisen mutations. This approach provides a quantitative theory for comparing intraspecific polymorphism with interspecific divergence in the presence of selection and can be used to estimate population genetic parameters. Although the original PRF model has been extended to more general biological settings to make statistical inference about selection and divergence among model organisms, it has not been incorporated into phylogeographic studies that focus on estimating population genetic parameters for nonmodel organisms. Here, we modified a recently developed time-dependent PRF model to independently estimate genetic parameters from a nuclear and mitochondrial DNA data set of 22 sister pairs of birds that have diverged across a biogeographic barrier. We found that species that inhabit humid habitats had more recent divergence times and larger effective population sizes than those that inhabit drier habitats, and divergence time estimated from the PRF model were similar to estimates from a coalescent species-tree approach. Selection coefficients were higher in sister pairs that inhabited drier habitats than in those in humid habitats, but overall the mitochondrial DNA was under weak selection. Our study indicates that PRF models are useful for estimating various population genetic parameters and serve as a framework for incorporating estimates of selection into comparative phylogeographic studies.

  18. Testing Allele Transmission of an SNP Set Using a Family-Based Generalized Genetic Random Field Method.

    PubMed

    Li, Ming; Li, Jingyun; He, Zihuai; Lu, Qing; Witte, John S; Macleod, Stewart L; Hobbs, Charlotte A; Cleves, Mario A

    2016-05-01

    Family-based association studies are commonly used in genetic research because they can be robust to population stratification (PS). Recent advances in high-throughput genotyping technologies have produced a massive amount of genomic data in family-based studies. However, current family-based association tests are mainly focused on evaluating individual variants one at a time. In this article, we introduce a family-based generalized genetic random field (FB-GGRF) method to test the joint association between a set of autosomal SNPs (i.e., single-nucleotide polymorphisms) and disease phenotypes. The proposed method is a natural extension of a recently developed GGRF method for population-based case-control studies. It models offspring genotypes conditional on parental genotypes, and, thus, is robust to PS. Through simulations, we presented that under various disease scenarios the FB-GGRF has improved power over a commonly used family-based sequence kernel association test (FB-SKAT). Further, similar to GGRF, the proposed FB-GGRF method is asymptotically well-behaved, and does not require empirical adjustment of the type I error rates. We illustrate the proposed method using a study of congenital heart defects with family trios from the National Birth Defects Prevention Study (NBDPS).

  19. Detecting brain tumor in computed tomography images using Markov random fields and fuzzy C-means clustering techniques

    NASA Astrophysics Data System (ADS)

    Abdulbaqi, Hayder Saad; Jafri, Mohd Zubir Mat; Omar, Ahmad Fairuz; Mustafa, Iskandar Shahrim Bin; Abood, Loay Kadom

    2015-04-01

    Brain tumors, are an abnormal growth of tissues in the brain. They may arise in people of any age. They must be detected early, diagnosed accurately, monitored carefully, and treated effectively in order to optimize patient outcomes regarding both survival and quality of life. Manual segmentation of brain tumors from CT scan images is a challenging and time consuming task. Size and location accurate detection of brain tumor plays a vital role in the successful diagnosis and treatment of tumors. Brain tumor detection is considered a challenging mission in medical image processing. The aim of this paper is to introduce a scheme for tumor detection in CT scan images using two different techniques Hidden Markov Random Fields (HMRF) and Fuzzy C-means (FCM). The proposed method has been developed in this research in order to construct hybrid method between (HMRF) and threshold. These methods have been applied on 4 different patient data sets. The result of comparison among these methods shows that the proposed method gives good results for brain tissue detection, and is more robust and effective compared with (FCM) techniques.

  20. Conditional Random Field (CRF)-Boosting: Constructing a Robust Online Hybrid Boosting Multiple Object Tracker Facilitated by CRF Learning

    PubMed Central

    Yang, Ehwa; Gwak, Jeonghwan; Jeon, Moongu

    2017-01-01

    Due to the reasonably acceptable performance of state-of-the-art object detectors, tracking-by-detection is a standard strategy for visual multi-object tracking (MOT). In particular, online MOT is more demanding due to its diverse applications in time-critical situations. A main issue of realizing online MOT is how to associate noisy object detection results on a new frame with previously being tracked objects. In this work, we propose a multi-object tracker method called CRF-boosting which utilizes a hybrid data association method based on online hybrid boosting facilitated by a conditional random field (CRF) for establishing online MOT. For data association, learned CRF is used to generate reliable low-level tracklets and then these are used as the input of the hybrid boosting. To do so, while existing data association methods based on boosting algorithms have the necessity of training data having ground truth information to improve robustness, CRF-boosting ensures sufficient robustness without such information due to the synergetic cascaded learning procedure. Further, a hierarchical feature association framework is adopted to further improve MOT accuracy. From experimental results on public datasets, we could conclude that the benefit of proposed hybrid approach compared to the other competitive MOT systems is noticeable. PMID:28304366

  1. Differences between two clinical Staphylococcus capitis subspecies as revealed by biofilm, antibiotic resistance, and pulsed-field gel electrophoresis profiling.

    PubMed

    Cui, Bintao; Smooker, Peter M; Rouch, Duncan A; Daley, Andrew J; Deighton, Margaret A

    2013-01-01

    Coagulase-negative staphylococci have been identified as major causes of late-onset neonatal bacteremia in neonatal intensive care units. Sixty isolates of Staphylococcus capitis obtained from blood cultures of neonates between 2000 and 2005 were examined in this study. Biochemical analysis confirmed that 52 of these isolates belonged to the subsp. urealyticus, and the remaining 8 belonged to the subsp. capitis. Isolates of the predominant subsp. urealyticus clones were characterized by their resistance to penicillin, erythromycin, and oxacillin and their biofilm formation ability, whereas subsp. capitis isolates were generally antibiotic susceptible and biofilm negative. Pulsed-field gel electrophoresis (PFGE) after SacII digestion separated the 60 isolates into five major clusters. Sequence analysis showed that, in S. capitis, the ica operon plus the negative regulator icaR was 4,160 bp in length. PCRs demonstrated the presence of the ica operon in all isolates. Further analysis of five isolates (two biofilm-positive subsp. urealyticus, one biofilm-negative subsp. urealyticus, and two biofilm-negative subsp. capitis) revealed that the ica operons were identical in all of the biofilm-positive subsp. urealyticus strains; however, the biofilm-negative isolates showed variations. The distinctive phenotypic and genotypic characteristics revealed by this study may affect the epidemiology of the two subspecies of S. capitis in the clinical setting. These results may provide a better understanding of the contribution of these two species to bloodstream infections in neonates.

  2. Perceptual suppression revealed by adaptive multi-scale entropy analysis of local field potential in monkey visual cortex.

    PubMed

    Hu, Meng; Liang, Hualou

    2013-04-01

    Generalized flash suppression (GFS), in which a salient visual stimulus can be rendered invisible despite continuous retinal input, provides a rare opportunity to directly study the neural mechanism of visual perception. Previous work based on linear methods, such as spectral analysis, on local field potential (LFP) during GFS has shown that the LFP power at distinctive frequency bands are differentially modulated by perceptual suppression. Yet, the linear method alone may be insufficient for the full assessment of neural dynamic due to the fundamentally nonlinear nature of neural signals. In this study, we set forth to analyze the LFP data collected from multiple visual areas in V1, V2 and V4 of macaque monkeys while performing the GFS task using a nonlinear method - adaptive multi-scale entropy (AME) - to reveal the neural dynamic of perceptual suppression. In addition, we propose a new cross-entropy measure at multiple scales, namely adaptive multi-scale cross-entropy (AMCE), to assess the nonlinear functional connectivity between two cortical areas. We show that: (1) multi-scale entropy exhibits percept-related changes in all three areas, with higher entropy observed during perceptual suppression; (2) the magnitude of the perception-related entropy changes increases systematically over successive hierarchical stages (i.e. from lower areas V1 to V2, up to higher area V4); and (3) cross-entropy between any two cortical areas reveals higher degree of asynchrony or dissimilarity during perceptual suppression, indicating a decreased functional connectivity between cortical areas. These results, taken together, suggest that perceptual suppression is related to a reduced functional connectivity and increased uncertainty of neural responses, and the modulation of perceptual suppression is more effective at higher visual cortical areas. AME is demonstrated to be a useful technique in revealing the underlying dynamic of nonlinear/nonstationary neural signal.

  3. Field-scale tracking of active methane-oxidizing communities in a landfill cover soil reveals spatial and seasonal variability.

    PubMed

    Henneberger, Ruth; Chiri, Eleonora; Bodelier, Paul E L; Frenzel, Peter; Lüke, Claudia; Schroth, Martin H

    2015-05-01

    Aerobic methane-oxidizing bacteria (MOB) in soils mitigate methane (CH4 ) emissions. We assessed spatial and seasonal differences in active MOB communities in a landfill cover soil characterized by highly variable environmental conditions. Field-based measurements of CH4 oxidation activity and stable-isotope probing of polar lipid-derived fatty acids (PLFA-SIP) were complemented by microarray analysis of pmoA genes and transcripts, linking diversity and function at the field scale. In situ CH4 oxidation rates varied between sites and were generally one order of magnitude lower in winter compared with summer. Results from PLFA-SIP and pmoA transcripts were largely congruent, revealing distinct spatial and seasonal clustering. Overall, active MOB communities were highly diverse. Type Ia MOB, specifically Methylomonas and Methylobacter, were key drivers for CH4 oxidation, particularly at a high-activity site. Type II MOB were mainly active at a site showing substantial fluctuations in CH4 loading and soil moisture content. Notably, Upland Soil Cluster-gamma-related pmoA transcripts were also detected, indicating concurrent oxidation of atmospheric CH4 . Spatial separation was less distinct in winter, with Methylobacter and uncultured MOB mediating CH4 oxidation. We propose that high diversity of active MOB communities in this soil is promoted by high variability in environmental conditions, facilitating substantial removal of CH4 generated in the waste body.

  4. Ultra-High-Field fMRI Reveals a Role for the Subiculum in Scene Perceptual Discrimination.

    PubMed

    Hodgetts, Carl J; Voets, Natalie L; Thomas, Adam G; Clare, Stuart; Lawrence, Andrew D; Graham, Kim S

    2017-03-22

    Recent "representational" accounts suggest a key role for the hippocampus in complex scene perception. Due to limitations in scanner field strength, however, the functional neuroanatomy of hippocampal-dependent scene perception is unknown. Here, we applied 7 T high-resolution functional magnetic resonance imaging (fMRI) alongside a perceptual oddity task, modified from nonhuman primate studies. This task requires subjects to discriminate highly similar scenes, faces, or objects from multiple viewpoints, and has revealed selective impairments during scene discrimination following hippocampal lesions. Region-of-interest analyses identified a preferential response in the subiculum subfield of the hippocampus during scene, but not face or object, discriminations. Notably, this effect was in the anteromedial subiculum and was not modulated by whether scenes were subsequently remembered or forgotten. These results highlight the value of ultra-high-field fMRI in generating more refined, anatomically informed, functional accounts of hippocampal contributions to cognition, and a unique role for the human subiculum in discrimination of complex scenes from different viewpoints.SIGNIFICANCE STATEMENT There is increasing evidence that the human hippocampus supports functions beyond just episodic memory, with human lesion studies suggesting a contribution to the perceptual processing of navigationally relevant, complex scenes. While the hippocampus itself contains several small, functionally distinct subfields, examining the role of these in scene processing has been previously limited by scanner field strength. By applying ultra-high-resolution 7 T fMRI, we delineated the functional contribution of individual hippocampal subfields during a perceptual discrimination task for scenes, faces, and objects. This demonstrated that the discrimination of scenes, relative to faces and objects, recruits the anterior subicular region of the hippocampus, regardless of whether scenes were

  5. Guided random-walk calculation of energies and values of the 1Σg state of H2 in a magnetic field

    NASA Astrophysics Data System (ADS)

    Encinosa, Mario

    1999-03-01

    Energies and spatial observables for the 1Σg state of the hydrogen molecule in magnetic fields parallel to the proton-proton axis are calculated with a guided random-walk Feynman-Kac algorithm. We demonstrate that the accuracy of the results and simplicity of the method may provide it a viable alternative to large basis-set expansions for small molecules in applied fields.

  6. A comparison of conditional random fields and structured support vector machines for chemical entity recognition in biomedical literature

    PubMed Central

    2015-01-01

    Background Chemical compounds and drugs (together called chemical entities) embedded in scientific articles are crucial for many information extraction tasks in the biomedical domain. However, only a very limited number of chemical entity recognition systems are publically available, probably due to the lack of large manually annotated corpora. To accelerate the development of chemical entity recognition systems, the Spanish National Cancer Research Center (CNIO) and The University of Navarra organized a challenge on Chemical and Drug Named Entity Recognition (CHEMDNER). The CHEMDNER challenge contains two individual subtasks: 1) Chemical Entity Mention recognition (CEM); and 2) Chemical Document Indexing (CDI). Our study proposes machine learning-based systems for the CEM task. Methods The 2013 CHEMDNER challenge organizers provided a manually annotated 10,000 UTF8-encoded PubMed abstracts according to a predefined annotation guideline: a training set of 3,500 abstracts, a development set of 3,500 abstracts and a test set of 3,000 abstracts. We developed machine learning-based systems, based on conditional random fields (CRF) and structured support vector machines (SSVM) respectively, for the CEM task for this data set. The effects of three types of word representation (WR) features, generated by Brown clustering, random indexing and skip-gram, on both two machine learning-based systems were also investigated. The performance of our system was evaluated on the test set using scripts provided by the CHEMDNER challenge organizers. Primary evaluation measures were micro Precision, Recall, and F-measure. Results Our best system was among the top ranked systems with an official micro F-measure of 85.05%. Fixing a bug caused by inconsistent features marginally improved the performance (micro F-measure of 85.20%) of the system. Conclusions The SSVM-based CEM systems outperformed the CRF-based CEM systems when using the same features. Each type of the WR feature was

  7. Adaptive multi-level conditional random fields for detection and segmentation of small enhanced pathology in medical images.

    PubMed

    Karimaghaloo, Zahra; Arnold, Douglas L; Arbel, Tal

    2016-01-01

    Detection and segmentation of large structures in an image or within a region of interest have received great attention in the medical image processing domains. However, the problem of small pathology detection and segmentation still remains an unresolved challenge due to the small size of these pathologies, their low contrast and variable position, shape and texture. In many contexts, early detection of these pathologies is critical in diagnosis and assessing the outcome of treatment. In this paper, we propose a probabilistic Adaptive Multi-level Conditional Random Fields (AMCRF) with the incorporation of higher order cliques for detecting and segmenting such pathologies. In the first level of our graphical model, a voxel-based CRF is used to identify candidate lesions. In the second level, in order to further remove falsely detected regions, a new CRF is developed that incorporates higher order textural features, which are invariant to rotation and local intensity distortions. At this level, higher order textures are considered together with the voxel-wise cliques to refine boundaries and is therefore adaptive. The proposed algorithm is tested in the context of detecting enhancing Multiple Sclerosis (MS) lesions in brain MRI, where the problem is further complicated as many of the enhancing voxels are associated with normal structures (i.e. blood vessels) or noise in the MRI. The algorithm is trained and tested on large multi-center clinical trials from Relapsing-Remitting MS patients. The effect of several different parameter learning and inference techniques is further investigated. When tested on 120 cases, the proposed method reaches a lesion detection rate of 90%, with very few false positive lesion counts on average, ranging from 0.17 for very small (3-5 voxels) to 0 for very large (50+ voxels) regions. The proposed model is further tested on a very large clinical trial containing 2770 scans where a high sensitivity of 91% with an average false positive

  8. Randomly detected genetically modified (GM) maize (Zea mays L.) near a transport route revealed a fragile 45S rDNA phenotype.

    PubMed

    Waminal, Nomar Espinosa; Ryu, Ki Hyun; Choi, Sun-Hee; Kim, Hyun Hee

    2013-01-01

    Monitoring of genetically modified (GM) crops has been emphasized to prevent their potential effects on the environment and human health. Monitoring of the inadvertent dispersal of transgenic maize in several fields and transport routes in Korea was carried out by qualitative multiplex PCR, and molecular analyses were conducted to identify the events of the collected GM maize. Cytogenetic investigations through fluorescence in situ hybridization (FISH) of the GM maize were performed to check for possible changes in the 45S rDNA cluster because this cluster was reported to be sensitive to replication and transcription stress. Three GM maize kernels were collected from a transport route near Incheon port, Korea, and each was found to contain NK603, stacked MON863 x NK603, and stacked NK603 x MON810 inserts, respectively. Cytogenetic analysis of the GM maize containing the stacked NK603 x MON810 insert revealed two normal compact 5S rDNA signals, but the 45S rDNA showed a fragile phenotype, demonstrating a "beads-on-a-string" fragmentation pattern, which seems to be a consequence of genetic modification. Implications of the 45S rDNA cluster fragility in GM maize are also discussed.

  9. Invariant joint distribution of a stationary random field and its derivatives: Euler characteristic and critical point counts in 2 and 3D

    SciTech Connect

    Pogosyan, Dmitry; Gay, Christophe; Pichon, Christophe

    2009-10-15

    The full moments expansion of the joint probability distribution of an isotropic random field, its gradient, and invariants of the Hessian are presented in 2 and 3D. It allows for explicit expression for the Euler characteristic in ND and computation of extrema counts as functions of the excursion set threshold and the spectral parameter, as illustrated on model examples.

  10. Effects of Adult Education Vouchers on the Labor Market: Evidence from a Randomized Field Experiment. Program on Education Policy and Governance Working Papers Series. PEPG 11-01

    ERIC Educational Resources Information Center

    Schwerdt, Guido; Messer, Dolores; Woessmann, Ludger; Wolter, Stefan C.

    2011-01-01

    Lifelong learning is often promoted in ageing societies, but little is known about its returns or governments' ability to advance it. This paper evaluates the effects of a large-scale randomized field experiment issuing vouchers for adult education in Switzerland. We find no significant average effects of voucher-induced adult education on…

  11. Monetary Incentives in Support of Academic Achievement: Results of a Randomized Field Trial Involving High-Achieving, Low-Resource, Ethnically Diverse Urban Adolescents

    ERIC Educational Resources Information Center

    Spencer, Margaret Beale; Noll, Elizabeth; Cassidy, Elaine

    2005-01-01

    Significant resources have been directed at understanding and alleviating the achievement gap in education. Most programs focused on this aim rely on a top-down approach, including funding for infrastructure improvement, curriculum development, class size, and teacher salaries. This article presents findings from a randomized field trial that…

  12. Sequence polymorphism in an insect RNA virus field population: A snapshot from a single point in space and time reveals stochastic differences among and within individual hosts

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Population structure of Homalodisca coagulata Virus-1 (HoCV-1) among and within field-collected insects was examined. To minimize effects of different evolutionary histories and/or selection pressures, all glassy-winged sharpshooter (Homalodisca vitripennis; synonym H. coagulata) hosts were randomly...

  13. Automatic segmentation of ground-glass opacities in lung CT images by using Markov random field-based algorithms.

    PubMed

    Zhu, Yanjie; Tan, Yongqing; Hua, Yanqing; Zhang, Guozhen; Zhang, Jianguo

    2012-06-01

    Chest radiologists rely on the segmentation and quantificational analysis of ground-glass opacities (GGO) to perform imaging diagnoses that evaluate the disease severity or recovery stages of diffuse parenchymal lung diseases. However, it is computationally difficult to segment and analyze patterns of GGO while compared with other lung diseases, since GGO usually do not have clear boundaries. In this paper, we present a new approach which automatically segments GGO in lung computed tomography (CT) images using algorithms derived from Markov random field theory. Further, we systematically evaluate the performance of the algorithms in segmenting GGO in lung CT images under different situations. CT image studies from 41 patients with diffuse lung diseases were enrolled in this research. The local distributions were modeled with both simple and adaptive (AMAP) models of maximum a posteriori (MAP). For best segmentation, we used the simulated annealing algorithm with a Gibbs sampler to solve the combinatorial optimization problem of MAP estimators, and we applied a knowledge-guided strategy to reduce false positive regions. We achieved AMAP-based GGO segmentation results of 86.94%, 94.33%, and 94.06% in average sensitivity, specificity, and accuracy, respectively, and we evaluated the performance using radiologists' subjective evaluation and quantificational analysis and diagnosis. We also compared the results of AMAP-based GGO segmentation with those of support vector machine-based methods, and we discuss the reliability and other issues of AMAP-based GGO segmentation. Our research results demonstrate the acceptability and usefulness of AMAP-based GGO segmentation for assisting radiologists in detecting GGO in high-resolution CT diagnostic procedures.

  14. Assessment Data-Informed Guidance to Individualize Kindergarten Reading Instruction: Findings from a Cluster-Randomized Control Field Trial.

    PubMed

    Al Otaiba, Stephanie; Connor, Carol M; Folsom, Jessica Sidler; Greulich, Luana; Meadows, Jane; Li, Zhi

    2011-06-01

    The purpose of this cluster-randomized control field trial was to was to examine the extent to which kindergarten teachers could learn a promising instructional strategy, wherein kindergarten reading instruction was differentiated based upon students' ongoing assessments of language and literacy skills and documented child characteristic by instruction (CXI) interactions; and to test the efficacy of this differentiated reading instruction on the reading outcomes of students from culturally diverse backgrounds. The study involved 14 schools and included 23 treatment (n = 305 students) and 21 contrast teacher (n = 251 students). Teachers in the contrast condition received only a baseline professional development that included a researcher-delivered summer day-long workshop on individualized instruction. Data sources included parent surveys, individually administered child assessments of language, cognitive, and reading skills and videotapes of classroom instruction. Using Hierarchical Multivariate Linear Modeling (HMLM), we found students in treatment classrooms outperformed students in the contrast classrooms on a latent measure of reading skills, comprised of letter-word reading, decoding, alphabetic knowledge, and phonological awareness (ES = .52). Teachers in both conditions provided small group instruction, but teachers in the treatment condition provided significantly more individualized instruction. Our findings extend research on the efficacy of teachers using Individualized Student Instruction to individualize instruction based upon students' language and literacy skills in first through third grade. Findings are discussed regarding the value of professional development related to differentiating core reading instruction and the challenges of using Response to Intervention approaches to address students' needs in the areas of reading in general education contexts.

  15. Weighted maximum posterior marginals for random fields using an ensemble of conditional densities from multiple Markov chain Monte Carlo simulations.

    PubMed

    Monaco, James Peter; Madabhushi, Anant

    2011-07-01

    The ability of classification systems to adjust their performance (sensitivity/specificity) is essential for tasks in which certain errors are more significant than others. For example, mislabeling cancerous lesions as benign is typically more detrimental than mislabeling benign lesions as cancerous. Unfortunately, methods for modifying the performance of Markov random field (MRF) based classifiers are noticeably absent from the literature, and thus most such systems restrict their performance to a single, static operating point (a paired sensitivity/specificity). To address this deficiency we present weighted maximum posterior marginals (WMPM) estimation, an extension of maximum posterior marginals (MPM) estimation. Whereas the MPM cost function penalizes each error equally, the WMPM cost function allows misclassifications associated with certain classes to be weighted more heavily than others. This creates a preference for specific classes, and consequently a means for adjusting classifier performance. Realizing WMPM estimation (like MPM estimation) requires estimates of the posterior marginal distributions. The most prevalent means for estimating these--proposed by Marroquin--utilizes a Markov chain Monte Carlo (MCMC) method. Though Marroquin's method (M-MCMC) yields estimates that are sufficiently accurate for MPM estimation, they are inadequate for WMPM. To more accurately estimate the posterior marginals we present an equally simple, but more effective extension of the MCMC method (E-MCMC). Assuming an identical number of iterations, E-MCMC as compared to M-MCMC yields estimates with higher fidelity, thereby 1) allowing a far greater number and diversity of operating points and 2) improving overall classifier performance. To illustrate the utility of WMPM and compare the efficacies of M-MCMC and E-MCMC, we integrate them into our MRF-based classification system for detecting cancerous glands in (whole-mount or quarter) histological sections of the prostate.

  16. Prostate cancer localization with multispectral MRI using cost-sensitive support vector machines and conditional random fields.

    PubMed

    Artan, Yusuf; Haider, Masoom A; Langer, Deanna L; van der Kwast, Theodorus H; Evans, Andrew J; Yang, Yongyi; Wernick, Miles N; Trachtenberg, John; Yetik, Imam Samil

    2010-09-01

    Prostate cancer is a leading cause of cancer death for men in the United States. Fortunately, the survival rate for early diagnosed patients is relatively high. Therefore, in vivo imaging plays an important role for the detection and treatment of the disease. Accurate prostate cancer localization with noninvasive imaging can be used to guide biopsy, radiotherapy, and surgery as well as to monitor disease progression. Magnetic resonance imaging (MRI) performed with an endorectal coil provides higher prostate cancer localization accuracy, when compared to transrectal ultrasound (TRUS). However, in general, a single type of MRI is not sufficient for reliable tumor localization. As an alternative, multispectral MRI, i.e., the use of multiple MRI-derived datasets, has emerged as a promising noninvasive imaging technique for the localization of prostate cancer; however almost all studies are with human readers. There is a significant inter and intraobserver variability for human readers, and it is substantially difficult for humans to analyze the large dataset of multispectral MRI. To solve these problems, this study presents an automated localization method using cost-sensitive support vector machines (SVMs) and shows that this method results in improved localization accuracy than classical SVM. Additionally, we develop a new segmentation method by combining conditional random fields (CRF) with a cost-sensitive framework and show that our method further improves cost-sensitive SVM results by incorporating spatial information. We test SVM, cost-sensitive SVM, and the proposed cost-sensitive CRF on multispectral MRI datasets acquired from 21 biopsy-confirmed cancer patients. Our results show that multispectral MRI helps to increase the accuracy of prostate cancer localization when compared to single MR images; and that using advanced methods such as cost-sensitive SVM as well as the proposed cost-sensitive CRF can boost the performance significantly when compared to SVM.

  17. Xenopus mutant reveals necessity of rax for specifying the eye field which otherwise forms tissue with telencephalic and diencephalic character

    PubMed Central

    Fisher, Marilyn; Hirsch, Nicolas; Cox, Amanda; Reeder, Rollin; Carruthers, Samantha; Hall, Amanda; Stemple, Derek L.; Grainger, Robert M.

    2014-01-01

    SUMMARY The retinal anterior homeobox (rax) gene encodes a transcription factor necessary for vertebrate eye development. rax transcription is initiated at the end of gastrulation in Xenopus, and is a key part of the regulatory network specifying anterior neural plate and retina. We describe here a Xenopus tropicalis rax mutant, the first mutant analyzed in detail from a reverse genetic screen. As in other vertebrates, this nonsense mutation results in eyeless animals, and is lethal peri-metamorphosis. Tissue normally fated to form retina in these mutants instead forms tissue with characteristics of diencephalon and telencephalon. This implies that a key role of rax, in addition to defining the eye field, is in preventing alternative forebrain identities. Our data highlight that brain and retina regions are not determined by the mid-gastrula stage but are by the neural plate stage. An RNA-Seq analysis and in situ hybridization assays for early gene expression in the mutant revealed that several key eye field transcription factors (e.g. pax6, lhx2 and six6) are not dependent on rax activity through neurulation. However, these analyses identified other genes either up- or down-regulated in mutant presumptive retinal tissue. Two neural patterning genes of particular interest that appear up-regulated in the rax mutant RNA-seq analysis are hesx1 and fezf2. These genes were not previously known to be regulated by rax. The normal function of rax is to partially repress their expression by an indirect mechanism in the presumptive retina region in wildtype embryos, thus accounting for the apparent up-regulation in the rax mutant. Knock-down experiments using antisense morpholino oligonucleotides directed against hesx1 and fezf2 show that failure to repress these two genes contributes to transformation of presumptive retinal tissue into non-retinal forebrain identities in the rax mutant. PMID:25224223

  18. Xenopus mutant reveals necessity of rax for specifying the eye field which otherwise forms tissue with telencephalic and diencephalic character.

    PubMed

    Fish, Margaret B; Nakayama, Takuya; Fisher, Marilyn; Hirsch, Nicolas; Cox, Amanda; Reeder, Rollin; Carruthers, Samantha; Hall, Amanda; Stemple, Derek L; Grainger, Robert M

    2014-11-15

    The retinal anterior homeobox (rax) gene encodes a transcription factor necessary for vertebrate eye development. rax transcription is initiated at the end of gastrulation in Xenopus, and is a key part of the regulatory network specifying anterior neural plate and retina. We describe here a Xenopus tropicalis rax mutant, the first mutant analyzed in detail from a reverse genetic screen. As in other vertebrates, this nonsense mutation results in eyeless animals, and is lethal peri-metamorphosis. Tissue normally fated to form retina in these mutants instead forms tissue with characteristics of diencephalon and telencephalon. This implies that a key role of rax, in addition to defining the eye field, is in preventing alternative forebrain identities. Our data highlight that brain and retina regions are not determined by the mid-gastrula stage but are by the neural plate stage. An RNA-Seq analysis and in situ hybridization assays for early gene expression in the mutant revealed that several key eye field transcription factors (e.g. pax6, lhx2 and six6) are not dependent on rax activity through neurulation. However, these analyses identified other genes either up- or down-regulated in mutant presumptive retinal tissue. Two neural patterning genes of particular interest that appear up-regulated in the rax mutant RNA-seq analysis are hesx1 and fezf2. These genes were not previously known to be regulated by rax. The normal function of rax is to partially repress their expression by an indirect mechanism in the presumptive retina region in wildtype embryos, thus accounting for the apparent up-regulation in the rax mutant. Knock-down experiments using antisense morpholino oligonucleotides directed against hesx1 and fezf2 show that failure to repress these two genes contributes to transformation of presumptive retinal tissue into non-retinal forebrain identities in the rax mutant.

  19. Revealing the consequences and errors of substance arising from the inverse confusion between the crystal (ligand) field quantities and the zero-field splitting ones

    NASA Astrophysics Data System (ADS)

    Rudowicz, Czesław; Karbowiak, Mirosław

    2015-01-01

    Survey of recent literature has revealed a doubly-worrying tendency concerning the treatment of the two distinct types of Hamiltonians, namely, the physical crystal field (CF), or equivalently ligand field (LF), Hamiltonians and the zero-field splitting (ZFS) Hamiltonians, which appear in the effective spin Hamiltonians (SH). The nature and properties of the CF (LF) Hamiltonians have been mixed up in various ways with those of the ZFS Hamiltonians. Such cases have been identified in a rapidly growing number of studies of the transition-ion based systems using electron magnetic resonance (EMR), optical spectroscopy, and magnetic measurements. These findings have far ranging implications since these Hamiltonians are cornerstones for interpretation of magnetic and spectroscopic properties of the single transition ions in various crystals or molecules as well as the exchange coupled systems (ECS) of transition ions, e.g. single molecule magnets (SMM) or single ion magnets (SIM). The seriousness of the consequences of such conceptual problems and related terminological confusions has reached a level that goes far beyond simple semantic issues or misleading keyword classifications of papers in journals and scientific databases. The prevailing confusion, denoted as the CF=ZFS confusion, pertains to the cases of labeling the true ZFS quantities as purportedly the CF (LF) quantities. Here we consider the inverse confusion between the CF (LF) quantities and the SH (ZFS) ones, denoted the ZFS=CF confusion, which consists in referring to the parameters (or Hamiltonians), which are the true CF (LF) quantities, as purportedly the ZFS (or SH) quantities. Specific cases of the ZFS=CF confusion identified in recent textbooks, reviews and papers, especially SMM- and SIM-related ones, are surveyed and the pertinent misconceptions are clarified. The serious consequences of the terminological confusions include misinterpretation of data from a wide range of experimental techniques and

  20. Time Series Measurements of Diffuse Hydrothermal Flow at the ASHES Vent Field Reveal Tidally Modulated Heat and Volume Flux

    NASA Astrophysics Data System (ADS)

    Mittelstaedt, E. L.; Fornari, D. J.; Crone, T. J.

    2015-12-01

    Existing time-series measurements of temperature and velocity of diffuse hydrothermal fluids exhibit variability over a range of periods from seconds to days. Frequency analysis of these measurements reveals differences between studies and field locations including nearly white spectra, as well as spectra with peaks at tidal and inertial periods. Based upon these results, previous authors have suggested several processes that may control diffuse flow rates, including tidally induced currents and 'tidal pumping', and have also suggested that there are no systematic controls. To further investigate the processes that control variability in diffuse flow, we use data from a new, deep-sea camera and temperature measurement system, the Diffuse Effluent Measurement System (DEMS), deployed during the July, 2014 cruise of the R/V Atlantis. The DEMS was deployed with DSV Alvin above a fracture network at the Phoenix vent within the ASHES vent field (Axial Seamount, 1541 mbsl). The system collected 20 seconds of imagery at 20 Hz and 24 seconds of temperature measurements at 1 Hz each hour over the period between July 22 and August 2nd. Velocities of the upwelling fluids were calculated using Diffuse Fluid Velocimetry (DFV; Mittelstaedt et al., 2010). DFV is a cross correlation technique that tracks moving index of refraction anomalies (i.e., hot parcels of fluid) through time. Over the ~12 day deployment, median flow rates ranged from 0.5 cm/s to 6 cm/s and mean fluid temperature anomalies from 0°C up to ~6.5°C, yielding an average heat flux density of 0.23 MW/m2. Spectral analysis of both the measured temperatures and calculated velocities yield a peak in normalized power at the semi-diurnal lunar period (M2, 12.4hrs), but no other spectral peaks above the 95% confidence level. Here, we present these results and discuss their implications for the tidal current and tidal pressure models of diffuse flow variability at the ASHES vent field.

  1. Random depth access full-field heterodyne low-coherence interferometry utilizing acousto-optic modulation and a complementary metaloxide semiconductor camera.

    PubMed

    Egan, Patrick; Connelly, Michael J; Lakestani, Fereydoun; Whelan, Maurice P

    2006-04-01

    With analog scanning, time-domain low-coherence interferometry lacks precise depth information, and optical carrier generation demands a linear scanning speed. Full-field heterodyne low-coherence interferometry that uses a logarithmic complementary metal-oxide semiconductor camera, acousto-optic modulation, and digital depth stepping is reported, with which random regions of interest, lateral and axial, can be accessed. Furthermore, nanometer profilometry is possible through heterodyne phase retrieval of the interference signal. The approach demonstrates inexpensive yet high-precision functional machine vision offering true digital random access in three dimensions.

  2. Neural Correlates of Correct and Errant Attentional Selection Revealed Through N2pc and Frontal Eye Field Activity

    PubMed Central

    Heitz, Richard P.; Cohen, Jeremiah Y.; Woodman, Geoffrey F.

    2010-01-01

    The goal of this study was to obtain a better understanding of the physiological basis of errors of visual search. Previous research has shown that search errors occur when visual neurons in the frontal eye field (FEF) treat distractors as if they were targets. We replicated this finding during an inefficient form search and extended it by measuring simultaneously a macaque homologue of an event-related potential indexing the allocation of covert attention known as the m-N2pc. Based on recent work, we expected errors of selection in FEF to propagate to areas of extrastriate cortex responsible for allocating attention and implicated in the generation of the m-N2pc. Consistent with this prediction, we discovered that when FEF neurons selected a distractor instead of the search target, the m-N2pc shifted in the same, incorrect direction prior to the erroneous saccade. This suggests that such errors are due to a systematic misorienting of attention from the initial stages of visual processing. Our analyses also revealed distinct neural correlates of false alarms and guesses. These results demonstrate that errant gaze shifts during visual search arise from errant attentional processing. PMID:20810692

  3. Evaluating coastal sea surface heights based on a novel sub-waveform approach using sparse representation and conditional random fields

    NASA Astrophysics Data System (ADS)

    Uebbing, Bernd; Roscher, Ribana; Kusche, Jürgen

    2016-04-01

    Satellite radar altimeters allow global monitoring of mean sea level changes over the last two decades. However, coastal regions are less well observed due to influences on the returned signal energy by land located inside the altimeter footprint. The altimeter emits a radar pulse, which is reflected at the nadir-surface and measures the two-way travel time, as well as the returned energy as a function of time, resulting in a return waveform. Over the open ocean the waveform shape corresponds to a theoretical model which can be used to infer information on range corrections, significant wave height or wind speed. However, in coastal areas the shape of the waveform is significantly influenced by return signals from land, located in the altimeter footprint, leading to peaks which tend to bias the estimated parameters. Recently, several approaches dealing with this problem have been published, including utilizing only parts of the waveform (sub-waveforms), estimating the parameters in two steps or estimating additional peak parameters. We present a new approach in estimating sub-waveforms using conditional random fields (CRF) based on spatio-temporal waveform information. The CRF piece-wise approximates the measured waveforms based on a pre-derived dictionary of theoretical waveforms for various combinations of the geophysical parameters; neighboring range gates are likely to be assigned to the same underlying sub-waveform model. Depending on the choice of hyperparameters in the CRF estimation, the classification into sub-waveforms can either be more fine or coarse resulting in multiple sub-waveform hypotheses. After the sub-waveforms have been detected, existing retracking algorithms can be applied to derive water heights or other desired geophysical parameters from particular sub-waveforms. To identify the optimal heights from the multiple hypotheses, instead of utilizing a known reference height, we apply a Dijkstra-algorithm to find the "shortest path" of all

  4. Micro-digitate Silica Structures on Earth and Mars: Potential Biosignatures Revealed in the Geyser Field of El Tatio, Chile

    NASA Astrophysics Data System (ADS)

    Ruff, S. W.; Farmer, J. D.

    2015-12-01

    Opaline silica outcrops and soil identified by the Spirit rover adjacent to "Home Plate" in Gusev crater are associated with a suite of geologic features that demonstrates that they are the products of a volcanic hydrothermal system, the first such example verified on Mars [1]. Fumarolic acid-sulfate leaching of basaltic precursor materials was suggested as the origin of the opaline silica, based largely on geochemical arguments. A more complete analysis by Ruff et al. [2] included stratigraphic and textural observations of the outcrops to advance the hypothesis of a hot spring and/or geyser-related origin under alkaline-neutral conditions; acid-sulfate leaching appears much less tenable. But the nodular expression of many of the outcrops and sub-cm-scale "digitate protrusions" they contain remained enigmatic, precluding a complete explanation for the silica. Now, new observations of silica deposits produced in small discharge channels from hot springs and geysers in a high elevation geothermal field known as El Tatio in the Atacama Desert of northern Chile reveal remarkably similar features, including infrared spectral characteristics and what we describe here as micro-digitate silica structures. We hypothesize that these structures at El Tatio arise through microbial mediation of silica precipitation, i.e., that they are microstromatolites and that they provide favorable environments for the capture and preservation of microbial biosignatures. Similar features have been identified among hot spring silica deposits in Yellowstone National Park, the Taupo Volcanic Zone of New Zealand, and Iceland [e.g., 3; 4; 5]. Our ongoing field and lab studies are intended provide a robust assessment of the biogenicity of the micro-digitate silica structures and other aspects of El Tatio silica sinter deposits and test their viability as direct analogs to similar features found among the Home Plate silica deposits on Mars. [1] Squyres, S. W., et al. (2008), Science, 320, 1063

  5. Endemism and diversification in freshwater insects of Madagascar revealed by coalescent and phylogenetic analysis of museum and field collections.

    PubMed

    Vuataz, Laurent; Sartori, Michel; Gattolliat, Jean-Luc; Monaghan, Michael T

    2013-03-01

    The biodiversity and endemism of Madagascar are among the most extraordinary and endangered in the world. This includes the island's freshwater biodiversity, although detailed knowledge of the diversity, endemism, and biogeographic origin of freshwater invertebrates is lacking. The aquatic immature stages of mayflies (Ephemeroptera) are widely used as bio-indicators and form an important component of Malagasy freshwater biodiversity. Many species are thought to be microendemics, restricted to single river basins in forested areas, making them particularly sensitive to habitat reduction and degradation. The Heptageniidae are a globally diverse family of mayflies (>500 species) but remain practically unknown in Madagascar except for two species described in 1996. The standard approach to understanding their diversity, endemism, and origin would require extensive field sampling on several continents and years of taxonomic work followed by phylogenetic analysis. Here we circumvent this using museum collections and freshly collected individuals in a combined approach of DNA taxonomy and phylogeny. The coalescent-based GMYC analysis of DNA barcode data (mitochondrial COI) revealed 14 putative species on Madagascar, 70% of which were microendemics. A phylogenetic analysis that included African and Asian species and data from two mitochondrial and four nuclear loci indicated the Malagasy Heptageniidae are monophyletic and sister to African species. The genus Compsoneuria is shown to be paraphyletic and the genus Notonurus is reinstalled for African and Malagasy species previously placed in Compsoneuria. A molecular clock excluded a Gondwanan vicariance origin and instead favoured a more recent overseas colonization of Madagascar. The observed monophyly and high microendemism highlight their conservation importance and suggest the DNA-based approach can rapidly provide information on the diversity, endemism, and origin of freshwater biodiversity. Our results underline the

  6. Three-dimensional scanning near field optical microscopy (3D-SNOM) imaging of random arrays of copper nanoparticles: implications for plasmonic solar cell enhancement.

    PubMed

    Ezugwu, Sabastine; Ye, Hanyang; Fanchini, Giovanni

    2015-01-07

    In order to investigate the suitability of random arrays of nanoparticles for plasmonic enhancement in the visible-near infrared range, we introduced three-dimensional scanning near-field optical microscopy (3D-SNOM) imaging as a useful technique to probe the intensity of near-field radiation scattered by random systems of nanoparticles at heights up to several hundred nm from their surface. We demonstrated our technique using random arrays of copper nanoparticles (Cu-NPs) at different particle diameter and concentration. Bright regions in the 3D-SNOM images, corresponding to constructive interference of forward-scattered plasmonic waves, were obtained at heights Δz ≥ 220 nm from the surface for random arrays of Cu-NPs of ∼ 60-100 nm in diameter. These heights are too large to use Cu-NPs in contact of the active layer for light harvesting in thin organic solar cells, which are typically no thicker than 200 nm. Using a 200 nm transparent spacer between the system of Cu-NPs and the solar cell active layer, we demonstrate that forward-scattered light can be conveyed in 200 nm thin film solar cells. This architecture increases the solar cell photoconversion efficiency by a factor of 3. Our 3D-SNOM technique is general enough to be suitable for a large number of other applications in nanoplasmonics.

  7. Hidden local symmetry of Eu{sup 3+} in xenotime-like crystals revealed by high magnetic fields

    SciTech Connect

    Han, Yibo; Ma, Zongwei; Zhang, Junpei; Wang, Junfeng; Du, Guihuan; Xia, Zhengcai; Han, Junbo Li, Liang; Yu, Xuefeng

    2015-02-07

    The excellent optical properties of europium-doped crystals in visible and near infrared wavelength regions enable them to have broad applications in optoelectronics, laser crystals and sensing devices. The local site crystal fields can affect the intensities and peak positions of the photo-emission lines strongly, but they are usually difficult to be clarified due to magnetically degenerate 4f electronic levels coupling with the crystal fields. Here, we provide an effective way to explore the hidden local symmetry of the Eu{sup 3+} sites in different hosts by taking photoluminescence measurements under pulsed high magnetic fields up to 46 T. The zero-field photoluminescence peaks split further at high magnetic fields when the Zeeman splitting energy is comparable to or larger than that of the crystal field induced zero-field splitting. In particular, a magnetic field induced crossover of the local crystal fields has been observed in the GdVO{sub 4}:Eu{sup 3+} crystal, which resulted from the alignment of Gd{sup 3+} magnetic moment in high magnetic fields; and a hexagonally symmetric local crystal fields was observed in the YPO{sub 4} nanocrystals at the Eu{sup 3+} sites characterized by the special axial and rhombic crystal field terms. These distinct Zeeman splitting behaviors uncover the crystal fields-related local symmetry of luminescent Eu{sup 3+} centers in different hosts or magnetic environments, which are significant for their applications in optics and optoelectronics.

  8. Parallelization of a spatial random field characterization process using the Method of Anchored Distributions and the HTCondor high throughput computing system

    NASA Astrophysics Data System (ADS)

    Osorio-Murillo, C. A.; Over, M. W.; Frystacky, H.; Ames, D. P.; Rubin, Y.

    2013-12-01

    A new software application called MAD# has been coupled with the HTCondor high throughput computing system to aid scientists and educators with the characterization of spatial random fields and enable understanding the spatial distribution of parameters used in hydrogeologic and related modeling. MAD# is an open source desktop software application used to characterize spatial random fields using direct and indirect information through Bayesian inverse modeling technique called the Method of Anchored Distributions (MAD). MAD relates indirect information with a target spatial random field via a forward simulation model. MAD# executes inverse process running the forward model multiple times to transfer information from indirect information to the target variable. MAD# uses two parallelization profiles according to computational resources available: one computer with multiple cores and multiple computers - multiple cores through HTCondor. HTCondor is a system that manages a cluster of desktop computers for submits serial or parallel jobs using scheduling policies, resources monitoring, job queuing mechanism. This poster will show how MAD# reduces the time execution of the characterization of random fields using these two parallel approaches in different case studies. A test of the approach was conducted using 1D problem with 400 cells to characterize saturated conductivity, residual water content, and shape parameters of the Mualem-van Genuchten model in four materials via the HYDRUS model. The number of simulations evaluated in the inversion was 10 million. Using the one computer approach (eight cores) were evaluated 100,000 simulations in 12 hours (10 million - 1200 hours approximately). In the evaluation on HTCondor, 32 desktop computers (132 cores) were used, with a processing time of 60 hours non-continuous in five days. HTCondor reduced the processing time for uncertainty characterization by a factor of 20 (1200 hours reduced to 60 hours.)

  9. The influence of the directional energy distribution on the nonlinear dispersion relation in a random gravity wave field

    NASA Technical Reports Server (NTRS)

    Huang, N. E.; Tung, C.-C.

    1977-01-01

    The influence of the directional distribution of wave energy on the dispersion relation is calculated numerically using various directional wave spectrum models. The results indicate that the dispersion relation varies both as a function of the directional energy distribution and the direction of propagation of the wave component under consideration. Furthermore, both the mean deviation and the random scatter from the linear approximation increase as the energy spreading decreases. Limited observational data are compared with the theoretical results. The agreement is favorable.

  10. Three-dimensional scanning near field optical microscopy (3D-SNOM) imaging of random arrays of copper nanoparticles: implications for plasmonic solar cell enhancement

    NASA Astrophysics Data System (ADS)

    Ezugwu, Sabastine; Ye, Hanyang; Fanchini, Giovanni

    2014-11-01

    In order to investigate the suitability of random arrays of nanoparticles for plasmonic enhancement in the visible-near infrared range, we introduced three-dimensional scanning near-field optical microscopy (3D-SNOM) imaging as a useful technique to probe the intensity of near-field radiation scattered by random systems of nanoparticles at heights up to several hundred nm from their surface. We demonstrated our technique using random arrays of copper nanoparticles (Cu-NPs) at different particle diameter and concentration. Bright regions in the 3D-SNOM images, corresponding to constructive interference of forward-scattered plasmonic waves, were obtained at heights Δz >= 220 nm from the surface for random arrays of Cu-NPs of ~60-100 nm in diameter. These heights are too large to use Cu-NPs in contact of the active layer for light harvesting in thin organic solar cells, which are typically no thicker than 200 nm. Using a 200 nm transparent spacer between the system of Cu-NPs and the solar cell active layer, we demonstrate that forward-scattered light can be conveyed in 200 nm thin film solar cells. This architecture increases the solar cell photoconversion efficiency by a factor of 3. Our 3D-SNOM technique is general enough to be suitable for a large number of other applications in nanoplasmonics.In order to investigate the suitability of random arrays of nanoparticles for plasmonic enhancement in the visible-near infrared range, we introduced three-dimensional scanning near-field optical microscopy (3D-SNOM) imaging as a useful technique to probe the intensity of near-field radiation scattered by random systems of nanoparticles at heights up to several hundred nm from their surface. We demonstrated our technique using random arrays of copper nanoparticles (Cu-NPs) at different particle diameter and concentration. Bright regions in the 3D-SNOM images, corresponding to constructive interference of forward-scattered plasmonic waves, were obtained at heights Δz >= 220

  11. Village sanitation and child health: Effects and external validity in a randomized field experiment in rural India.

    PubMed

    Hammer, Jeffrey; Spears, Dean

    2016-07-01

    Over a billion people worldwide defecate in the open, with important consequences for early-life health and human capital accumulation in developing countries. We report a cluster randomized controlled trial of a village sanitation intervention conducted in rural Maharashtra, India designed to identify an effect of village sanitation on average child height, an outcome of increasing importance to economists. We find an effect of approximately 0.3 height-for-age standard deviations, which is consistent with observations and hypotheses in economic and health literatures. We further exploit details of the planning and implementation of the experiment to study treatment heterogeneity and external validity.

  12. Meta-analysis of randomized controlled trials reveals an improved clinical outcome of using genotype plus clinical algorithm for warfarin dosing.

    PubMed

    Liao, Zhenqi; Feng, Shaoguang; Ling, Peng; Zhang, Guoqing

    2015-02-01

    Previous studies have raised interest in using the genotyping of CYP2C9 and VKORC1 to guide warfarin dosing. However, there is lack of solid evidence to prove that genotype plus clinical algorithm provides improved clinical outcomes than the single clinical algorithm. The results of recent reported clinical trials are paradoxical and needs to be systematically evaluated. In this study, we aim to assess whether genotype plus clinical algorithm of warfarin is superior to the single clinical algorithm through a meta-analysis of randomized controlled trials (RCTs). All relevant studies from PubMed and reference lists from Jan 1, 1995 to Jan 13, 2014 were extracted and screened. Eligible studies included randomized trials that compared clinical plus pharmacogenetic algorithms group to single clinical algorithm group using adult (≥ 18 years) patients with disease conditions that require warfarin use. We further used fix-effect models to calculate the mean difference or the risk ratios (RRs) and 95% CIs to analyze the extracted data. The statistical heterogeneity was calculated using I(2). The percentage of time within the therapeutic INR range was considered to be the primary clinical outcome. The initial search strategy identified 50 citations and 7 trials were eligible. These seven trials included 1,910 participants, including 960 patients who received genotype plus clinical algorithm of warfarin dosing and 950 patients who received clinical algorithm only. We discovered that the percentage of time within the therapeutic INR range of the genotype-guided group was improved compared with the standard group in the RCTs when the initial standard dose was fixed (95% CI 0.09-0.40; I(2) = 47.8%). However, for the studies using non-fixed initial doses, the genotype-guided group failed to exhibit statistically significant outcome compared to the standard group. No significant difference was observed in the incidences of adverse events (RR 0.94, 95% CI 0.84-1.04; I(2) = 0%, p

  13. Deep Sequencing of Random Mutant Libraries Reveals the Active Site of the Narrow Specificity CphA Metallo-β-Lactamase is Fragile to Mutations

    PubMed Central

    Sun, Zhizeng; Mehta, Shrenik C.; Adamski, Carolyn J.; Gibbs, Richard A.; Palzkill, Timothy

    2016-01-01

    CphA is a Zn2+-dependent metallo-β-lactamase that efficiently hydrolyzes only carbapenem antibiotics. To understand the sequence requirements for CphA function, single codon random mutant libraries were constructed for residues in and near the active site and mutants were selected for E. coli growth on increasing concentrations of imipenem, a carbapenem antibiotic. At high concentrations of imipenem that select for phenotypically wild-type mutants, the active-site residues exhibit stringent sequence requirements in that nearly all residues in positions that contact zinc, the substrate, or the catalytic water do not tolerate amino acid substitutions. In addition, at high imipenem concentrations a number of residues that do not directly contact zinc or substrate are also essential and do not tolerate substitutions. Biochemical analysis confirmed that amino acid substitutions at essential positions decreased the stability or catalytic activity of the CphA enzyme. Therefore, the CphA active - site is fragile to substitutions, suggesting active-site residues are optimized for imipenem hydrolysis. These results also suggest that resistance to inhibitors targeted to the CphA active site would be slow to develop because of the strong sequence constraints on function. PMID:27616327

  14. Screening of Random Peptide Library of Hemagglutinin from Pandemic 2009 A(H1N1) Influenza Virus Reveals Unexpected Antigenically Important Regions

    PubMed Central

    Xu, Wanghui; Han, Lu; Lin, Zhanglin

    2011-01-01

    The antigenic structure of the membrane protein hemagglutinin (HA) from the 2009 A(H1N1) influenza virus was dissected with a high-throughput screening method using complex antisera. The approach involves generating yeast cell libraries displaying a pool of random peptides of controllable lengths on the cell surface, followed by one round of fluorescence-activated cell sorting (FACS) against antisera from mouse, goat and human, respectively. The amino acid residue frequency appearing in the antigenic peptides at both the primary sequence and structural level was determined and used to identify “hot spots” or antigenically important regions. Unexpectedly, different antigenic structures were seen for different antisera. Moreover, five antigenic regions were identified, of which all but one are located in the conserved HA stem region that is responsible for membrane fusion. Our findings are corroborated by several recent studies on cross-neutralizing H1 subtype antibodies that recognize the HA stem region. The antigenic peptides identified may provide clues for creating peptide vaccines with better accessibility to memory B cells and better induction of cross-neutralizing antibodies than the whole HA protein. The scheme used in this study enables a direct mapping of the antigenic regions of viral proteins recognized by antisera, and may be useful for dissecting the antigenic structures of other viral proteins. PMID:21437206

  15. Phylogenomics of Xanthomonas field strains infecting pepper and tomato reveals diversity in effector repertoires and identifies determinants of host specificity

    PubMed Central

    Schwartz, Allison R.; Potnis, Neha; Timilsina, Sujan; Wilson, Mark; Patané, José; Martins, Joaquim; Minsavage, Gerald V.; Dahlbeck, Douglas; Akhunova, Alina; Almeida, Nalvo; Vallad, Gary E.; Barak, Jeri D.; White, Frank F.; Miller, Sally A.; Ritchie, David; Goss, Erica; Bart, Rebecca S.; Setubal, João C.; Jones, Jeffrey B.; Staskawicz, Brian J.

    2015-01-01

    Bacterial spot disease of pepper and tomato is caused by four distinct Xanthomonas species and is a severely limiting factor on fruit yield in these crops. The genetic diversity and the type III effector repertoires of a large sampling of field strains for this disease have yet to be explored on a genomic scale, limiting our understanding of pathogen evolution in an agricultural setting. Genomes of 67 Xanthomonas euvesicatoria (Xe), Xanthomonas perforans (Xp), and Xanthomonas gardneri (Xg) strains isolated from diseased pepper and tomato fields in the southeastern and midwestern United States were sequenced in order to determine the genetic diversity in field strains. Type III effector repertoires were computationally predicted for each strain, and multiple methods of constructing phylogenies were employed to understand better the genetic relationship of strains in the collection. A division in the Xp population was detected based on core genome phylogeny, supporting a model whereby the host-range expansion of Xp field strains on pepper is due, in part, to a loss of the effector AvrBsT. Xp-host compatibility was further studied with the observation that a double deletion of AvrBsT and XopQ allows a host range expansion for Nicotiana benthamiana. Extensive sampling of field strains and an improved understanding of effector content will aid in efforts to design disease resistance strategies targeted against highly conserved core effectors. PMID:26089818

  16. In vitro screening of compounds against laboratory and field isolates of human hookworm reveals quantitative differences in anthelmintic susceptibility.

    PubMed

    Treger, Rebecca S; Otchere, Joseph; Keil, Martin F; Quagraine, Josephine E; Rai, Ganesha; Mott, Bryan T; Humphries, Debbie L; Wilson, Michael; Cappello, Michael; Vermeire, Jon J

    2014-01-01

    A panel of 80 compounds was screened for anthelmintic activity against a laboratory strain of Ancylostoma ceylanicum and field isolates of hookworm obtained from school children in the Kintampo North District of the Brong Ahafo Region of Ghana. Although the laboratory strain of A. ceylanicum was more susceptible to the compounds tested than the field isolates of hookworm, a twofold increase in compound concentration resulted in comparable egg hatch percent inhibition for select compounds. These data provide evidence that the efficacy of anthelmintic compounds may be species-dependent and that field and laboratory strains of hookworm differ in their sensitivities to the anthelmintics tested. These data also suggest that both compound concentration and hookworm species must be considered when screening to identify novel anthelmintic compounds.

  17. Improvement of Triglyceride Levels through the Intake of Enriched-β-Conglycinin Soybean (Nanahomare) Revealed in a Randomized, Double-Blind, Placebo-Controlled Study

    PubMed Central

    Nishimura, Mie; Ohkawara, Tatsuya; Sato, Yuji; Satoh, Hiroki; Takahashi, Yoko; Hajika, Makita; Nishihira, Jun

    2016-01-01

    Soybean is recognized as a beneficial food with various functional components, such as β-conglycinin, which improves lipid metabolism. We evaluated the effects of the β-conglycinin-rich soybean Nanahomare on triglyceride (TG) levels. In this randomized, double-blind, placebo-controlled study, we divided 134 adult subjects into test and placebo groups that consumed processed food containing enriched-β-conglycinin soybean or low-β-conglycinin soybean. Hematological tests and body composition measurements were performed at weeks 0 (baseline), 4, 8, and 12 of the study period. TG levels significantly decreased in the test group compared with the placebo group at weeks 4 (change from baseline to week 4, placebo: 0.27 ± 44.13 mg/dL, test: −20.31 ± 43.74 mg/dL, p = 0.035) and 12 (change from baseline to week 12, placebo: −0.14 ± 65.83 mg/dL, test: −21.30 ± 46.21 mg/dL, p = 0.041). In addition, among subjects whose baseline TG levels were ≥100 mg/dL, the levels significantly improved in the test group at weeks 4 (p = 0.010) and 12 (p = 0.030), whereas the levels were not different between the test and placebo groups among those whose baseline levels were <100 mg/dL. These results suggest that the ingestion of enriched-β-conglycinin soybean improves serum TG levels. PMID:27529274

  18. Statistical description of the motion of dislocation kinks in a random field of impurities adsorbed by a dislocation

    SciTech Connect

    Petukhov, B. V.

    2010-01-15

    A model has been proposed for describing the influence of impurities adsorbed by dislocation cores on the mobility of dislocation kinks in materials with a high crystalline relief (Peierls barriers). The delay time spectrum of kinks at statistical fluctuations of the impurity density has been calculated for a sufficiently high energy of interaction between impurities and dislocations when the migration potential is not reduced to a random Gaussian potential. It has been shown that fluctuations in the impurity distribution substantially change the character of the migration of dislocation kinks due to the slow decrease in the probability of long delay times. The dependences of the position of the boundary of the dynamic phase transition to a sublinear drift of kinks x {proportional_to} t{sup {delta}} ({delta} {sigma} 1) and the characteristics of the anomalous mobility on the physical parameters (stress, impurity concentration, experimental temperature, etc.) have been calculated.

  19. Randomized trial for superiority of high field strength intra-operative magnetic resonance imaging guided resection in pituitary surgery.

    PubMed

    Tandon, Vivek; Raheja, Amol; Suri, Ashish; Chandra, P Sarat; Kale, Shashank S; Kumar, Rajinder; Garg, Ajay; Kalaivani, Mani; Pandey, Ravindra M; Sharma, Bhawani S

    2017-03-01

    Till date there are no randomized trials to suggest the superiority of intra-operative magnetic resonance imaging (IOMRI) guided trans-sphenoidal pituitary resection over two dimensional fluoroscopic (2D-F) guided resections. We conducted this trial to establish the superiority of IOMRI in pituitary surgery. Primary objective was to compare extent of tumor resection between the two study arms. It was a prospective, randomized, outcome assessor and statistician blinded, two arm (A: IOMRI, n=25 and B: 2D-F, n=25), parallel group clinical trial. 4 patients from IOMRI group cross-over to 2D-F group and were consequently analyzed in latter group, based on modified intent to treat method. A total of 50 patients were enrolled till completion of trial (n=25 in each study arm). Demographic profile and baseline parameters were comparable among the two arms (p>0.05) except for higher number of endoscopic procedures and experienced neurosurgeons (>10years) in arm B (p=0.02, 0.002 respectively). Extent of resection was similar in both study arms (A, 94.9% vs B, 93.6%; p=0.78), despite adjusting for experience of operating surgeon and use of microscope/endoscope for surgical resection. We observed that use of IOMRI helped optimize the extent of resection in 5/20 patients (25%) for pituitary tumor resection in-group A. Present study failed to observe superiorty of IOMRI over conventional 2D-F guided resection in pituitary macroadenoma surgery. By use of this technology, younger surgeons could validate their results intra-operatively and hence could increase EOR without causing any increase in complications.

  20. Comparison of Haemophilus parasuis reference strains and field isolates by using random amplified polymorphic DNA and protein profiles

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Haemophilus parasuis is the causative agent of Glässer’s disease and is a pathogen of swine in high-health status herds. Reports on serotyping of field strains from outbreaks describe that approximately 30% of them are nontypable and therefore cannot be traced. Molecular typing methods have been use...

  1. Lessons Learned from the Use of Randomized and Quasi-Experimental Field Designs for the Evaluation of Educational Programs

    ERIC Educational Resources Information Center

    Rudd, Andy; Johnson, R. Burke

    2008-01-01

    As a result of the federal No Child Left Behind Act (NCLB) of 2002, the field of education has seen a heavy emphasis on the use of "scientifically based research" for designing and testing the effectiveness of new and existing educational programs. According to NCLB, when addressing basic cause and effect questions scientifically based…

  2. A Combined Motivation and Parent-Child Interaction Therapy Package Reduces Child Welfare Recidivism in a Randomized Dismantling Field Trial

    ERIC Educational Resources Information Center

    Chaffin, Mark; Funderburk, Beverly; Bard, David; Valle, Linda Anne; Gurwitch, Robin

    2011-01-01

    Objective: A package of parent-child interaction therapy (PCIT) combined with a self-motivational (SM) orientation previously was found in a laboratory trial to reduce child abuse recidivism compared with services as usual (SAU). Objectives of the present study were to test effectiveness in a field agency rather than in a laboratory setting and to…

  3. Influence of the aspect ratio and boundary conditions on universal finite-size scaling functions in the athermal metastable two-dimensional random field Ising model.

    PubMed

    Navas-Portella, Víctor; Vives, Eduard

    2016-02-01

    This work studies universal finite size scaling functions for the number of one-dimensional spanning avalanches in a two-dimensional (2D) disordered system with boundary conditions of different nature and different aspect ratios. To this end, we will consider the 2D random field Ising model at T=0 driven by the external field H with athermal dynamics implemented with periodic and forced boundary conditions. We have chosen a convenient scaling variable z that accounts for the deformation of the distance to the critical point caused by the aspect ratio. In addition, assuming that the dependence of the finite size scaling functions on the aspect ratio can be accounted for by an additional multiplicative factor, we have been able to collapse data for different system sizes, different aspect ratios, and different types of the boundary conditions into a single scaling function Q̂.

  4. Cubic-scaling algorithm and self-consistent field for the random-phase approximation with second-order screened exchange.

    PubMed

    Moussa, Jonathan E

    2014-01-07

    The random-phase approximation with second-order screened exchange (RPA+SOSEX) is a model of electron correlation energy with two caveats: its accuracy depends on an arbitrary choice of mean field, and it scales as O(n(5)) operations and O(n(3)) memory for n electrons. We derive a new algorithm that reduces its scaling to O(n(3)) operations and O(n(2)) memory using controlled approximations and a new self-consistent field that approximates Brueckner coupled-cluster doubles theory with RPA+SOSEX, referred to as Brueckner RPA theory. The algorithm comparably reduces the scaling of second-order Mo̸ller-Plesset perturbation theory with smaller cost prefactors than RPA+SOSEX. Within a semiempirical model, we study H2 dissociation to test accuracy and Hn rings to verify scaling.

  5. Spatial inhomogeneity in RFeAs(O,F)(R=Pr,Nd) as revealed by studies of the rare earth crystal field excitations

    SciTech Connect

    Goremychkin, E. A.; Osborn, R.; Wang, Cuihuan; Lumsden, Mark D; McGuire, Michael A; Safa-Sefat, Athena; Sales, Brian C; Mandrus, David; Ronnow, H. M.; Su, Y.; Christianson, Andrew D

    2011-01-01

    We report inelastic neutron-scattering measurements of crystal-field transitions in PrFeAsO, PrFeAsO{sub 0.87}F{sub 0.13}, and NdFeAsO{sub 0.85}F{sub 0.15}. Doping with fluorine produces additional crystal-field excitations, providing evidence that there are two distinct charge environments around the rare-earth ions, with probabilities that are consistent with a random distribution of dopants on the oxygen sites. The 4f electrons of the Pr{sup 3+} and Nd{sup 3+} ions have nonmagnetic and magnetic ground states, respectively, indicating that the enhancement of T{sub c} compared to LaFeAsO{sub 1-x}F{sub x} is not due to rare-earth magnetism.

  6. A Scintilla of Unified Field Mechanics Revealed by a Conceptual Integration of New Fundamental Elements Associated With Wavepacket Dispersion

    NASA Astrophysics Data System (ADS)

    Amoroso, Richard L.; Dunning-Davies, Jeremy

    2013-09-01

    A third regime is proposed in the natural progression of the description of the physical world - Classical to Quantum to Unified Field (UF) Mechanics. We describe the new conceptual panoply and propose an experimental method to falsify the new UF hypotheses. Like Penzias & Wilson wondering if bird droppings affected their antenna we describe a serendipitous insight into wavepacket dispersion of 1800 MHz telecommunication em-waves in the arena where signal strength attenuates periodically by factors attributed to perceived properties that we postulate can only be mediated by UF mechanics. Salient suggested elements include extended geometrodynamics (duality of Newton's instantaneous and Einstein's relativistic models), Solar dynamo activity, geomagnetic phenomena, seasonal precession of the Earth's axis, near - far field: geomagnetic core dynamo - solar scale-invariant wavepacket dispersion coupling and longitudinal em components. This UF model putatively also provides an indirect measure of photon mass.

  7. Mercury's gravity field, tidal Love number k2, and spin axis orientation revealed with MESSENGER radio tracking data

    NASA Astrophysics Data System (ADS)

    Verma, A. K.; Margot, J. L.

    2015-12-01

    We are conducting an independent analysis of two-way Doppler and two-way range radio tracking data from the MESSENGER spacecraft in orbit around Mercury from 2011 to 2015. Our goals are to estimate Mercury's gravity field and to obtain independent estimates of the tidal Love number k2 and spin axis orientation. Our gravity field solution reproduces existing values with high fidelity, and prospects for recovery of the other quantities are excellent. The tidal Love number k2 provides powerful constraints on interior models of Mercury, including the mechanical properties of the mantle and the possibility of a solid FeS layer at the top of the core. Current gravity analyses cannot rule out a wide range of values (k2=43-0.50) and a variety of plausible interior models. We are seeking an independent estimate of tidal Love number k2 with improved errors to further constrain these models. Existing gravity-based solutions for Mercury's spin axis orientation differ from those of Earth-based radar and topography-based solutions. This difference may indicate an error in one of the determinations, or a real difference between the orientations about which the gravity field and the crust rotate, which can exist in a variety of plausible configuration. Securing an independent estimate of the spin axis orientation is vital because this quantity has a profound impact on the determination of the moment of inertia and interior models. We have derived a spherical harmonic solution of the gravity field to degree and order 40 as well as estimates of the tidal Love number k2 and spin axis orientation.

  8. Mercury’s gravity field, tidal Love number k2, and spin axis orientation revealed with MESSENGER radio tracking data

    NASA Astrophysics Data System (ADS)

    Verma, Ashok Kumar; Margot, Jean-Luc

    2015-11-01

    We are conducting an independent analysis of two-way Doppler and two-way range radio tracking data from the MESSENGER spacecraft in orbit around Mercury from 2011 to 2015. Our goals are to estimate Mercury’s gravity field and to obtain independent estimates of the tidal Love number k2 and spin axis orientation. Our gravity field solution reproduces existing values with high fidelity, and prospects for recovery of the other quantities are excellent.The tidal Love number k2 provides powerful constraints on interior models of Mercury, including the mechanical properties of the mantle and the possibility of a solid FeS layer at the top of the core. Current gravity analyses cannot rule out a wide range of values (k2=43-0.50) and a variety of plausible interior models. We are seeking an independent estimate of tidal Love number k2 with improved errors to further constrain these models.Existing gravity-based solutions for Mercury's spin axis orientation differ from those of Earth-based radar and topography-based solutions. This difference may indicate an error in one of the determinations, or a real difference between the orientations about which the gravity field and the crust rotate, which can exist in a variety of plausible configuration. Securing an independent estimate of the spin axis orientation is vital because this quantity has a profound impact on the determination of the moment of inertia and interior models.We have derived a spherical harmonic solution of the gravity field to degree and order 40 as well as estimates of the tidal Love number k2 and spin axis orientation

  9. A cluster randomized control field trial of the ABRACADABRA web-based reading technology: replication and extension of basic findings

    PubMed Central

    Piquette, Noella A.; Savage, Robert S.; Abrami, Philip C.

    2014-01-01

    The present paper reports a cluster randomized control trial evaluation of teaching using ABRACADABRA (ABRA), an evidence-based and web-based literacy intervention (http://abralite.concordia.ca) with 107 kindergarten and 96 grade 1 children in 24 classes (12 intervention 12 control classes) from all 12 elementary schools in one school district in Canada. Children in the intervention condition received 10–12 h of whole class instruction using ABRA between pre- and post-test. Hierarchical linear modeling of post-test results showed significant gains in letter-sound knowledge for intervention classrooms over control classrooms. In addition, medium effect sizes were evident for three of five outcome measures favoring the intervention: letter-sound knowledge (d= +0.66), phonological blending (d = +0.52), and word reading (d = +0.52), over effect sizes for regular teaching. It is concluded that regular teaching with ABRA technology adds significantly to literacy in the early elementary years. PMID:25538663

  10. Anisotropy of magnetic susceptibility in diamagnetic limestones reveals deflection of the strain field near the Dead Sea Fault, northern Israel

    NASA Astrophysics Data System (ADS)

    Issachar, R.; Levi, T.; Marco, S.; Weinberger, R.

    2015-08-01

    To exploit the potential of anisotropy of magnetic susceptibility (AMS) as a tool to estimate the strain field around major faults, we measured the AMS of calcite-bearing diamagnetic rocks that crop out next to the Dead Sea Fault (DSF) in northern Israel. Through integrated magnetic and geochemical methods we found that the rocks are almost pure calcite rocks and therefore the magnetic fabric is primarily controlled by preferred crystallographic orientation (PCO) with the minimum principal AMS axes (k3) parallel to calcite c-axes. We applied a separation procedure in several samples with high Fe content in order to calculate the AMS anisotropy parameters and compare them to pure diamagnetic rocks. AARM, thermo-susceptibility curves and IRM were used to characterize the magnetic phases. We found that for Fe content below 500 ppm the AMS is mostly controlled by the diamagnetic phase and showed that differences in the degree of anisotropy P' up to 3% (P' = 1.005 to 1.023) and in anisotropy difference Δk (up to ~ 0.25 × 10- 6 SI) in diamagnetic rocks are related to differences of strain magnitudes. The spatial distribution of the magnetic fabrics indicates ~ N-S maximum shortening parallel to the strike of the Hula Western Border fault (HWBF), one of the main strands of the DSF in northern Israel. The anisotropy parameters suggest that the strain magnitudes increase eastward with the proximity to the HWBF. These results suggest that the strain field near the HWBF is locally deflected as a consequence of the DSF activity. In light of the "fault weakness" model and geological setting of the study area, we suggest that the area accommodates dominant transtension during the Pleistocene. The present study demonstrates the useful application of AMS measurements in "iron-free" limestones as recorders of the strain field near plate boundaries.

  11. Soybean cyst nematode culture collections and field populations from North Carolina and Missouri reveal high incidences of infection by viruses

    PubMed Central

    Ruark, Casey L.; Koenning, Stephen R.; Davis, Eric L.; Opperman, Charles H.; Lommel, Steven A.; Mitchum, Melissa G.; Sit, Tim L.

    2017-01-01

    Five viruses were previously discovered infecting soybean cyst nematodes (SCN; Heterodera glycines) from greenhouse cultures maintained in Illinois. In this study, the five viruses [ScNV, ScPV, ScRV, ScTV, and SbCNV-5] were detected within SCN greenhouse and field populations from North Carolina (NC) and Missouri (MO). The prevalence and titers of viruses in SCN from 43 greenhouse cultures and 25 field populations were analyzed using qRT-PCR. Viral titers within SCN greenhouse cultures were similar throughout juvenile development, and the presence of viral anti-genomic RNAs within egg, second-stage juvenile (J2), and pooled J3 and J4 stages suggests active viral replication within the nematode. Viruses were found at similar or lower levels within field populations of SCN compared with greenhouse cultures of North Carolina populations. Five greenhouse cultures harbored all five known viruses whereas in most populations a mixture of fewer viruses was detected. In contrast, three greenhouse cultures of similar descent to one another did not possess any detectable viruses and primarily differed in location of the cultures (NC versus MO). Several of these SCN viruses were also detected in Heterodera trifolii (clover cyst) and Heterodera schachtii (beet cyst), but not the other cyst, root-knot, or reniform nematode species tested. Viruses were not detected within soybean host plant tissue. If nematode infection with viruses is truly more common than first considered, the potential influence on nematode biology, pathogenicity, ecology, and control warrants continued investigation. PMID:28141854

  12. Ultrashort Single-Wall Carbon Nanotubes Reveal Field-Emission Coulomb Blockade and Highest Electron-Source Brightness

    NASA Astrophysics Data System (ADS)

    Pascale-Hamri, A.; Perisanu, S.; Derouet, A.; Journet, C.; Vincent, P.; Ayari, A.; Purcell, S. T.

    2014-03-01

    We present here well-defined Coulomb staircases using an original field-emission experiment on several individual in situ—grown single-wall carbon nanotubes. A unique in situ process was applied nine times to progressively shorten one single-wall carbon nanotube down to ≃10 nm, which increased the oscillations periods from 5.5 to 80 V, the temperature for observable Coulomb staircase to 1100 K and the currents to 1.8 μA. This process led to the brightest electron source ever reported [9×1011 A/(str m2 V)].

  13. Te inclusion-induced electrical field perturbation in CdZnTe single crystals revealed by Kelvin probe force microscopy.

    PubMed

    Gu, Yaxu; Jie, Wanqi; Li, Linglong; Xu, Yadong; Yang, Yaodong; Ren, Jie; Zha, Gangqiang; Wang, Tao; Xu, Lingyan; He, Yihui; Xi, Shouzhi

    2016-09-01

    To understand the effects of tellurium (Te) inclusions on the device performance of CdZnTe radiation detectors, the perturbation of the electrical field in and around Te inclusions was studied in CdZnTe single crystals via Kelvin probe force microscopy (KPFM). Te inclusions were proved to act as lower potential centers with respect to surrounding CdZnTe matrix. Based on the KPFM results, the energy band diagram at the Te/CdZnTe interface was established, and the bias-dependent effects of Te inclusion on carrier transportation is discussed.

  14. Sun-induced chlorophyll fluorescence reveals strong representation of photosynthesis at ecosystem level in rice paddy field in Japan

    NASA Astrophysics Data System (ADS)

    Kato, T.; Tsujimoto, K.; Nasahara, K. N.; Akitsu, T.; Ono, K.; Miyata, A.

    2015-12-01

    Chlorophyll fluorescence emission from ecosystem induced by sunlight (Sun-Induced Fluorescence: SIF) is now a key factor to accurately estimate the ecosystem-level photosynthesis activity as suggested by satellite studies, and has been recently detected by satellites [Frankenberg et al., 2011; Guanter et al., 2012; Joiner et al., 2013] and measured at field stations [Daumard et al., 2010; Porcar-Castell, 2011]. However, the few example of field-based assessment on the representation ability reduces its value for the availability to better understand the dynamics in CO2uptake by land ecosystem. To elucidate the potential of SIF to estimate ecosystem GPP in typical Asian crop type, the canopy-top SIF was calculated from the spectrum data in Japanese rice paddy field in Mase in central Japan (36°03'N, 140°01'E, 11 m a.s.l.), and compared with eddy-tower measured GPP on half-hourly and daily bases during seven years from 2006 to 2012. The rice (Oriza sativa L.; cultivar Koshihikari) was transplanted in May and harvested in September normally. The SIF was estimated from the spectrums of downward Sun irradiance and upward canopy-reflected radiance measured at the height of 3m above ground by HemiSpherical Spectro-Radiometer (HSSR), consisting of the spectroradiometer (MS-700, Eko inc., Tokyo, Japan) with the full-width at half maximum (FWHM) of 10 nm and wavelength interval of 3.3 nm. The SIF around 760nm (O2-A band: Fs760) was calculated according to the Fraunhofer Line Depth principle [Maier et al., 2003] with several additional arrangements. The GPP increased almost linearly as both Fs760 and APAR (Absorbed Photosyntethically Active Radiation) increased based on monthly-averaged diurnal courses during the growing season in 2006. The slopes of their regression lines differed much among the months in APAR, but in Fs760. These nearly constant relationships among the months between GPP and Fs760 were kept for all the observation years. Daily averaged GPP and Fs760

  15. The Plasma Structure of a Long-lasting Sigmoid as Revealed by Hinode and Magnetic Field Modeling

    NASA Astrophysics Data System (ADS)

    Stefanova Savcheva, Antonia

    2015-04-01

    We present multi-thermal observations from Hinode/XRT and EIS plasma diagnostics over a large part of the lifetime of a long-lasting sigmoid observed between Dec 05 and Dec 07, 2007. This region is the best observationally covered sigmoidal region by XRT and EIS simultaneously. We analyze EIS/XRT thermal maps as well EIS Doppler velocity, density and non-thermal width (NTW) maps in conjunction with non-linear force-free field (NLFFF) models constrained by the XRT data. We show that material accumulates in the dips oftwisted flux rope field lines, the temperature is enhanced at the locations of strong current concentrations in the model, and NTWs are enhanced at the outskirts of the region coinciding with large-scale QSLs that envelope the region. We follow the evolution of these plasma parameters and the filed lines from the best-fit NLFFF models in time and space leading to the flare on Dec 07, 2007.

  16. Evidence against a mean field description of short-range spin glasses revealed through thermal boundary conditions

    NASA Astrophysics Data System (ADS)

    Machta, Jonathan; Wang, Wenlong; Katzgraber, Helmut

    2015-03-01

    A theoretical description of the low-temperature phase of short-range spin glasses has remained elusive for decades. It is not known if there is a single pair of pure states as predicted by the droplet model, or infinitely many pure states, as predicted by mean field theory. Here we study the three-dimensional Edwards-Anderson Ising spin glass in thermal boundary conditions using population annealing Monte Carlo. In thermal boundary conditions all eight combinations of periodic vs antiperiodic boundary conditions in the three spatial directions appear in the ensemble with their respective Boltzmann weights, thus minimizing finite-size corrections due to domain walls. From the relative weighting of the eight boundary conditions for each disorder instance a sample stiffness is defined, and its typical value is shown to grow with system size according to a stiffness exponent. An extrapolation to the large-system-size limit is consistent with a single pair of pure states in every volume but incompatible with the mean field, replica symmetry breaking picture. Supported in part by NSF DMR-1151387 and DMR-1208046.

  17. Understanding how the brain changes its mind: microstimulation in the macaque frontal eye field reveals how saccade plans are changed.

    PubMed

    Ramakrishnan, Arjun; Sureshbabu, Ramakrishnan; Murthy, Aditya

    2012-03-28

    Accumulator models that integrate incoming sensory information into motor plans provide a robust framework to understand decision making. However, their applicability to situations that demand a change of plan raises an interesting problem for the brain. This is because interruption of the current motor plan must occur by a competing motor plan, which is necessarily weaker in strength. To understand how changes of mind get expressed in behavior, we used a version of the double-step task called the redirect task, in which monkeys were trained to modify a saccade plan. We microstimulated the frontal eye fields during redirect behavior and systematically measured the deviation of the evoked saccade from the response field to causally track the changing saccade plan. Further, to identify the underlying mechanisms, eight different computational models of redirect behavior were assessed. It was observed that the model that included an independent, spatially specific inhibitory process, in addition to the two accumulators representing the preparatory processes of initial and final motor plans, best predicted the performance and the pattern of saccade deviation profile in the task. Such an inhibitory process suppressed the preparation of the initial motor plan, allowing the final motor plan to proceed unhindered. Thus, changes of mind are consistent with the notion of a spatially specific, inhibitory process that inhibits the current inappropriate plan, allowing expression of the new plan.

  18. Evidence against a mean-field description of short-range spin glasses revealed through thermal boundary conditions

    NASA Astrophysics Data System (ADS)

    Wang, Wenlong; Machta, Jonathan; Katzgraber, Helmut G.

    2014-11-01

    A theoretical description of the low-temperature phase of short-range spin glasses has remained elusive for decades. In particular, it is unclear if theories that assert a single pair of pure states, or theories that are based on infinitely many pure states—such as replica symmetry breaking—best describe realistic short-range systems. To resolve this controversy, the three-dimensional Edwards-Anderson Ising spin glass in thermal boundary conditions is studied numerically using population annealing Monte Carlo. In thermal boundary conditions all eight combinations of periodic vs antiperiodic boundary conditions in the three spatial directions appear in the ensemble with their respective Boltzmann weights, thus minimizing finite-size corrections due to domain walls. From the relative weighting of the eight boundary conditions for each disorder instance a sample stiffness is defined, and its typical value is shown to grow with system size according to a stiffness exponent. An extrapolation to the large-system-size limit is in agreement with a description that supports the droplet picture and other theories that assert a single pair of pure states. The results are, however, incompatible with the mean-field replica symmetry breaking picture, thus highlighting the need to go beyond mean-field descriptions to accurately describe short-range spin-glass systems.

  19. On Gaussian random supergravity

    NASA Astrophysics Data System (ADS)

    Bachlechner, Thomas C.

    2014-04-01

    We study the distribution of metastable vacua and the likelihood of slow roll inflation in high dimensional random landscapes. We consider two examples of landscapes: a Gaussian random potential and an effective supergravity potential defined via a Gaussian random superpotential and a trivial Kähler potential. To examine these landscapes we introduce a random matrix model that describes the correlations between various derivatives and we propose an efficient algorithm that allows for a numerical study of high dimensional random fields. Using these novel tools, we find that the vast majority of metastable critical points in N dimensional random supergravities are either approximately supersymmetric with | F| ≪ M susy or supersymmetric. Such approximately supersymmetric points are dynamical attractors in the landscape and the probability that a randomly chosen critical point is metastable scales as log( P ) ∝ - N. We argue that random supergravities lead to potentially interesting inflationary dynamics.

  20. Auditory evoked fields measured noninvasively with small-animal MEG reveal rapid repetition suppression in the guinea pig

    PubMed Central

    Christianson, G. Björn; Chait, Maria; de Cheveigné, Alain

    2014-01-01

    In animal models, single-neuron response properties such as stimulus-specific adaptation have been described as possible precursors to mismatch negativity, a human brain response to stimulus change. In the present study, we attempted to bridge the gap between human and animal studies by characterising responses to changes in the frequency of repeated tone series in the anesthetised guinea pig using small-animal magnetoencephalography (MEG). We showed that 1) auditory evoked fields (AEFs) qualitatively similar to those observed in human MEG studies can be detected noninvasively in rodents using small-animal MEG; 2) guinea pig AEF amplitudes reduce rapidly with tone repetition, and this AEF reduction is largely complete by the second tone in a repeated series; and 3) differences between responses to the first (deviant) and later (standard) tones after a frequency transition resemble those previously observed in awake humans using a similar stimulus paradigm. PMID:25231619