Persistent topological features of dynamical systems
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Maletić, Slobodan, E-mail: slobodan@hitsz.edu.cn [Shenzhen Graduate School, Harbin Institute of Technology, Shenzhen (China); Institute of Nuclear Sciences Vinča, University of Belgrade, Belgrade (Serbia); Zhao, Yi, E-mail: zhao.yi@hitsz.edu.cn [Shenzhen Graduate School, Harbin Institute of Technology, Shenzhen (China); Rajković, Milan, E-mail: milanr@vinca.rs [Institute of Nuclear Sciences Vinča, University of Belgrade, Belgrade (Serbia)
2016-05-15
Inspired by an early work of Muldoon et al., Physica D 65, 1–16 (1993), we present a general method for constructing simplicial complex from observed time series of dynamical systems based on the delay coordinate reconstruction procedure. The obtained simplicial complex preserves all pertinent topological features of the reconstructed phase space, and it may be analyzed from topological, combinatorial, and algebraic aspects. In focus of this study is the computation of homology of the invariant set of some well known dynamical systems that display chaotic behavior. Persistent homology of simplicial complex and its relationship with the embedding dimensions are examined by studying the lifetime of topological features and topological noise. The consistency of topological properties for different dynamic regimes and embedding dimensions is examined. The obtained results shed new light on the topological properties of the reconstructed phase space and open up new possibilities for application of advanced topological methods. The method presented here may be used as a generic method for constructing simplicial complex from a scalar time series that has a number of advantages compared to the mapping of the same time series to a complex network.
Identifying significant environmental features using feature recognition.
2015-10-01
The Department of Environmental Analysis at the Kentucky Transportation Cabinet has expressed an interest in feature-recognition capability because it may help analysts identify environmentally sensitive features in the landscape, : including those r...
Classification of interstitial lung disease patterns with topological texture features
Huber, Markus B.; Nagarajan, Mahesh; Leinsinger, Gerda; Ray, Lawrence A.; Wismüller, Axel
2010-03-01
Topological texture features were compared in their ability to classify morphological patterns known as 'honeycombing' that are considered indicative for the presence of fibrotic interstitial lung diseases in high-resolution computed tomography (HRCT) images. For 14 patients with known occurrence of honey-combing, a stack of 70 axial, lung kernel reconstructed images were acquired from HRCT chest exams. A set of 241 regions of interest of both healthy and pathological (89) lung tissue were identified by an experienced radiologist. Texture features were extracted using six properties calculated from gray-level co-occurrence matrices (GLCM), Minkowski Dimensions (MDs), and three Minkowski Functionals (MFs, e.g. MF.euler). A k-nearest-neighbor (k-NN) classifier and a Multilayer Radial Basis Functions Network (RBFN) were optimized in a 10-fold cross-validation for each texture vector, and the classification accuracy was calculated on independent test sets as a quantitative measure of automated tissue characterization. A Wilcoxon signed-rank test was used to compare two accuracy distributions and the significance thresholds were adjusted for multiple comparisons by the Bonferroni correction. The best classification results were obtained by the MF features, which performed significantly better than all the standard GLCM and MD features (p < 0.005) for both classifiers. The highest accuracy was found for MF.euler (97.5%, 96.6%; for the k-NN and RBFN classifier, respectively). The best standard texture features were the GLCM features 'homogeneity' (91.8%, 87.2%) and 'absolute value' (90.2%, 88.5%). The results indicate that advanced topological texture features can provide superior classification performance in computer-assisted diagnosis of interstitial lung diseases when compared to standard texture analysis methods.
Identifying Two-Dimensional Z 2 Antiferromagnetic Topological Insulators
Bègue, F.; Pujol, P.; Ramazashvili, R.
2018-01-01
We revisit the question of whether a two-dimensional topological insulator may arise in a commensurate Néel antiferromagnet, where staggered magnetization breaks the symmetry with respect to both elementary translation and time reversal, but retains their product as a symmetry. In contrast to the so-called Z 2 topological insulators, an exhaustive characterization of antiferromagnetic topological phases with the help of topological invariants has been missing. We analyze a simple model of an antiferromagnetic topological insulator and chart its phase diagram, using a recently proposed criterion for centrosymmetric systems [13]. We then adapt two methods, originally designed for paramagnetic systems, and make antiferromagnetic topological phases manifest. The proposed methods apply far beyond the particular examples treated in this work, and admit straightforward generalization. We illustrate this by two examples of non-centrosymmetric systems, where no simple criteria have been known to identify topological phases. We also present, for some cases, an explicit construction of edge states in an antiferromagnetic topological insulator.
Discriminative topological features reveal biological network mechanisms
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Levovitz Chaya
2004-11-01
Full Text Available Abstract Background Recent genomic and bioinformatic advances have motivated the development of numerous network models intending to describe graphs of biological, technological, and sociological origin. In most cases the success of a model has been evaluated by how well it reproduces a few key features of the real-world data, such as degree distributions, mean geodesic lengths, and clustering coefficients. Often pairs of models can reproduce these features with indistinguishable fidelity despite being generated by vastly different mechanisms. In such cases, these few target features are insufficient to distinguish which of the different models best describes real world networks of interest; moreover, it is not clear a priori that any of the presently-existing algorithms for network generation offers a predictive description of the networks inspiring them. Results We present a method to assess systematically which of a set of proposed network generation algorithms gives the most accurate description of a given biological network. To derive discriminative classifiers, we construct a mapping from the set of all graphs to a high-dimensional (in principle infinite-dimensional "word space". This map defines an input space for classification schemes which allow us to state unambiguously which models are most descriptive of a given network of interest. Our training sets include networks generated from 17 models either drawn from the literature or introduced in this work. We show that different duplication-mutation schemes best describe the E. coli genetic network, the S. cerevisiae protein interaction network, and the C. elegans neuronal network, out of a set of network models including a linear preferential attachment model and a small-world model. Conclusions Our method is a first step towards systematizing network models and assessing their predictability, and we anticipate its usefulness for a number of communities.
Gravity Model for Topological Features on a Cylindrical Manifold
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Bayak I.
2008-04-01
Full Text Available A model aimed at understanding quantum gravity in terms of Birkho’s approach is discussed. The geometry of this model is constructed by using a winding map of Minkowski space into a R3 S1 -cylinder. The basic field of this model is a field of unit vectors defined through the velocity field of a flow wrapping the cylinder. The degeneration of some parts of the flow into circles (topological features results in in- homogeneities and gives rise to a scalar field, analogous to the gravitational field. The geometry and dynamics of this field are briefly discussed. We treat the intersections be- tween the topological features and the observer’s 3-space as matter particles and argue that these entities are likely to possess some quantum properties.
Interactive Spacecraft Trajectory Design Strategies Featuring Poincare Map Topology
Schlei, Wayne R.
Space exploration efforts are shifting towards inexpensive and more agile vehicles. Versatility regarding spacecraft trajectories refers to the agility to correct deviations from an intended path or even the ability to adapt the future path to a new destination--all with limited spaceflight resources (i.e., small DeltaV budgets). Trajectory design methods for such nimble vehicles incorporate equally versatile procedures that allow for rapid and interactive decision making while attempting to reduce Delta V budgets, leading to a versatile trajectory design platform. A versatile design paradigm requires the exploitation of Poincare map topology , or the interconnected web of dynamical structures, existing within the chaotic dynamics of multi-body gravitational models to outline low-Delta V transfer options residing nearby to a current path. This investigation details an autonomous procedure to extract the periodic orbits (topology nodes) and correlated asymptotic flow structures (or the invariant manifolds representing topology links). The autonomous process summarized in this investigation (termed PMATE) overcomes discontinuities on the Poincare section that arise in the applied multi-body model (the planar circular restricted three-body problem) and detects a wide variety of novel periodic orbits. New interactive capabilities deliver a visual analytics foundation for versatile spaceflight design, especially for initial guess generation and manipulation. Such interactive strategies include the selection of states and arcs from Poincare section visualizations and the capabilities to draw and drag trajectories to remove dependency on initial state input. Furthermore, immersive selection is expanded to cull invariant manifold structures, yielding low-DeltaV or even DeltaV-free transfers between periodic orbits. The application of interactive design strategies featuring a dense extraction of Poincare map topology is demonstrated for agile spaceflight with a simple
Topological Embedding Feature Based Resource Allocation in Network Virtualization
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Hongyan Cui
2014-01-01
Full Text Available Virtualization provides a powerful way to run multiple virtual networks on a shared substrate network, which needs accurate and efficient mathematical models. Virtual network embedding is a challenge in network virtualization. In this paper, considering the degree of convergence when mapping a virtual network onto substrate network, we propose a new embedding algorithm based on topology mapping convergence-degree. Convergence-degree means the adjacent degree of virtual network’s nodes when they are mapped onto a substrate network. The contributions of our method are as below. Firstly, we map virtual nodes onto the substrate nodes with the maximum convergence-degree. The simulation results show that our proposed algorithm largely enhances the network utilization efficiency and decreases the complexity of the embedding problem. Secondly, we define the load balance rate to reflect the load balance of substrate links. The simulation results show our proposed algorithm achieves better load balance. Finally, based on the feature of star topology, we further improve our embedding algorithm and make it suitable for application in the star topology. The test result shows it gets better performance than previous works.
Efficient Topological Localization Using Global and Local Feature Matching
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Junqiu Wang
2013-03-01
Full Text Available We present an efficient vision-based global topological localization approach in which different image features are used in a coarse-to-fine matching framework. Orientation Adjacency Coherence Histogram (OACH, a novel image feature, is proposed to improve the coarse localization. The coarse localization results are taken as inputs for the fine localization which is carried out by matching Harris-Laplace interest points characterized by the SIFT descriptor. The computation of OACHs and interest points is efficient due to the fact that these features are computed in an integrated process. The matching of local features is improved by using approximate nearest neighbor searching technique. We have implemented and tested the localization system in real environments. The experimental results demonstrate that our approach is efficient and reliable in both indoor and outdoor environments. This work has also been compared with previous works. The comparison results show that our approach has better performance with higher correct ratio and lower computational complexity.
Topological features of engineered arrays of adsorbates in honeycomb lattices
Energy Technology Data Exchange (ETDEWEB)
Gonzalez-Arraga, Luis A., E-mail: ludovici83@gmail.com [IMDEA Nanociencia, Calle de Faraday, 9, Cantoblanco, 28049 Madrid (Spain); Lado, J.L. [International Iberian Nanotechnology Laboratory (INL), Av. Mestre Jose Veiga, 4715-330 Braga (Portugal); Guinea, Francisco [IMDEA Nanociencia, Calle de Faraday, 9, Cantoblanco, 28049 Madrid (Spain); School of Physics and Astronomy, University of Manchester, Oxford Road, Manchester M13 9PL (United Kingdom)
2016-09-01
Hydrogen adatoms are one of the most the promising proposals for the functionalization of graphene. The adatoms induce narrow resonances near the Dirac energy, which lead to the formation of magnetic moments. Furthermore, they also create local lattice distortions which enhance the spin–orbit coupling. The combination of magnetism and spin–orbit coupling allows for a rich variety of phases, some of which have non-trivial topological features. We analyze the interplay between magnetism and spin–orbit coupling in ordered arrays of adsorbates on honeycomb lattice monolayers, and classify the different phases that may arise. We extend our model to consider arrays of adsorbates in graphene-like crystals with stronger intrinsic spin–orbit couplings. We also consider a regime away from half-filling in which the Fermi level is at the bottom of the conduction band, we find a Berry curvature distribution corresponding to a Valley–Hall effect.
Recipe for generating Weyl semimetals with extended topologically protected features
Wang, R.; Zhao, J. Z.; Jin, Y. J.; Xu, W. P.; Gan, L.-Y.; Wu, X. Z.; Xu, H.; Tong, S. Y.
2017-09-01
We present a recipe that leads to Weyl semimetals with extended topologically protected features. We show that compounds in a family that possess time-reversal symmetry and share a noncentrosymmetric cubic structure with the space group F -43 m (no. 216) host robust Weyl fermions with extended and easily measurable protected features. The candidates in this family are compounds with different chemical formulas, A B2 , ABC, AB C2 , and ABCD, and their Fermi levels are predominantly populated by nontrivial Weyl fermions. Symmetry of the system requires that the Weyl nodes with opposite chirality are well separated in momentum space. Adjacent Weyl points have the same chirality; thus these Weyl nodes would not annihilate each other with respect to lattice perturbations. As Fermi arcs and surface states connect Weyl nodes with opposite chirality, the large separation of the latter in momentum space guarantees the appearance of very long arcs and surface states. This work demonstrates that the use of system symmetry by first-principles calculations is a powerful approach for discovering new Weyl semimetals with attractive features whose protected fermions may be candidates of many applications.
Evolution of topological features in finite antiferromagnetic Heisenberg chains
International Nuclear Information System (INIS)
Chen Changfeng
2003-01-01
We examine the behavior of nonlocal topological order in finite antiferromagnetic Heisenberg chains using the density matrix renormalization group techniques. We find that chains with even and odd site parity show very different behavior in the topological string order parameter, reflecting interesting interplay of the intrinsic magnetic correlation and the topological term in the chains. Analysis of the calculated string order parameter as a function of the chain length and the topological angle indicates that S=1/2 and S=1 chains show special behavior while all S>1 chains have similar topological structure. This result supports an earlier conjecture on the classification of quantum spin chains based on an analysis of their phase diagrams. Implications of the topological behavior in finite quantum spin chains are discussed
Exploring quantum control landscapes: Topology, features, and optimization scaling
International Nuclear Information System (INIS)
Moore, Katharine W.; Rabitz, Herschel
2011-01-01
Quantum optimal control experiments and simulations have successfully manipulated the dynamics of systems ranging from atoms to biomolecules. Surprisingly, these collective works indicate that the effort (i.e., the number of algorithmic iterations) required to find an optimal control field appears to be essentially invariant to the complexity of the system. The present work explores this matter in a series of systematic optimizations of the state-to-state transition probability on model quantum systems with the number of states N ranging from 5 through 100. The optimizations occur over a landscape defined by the transition probability as a function of the control field. Previous theoretical studies on the topology of quantum control landscapes established that they should be free of suboptimal traps under reasonable physical conditions. The simulations in this work include nearly 5000 individual optimization test cases, all of which confirm this prediction by fully achieving optimal population transfer of at least 99.9% on careful attention to numerical procedures to ensure that the controls are free of constraints. Collectively, the simulation results additionally show invariance of required search effort to system dimension N. This behavior is rationalized in terms of the structural features of the underlying control landscape. The very attractive observed scaling with system complexity may be understood by considering the distance traveled on the control landscape during a search and the magnitude of the control landscape slope. Exceptions to this favorable scaling behavior can arise when the initial control field fluence is too large or when the target final state recedes from the initial state as N increases.
Zhang, Xue; Acencio, Marcio Luis; Lemke, Ney
2016-01-01
Essential proteins/genes are indispensable to the survival or reproduction of an organism, and the deletion of such essential proteins will result in lethality or infertility. The identification of essential genes is very important not only for understanding the minimal requirements for survival of an organism, but also for finding human disease genes and new drug targets. Experimental methods for identifying essential genes are costly, time-consuming, and laborious. With the accumulation of sequenced genomes data and high-throughput experimental data, many computational methods for identifying essential proteins are proposed, which are useful complements to experimental methods. In this review, we show the state-of-the-art methods for identifying essential genes and proteins based on machine learning and network topological features, point out the progress and limitations of current methods, and discuss the challenges and directions for further research. PMID:27014079
Method of identifying features in indexed data
Jarman, Kristin H [Richland, WA; Daly, Don Simone [Richland, WA; Anderson, Kevin K [Richland, WA; Wahl, Karen L [Richland, WA
2001-06-26
The present invention is a method of identifying features in indexed data, especially useful for distinguishing signal from noise in data provided as a plurality of ordered pairs. Each of the plurality of ordered pairs has an index and a response. The method has the steps of: (a) providing an index window having a first window end located on a first index and extending across a plurality of indices to a second window end; (b) selecting responses corresponding to the plurality of indices within the index window and computing a measure of dispersion of the responses; and (c) comparing the measure of dispersion to a dispersion critical value. Advantages of the present invention include minimizing signal to noise ratio, signal drift, varying baseline signal and combinations thereof.
Hocking, John G
1988-01-01
""As textbook and reference work, this is a valuable addition to the topological literature."" - Mathematical ReviewsDesigned as a text for a one-year first course in topology, this authoritative volume offers an excellent general treatment of the main ideas of topology. It includes a large number and variety of topics from classical topology as well as newer areas of research activity.There are four set-theoretic chapters, followed by four primarily algebraic chapters. Chapter I covers the fundamentals of topological and metrical spaces, mappings, compactness, product spaces, the Tychonoff t
Topological Methods for Visualization
Energy Technology Data Exchange (ETDEWEB)
Berres, Anne Sabine [Los Alamos National Lab. (LANL), Los Alamos, NM (United Stat
2016-04-07
This slide presentation describes basic topological concepts, including topological spaces, homeomorphisms, homotopy, betti numbers. Scalar field topology explores finding topological features and scalar field visualization, and vector field topology explores finding topological features and vector field visualization.
Manetti, Marco
2015-01-01
This is an introductory textbook on general and algebraic topology, aimed at anyone with a basic knowledge of calculus and linear algebra. It provides full proofs and includes many examples and exercises. The covered topics include: set theory and cardinal arithmetic; axiom of choice and Zorn's lemma; topological spaces and continuous functions; connectedness and compactness; Alexandrov compactification; quotient topologies; countability and separation axioms; prebasis and Alexander's theorem; the Tychonoff theorem and paracompactness; complete metric spaces and function spaces; Baire spaces; homotopy of maps; the fundamental group; the van Kampen theorem; covering spaces; Brouwer and Borsuk's theorems; free groups and free product of groups; and basic category theory. While it is very concrete at the beginning, abstract concepts are gradually introduced. It is suitable for anyone needing a basic, comprehensive introduction to general and algebraic topology and its applications.
Featured Image: Identifying a Glowing Shell
Kohler, Susanna
2018-05-01
New nebulae are being discovered and classified every day and this false-color image reveals one of the more recent objects of interest. This nebula, IPHASX J210204.7+471015, was recently imaged by the Andalucia Faint Object Spectrograph and Camera mounted on the 2.5-m Nordic Optical Telescope in La Palma, Spain. J210204 was initially identified as a possible planetary nebula a remnant left behind at the end of a red giants lifetime. Based on the above imaging, however, a team of authors led by Martn Guerrero (Institute of Astrophysics of Andalusia, Spain) is arguing that this shell of glowing gas was instead expelled around a classical nova. In a classical nova eruption, a white dwarf and its binary companion come very close together, and mass transfers to form a thin atmosphere of hydrogen around the white dwarf. When this hydrogen suddenly ignites in runaway fusion, this outer atmosphere can be expelled, forming a short-lived nova remnant which is what Guerrero and collaborators think were seeing with J210204. If so, this nebula can reveal information about the novathat caused it. To find out more about what the authors learned from this nebula, check out the paper below.CitationMartn A. Guerrero et al 2018 ApJ 857 80. doi:10.3847/1538-4357/aab669
Sakamoto, Takuya; Imasaka, Ryohei; Taki, Hirofumi; Sato, Toru; Yoshioka, Mototaka; Inoue, Kenichi; Fukuda, Takeshi; Sakai, Hiroyuki
2016-04-01
The objectives of this paper are to propose a method that can accurately estimate the human heart rate (HR) using an ultrawideband (UWB) radar system, and to determine the performance of the proposed method through measurements. The proposed method uses the feature points of a radar signal to estimate the HR efficiently and accurately. Fourier- and periodicity-based methods are inappropriate for estimation of instantaneous HRs in real time because heartbeat waveforms are highly variable, even within the beat-to-beat interval. We define six radar waveform features that enable correlation processing to be performed quickly and accurately. In addition, we propose a feature topology signal that is generated from a feature sequence without using amplitude information. This feature topology signal is used to find unreliable feature points, and thus, to suppress inaccurate HR estimates. Measurements were taken using UWB radar, while simultaneously performing electrocardiography measurements in an experiment that was conducted on nine participants. The proposed method achieved an average root-mean-square error in the interbeat interval of 7.17 ms for the nine participants. The results demonstrate the effectiveness and accuracy of the proposed method. The significance of this study for biomedical research is that the proposed method will be useful in the realization of a remote vital signs monitoring system that enables accurate estimation of HR variability, which has been used in various clinical settings for the treatment of conditions such as diabetes and arterial hypertension.
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O. A. Dunaeva
2013-01-01
Full Text Available In this work, we describe a prototype of an automatic segmentation system and annotation of endoscopy images. The used algorithm is based on the classification of vectors of the topological features of the original image. We use the image processing scheme which includes image preprocessing, calculation of vector descriptors defined for every point of the source image and the subsequent classification of descriptors. Image preprocessing includes finding and selecting artifacts and equalizating the image brightness. In this work, we give the detailed algorithm of the construction of topological descriptors and the classifier creating procedure based on mutual sharing the AdaBoost scheme and a naive Bayes classifier. In the final section, we show the results of the classification of real endoscopic images.
Wang, Yiheng; Liu, Tong; Xu, Dong; Shi, Huidong; Zhang, Chaoyang; Mo, Yin-Yuan; Wang, Zheng
2016-01-22
The hypo- or hyper-methylation of the human genome is one of the epigenetic features of leukemia. However, experimental approaches have only determined the methylation state of a small portion of the human genome. We developed deep learning based (stacked denoising autoencoders, or SdAs) software named "DeepMethyl" to predict the methylation state of DNA CpG dinucleotides using features inferred from three-dimensional genome topology (based on Hi-C) and DNA sequence patterns. We used the experimental data from immortalised myelogenous leukemia (K562) and healthy lymphoblastoid (GM12878) cell lines to train the learning models and assess prediction performance. We have tested various SdA architectures with different configurations of hidden layer(s) and amount of pre-training data and compared the performance of deep networks relative to support vector machines (SVMs). Using the methylation states of sequentially neighboring regions as one of the learning features, an SdA achieved a blind test accuracy of 89.7% for GM12878 and 88.6% for K562. When the methylation states of sequentially neighboring regions are unknown, the accuracies are 84.82% for GM12878 and 72.01% for K562. We also analyzed the contribution of genome topological features inferred from Hi-C. DeepMethyl can be accessed at http://dna.cs.usm.edu/deepmethyl/.
Identifying partial topology of complex dynamical networks via a pinning mechanism
Zhu, Shuaibing; Zhou, Jin; Lu, Jun-an
2018-04-01
In this paper, we study the problem of identifying the partial topology of complex dynamical networks via a pinning mechanism. By using the network synchronization theory and the adaptive feedback controlling method, we propose a method which can greatly reduce the number of nodes and observers in the response network. Particularly, this method can also identify the whole topology of complex networks. A theorem is established rigorously, from which some corollaries are also derived in order to make our method more cost-effective. Several numerical examples are provided to verify the effectiveness of the proposed method. In the simulation, an approach is also given to avoid possible identification failure caused by inner synchronization of the drive network.
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Koon-Kiu Yan
2017-07-01
Full Text Available Genome-wide proximity ligation based assays such as Hi-C have revealed that eukaryotic genomes are organized into structural units called topologically associating domains (TADs. From a visual examination of the chromosomal contact map, however, it is clear that the organization of the domains is not simple or obvious. Instead, TADs exhibit various length scales and, in many cases, a nested arrangement. Here, by exploiting the resemblance between TADs in a chromosomal contact map and densely connected modules in a network, we formulate TAD identification as a network optimization problem and propose an algorithm, MrTADFinder, to identify TADs from intra-chromosomal contact maps. MrTADFinder is based on the network-science concept of modularity. A key component of it is deriving an appropriate background model for contacts in a random chain, by numerically solving a set of matrix equations. The background model preserves the observed coverage of each genomic bin as well as the distance dependence of the contact frequency for any pair of bins exhibited by the empirical map. Also, by introducing a tunable resolution parameter, MrTADFinder provides a self-consistent approach for identifying TADs at different length scales, hence the acronym "Mr" standing for Multiple Resolutions. We then apply MrTADFinder to various Hi-C datasets. The identified domain boundaries are marked by characteristic signatures in chromatin marks and transcription factors (TF that are consistent with earlier work. Moreover, by calling TADs at different length scales, we observe that boundary signatures change with resolution, with different chromatin features having different characteristic length scales. Furthermore, we report an enrichment of HOT (high-occupancy target regions near TAD boundaries and investigate the role of different TFs in determining boundaries at various resolutions. To further explore the interplay between TADs and epigenetic marks, as tumor mutational
Directory of Open Access Journals (Sweden)
Sinisa Pajevic
2009-01-01
Full Text Available Cascading activity is commonly found in complex systems with directed interactions such as metabolic networks, neuronal networks, or disease spreading in social networks. Substantial insight into a system's organization can be obtained by reconstructing the underlying functional network architecture from the observed activity cascades. Here we focus on Bayesian approaches and reduce their computational demands by introducing the Iterative Bayesian (IB and Posterior Weighted Averaging (PWA methods. We introduce a special case of PWA, cast in nonparametric form, which we call the normalized count (NC algorithm. NC efficiently reconstructs random and small-world functional network topologies and architectures from subcritical, critical, and supercritical cascading dynamics and yields significant improvements over commonly used correlation methods. With experimental data, NC identified a functional and structural small-world topology and its corresponding traffic in cortical networks with neuronal avalanche dynamics.
General topological features and instanton vacuum in quantum Hall and spin liquids
International Nuclear Information System (INIS)
Pruisken, A.M.M.; Shankar, R.; Surendran, Naveen
2005-01-01
We introduce the concept of superuniversality in quantum Hall liquids and spin liquids. This concept has emerged from previous studies of the quantum Hall effect and states that all the fundamental features of the quantum Hall effect are generically displayed as general topological features of the θ parameter in nonlinear σ models in two dimensions. To establish superuniversality in spin liquids we revisit the mapping by Haldane who argued that the antiferromagnetic Heisenberg spin-s chain in 1+1 space-time dimensions is effectively described by the O(3) nonlinear σ model with a θ term. By combining the path integral representation for the dimerized spin s=1/2 chain with renormalization-group decimation techniques we generalize the Haldane approach to include a more complicated theory, the fermionic rotor chain, involving four different renormalization-group parameters. We show how the renormalization-group calculation technique can be used to build a bridge between the fermionic rotor chain and the O(3) nonlinear σ model with the θ term. As an integral and fundamental aspect of the mapping we establish the topological significance of the dangling spin at the edge of the chain. The edge spin in spin liquids is in all respects identical to the massless chiral edge excitations in quantum Hall liquids. We consider various different geometries of the spin chain such as open and closed chains, chains with an even and odd number of sides. We show that for each of the different geometries the θ term has a distinctly different physical meaning. We compare each case with a topologically equivalent quantum Hall liquid
Kyeong, Sunghyon; Kim, Jae-Jin; Kim, Eunjoo
2017-01-01
Attention-deficit/hyperactivity disorder (ADHD) is a clinically heterogeneous condition and identification of clinically meaningful subgroups would open up a new window for personalized medicine. Thus, we aimed to identify new clinical phenotypes in children and adolescents with ADHD and to investigate whether neuroimaging findings validate the identified phenotypes. Neuroimaging and clinical data from 67 children with ADHD and 62 typically developing controls (TDCs) from the ADHD-200 database were selected. Clinical measures of ADHD symptoms and intelligence quotient (IQ) were used as input features into a topological data analysis (TDA) to identify ADHD subgroups within our sample. As external validators, graph theoretical measures obtained from the functional connectome were compared to address the biological meaningfulness of the identified subtypes. The TDA identified two unique subgroups of ADHD, labelled as mild symptom ADHD (mADHD) and severe symptom ADHD (sADHD). The output topology shape was repeatedly observed in the independent validation dataset. The graph theoretical analysis showed a decrease in the degree centrality and PageRank in the bilateral posterior cingulate cortex in the sADHD group compared with the TDC group. The mADHD group showed similar patterns of intra- and inter-module connectivity to the sADHD group. Relative to the TDC group, the inter-module connectivity between the default mode network and executive control network were significantly increased in the sADHD group but not in the mADHD group. Taken together, our results show that the data-driven TDA is potentially useful in identifying objective and biologically relevant disease phenotypes in children and adolescents with ADHD.
Directory of Open Access Journals (Sweden)
Sunghyon Kyeong
Full Text Available Attention-deficit/hyperactivity disorder (ADHD is a clinically heterogeneous condition and identification of clinically meaningful subgroups would open up a new window for personalized medicine. Thus, we aimed to identify new clinical phenotypes in children and adolescents with ADHD and to investigate whether neuroimaging findings validate the identified phenotypes. Neuroimaging and clinical data from 67 children with ADHD and 62 typically developing controls (TDCs from the ADHD-200 database were selected. Clinical measures of ADHD symptoms and intelligence quotient (IQ were used as input features into a topological data analysis (TDA to identify ADHD subgroups within our sample. As external validators, graph theoretical measures obtained from the functional connectome were compared to address the biological meaningfulness of the identified subtypes. The TDA identified two unique subgroups of ADHD, labelled as mild symptom ADHD (mADHD and severe symptom ADHD (sADHD. The output topology shape was repeatedly observed in the independent validation dataset. The graph theoretical analysis showed a decrease in the degree centrality and PageRank in the bilateral posterior cingulate cortex in the sADHD group compared with the TDC group. The mADHD group showed similar patterns of intra- and inter-module connectivity to the sADHD group. Relative to the TDC group, the inter-module connectivity between the default mode network and executive control network were significantly increased in the sADHD group but not in the mADHD group. Taken together, our results show that the data-driven TDA is potentially useful in identifying objective and biologically relevant disease phenotypes in children and adolescents with ADHD.
Topological features of the Sokolov integrable case on the Lie algebra so(3,1)
International Nuclear Information System (INIS)
Novikov, D V
2014-01-01
The integrable Sokolov case on so(3,1) ⋆ is investigated. This is a Hamiltonian system with two degrees of freedom, in which the Hamiltonian and the additional integral are homogeneous polynomials of degrees 2 and 4, respectively. It is an interesting feature of this system that connected components of common level surfaces of the Hamiltonian and the additional integral turn out to be noncompact. The critical points of the moment map and their indices are found, the bifurcation diagram is constructed, and the topology of noncompact level surfaces is determined, that is, the closures of solutions of the Sokolov system on so(3,1) are described. Bibliography: 24 titles
Fault detection of Tennessee Eastman process based on topological features and SVM
Zhao, Huiyang; Hu, Yanzhu; Ai, Xinbo; Hu, Yu; Meng, Zhen
2018-03-01
Fault detection in industrial process is a popular research topic. Although the distributed control system(DCS) has been introduced to monitor the state of industrial process, it still cannot satisfy all the requirements for fault detection of all the industrial systems. In this paper, we proposed a novel method based on topological features and support vector machine(SVM), for fault detection of industrial process. The proposed method takes global information of measured variables into account by complex network model and predicts whether a system has generated some faults or not by SVM. The proposed method can be divided into four steps, i.e. network construction, network analysis, model training and model testing respectively. Finally, we apply the model to Tennessee Eastman process(TEP). The results show that this method works well and can be a useful supplement for fault detection of industrial process.
Identifying DNA Methylation Features that Underlie Prostate Cancer Disparities
2017-10-01
15.3%) NA 6 (6%) 6 (5.4%) Prostate - specific Antigen (PSA) ng/mL 76.7 (42.9) 78.2 (40.7) pTNM Stage T2 68 (67.3%) 48 (43.2%) T3 29 (28.7%) 58...Profiles Primary Aim #1: Determine if methylation profiles differ by race/ancestry Primary Aim #2: Identify ethnicity- specific markers of prostate ...by ethnicity and to identify ethnicity- specific methylation features of prostate cancer that could contribute the racial disparities that exist in
Identifying sports videos using replay, text, and camera motion features
Kobla, Vikrant; DeMenthon, Daniel; Doermann, David S.
1999-12-01
Automated classification of digital video is emerging as an important piece of the puzzle in the design of content management systems for digital libraries. The ability to classify videos into various classes such as sports, news, movies, or documentaries, increases the efficiency of indexing, browsing, and retrieval of video in large databases. In this paper, we discuss the extraction of features that enable identification of sports videos directly from the compressed domain of MPEG video. These features include detecting the presence of action replays, determining the amount of scene text in vide, and calculating various statistics on camera and/or object motion. The features are derived from the macroblock, motion,and bit-rate information that is readily accessible from MPEG video with very minimal decoding, leading to substantial gains in processing speeds. Full-decoding of selective frames is required only for text analysis. A decision tree classifier built using these features is able to identify sports clips with an accuracy of about 93 percent.
Vision-based topological map building and localisation using persistent features
CSIR Research Space (South Africa)
Sabatta, DG
2008-11-01
Full Text Available stream_source_info Sabatta_2008.pdf.txt stream_content_type text/plain stream_size 32284 Content-Encoding UTF-8 stream_name Sabatta_2008.pdf.txt Content-Type text/plain; charset=UTF-8 Vision-based Topological Map... of topological mapping was introduced into the field of robotics following studies of human cogni- tive mapping undertaken by Kuipers [8]. Since then, much progress has been made in the field of vision-based topologi- cal mapping. Topological mapping lends...
Robust modal curvature features for identifying multiple damage in beams
Ostachowicz, Wiesław; Xu, Wei; Bai, Runbo; Radzieński, Maciej; Cao, Maosen
2014-03-01
Curvature mode shape is an effective feature for damage detection in beams. However, it is susceptible to measurement noise, easily impairing its advantage of sensitivity to damage. To deal with this deficiency, this study formulates an improved curvature mode shape for multiple damage detection in beams based on integrating a wavelet transform (WT) and a Teager energy operator (TEO). The improved curvature mode shape, termed the WT - TEO curvature mode shape, has inherent capabilities of immunity to noise and sensitivity to damage. The proposed method is experimentally validated by identifying multiple cracks in cantilever steel beams with the mode shapes acquired using a scanning laser vibrometer. The results demonstrate that the improved curvature mode shape can identify multiple damage accurately and reliably, and it is fairly robust to measurement noise.
Key clinical features to identify girls with CDKL5 mutations.
Bahi-Buisson, Nadia; Nectoux, Juliette; Rosas-Vargas, Haydeé; Milh, Mathieu; Boddaert, Nathalie; Girard, Benoit; Cances, Claude; Ville, Dorothée; Afenjar, Alexandra; Rio, Marlène; Héron, Delphine; N'guyen Morel, Marie Ange; Arzimanoglou, Alexis; Philippe, Christophe; Jonveaux, Philippe; Chelly, Jamel; Bienvenu, Thierry
2008-10-01
Mutations in the human X-linked cyclin-dependent kinase-like 5 (CDKL5) gene have been shown to cause infantile spasms as well as Rett syndrome (RTT)-like phenotype. To date, less than 25 different mutations have been reported. So far, there are still little data on the key clinical diagnosis criteria and on the natural history of CDKL5-associated encephalopathy. We screened the entire coding region of CDKL5 for mutations in 183 females with encephalopathy with early seizures by denaturing high liquid performance chromatography and direct sequencing, and we identified in 20 unrelated girls, 18 different mutations including 7 novel mutations. These mutations were identified in eight patients with encephalopathy with RTT-like features, five with infantile spasms and seven with encephalopathy with refractory epilepsy. Early epilepsy with normal interictal EEG and severe hypotonia are the key clinical features in identifying patients likely to have CDKL5 mutations. Our study also indicates that these patients clearly exhibit some RTT features such as deceleration of head growth, stereotypies and hand apraxia and that these RTT features become more evident in older and ambulatory patients. However, some RTT signs are clearly absent such as the so called RTT disease profile (period of nearly normal development followed by regression with loss of acquired fine finger skill in early childhood and characteristic intensive eye communication) and the characteristic evolution of the RTT electroencephalogram. Interestingly, in addition to the overall stereotypical symptomatology (age of onset and evolution of the disease) resulting from CDKL5 mutations, atypical forms of CDKL5-related conditions have also been observed. Our data suggest that phenotypic heterogeneity does not correlate with the nature or the position of the mutations or with the pattern of X-chromosome inactivation, but most probably with the functional transcriptional and/or translational consequences of CDKL5
Ahmad, Shakeel; Tang, Hui; Yao, Haimin
2017-11-01
The Stenocara beetle lives in arid desert environment where the only available source of water is fog droplets. The beetle contains many hydrophobic/hydrophilic bumps on its back. Water collection occurs on the hydrophilic patches. Once the droplet reaches the critical volume, it sheds down due to gravity. Although a number of studies on condensation and water collection on beetle inspired structures have been reported in literature, most of them were on micro/nano scale textures. However, in nature the beetle bumps are in millimeter scale. At this scale the role of topological features and gravity becomes crucial for early droplet shedding. Therefore, in this work we numerically investigated the effects of bump shape, wettability contrast, surface slope and hydrophilic patch to total area ratio on droplet shedding volume and time. A three-dimensional lattice Boltzmann method (LBM) based numerical framework was used for the simulations. Compared with bumps of other shapes such a cube or a circular cylinder, faster droplet shedding was obtained over a hemispherical bump. Furthermore, it was found that larger hydrophilic patch to total area ratio for the hemispherical bump significantly increased the droplet shedding time.
Identifying TF-MiRNA Regulatory Relationships Using Multiple Features.
Directory of Open Access Journals (Sweden)
Mingyu Shao
Full Text Available MicroRNAs are known to play important roles in the transcriptional and post-transcriptional regulation of gene expression. While intensive research has been conducted to identify miRNAs and their target genes in various genomes, there is only limited knowledge about how microRNAs are regulated. In this study, we construct a pipeline that can infer the regulatory relationships between transcription factors and microRNAs from ChIP-Seq data with high confidence. In particular, after identifying candidate peaks from ChIP-Seq data, we formulate the inference as a PU learning (learning from only positive and unlabeled examples problem. Multiple features including the statistical significance of the peaks, the location of the peaks, the transcription factor binding site motifs, and the evolutionary conservation are derived from peaks for training and prediction. To further improve the accuracy of our inference, we also apply a mean reciprocal rank (MRR-based method to the candidate peaks. We apply our pipeline to infer TF-miRNA regulatory relationships in mouse embryonic stem cells. The experimental results show that our approach provides very specific findings of TF-miRNA regulatory relationships.
Identifying prognostic features by bottom-up approach and correlating to drug repositioning.
Directory of Open Access Journals (Sweden)
Wei Li
Full Text Available Traditionally top-down method was used to identify prognostic features in cancer research. That is to say, differentially expressed genes usually in cancer versus normal were identified to see if they possess survival prediction power. The problem is that prognostic features identified from one set of patient samples can rarely be transferred to other datasets. We apply bottom-up approach in this study: survival correlated or clinical stage correlated genes were selected first and prioritized by their network topology additionally, then a small set of features can be used as a prognostic signature.Gene expression profiles of a cohort of 221 hepatocellular carcinoma (HCC patients were used as a training set, 'bottom-up' approach was applied to discover gene-expression signatures associated with survival in both tumor and adjacent non-tumor tissues, and compared with 'top-down' approach. The results were validated in a second cohort of 82 patients which was used as a testing set.Two sets of gene signatures separately identified in tumor and adjacent non-tumor tissues by bottom-up approach were developed in the training cohort. These two signatures were associated with overall survival times of HCC patients and the robustness of each was validated in the testing set, and each predictive performance was better than gene expression signatures reported previously. Moreover, genes in these two prognosis signature gave some indications for drug-repositioning on HCC. Some approved drugs targeting these markers have the alternative indications on hepatocellular carcinoma.Using the bottom-up approach, we have developed two prognostic gene signatures with a limited number of genes that associated with overall survival times of patients with HCC. Furthermore, prognostic markers in these two signatures have the potential to be therapeutic targets.
Using multidimensional topological data analysis to identify traits of hip osteoarthritis.
Rossi-deVries, Jasmine; Pedoia, Valentina; Samaan, Michael A; Ferguson, Adam R; Souza, Richard B; Majumdar, Sharmila
2018-05-07
Osteoarthritis (OA) is a multifaceted disease with many variables affecting diagnosis and progression. Topological data analysis (TDA) is a state-of-the-art big data analytics tool that can combine all variables into multidimensional space. TDA is used to simultaneously analyze imaging and gait analysis techniques. To identify biochemical and biomechanical biomarkers able to classify different disease progression phenotypes in subjects with and without radiographic signs of hip OA. Longitudinal study for comparison of progressive and nonprogressive subjects. In all, 102 subjects with and without radiographic signs of hip osteoarthritis. 3T, SPGR 3D MAPSS T 1ρ /T 2 , intermediate-weighted fat-suppressed fast spin-echo (FSE). Multidimensional data analysis including cartilage composition, bone shape, Kellgren-Lawrence (KL) classification of osteoarthritis, scoring hip osteoarthritis with MRI (SHOMRI), hip disability and osteoarthritis outcome score (HOOS). Analysis done using TDA, Kolmogorov-Smirnov (KS) testing, and Benjamini-Hochberg to rank P-value results to correct for multiple comparisons. Subjects in the later stages of the disease had an increased SHOMRI score (P Analysis of this subgroup identified knee biomechanics (P analysis of an OA subgroup with femoroacetabular impingement (FAI) showed anterior labral tears to be the most significant marker (P = 0.0017) between those FAI subjects with and without OA symptoms. The data-driven analysis obtained with TDA proposes new phenotypes of these subjects that partially overlap with the radiographic-based classical disease status classification and also shows the potential for further examination of an early onset biomechanical intervention. 2 Technical Efficacy: Stage 2 J. Magn. Reson. Imaging 2018. © 2018 International Society for Magnetic Resonance in Medicine.
Identifying relevant feature-action associations for grasping unmodelled objects
DEFF Research Database (Denmark)
Thomsen, Mikkel Tang; Kraft, Dirk; Krüger, Norbert
2015-01-01
content. The method is provided with a large and structured set of visual features, motivated by the visual hierarchy in primates and finds relevant feature action associations automatically. We apply our method in a simulated environment on three different object sets for the case of grasp affordance...... learning. For box objects, we achieve a 0.90 success probability, 0.80 for round objects and up to 0.75 for open objects, when presented with novel objects. In this work, we in particular demonstrate the effect of choosing appropriate feature representations. We demonstrate a significant performance...
Directory of Open Access Journals (Sweden)
Hoshang Kolivand
Full Text Available In this paper, we present a new method to recognise the leaf type and identify plant species using phenetic parts of the leaf; lobes, apex and base detection. Most of the research in this area focuses on the popular features such as the shape, colour, vein, and texture, which consumes large amounts of computational processing and are not efficient, especially in the Acer database with a high complexity structure of the leaves. This paper is focused on phenetic parts of the leaf which increases accuracy. Detecting the local maxima and local minima are done based on Centroid Contour Distance for Every Boundary Point, using north and south region to recognise the apex and base. Digital morphology is used to measure the leaf shape and the leaf margin. Centroid Contour Gradient is presented to extract the curvature of leaf apex and base. We analyse 32 leaf images of tropical plants and evaluated with two different datasets, Flavia, and Acer. The best accuracy obtained is 94.76% and 82.6% respectively. Experimental results show the effectiveness of the proposed technique without considering the commonly used features with high computational cost.
Fern, Bong Mei; Rahim, Mohd Shafry Mohd; Sulong, Ghazali; Baker, Thar; Tully, David
2018-01-01
In this paper, we present a new method to recognise the leaf type and identify plant species using phenetic parts of the leaf; lobes, apex and base detection. Most of the research in this area focuses on the popular features such as the shape, colour, vein, and texture, which consumes large amounts of computational processing and are not efficient, especially in the Acer database with a high complexity structure of the leaves. This paper is focused on phenetic parts of the leaf which increases accuracy. Detecting the local maxima and local minima are done based on Centroid Contour Distance for Every Boundary Point, using north and south region to recognise the apex and base. Digital morphology is used to measure the leaf shape and the leaf margin. Centroid Contour Gradient is presented to extract the curvature of leaf apex and base. We analyse 32 leaf images of tropical plants and evaluated with two different datasets, Flavia, and Acer. The best accuracy obtained is 94.76% and 82.6% respectively. Experimental results show the effectiveness of the proposed technique without considering the commonly used features with high computational cost. PMID:29420568
International Nuclear Information System (INIS)
Zio, E.; Golea, L.R.
2012-01-01
The subject of this paper is the analysis of an electrical transmission system with the objective of identifying its most critical elements with respect to failures and attacks. The methodological approach undertaken is based on graph-theoretical (topological) network analysis. Four different perspectives of analysis are considered within the formalism of weighed networks, adding to the purely topological analysis of the system, the reliability and electrical characteristics of its components. In each phase of the analysis: i) a graph-theoretical representation is offered to highlight the structure of the most important system connections according to the particular characteristics examined (topological, reliability, electrical or electrical-reliability), ii) the classical degree index of a network node is extended to account for the different characteristics considered. The application of these concepts of analysis to an electrical transmission system of literature confirms the importance of different perspectives of analysis on such a critical infrastructure. - Highlights: ► We analyze a power system from topological, reliability and electrical perspectives. ► We rank critical components within a vulnerability assessment framework. ► We compute an extended degree to rank critical energy paths. ► We compare several analytical approaches and provide a table for choosing among them. ► We suggest network changes to increase the reliability of highly loaded energy paths.
Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation
Malta, Tathiane M.; Sokolov, Artem; Gentles, Andrew J.; Burzykowski, Tomasz; Poisson, Laila; Weinstein, John N.; Kamińska, Bożena; Huelsken, Joerg; Omberg, Larsson; Gevaert, Olivier; Colaprico, Antonio; Czerwińska, Patrycja; Mazurek, Sylwia; Mishra, Lopa; Heyn, Holger; Krasnitz, Alex; Godwin, Andrew K.; Lazar, Alexander J.; Caesar-Johnson, Samantha J.; Demchok, John A.; Felau, Ina; Kasapi, Melpomeni; Ferguson, Martin L.; Hutter, Carolyn M.; Sofia, Heidi J.; Tarnuzzer, Roy; Wang, Zhining; Yang, Liming; Zenklusen, Jean C.; Zhang, Jiashan (Julia); Chudamani, Sudha; Liu, Jia; Lolla, Laxmi; Naresh, Rashi; Pihl, Todd; Sun, Qiang; Wan, Yunhu; Wu, Ye; Cho, Juok; DeFreitas, Timothy; Frazer, Scott; Gehlenborg, Nils; Getz, Gad; Heiman, David I.; Kim, Jaegil; Lawrence, Michael S.; Lin, Pei; Meier, Sam; Noble, Michael S.; Saksena, Gordon; Voet, Doug; Zhang, Hailei; Bernard, Brady; Chambwe, Nyasha; Dhankani, Varsha; Knijnenburg, Theo; Kramer, Roger; Leinonen, Kalle; Liu, Yuexin; Miller, Michael; Reynolds, Sheila; Shmulevich, Ilya; Thorsson, Vesteinn; Zhang, Wei; Akbani, Rehan; Broom, Bradley M.; Hegde, Apurva M.; Ju, Zhenlin; Kanchi, Rupa S.; Korkut, Anil; Li, Jun; Liang, Han; Ling, Shiyun; Liu, Wenbin; Lu, Yiling; Mills, Gordon B.; Ng, Kwok Shing; Rao, Arvind; Ryan, Michael; Wang, Jing; Weinstein, John N.; Zhang, Jiexin; Abeshouse, Adam; Armenia, Joshua; Chakravarty, Debyani; Chatila, Walid K.; de Bruijn, Ino; Gao, Jianjiong; Gross, Benjamin E.; Heins, Zachary J.; Kundra, Ritika; La, Konnor; Ladanyi, Marc; Luna, Augustin; Nissan, Moriah G.; Ochoa, Angelica; Phillips, Sarah M.; Reznik, Ed; Sanchez-Vega, Francisco; Sander, Chris; Schultz, Nikolaus; Sheridan, Robert; Sumer, S. Onur; Sun, Yichao; Taylor, Barry S.; Wang, Jioajiao; Zhang, Hongxin; Anur, Pavana; Peto, Myron; Spellman, Paul; Benz, Christopher; Stuart, Joshua M.; Wong, Christopher K.; Yau, Christina; Hayes, D. Neil; Parker, Joel S.; Wilkerson, Matthew D.; Ally, Adrian; Balasundaram, Miruna; Bowlby, Reanne; Brooks, Denise; Carlsen, Rebecca; Chuah, Eric; Dhalla, Noreen; Holt, Robert; Jones, Steven J.M.; Kasaian, Katayoon; Lee, Darlene; Ma, Yussanne; Marra, Marco A.; Mayo, Michael; Moore, Richard A.; Mungall, Andrew J.; Mungall, Karen; Robertson, A. Gordon; Sadeghi, Sara; Schein, Jacqueline E.; Sipahimalani, Payal; Tam, Angela; Thiessen, Nina; Tse, Kane; Wong, Tina; Berger, Ashton C.; Beroukhim, Rameen; Cherniack, Andrew D.; Cibulskis, Carrie; Gabriel, Stacey B.; Gao, Galen F.; Ha, Gavin; Meyerson, Matthew; Schumacher, Steven E.; Shih, Juliann; Kucherlapati, Melanie H.; Kucherlapati, Raju S.; Baylin, Stephen; Cope, Leslie; Danilova, Ludmila; Bootwalla, Moiz S.; Lai, Phillip H.; Maglinte, Dennis T.; Van Den Berg, David J.; Weisenberger, Daniel J.; Auman, J. Todd; Balu, Saianand; Bodenheimer, Tom; Fan, Cheng; Hoadley, Katherine A.; Hoyle, Alan P.; Jefferys, Stuart R.; Jones, Corbin D.; Meng, Shaowu; Mieczkowski, Piotr A.; Mose, Lisle E.; Perou, Amy H.; Perou, Charles M.; Roach, Jeffrey; Shi, Yan; Simons, Janae V.; Skelly, Tara; Soloway, Matthew G.; Tan, Donghui; Veluvolu, Umadevi; Fan, Huihui; Hinoue, Toshinori; Laird, Peter W.; Shen, Hui; Zhou, Wanding; Bellair, Michelle; Chang, Kyle; Covington, Kyle; Creighton, Chad J.; Dinh, Huyen; Doddapaneni, Harsha Vardhan; Donehower, Lawrence A.; Drummond, Jennifer; Gibbs, Richard A.; Glenn, Robert; Hale, Walker; Han, Yi; Hu, Jianhong; Korchina, Viktoriya; Lee, Sandra; Lewis, Lora; Li, Wei; Liu, Xiuping; Morgan, Margaret; Morton, Donna; Muzny, Donna; Santibanez, Jireh; Sheth, Margi; Shinbrot, Eve; Wang, Linghua; Wang, Min; Wheeler, David A.; Xi, Liu; Zhao, Fengmei; Hess, Julian; Appelbaum, Elizabeth L.; Bailey, Matthew; Cordes, Matthew G.; Ding, Li; Fronick, Catrina C.; Fulton, Lucinda A.; Fulton, Robert S.; Kandoth, Cyriac; Mardis, Elaine R.; McLellan, Michael D.; Miller, Christopher A.; Schmidt, Heather K.; Wilson, Richard K.; Crain, Daniel; Curley, Erin; Gardner, Johanna; Lau, Kevin; Mallery, David; Morris, Scott; Paulauskis, Joseph; Penny, Robert; Shelton, Candace; Shelton, Troy; Sherman, Mark; Thompson, Eric; Yena, Peggy; Bowen, Jay; Gastier-Foster, Julie M.; Gerken, Mark; Leraas, Kristen M.; Lichtenberg, Tara M.; Ramirez, Nilsa C.; Wise, Lisa; Zmuda, Erik; Corcoran, Niall; Costello, Tony; Hovens, Christopher; Carvalho, Andre L.; de Carvalho, Ana C.; Fregnani, José H.; Longatto-Filho, Adhemar; Reis, Rui M.; Scapulatempo-Neto, Cristovam; Silveira, Henrique C.S.; Vidal, Daniel O.; Burnette, Andrew; Eschbacher, Jennifer; Hermes, Beth; Noss, Ardene; Singh, Rosy; Anderson, Matthew L.; Castro, Patricia D.; Ittmann, Michael; Huntsman, David; Kohl, Bernard; Le, Xuan; Thorp, Richard; Andry, Chris; Duffy, Elizabeth R.; Lyadov, Vladimir; Paklina, Oxana; Setdikova, Galiya; Shabunin, Alexey; Tavobilov, Mikhail; McPherson, Christopher; Warnick, Ronald; Berkowitz, Ross; Cramer, Daniel; Feltmate, Colleen; Horowitz, Neil; Kibel, Adam; Muto, Michael; Raut, Chandrajit P.; Malykh, Andrei; Barnholtz-Sloan, Jill S.; Barrett, Wendi; Devine, Karen; Fulop, Jordonna; Ostrom, Quinn T.; Shimmel, Kristen; Wolinsky, Yingli; Sloan, Andrew E.; De Rose, Agostino; Giuliante, Felice; Goodman, Marc; Karlan, Beth Y.; Hagedorn, Curt H.; Eckman, John; Harr, Jodi; Myers, Jerome; Tucker, Kelinda; Zach, Leigh Anne; Deyarmin, Brenda; Hu, Hai; Kvecher, Leonid; Larson, Caroline; Mural, Richard J.; Somiari, Stella; Vicha, Ales; Zelinka, Tomas; Bennett, Joseph; Iacocca, Mary; Rabeno, Brenda; Swanson, Patricia; Latour, Mathieu; Lacombe, Louis; Têtu, Bernard; Bergeron, Alain; McGraw, Mary; Staugaitis, Susan M.; Chabot, John; Hibshoosh, Hanina; Sepulveda, Antonia; Su, Tao; Wang, Timothy; Potapova, Olga; Voronina, Olga; Desjardins, Laurence; Mariani, Odette; Roman-Roman, Sergio; Sastre, Xavier; Stern, Marc Henri; Cheng, Feixiong; Signoretti, Sabina; Berchuck, Andrew; Bigner, Darell; Lipp, Eric; Marks, Jeffrey; McCall, Shannon; McLendon, Roger; Secord, Angeles; Sharp, Alexis; Behera, Madhusmita; Brat, Daniel J.; Chen, Amy; Delman, Keith; Force, Seth; Khuri, Fadlo; Magliocca, Kelly; Maithel, Shishir; Olson, Jeffrey J.; Owonikoko, Taofeek; Pickens, Alan; Ramalingam, Suresh; Shin, Dong M.; Sica, Gabriel; Van Meir, Erwin G.; Zhang, Hongzheng; Eijckenboom, Wil; Gillis, Ad; Korpershoek, Esther; Looijenga, Leendert; Oosterhuis, Wolter; Stoop, Hans; van Kessel, Kim E.; Zwarthoff, Ellen C.; Calatozzolo, Chiara; Cuppini, Lucia; Cuzzubbo, Stefania; DiMeco, Francesco; Finocchiaro, Gaetano; Mattei, Luca; Perin, Alessandro; Pollo, Bianca; Chen, Chu; Houck, John; Lohavanichbutr, Pawadee; Hartmann, Arndt; Stoehr, Christine; Stoehr, Robert; Taubert, Helge; Wach, Sven; Wullich, Bernd; Kycler, Witold; Murawa, Dawid; Wiznerowicz, Maciej; Chung, Ki; Edenfield, W. Jeffrey; Martin, Julie; Baudin, Eric; Bubley, Glenn; Bueno, Raphael; De Rienzo, Assunta; Richards, William G.; Kalkanis, Steven; Mikkelsen, Tom; Noushmehr, Houtan; Scarpace, Lisa; Girard, Nicolas; Aymerich, Marta; Campo, Elias; Giné, Eva; Guillermo, Armando López; Van Bang, Nguyen; Hanh, Phan Thi; Phu, Bui Duc; Tang, Yufang; Colman, Howard; Evason, Kimberley; Dottino, Peter R.; Martignetti, John A.; Gabra, Hani; Juhl, Hartmut; Akeredolu, Teniola; Stepa, Serghei; Hoon, Dave; Ahn, Keunsoo; Kang, Koo Jeong; Beuschlein, Felix; Breggia, Anne; Birrer, Michael; Bell, Debra; Borad, Mitesh; Bryce, Alan H.; Castle, Erik; Chandan, Vishal; Cheville, John; Copland, John A.; Farnell, Michael; Flotte, Thomas; Giama, Nasra; Ho, Thai; Kendrick, Michael; Kocher, Jean Pierre; Kopp, Karla; Moser, Catherine; Nagorney, David; O'Brien, Daniel; O'Neill, Brian Patrick; Patel, Tushar; Petersen, Gloria; Que, Florencia; Rivera, Michael; Roberts, Lewis; Smallridge, Robert; Smyrk, Thomas; Stanton, Melissa; Thompson, R. Houston; Torbenson, Michael; Yang, Ju Dong; Zhang, Lizhi; Brimo, Fadi; Ajani, Jaffer A.; Gonzalez, Ana Maria Angulo; Behrens, Carmen; Bondaruk, Jolanta; Broaddus, Russell; Czerniak, Bogdan; Esmaeli, Bita; Fujimoto, Junya; Gershenwald, Jeffrey; Guo, Charles; Lazar, Alexander J.; Logothetis, Christopher; Meric-Bernstam, Funda; Moran, Cesar; Ramondetta, Lois; Rice, David; Sood, Anil; Tamboli, Pheroze; Thompson, Timothy; Troncoso, Patricia; Tsao, Anne; Wistuba, Ignacio; Carter, Candace; Haydu, Lauren; Hersey, Peter; Jakrot, Valerie; Kakavand, Hojabr; Kefford, Richard; Lee, Kenneth; Long, Georgina; Mann, Graham; Quinn, Michael; Saw, Robyn; Scolyer, Richard; Shannon, Kerwin; Spillane, Andrew; Stretch, Jonathan; Synott, Maria; Thompson, John; Wilmott, James; Al-Ahmadie, Hikmat; Chan, Timothy A.; Ghossein, Ronald; Gopalan, Anuradha; Levine, Douglas A.; Reuter, Victor; Singer, Samuel; Singh, Bhuvanesh; Tien, Nguyen Viet; Broudy, Thomas; Mirsaidi, Cyrus; Nair, Praveen; Drwiega, Paul; Miller, Judy; Smith, Jennifer; Zaren, Howard; Park, Joong Won; Hung, Nguyen Phi; Kebebew, Electron; Linehan, W. Marston; Metwalli, Adam R.; Pacak, Karel; Pinto, Peter A.; Schiffman, Mark; Schmidt, Laura S.; Vocke, Cathy D.; Wentzensen, Nicolas; Worrell, Robert; Yang, Hannah; Moncrieff, Marc; Goparaju, Chandra; Melamed, Jonathan; Pass, Harvey; Botnariuc, Natalia; Caraman, Irina; Cernat, Mircea; Chemencedji, Inga; Clipca, Adrian; Doruc, Serghei; Gorincioi, Ghenadie; Mura, Sergiu; Pirtac, Maria; Stancul, Irina; Tcaciuc, Diana; Albert, Monique; Alexopoulou, Iakovina; Arnaout, Angel; Bartlett, John; Engel, Jay; Gilbert, Sebastien; Parfitt, Jeremy; Sekhon, Harman; Thomas, George; Rassl, Doris M.; Rintoul, Robert C.; Bifulco, Carlo; Tamakawa, Raina; Urba, Walter; Hayward, Nicholas; Timmers, Henri; Antenucci, Anna; Facciolo, Francesco; Grazi, Gianluca; Marino, Mirella; Merola, Roberta; de Krijger, Ronald; Gimenez-Roqueplo, Anne Paule; Piché, Alain; Chevalier, Simone; McKercher, Ginette; Birsoy, Kivanc; Barnett, Gene; Brewer, Cathy; Farver, Carol; Naska, Theresa; Pennell, Nathan A.; Raymond, Daniel; Schilero, Cathy; Smolenski, Kathy; Williams, Felicia; Morrison, Carl; Borgia, Jeffrey A.; Liptay, Michael J.; Pool, Mark; Seder, Christopher W.; Junker, Kerstin; Omberg, Larsson; Dinkin, Mikhail; Manikhas, George; Alvaro, Domenico; Bragazzi, Maria Consiglia; Cardinale, Vincenzo; Carpino, Guido; Gaudio, Eugenio; Chesla, David; Cottingham, Sandra; Dubina, Michael; Moiseenko, Fedor; Dhanasekaran, Renumathy; Becker, Karl Friedrich; Janssen, Klaus Peter; Slotta-Huspenina, Julia; Abdel-Rahman, Mohamed H.; Aziz, Dina; Bell, Sue; Cebulla, Colleen M.; Davis, Amy; Duell, Rebecca; Elder, J. Bradley; Hilty, Joe; Kumar, Bahavna; Lang, James; Lehman, Norman L.; Mandt, Randy; Nguyen, Phuong; Pilarski, Robert; Rai, Karan; Schoenfield, Lynn; Senecal, Kelly; Wakely, Paul; Hansen, Paul; Lechan, Ronald; Powers, James; Tischler, Arthur; Grizzle, William E.; Sexton, Katherine C.; Kastl, Alison; Henderson, Joel; Porten, Sima; Waldmann, Jens; Fassnacht, Martin; Asa, Sylvia L.; Schadendorf, Dirk; Couce, Marta; Graefen, Markus; Huland, Hartwig; Sauter, Guido; Schlomm, Thorsten; Simon, Ronald; Tennstedt, Pierre; Olabode, Oluwole; Nelson, Mark; Bathe, Oliver; Carroll, Peter R.; Chan, June M.; Disaia, Philip; Glenn, Pat; Kelley, Robin K.; Landen, Charles N.; Phillips, Joanna; Prados, Michael; Simko, Jeffry; Smith-McCune, Karen; VandenBerg, Scott; Roggin, Kevin; Fehrenbach, Ashley; Kendler, Ady; Sifri, Suzanne; Steele, Ruth; Jimeno, Antonio; Carey, Francis; Forgie, Ian; Mannelli, Massimo; Carney, Michael; Hernandez, Brenda; Campos, Benito; Herold-Mende, Christel; Jungk, Christin; Unterberg, Andreas; von Deimling, Andreas; Bossler, Aaron; Galbraith, Joseph; Jacobus, Laura; Knudson, Michael; Knutson, Tina; Ma, Deqin; Milhem, Mohammed; Sigmund, Rita; Godwin, Andrew K.; Madan, Rashna; Rosenthal, Howard G.; Adebamowo, Clement; Adebamowo, Sally N.; Boussioutas, Alex; Beer, David; Giordano, Thomas; Mes-Masson, Anne Marie; Saad, Fred; Bocklage, Therese; Landrum, Lisa; Mannel, Robert; Moore, Kathleen; Moxley, Katherine; Postier, Russel; Walker, Joan; Zuna, Rosemary; Feldman, Michael; Valdivieso, Federico; Dhir, Rajiv; Luketich, James; Pinero, Edna M.Mora; Quintero-Aguilo, Mario; Carlotti, Carlos Gilberto; Dos Santos, Jose Sebastião; Kemp, Rafael; Sankarankuty, Ajith; Tirapelli, Daniela; Catto, James; Agnew, Kathy; Swisher, Elizabeth; Creaney, Jenette; Robinson, Bruce; Shelley, Carl Simon; Godwin, Eryn M.; Kendall, Sara; Shipman, Cassaundra; Bradford, Carol; Carey, Thomas; Haddad, Andrea; Moyer, Jeffey; Peterson, Lisa; Prince, Mark; Rozek, Laura; Wolf, Gregory; Bowman, Rayleen; Fong, Kwun M.; Yang, Ian; Korst, Robert; Rathmell, W. Kimryn; Fantacone-Campbell, J. Leigh; Hooke, Jeffrey A.; Kovatich, Albert J.; Shriver, Craig D.; DiPersio, John; Drake, Bettina; Govindan, Ramaswamy; Heath, Sharon; Ley, Timothy; Van Tine, Brian; Westervelt, Peter; Rubin, Mark A.; Lee, Jung Il; Aredes, Natália D.; Mariamidze, Armaz; Stuart, Joshua M.; Hoadley, Katherine A.; Laird, Peter W.; Noushmehr, Houtan; Wiznerowicz, Maciej
2018-01-01
Cancer progression involves the gradual loss of a differentiated phenotype and acquisition of progenitor and stem-cell-like features. Here, we provide novel stemness indices for assessing the degree of oncogenic dedifferentiation. We used an innovative one-class logistic regression (OCLR)
Superfield approach to topological features of non-Abelian gauge theory
International Nuclear Information System (INIS)
Malik, R.P.
2002-01-01
We discuss some of the key topological aspects of a (1+1)-dimensional (2D) self-interacting non-Abelian gauge theory (having no interaction with matter fields) in the framework of chiral superfield formalism. We provide the geometrical interpretation for the Lagrangian density, symmetric energy-momentum tensor, topological invariants, etc, by exploiting the on-shell nilpotent BRST and co-BRST symmetries that emerge after the application of (dual) horizontality conditions. We show that the above physically interesting quantities geometrically correspond to the translation of some local (but composite) chiral superfields along one of the two independent Grassmannian directions of a (2+2)-dimensional supermanifold. This translation is generated by the conserved and on-shell nilpotent (co-)BRST charges that are present in the theory. (author)
Rai, Durgesh K.; Beaucage, Gregory; Ratkanthwar, Kedar; Beaucage, Peter; Ramachandran, Ramnath; Hadjichristidis, Nikolaos
2015-01-01
Star polymers provide model architectures to understand the dynamic and rheological effects of chain confinement for a range of complex topological structures like branched polymers, colloids, and micelles. It is important to describe the structure of such macromolecular topologies using small-angle neutron and x-ray scattering to facilitate understanding of their structure-property relationships. Modeling of scattering from linear, Gaussian polymers, such as in the melt, has applied the random phase approximation using the Debye polymer scattering function. The Flory-Huggins interaction parameter can be obtained using neutron scattering by this method. Gaussian scaling no longer applies for more complicated chain topologies or when chains are in good solvents. For symmetric star polymers, chain scaling can differ from ν=0.5(df=2) due to excluded volume, steric interaction between arms, and enhanced density due to branching. Further, correlation between arms in a symmetric star leads to an interference term in the scattering function first described by Benoit for Gaussian chains. In this work, a scattering function is derived which accounts for interarm correlations in symmetric star polymers as well as the polymer-solvent interaction parameter for chains of arbitrary scaling dimension using a hybrid Unified scattering function. The approach is demonstrated for linear, four-arm and eight-arm polyisoprene stars in deuterated p-xylene.
Rai, Durgesh K.
2015-07-15
Star polymers provide model architectures to understand the dynamic and rheological effects of chain confinement for a range of complex topological structures like branched polymers, colloids, and micelles. It is important to describe the structure of such macromolecular topologies using small-angle neutron and x-ray scattering to facilitate understanding of their structure-property relationships. Modeling of scattering from linear, Gaussian polymers, such as in the melt, has applied the random phase approximation using the Debye polymer scattering function. The Flory-Huggins interaction parameter can be obtained using neutron scattering by this method. Gaussian scaling no longer applies for more complicated chain topologies or when chains are in good solvents. For symmetric star polymers, chain scaling can differ from ν=0.5(df=2) due to excluded volume, steric interaction between arms, and enhanced density due to branching. Further, correlation between arms in a symmetric star leads to an interference term in the scattering function first described by Benoit for Gaussian chains. In this work, a scattering function is derived which accounts for interarm correlations in symmetric star polymers as well as the polymer-solvent interaction parameter for chains of arbitrary scaling dimension using a hybrid Unified scattering function. The approach is demonstrated for linear, four-arm and eight-arm polyisoprene stars in deuterated p-xylene.
TCGA study identifies genomic features of cervical cancer
Investigators with The Cancer Genome Atlas (TCGA) Research Network have identified novel genomic and molecular characteristics of cervical cancer that will aid in subclassification of the disease and may help target therapies that are most appropriate for each patient.
Braga, R S; Barone, P M V B
2000-01-01
Polycyclic aromatic hydrocarbons (PAHs) are a class of planar molecules, abundant in urban environment, which can induce chemical carcinogenesis. Their carcinogenic power varies in a large range, from very strong carcinogens to inactive ones. In a previous study, we proposed a methodology to identify the PAHs carcinogenic activity exploring electronic and topological indices. In the present work, we show that it is possible to simplify that methodology and expand its applicability to include methylated PAHs compounds. Using very simple rules, we can predict their carcinogenic activity with high accuracy (approx 89%).
Topological Constraints on Identifying Additive Link Metrics via End-to-end Paths Measurements
2012-09-20
identifiable if and only ifR in (1) has full column rank, i.e., rank(R) = n. In other words, to uniquely determine w, there must be n linearly...be identified from paths traversing l1; similar argument applies to l2. Moreover, similar analysis as in the proof of this lemma shows that none of
Ron, Gil; Globerson, Yuval; Moran, Dror; Kaplan, Tommy
2017-12-21
Proximity-ligation methods such as Hi-C allow us to map physical DNA-DNA interactions along the genome, and reveal its organization into topologically associating domains (TADs). As the Hi-C data accumulate, computational methods were developed for identifying domain borders in multiple cell types and organisms. Here, we present PSYCHIC, a computational approach for analyzing Hi-C data and identifying promoter-enhancer interactions. We use a unified probabilistic model to segment the genome into domains, which we then merge hierarchically and fit using a local background model, allowing us to identify over-represented DNA-DNA interactions across the genome. By analyzing the published Hi-C data sets in human and mouse, we identify hundreds of thousands of putative enhancers and their target genes, and compile an extensive genome-wide catalog of gene regulation in human and mouse. As we show, our predictions are highly enriched for ChIP-seq and DNA accessibility data, evolutionary conservation, eQTLs and other DNA-DNA interaction data.
Nicolau, Monica; Levine, Arnold J; Carlsson, Gunnar
2011-04-26
High-throughput biological data, whether generated as sequencing, transcriptional microarrays, proteomic, or other means, continues to require analytic methods that address its high dimensional aspects. Because the computational part of data analysis ultimately identifies shape characteristics in the organization of data sets, the mathematics of shape recognition in high dimensions continues to be a crucial part of data analysis. This article introduces a method that extracts information from high-throughput microarray data and, by using topology, provides greater depth of information than current analytic techniques. The method, termed Progression Analysis of Disease (PAD), first identifies robust aspects of cluster analysis, then goes deeper to find a multitude of biologically meaningful shape characteristics in these data. Additionally, because PAD incorporates a visualization tool, it provides a simple picture or graph that can be used to further explore these data. Although PAD can be applied to a wide range of high-throughput data types, it is used here as an example to analyze breast cancer transcriptional data. This identified a unique subgroup of Estrogen Receptor-positive (ER(+)) breast cancers that express high levels of c-MYB and low levels of innate inflammatory genes. These patients exhibit 100% survival and no metastasis. No supervised step beyond distinction between tumor and healthy patients was used to identify this subtype. The group has a clear and distinct, statistically significant molecular signature, it highlights coherent biology but is invisible to cluster methods, and does not fit into the accepted classification of Luminal A/B, Normal-like subtypes of ER(+) breast cancers. We denote the group as c-MYB(+) breast cancer.
Indian Academy of Sciences (India)
tion - 6. How Architectural Features Affect. Building During Earthquakes? C VRMurty. 48 Turbulence and Dispersion. K 5 Gandhi. BOOK REVIEWS. 86 Algebraic Topology. Siddhartha Gadgil. Front Cover. - .. ..-.......... -. Back Cover. Two-dimensional vertical section through a turbulent plume. (Courtesy: G S Shat, CAOS, IISc.).
Luminet, Jean-Pierre
2015-08-01
Cosmic Topology is the name given to the study of the overall shape of the universe, which involves both global topological features and more local geometrical properties such as curvature. Whether space is finite or infinite, simply-connected or multi-connected like a torus, smaller or greater than the portion of the universe that we can directly observe, are questions that refer to topology rather than curvature. A striking feature of some relativistic, multi-connected "small" universe models is to create multiples images of faraway cosmic sources. While the most recent cosmological data fit the simplest model of a zero-curvature, infinite space model, they are also consistent with compact topologies of the three homogeneous and isotropic geometries of constant curvature, such as, for instance, the spherical Poincaré Dodecahedral Space, the flat hypertorus or the hyperbolic Picard horn. After a "dark age" period, the field of Cosmic Topology has recently become one of the major concerns in cosmology, not only for theorists but also for observational astronomers, leaving open a number of unsolved issues.
International Nuclear Information System (INIS)
Jana, Soumen; Leung, Matthew; Zhang, Miqin; Chang, Julia
2014-01-01
Skeletal muscle injury can lead to severe motor deficits that adversely affect movement and quality of life. Current surgical treatments for skeletal muscle are hindered by the poor formation of organized myotube bundles at the wound site. Tissue-engineered skeletal muscle constructs to date have been unable to generate high degrees of myotube density and alignment. Generating a suitable in vitro tissue-engineered skeletal muscle construct requires the design of a scaffold that recapitulates the structural combination of nanoscale collagen fibrils and aligned microscale basal lamina tracks present in the native extracellular matrix (ECM). We hypothesized that a 3D aligned tubular porous scaffold containing aligned nanofibers inside the pores can mimic the native muscle tissue environment. We constructed a laminar section of the hypothesized scaffold with aligned chitosan-PCL nanofibers arranged co-axially with the aligned microscale chitosan scaffold bands to mimic the required myogenic environment. A 6-day study of C2C12 mouse myoblast cells cultured on this hybrid scaffold indicated that the nanofibers and scaffold bands in the scaffold played a synergetic role in directing cell orientation, interaction, migration and organization. Our results showed that aligned nanofibers mediated cell alignment and the aligned scaffold bands induced the formation of a more compact assembly of myotube cells as compared to various control substrates including chitosan films, nanofibers, and chitosan bands. The expression levels of both early and late-stage myogenic differentiation genes associated with myogenin and myosin heavy chain, respectively, were higher on the hybrid substrate than on control substrates. Our study suggests that the combination of nano and microscale topological features in the ECM can direct myogenic differentiation, and the hybrid material has the potential to improve the outcome of skeletal tissue engineering. (papers)
The value of anthropometric indices for identifying women with features of metabolic syndrome
BMI is a widely used anthropometric measure for identifying CVD and metabolic syndrome (MetS) risk. Two new anthropometric indices are A Body Shape Index (ABSI) and Body Roundness Index (BRI) that may provide better correlations to features of MetS. Methods: Subject data were obtained from 91 over...
Nagarajan, Mahesh B; Coan, Paola; Huber, Markus B; Diemoz, Paul C; Wismüller, Axel
2015-11-01
Phase-contrast X-ray computed tomography (PCI-CT) has attracted significant interest in recent years for its ability to provide significantly improved image contrast in low absorbing materials such as soft biological tissue. In the research context of cartilage imaging, previous studies have demonstrated the ability of PCI-CT to visualize structural details of human patellar cartilage matrix and capture changes to chondrocyte organization induced by osteoarthritis. This study evaluates the use of geometrical and topological features for volumetric characterization of such chondrocyte patterns in the presence (or absence) of osteoarthritic damage. Geometrical features derived from the scaling index method (SIM) and topological features derived from Minkowski Functionals were extracted from 1392 volumes of interest (VOI) annotated on PCI-CT images of ex vivo human patellar cartilage specimens. These features were subsequently used in a machine learning task with support vector regression to classify VOIs as healthy or osteoarthritic; classification performance was evaluated using the area under the receiver operating characteristic curve (AUC). Our results show that the classification performance of SIM-derived geometrical features (AUC: 0.90 ± 0.09) is significantly better than Minkowski Functionals volume (AUC: 0.54 ± 0.02), surface (AUC: 0.72 ± 0.06), mean breadth (AUC: 0.74 ± 0.06) and Euler characteristic (AUC: 0.78 ± 0.04) (p < 10(-4)). These results suggest that such geometrical features can provide a detailed characterization of the chondrocyte organization in the cartilage matrix in an automated manner, while also enabling classification of cartilage as healthy or osteoarthritic with high accuracy. Such features could potentially serve as diagnostic imaging markers for evaluating osteoarthritis progression and its response to different therapeutic intervention strategies.
Gandomkar, Ziba; Brennan, Patrick C.; Mello-Thoms, Claudia
2017-03-01
Mitotic count is helpful in determining the aggressiveness of breast cancer. In previous studies, it was shown that the agreement among pathologists for grading mitotic index is fairly modest, as mitoses have a large variety of appearances and they could be mistaken for other similar objects. In this study, we determined local and contextual features that differ significantly between easily identifiable mitoses and challenging ones. The images were obtained from the Mitosis-Atypia 2014 challenge. In total, the dataset contained 453 mitotic figures. Two pathologists annotated each mitotic figure. In case of disagreement, an opinion from a third pathologist was requested. The mitoses were grouped into three categories, those recognized as "a true mitosis" by both pathologists ,those labelled as "a true mitosis" by only one of the first two readers and also the third pathologist, and those annotated as "probably a mitosis" by all readers or the majority of them. After color unmixing, the mitoses were segmented from H channel. Shape-based features along with intensity-based and textural features were extracted from H-channel, blue ratio channel and five different color spaces. Holistic features describing each image were also considered. The Kruskal-Wallis H test was used to identify significantly different features. Multiple comparisons were done using the rank-based version of Tukey-Kramer test. The results indicated that there are local and global features which differ significantly among different groups. In addition, variations between mitoses in different groups were captured in the features from HSL and LCH color space more than other ones.
Directory of Open Access Journals (Sweden)
S. D. Kulik
2010-03-01
Full Text Available The modification of the algorithm of identification of the informational object, used for identification of the hand-written texts performer in an automated workplace of the forensic expert, is presented. As modification, it is offered to use a method of association rules discovery for definition of statistically dependent sets of feature of hand-written capital letters of the Russian language. The algorithm is approved on set of 691 samples of hand-written documents for which about 2000 identifying feature are defined. The modification of the identification algorithm allows to lower level of errors and to raise quality of accepted decisions for information security.
Identifying features of pocket parks that may be related to health promoting use
DEFF Research Database (Denmark)
Peschardt, Karin Kragsig; Stigsdotter, Ulrika K.; Schipperijn, Jasper
2016-01-01
. The results show that ‘green features’ do not seem to be of crucial importance for ‘socialising’ whereas, as expected, features promoting gathering should be prioritised. For ‘rest and restitution’, the main results show that ‘green ground cover’ and ‘enclosed green niches’ are important, while ‘disturbing......Urban green spaces have been shown to promote health and well-being and recent research indicates that the two primary potentially health promoting uses of pocket parks are ‘rest and restitution’ and ‘socialising’. The aim of this study is to identify features in pocket parks that may support...... features’ (playground, view outside park) should be avoided. The results add knowledge about the features which support the health promoting use of pocket parks to the existing body of research....
Directory of Open Access Journals (Sweden)
Valentin Riemer
2017-07-01
Full Text Available The importance of emotions experienced by learners during their interaction with multimedia learning systems, such as serious games, underscores the need to identify sources of information that allow the recognition of learners’ emotional experience without interrupting the learning process. Bodily expression is gaining in attention as one of these sources of information. However, to date, the question of how bodily expression can convey different emotions has largely been addressed in research relying on acted emotion displays. Following a more contextualized approach, the present study aims to identify features of bodily expression (i.e., posture and activity of the upper body and the head that relate to genuine emotional experience during interaction with a serious game. In a multimethod approach, 70 undergraduates played a serious game relating to financial education while their bodily expression was captured using an off-the-shelf depth-image sensor (Microsoft Kinect. In addition, self-reports of experienced enjoyment, boredom, and frustration were collected repeatedly during gameplay, to address the dynamic changes in emotions occurring in educational tasks. Results showed that, firstly, the intensities of all emotions indeed changed significantly over the course of the game. Secondly, by using generalized estimating equations, distinct features of bodily expression could be identified as significant indicators for each emotion under investigation. A participant keeping their head more turned to the right was positively related to frustration being experienced, whereas keeping their head more turned to the left was positively related to enjoyment. Furthermore, having their upper body positioned more closely to the gaming screen was also positively related to frustration. Finally, increased activity of a participant’s head emerged as a significant indicator of boredom being experienced. These results confirm the value of bodily
Haltigan, John D; Vaillancourt, Tracy
2016-03-01
To examine trajectories of adolescent borderline personality (BP) features in a normative-risk cohort (n = 566) of Canadian children assessed at ages 13, 14, 15, and 16 and childhood predictors of trajectory group membership assessed at ages 8, 10, 11, and 12. Data were drawn from the McMaster Teen Study, an on-going study examining relations among bullying, mental health, and academic achievement. Participants and their parents completed a battery of mental health and peer relations questionnaires at each wave of the study. Academic competence was assessed at age 8 (Grade 3). Latent class growth analysis, analysis of variance, and logistic regression were used to analyze the data. Three distinct BP features trajectory groups were identified: elevated or rising, intermediate or stable, and low or stable. Parent- and child-reported mental health symptoms, peer relations risk factors, and intra-individual risk factors were significant predictors of elevated or rising and intermediate or stable trajectory groups. Child-reported attention-deficit hyperactivity disorder (ADHD) and somatization symptoms uniquely predicted elevated or rising trajectory group membership, whereas parent-reported anxiety and child-reported ADHD symptoms uniquely predicted intermediate or stable trajectory group membership. Child-reported somatization symptoms was the only predictor to differentiate the intermediate or stable and elevated or rising trajectory groups (OR 1.15, 95% CI 1.04 to 1.28). Associations between child-reported reactive temperament and elevated BP features trajectory group membership were 10.23 times higher among children who were bullied, supporting a diathesis-stress pathway in the development of BP features for these youth. Findings demonstrate the heterogeneous course of BP features in early adolescence and shed light on the potential prodromal course of later borderline personality disorder. © The Author(s) 2015.
kmer-SVM: a web server for identifying predictive regulatory sequence features in genomic data sets
Fletez-Brant, Christopher; Lee, Dongwon; McCallion, Andrew S.; Beer, Michael A.
2013-01-01
Massively parallel sequencing technologies have made the generation of genomic data sets a routine component of many biological investigations. For example, Chromatin immunoprecipitation followed by sequence assays detect genomic regions bound (directly or indirectly) by specific factors, and DNase-seq identifies regions of open chromatin. A major bottleneck in the interpretation of these data is the identification of the underlying DNA sequence code that defines, and ultimately facilitates prediction of, these transcription factor (TF) bound or open chromatin regions. We have recently developed a novel computational methodology, which uses a support vector machine (SVM) with kmer sequence features (kmer-SVM) to identify predictive combinations of short transcription factor-binding sites, which determine the tissue specificity of these genomic assays (Lee, Karchin and Beer, Discriminative prediction of mammalian enhancers from DNA sequence. Genome Res. 2011; 21:2167–80). This regulatory information can (i) give confidence in genomic experiments by recovering previously known binding sites, and (ii) reveal novel sequence features for subsequent experimental testing of cooperative mechanisms. Here, we describe the development and implementation of a web server to allow the broader research community to independently apply our kmer-SVM to analyze and interpret their genomic datasets. We analyze five recently published data sets and demonstrate how this tool identifies accessory factors and repressive sequence elements. kmer-SVM is available at http://kmersvm.beerlab.org. PMID:23771147
QCD as a topologically ordered system
International Nuclear Information System (INIS)
Zhitnitsky, Ariel R.
2013-01-01
We argue that QCD belongs to a topologically ordered phase similar to many well-known condensed matter systems with a gap such as topological insulators or superconductors. Our arguments are based on an analysis of the so-called “deformed QCD” which is a weakly coupled gauge theory, but nevertheless preserves all the crucial elements of strongly interacting QCD, including confinement, nontrivial θ dependence, degeneracy of the topological sectors, etc. Specifically, we construct the so-called topological “BF” action which reproduces the well known infrared features of the theory such as non-dispersive contribution to the topological susceptibility which cannot be associated with any propagating degrees of freedom. Furthermore, we interpret the well known resolution of the celebrated U(1) A problem where the would be η ′ Goldstone boson generates its mass as a result of mixing of the Goldstone field with a topological auxiliary field characterizing the system. We then identify the non-propagating auxiliary topological field of the BF formulation in deformed QCD with the Veneziano ghost (which plays the crucial role in resolution of the U(1) A problem). Finally, we elaborate on relation between “string-net” condensation in topologically ordered condensed matter systems and long range coherent configurations, the “skeletons”, studied in QCD lattice simulations. -- Highlights: •QCD may belong to a topologically ordered phase similar to condensed matter (CM) systems. •We identify the non-propagating topological field in deformed QCD with the Veneziano ghost. •Relation between “string-net” condensates in CM systems and the “skeletons” in QCD lattice simulations is studied
Feature genes in metastatic breast cancer identified by MetaDE and SVM classifier methods.
Tuo, Youlin; An, Ning; Zhang, Ming
2018-03-01
The aim of the present study was to investigate the feature genes in metastatic breast cancer samples. A total of 5 expression profiles of metastatic breast cancer samples were downloaded from the Gene Expression Omnibus database, which were then analyzed using the MetaQC and MetaDE packages in R language. The feature genes between metastasis and non‑metastasis samples were screened under the threshold of PSVM) classifier training and verification. The accuracy of the SVM classifier was then evaluated using another independent dataset from The Cancer Genome Atlas database. Finally, function and pathway enrichment analyses for genes in the SVM classifier were performed. A total of 541 feature genes were identified between metastatic and non‑metastatic samples. The top 10 genes with the highest betweenness centrality values in the PPI network of feature genes were Nuclear RNA Export Factor 1, cyclin‑dependent kinase 2 (CDK2), myelocytomatosis proto‑oncogene protein (MYC), Cullin 5, SHC Adaptor Protein 1, Clathrin heavy chain, Nucleolin, WD repeat domain 1, proteasome 26S subunit non‑ATPase 2 and telomeric repeat binding factor 2. The cyclin‑dependent kinase inhibitor 1A (CDKN1A), E2F transcription factor 1 (E2F1), and MYC interacted with CDK2. The SVM classifier constructed by the top 30 feature genes was able to distinguish metastatic samples from non‑metastatic samples [correct rate, specificity, positive predictive value and negative predictive value >0.89; sensitivity >0.84; area under the receiver operating characteristic curve (AUROC) >0.96]. The verification of the SVM classifier in an independent dataset (35 metastatic samples and 143 non‑metastatic samples) revealed an accuracy of 94.38% and AUROC of 0.958. Cell cycle associated functions and pathways were the most significant terms of the 30 feature genes. A SVM classifier was constructed to assess the possibility of breast cancer metastasis, which presented high accuracy in several
Energy Technology Data Exchange (ETDEWEB)
Kalb, Jeffrey L.; Lee, David S.
2008-01-01
Emerging high-bandwidth, low-latency network technology has made network-based architectures both feasible and potentially desirable for use in satellite payload architectures. The selection of network topology is a critical component when developing these multi-node or multi-point architectures. This study examines network topologies and their effect on overall network performance. Numerous topologies were reviewed against a number of performance, reliability, and cost metrics. This document identifies a handful of good network topologies for satellite applications and the metrics used to justify them as such. Since often multiple topologies will meet the requirements of the satellite payload architecture under development, the choice of network topology is not easy, and in the end the choice of topology is influenced by both the design characteristics and requirements of the overall system and the experience of the developer.
Directory of Open Access Journals (Sweden)
Steven N Hart
Full Text Available BACKGROUND: Structural variation (SV represents a significant, yet poorly understood contribution to an individual's genetic makeup. Advanced next-generation sequencing technologies are widely used to discover such variations, but there is no single detection tool that is considered a community standard. In an attempt to fulfil this need, we developed an algorithm, SoftSearch, for discovering structural variant breakpoints in Illumina paired-end next-generation sequencing data. SoftSearch combines multiple strategies for detecting SV including split-read, discordant read-pair, and unmated pairs. Co-localized split-reads and discordant read pairs are used to refine the breakpoints. RESULTS: We developed and validated SoftSearch using real and synthetic datasets. SoftSearch's key features are 1 not requiring secondary (or exhaustive primary alignment, 2 portability into established sequencing workflows, and 3 is applicable to any DNA-sequencing experiment (e.g. whole genome, exome, custom capture, etc.. SoftSearch identifies breakpoints from a small number of soft-clipped bases from split reads and a few discordant read-pairs which on their own would not be sufficient to make an SV call. CONCLUSIONS: We show that SoftSearch can identify more true SVs by combining multiple sequence features. SoftSearch was able to call clinically relevant SVs in the BRCA2 gene not reported by other tools while offering significantly improved overall performance.
Clay, Adam
2016-01-01
This book deals with the connections between topology and ordered groups. It begins with a self-contained introduction to orderable groups and from there explores the interactions between orderability and objects in low-dimensional topology, such as knot theory, braid groups, and 3-manifolds, as well as groups of homeomorphisms and other topological structures. The book also addresses recent applications of orderability in the studies of codimension-one foliations and Heegaard-Floer homology. The use of topological methods in proving algebraic results is another feature of the book. The book was written to serve both as a textbook for graduate students, containing many exercises, and as a reference for researchers in topology, algebra, and dynamical systems. A basic background in group theory and topology is the only prerequisite for the reader.
Quantum algorithms for topological and geometric analysis of data
Lloyd, Seth; Garnerone, Silvano; Zanardi, Paolo
2016-01-01
Extracting useful information from large data sets can be a daunting task. Topological methods for analysing data sets provide a powerful technique for extracting such information. Persistent homology is a sophisticated tool for identifying topological features and for determining how such features persist as the data is viewed at different scales. Here we present quantum machine learning algorithms for calculating Betti numbers—the numbers of connected components, holes and voids—in persistent homology, and for finding eigenvectors and eigenvalues of the combinatorial Laplacian. The algorithms provide an exponential speed-up over the best currently known classical algorithms for topological data analysis. PMID:26806491
International Nuclear Information System (INIS)
Mayer, B.; Chinn, S.C.; Maxwell, R.S.; Reimer, J.
2008-01-01
Characterizing and quantifying changes in elastomeric materials upon exposure to harsh environments is important in the estimation of device lifetimes. Nuclear magnetic resonance (NMR) spectroscopy has been used effectively in the analysis of such materials and has proved to be both sensitive to micro- and macroscopic changes associated with material 'aging'. Traditional analyses, however, rely on empirical formulae containing a large number of (often arbitrary) independent variables. This ambiguity can be circumvented largely by developing models of NMR observables that are based on basic polymer physics. We compare two such models, one previously published and one derived herein, along with empirical expressions that describe the proton transverse magnetization decay associated with complex polymer networks. One particular extracted parameter, the proton-proton residual dipolar coupling (RDC), can be directly related to network topology, and a comparison of the extracted RDCs reveals high consistency among the models. An expression derived from the properties of a static Gaussian chain can minimize the number of parameters necessarily to describe the solid-like, networked proton population to a single independent parameter, the average residual dipolar coupling, D avg .
International Nuclear Information System (INIS)
Knowles, David; Sudar, Damir; Bator, Carol; Bissell, Mina
2006-01-01
The organization of nuclear proteins is linked to cell and tissue phenotypes. When cells arrest proliferation, undergo apoptosis, or differentiate, the distribution of nuclear proteins changes. Conversely, forced alteration of the distribution of nuclear proteins modifies cell phenotype. Immunostaining and fluorescence microscopy have been critical for such findings. However, there is an increasing need for quantitative analysis of nuclear protein distribution to decipher epigenetic relationships between nuclear structure and cell phenotype, and to unravel the mechanisms linking nuclear structure and function. We have developed imaging methods to quantify the distribution of fluorescently-stained nuclear protein NuMA in different mammary phenotypes obtained using three-dimensional cell culture. Automated image segmentation of DAPI-stained nuclei was generated to isolate thousands of nuclei from three-dimensional confocal images. Prominent features of fluorescently-stained NuMA were detected using a novel local bright feature analysis technique, and their normalized spatial density calculated as a function of the distance from the nuclear perimeter to its center. The results revealed marked changes in the distribution of the density of NuMA bright features as non-neoplastic cells underwent phenotypically normal acinar morphogenesis. In contrast, we did not detect any reorganization of NuMA during the formation of tumor nodules by malignant cells. Importantly, the analysis also discriminated proliferating non-neoplastic cells from proliferating malignant cells, suggesting that these imaging methods are capable of identifying alterations linked not only to the proliferation status but also to the malignant character of cells. We believe that this quantitative analysis will have additional applications for classifying normal and pathological tissues
Energy Technology Data Exchange (ETDEWEB)
Knowles, David; Sudar, Damir; Bator, Carol; Bissell, Mina
2006-02-01
The organization of nuclear proteins is linked to cell and tissue phenotypes. When cells arrest proliferation, undergo apoptosis, or differentiate, the distribution of nuclear proteins changes. Conversely, forced alteration of the distribution of nuclear proteins modifies cell phenotype. Immunostaining and fluorescence microscopy have been critical for such findings. However, there is an increasing need for quantitative analysis of nuclear protein distribution to decipher epigenetic relationships between nuclear structure and cell phenotype, and to unravel the mechanisms linking nuclear structure and function. We have developed imaging methods to quantify the distribution of fluorescently-stained nuclear protein NuMA in different mammary phenotypes obtained using three-dimensional cell culture. Automated image segmentation of DAPI-stained nuclei was generated to isolate thousands of nuclei from three-dimensional confocal images. Prominent features of fluorescently-stained NuMA were detected using a novel local bright feature analysis technique, and their normalized spatial density calculated as a function of the distance from the nuclear perimeter to its center. The results revealed marked changes in the distribution of the density of NuMA bright features as non-neoplastic cells underwent phenotypically normal acinar morphogenesis. In contrast, we did not detect any reorganization of NuMA during the formation of tumor nodules by malignant cells. Importantly, the analysis also discriminated proliferating non-neoplastic cells from proliferating malignant cells, suggesting that these imaging methods are capable of identifying alterations linked not only to the proliferation status but also to the malignant character of cells. We believe that this quantitative analysis will have additional applications for classifying normal and pathological tissues.
Vidyasagar, Mathukumalli
2015-01-01
This article reviews several techniques from machine learning that can be used to study the problem of identifying a small number of features, from among tens of thousands of measured features, that can accurately predict a drug response. Prediction problems are divided into two categories: sparse classification and sparse regression. In classification, the clinical parameter to be predicted is binary, whereas in regression, the parameter is a real number. Well-known methods for both classes of problems are briefly discussed. These include the SVM (support vector machine) for classification and various algorithms such as ridge regression, LASSO (least absolute shrinkage and selection operator), and EN (elastic net) for regression. In addition, several well-established methods that do not directly fall into machine learning theory are also reviewed, including neural networks, PAM (pattern analysis for microarrays), SAM (significance analysis for microarrays), GSEA (gene set enrichment analysis), and k-means clustering. Several references indicative of the application of these methods to cancer biology are discussed.
Human body as a set of biometric features identified by means of optoelectronics
Podbielska, Halina; Bauer, Joanna
2005-09-01
Human body posses many unique, singular features that are impossible to copy or forge. Nowadays, to establish and to ensure the public security requires specially designed devices and systems. Biometrics is a field of science and technology, exploiting human body characteristics for people recognition. It identifies the most characteristic and unique ones in order to design and construct systems capable to recognize people. In this paper some overview is given, presenting the achievements in biometrics. The verification and identification process is explained, along with the way of evaluation of biometric recognition systems. The most frequently human biometrics used in practice are shortly presented, including fingerprints, facial imaging (including thermal characteristic), hand geometry and iris patterns.
Nonlinear features identified by Volterra series for damage detection in a buckled beam
Directory of Open Access Journals (Sweden)
Shiki S. B.
2014-01-01
Full Text Available The present paper proposes a new index for damage detection based on nonlinear features extracted from prediction errors computed by multiple convolutions using the discrete-time Volterra series. A reference Volterra model is identified with data in the healthy condition and used for monitoring the system operating with linear or nonlinear behavior. When the system has some structural change, possibly associated with damage, the index metrics computed could give an alert to separate the linear and nonlinear contributions, besides provide a diagnostic about the structural state. To show the applicability of the method, an experimental test is performed using nonlinear vibration signals measured in a clamped buckled beam subject to different levels of force applied and with simulated damages through discontinuities inserted in the beam surface.
Identifying persistent and characteristic features in firearm tool marks on cartridge cases
Ott, Daniel; Soons, Johannes; Thompson, Robert; Song, John
2017-12-01
Recent concerns about subjectivity in forensic firearm identification have motivated the development of algorithms to compare firearm tool marks that are imparted on ammunition and to generate quantitative measures of similarity. In this paper, we describe an algorithm that identifies impressed tool marks on a cartridge case that are both consistent between firings and contribute strongly to a surface similarity metric. The result is a representation of the tool mark topography that emphasizes both significant and persistent features across firings. This characteristic surface map is useful for understanding the variability and persistence of the tool marks created by a firearm and can provide improved discrimination between the comparison scores of samples fired from the same firearm and the scores of samples fired from different firearms. The algorithm also provides a convenient method for visualizing areas of similarity that may be useful in providing quantitative support for visual comparisons by trained examiners.
Directory of Open Access Journals (Sweden)
Marcel Kool
Full Text Available BACKGROUND: Medulloblastoma is the most common malignant brain tumor in children. Despite recent improvements in cure rates, prediction of disease outcome remains a major challenge and survivors suffer from serious therapy-related side-effects. Recent data showed that patients with WNT-activated tumors have a favorable prognosis, suggesting that these patients could be treated less intensively, thereby reducing the side-effects. This illustrates the potential benefits of a robust classification of medulloblastoma patients and a detailed knowledge of associated biological mechanisms. METHODS AND FINDINGS: To get a better insight into the molecular biology of medulloblastoma we established mRNA expression profiles of 62 medulloblastomas and analyzed 52 of them also by comparative genomic hybridization (CGH arrays. Five molecular subtypes were identified, characterized by WNT signaling (A; 9 cases, SHH signaling (B; 15 cases, expression of neuronal differentiation genes (C and D; 16 and 11 cases, respectively or photoreceptor genes (D and E; both 11 cases. Mutations in beta-catenin were identified in all 9 type A tumors, but not in any other tumor. PTCH1 mutations were exclusively identified in type B tumors. CGH analysis identified several fully or partly subtype-specific chromosomal aberrations. Monosomy of chromosome 6 occurred only in type A tumors, loss of 9q mostly occurred in type B tumors, whereas chromosome 17 aberrations, most common in medulloblastoma, were strongly associated with type C or D tumors. Loss of the inactivated X-chromosome was highly specific for female cases of type C, D and E tumors. Gene expression levels faithfully reflected the chromosomal copy number changes. Clinicopathological features significantly different between the 5 subtypes included metastatic disease and age at diagnosis and histology. Metastatic disease at diagnosis was significantly associated with subtypes C and D and most strongly with subtype E
Willard, Stephen
2004-01-01
Among the best available reference introductions to general topology, this volume is appropriate for advanced undergraduate and beginning graduate students. Its treatment encompasses two broad areas of topology: ""continuous topology,"" represented by sections on convergence, compactness, metrization and complete metric spaces, uniform spaces, and function spaces; and ""geometric topology,"" covered by nine sections on connectivity properties, topological characterization theorems, and homotopy theory. Many standard spaces are introduced in the related problems that accompany each section (340
Gomez-Valero, Laura; Rusniok, Christophe; Rolando, Monica; Neou, Mario; Dervins-Ravault, Delphine; Demirtas, Jasmin; Rouy, Zoe; Moore, Robert J; Chen, Honglei; Petty, Nicola K; Jarraud, Sophie; Etienne, Jerome; Steinert, Michael; Heuner, Klaus; Gribaldo, Simonetta; Médigue, Claudine; Glöckner, Gernot; Hartland, Elizabeth L; Buchrieser, Carmen
2014-01-01
The genus Legionella comprises over 60 species. However, L. pneumophila and L. longbeachae alone cause over 95% of Legionnaires’ disease. To identify the genetic bases underlying the different capacities to cause disease we sequenced and compared the genomes of L. micdadei, L. hackeliae and L. fallonii (LLAP10), which are all rarely isolated from humans. We show that these Legionella species possess different virulence capacities in amoeba and macrophages, correlating with their occurrence in humans. Our comparative analysis of 11 Legionella genomes belonging to five species reveals highly heterogeneous genome content with over 60% representing species-specific genes; these comprise a complete prophage in L. micdadei, the first ever identified in a Legionella genome. Mobile elements are abundant in Legionella genomes; many encode type IV secretion systems for conjugative transfer, pointing to their importance for adaptation of the genus. The Dot/Icm secretion system is conserved, although the core set of substrates is small, as only 24 out of over 300 described Dot/Icm effector genes are present in all Legionella species. We also identified new eukaryotic motifs including thaumatin, synaptobrevin or clathrin/coatomer adaptine like domains. Legionella genomes are highly dynamic due to a large mobilome mainly comprising type IV secretion systems, while a minority of core substrates is shared among the diverse species. Eukaryotic like proteins and motifs remain a hallmark of the genus Legionella. Key factors such as proteins involved in oxygen binding, iron storage, host membrane transport and certain Dot/Icm substrates are specific features of disease-related strains.
While more than a thousand protein kinases (PK) have been identified in the Arabidopsis thaliana genome, relatively little progress has been made towards identifying their individual client proteins. Herein we describe use of a mass spectrometry-based in vitro phosphorylation strategy, termed Kinase...
Vortex line topology during vortex tube reconnection
McGavin, P.; Pontin, D. I.
2018-05-01
This paper addresses reconnection of vortex tubes, with particular focus on the topology of the vortex lines (field lines of the vorticity). This analysis of vortex line topology reveals key features of the reconnection process, such as the generation of many small flux rings, formed when reconnection occurs in multiple locations in the vortex sheet between the tubes. Consideration of three-dimensional reconnection principles leads to a robust measurement of the reconnection rate, even once instabilities break the symmetry. It also allows us to identify internal reconnection of vortex lines within the individual vortex tubes. Finally, the introduction of a third vortex tube is shown to render the vortex reconnection process fully three-dimensional, leading to a fundamental change in the topological structure of the process. An additional interesting feature is the generation of vorticity null points.
DEFF Research Database (Denmark)
Hunt, Lilian E; Noyvert, Boris; Bhaw-Rosun, Leena
2015-01-01
BACKGROUND: Association studies have identified a number of loci that contribute to an increased body mass index (BMI), the strongest of which is in the first intron of the FTO gene on human chromosome 16q12.2. However, this region is both non-coding and under strong linkage disequilibrium, making...... it recalcitrant to functional interpretation. Furthermore, the FTO gene is located within a complex cis-regulatory landscape defined by a topologically associated domain that includes the IRXB gene cluster, a trio of developmental regulators. Consequently, at least three genes in this interval have been...... implicated in the aetiology of obesity. METHODS: Here, we sequence a 2 Mb region encompassing the FTO, RPGRIP1L and IRXB cluster genes in 284 individuals from a well-characterised study group of Danish men containing extremely overweight young adults and controls. We further replicate our findings both...
Identifying the Minimum Model Features to Replicate Historic Morphodynamics of a Juvenile Delta
Czapiga, M. J.; Parker, G.
2017-12-01
We introduce a quasi-2D morphodynamic delta model that improves on past models that require many simplifying assumptions, e.g. a single channel representative of a channel network, fixed channel width, and spatially uniform deposition. Our model is useful for studying long-term progradation rates of any generic micro-tidal delta system with specification of: characteristic grain size, input water and sediment discharges and basin morphology. In particular, we relax the assumption of a single, implicit channel sweeping across the delta topset in favor of an implicit channel network. This network, coupled with recent research on channel-forming Shields number, quantitative assessments of the lateral depositional length of sand (corresponding loosely to levees) and length between bifurcations create a spatial web of deposition within the receiving basin. The depositional web includes spatial boundaries for areas infilling with sands carried as bed material load, as well as those filling via passive deposition of washload mud. Our main goal is to identify the minimum features necessary to accurately model the morphodynamics of channel number, width, depth, and overall delta progradation rate in a juvenile delta. We use the Wax Lake Delta in Louisiana as a test site due to its rapid growth in the last 40 years. Field data including topset/island bathymetry, channel bathymetry, topset/island width, channel width, number of channels, and radial topset length are compiled from US Army Corps of Engineers data for 1989, 1998, and 2006. Additional data is extracted from a DEM from 2015. These data are used as benchmarks for the hindcast model runs. The morphology of Wax Lake Delta is also strongly affected by a pre-delta substrate that acts as a lower "bedrock" boundary. Therefore, we also include closures for a bedrock-alluvial transition and an excess shear rate-law incision model to estimate bedrock incision. The model's framework is generic, but inclusion of individual
Topological insulators and topological superconductors
Bernevig, Andrei B
2013-01-01
This graduate-level textbook is the first pedagogical synthesis of the field of topological insulators and superconductors, one of the most exciting areas of research in condensed matter physics. Presenting the latest developments, while providing all the calculations necessary for a self-contained and complete description of the discipline, it is ideal for graduate students and researchers preparing to work in this area, and it will be an essential reference both within and outside the classroom. The book begins with simple concepts such as Berry phases, Dirac fermions, Hall conductance and its link to topology, and the Hofstadter problem of lattice electrons in a magnetic field. It moves on to explain topological phases of matter such as Chern insulators, two- and three-dimensional topological insulators, and Majorana p-wave wires. Additionally, the book covers zero modes on vortices in topological superconductors, time-reversal topological superconductors, and topological responses/field theory and topolo...
Directory of Open Access Journals (Sweden)
Eliane Vale Tanaka
2012-12-01
Full Text Available Mastitis is an infection of the mammary gland mainly caused by bacteria. In sheep, besides it causes chemical and physical changes in milk with the loss in quality, mastitis changes the glandular tissue which may lead to premature cull-out from the herd. This study aimed to evaluate the diagnostic features of the California Mastitis Test (CMT and somatic cell count (SCC to the identification of subclinical mastitis in sheep according to the micro-organisms isolated. The work is at an early stage and CMT was performed in all ewes. It was considered positive results all degrees of reaction, while the negative reaction was considered when there was not viscosity. Subsequently, samples were collected aseptically from milk and were sent for microbiological analysis. A total of 160 milk samples were analyzed from 85 Santa Inês sheep belonging to the Embrapa Southeast Livestock in São Carlos, São Paulo. Samples were plated on sheep blood agar to 5% and incubated for 24h/72h at 35 ° C. In samples with growth, tests to the identification of the microorganisms were performed, macroscopic characteristics of the colonies and the production or absence of hemolysis, Gram staining, catalase test, coagulase test with rabbit plasma and verification of acetoin production. The sensitivity of the diagnostic tests were determined in accordance to the ratio of the positive tests and the presence of the disease, while the specificities were calculated according to the ratio of the negative results and the absence of disease. The efficiency was based on the percentage of true results that the test was able to provide diagnosis. SCC in milk was determined using the somatic cell count Somacount 300 (Bentley and the presence of the disease was given when isolated coagulase-positive staphylococci (CPS, coagulase-negative staphylococci (CNS, coliforms and other microorganisms (Corinebacteria, strep and association of two bacteria in a same sample. It was used the limit
Kerr, Deirdre; Chung, Gregory K. W. K.
2012-01-01
The assessment cycle of "evidence-centered design" (ECD) provides a framework for treating an educational video game or simulation as an assessment. One of the main steps in the assessment cycle of ECD is the identification of the key features of student performance. While this process is relatively simple for multiple choice tests, when…
An Educational System to Help Students Assess Website Features and Identify High-Risk Websites
Kajiyama, Tomoko; Echizen, Isao
2015-01-01
Purpose: The purpose of this paper is to propose an effective educational system to help students assess Web site risk by providing an environment in which students can better understand a Web site's features and determine the risks of accessing the Web site for themselves. Design/methodology/approach: The authors have enhanced a prototype…
Ping, Zheng; Siegal, Gene P.; Almeida, Jonas S.; Schnitt, Stuart J.; Shen, Dejun
2014-01-01
Background: Genetics and genomics have radically altered our understanding of breast cancer progression. However, the genomic basis of various histopathologic features of breast cancer is not yet well-defined. Materials and Methods: The Cancer Genome Atlas (TCGA) is an international database containing a large collection of human cancer genome sequencing data. cBioPortal is a web tool developed for mining these sequencing data. We performed mining of TCGA sequencing data in an attempt to characterize the genomic features correlated with breast cancer histopathology. We first assessed the quality of the TCGA data using a group of genes with known alterations in various cancers. Both genome-wide gene mutation and copy number changes as well as a group of genes with a high frequency of genetic changes were then correlated with various histopathologic features of invasive breast cancer. Results: Validation of TCGA data using a group of genes with known alterations in breast cancer suggests that the TCGA has accurately documented the genomic abnormalities of multiple malignancies. Further analysis of TCGA breast cancer sequencing data shows that accumulation of specific genomic defects is associated with higher tumor grade, larger tumor size and receptor negativity. Distinct groups of genomic changes were found to be associated with the different grades of invasive ductal carcinoma. The mutator role of the TP53 gene was validated by genomic sequencing data of invasive breast cancer and TP53 mutation was found to play a critical role in defining high tumor grade. Conclusions: Data mining of the TCGA genome sequencing data is an innovative and reliable method to help characterize the genomic abnormalities associated with histopathologic features of invasive breast cancer. PMID:24672738
Directory of Open Access Journals (Sweden)
Zheng Ping
2014-01-01
Full Text Available Background: Genetics and genomics have radically altered our understanding of breast cancer progression. However, the genomic basis of various histopathologic features of breast cancer is not yet well-defined. Materials and Methods: The Cancer Genome Atlas (TCGA is an international database containing a large collection of human cancer genome sequencing data. cBioPortal is a web tool developed for mining these sequencing data. We performed mining of TCGA sequencing data in an attempt to characterize the genomic features correlated with breast cancer histopathology. We first assessed the quality of the TCGA data using a group of genes with known alterations in various cancers. Both genome-wide gene mutation and copy number changes as well as a group of genes with a high frequency of genetic changes were then correlated with various histopathologic features of invasive breast cancer. Results: Validation of TCGA data using a group of genes with known alterations in breast cancer suggests that the TCGA has accurately documented the genomic abnormalities of multiple malignancies. Further analysis of TCGA breast cancer sequencing data shows that accumulation of specific genomic defects is associated with higher tumor grade, larger tumor size and receptor negativity. Distinct groups of genomic changes were found to be associated with the different grades of invasive ductal carcinoma. The mutator role of the TP53 gene was validated by genomic sequencing data of invasive breast cancer and TP53 mutation was found to play a critical role in defining high tumor grade. Conclusions: Data mining of the TCGA genome sequencing data is an innovative and reliable method to help characterize the genomic abnormalities associated with histopathologic features of invasive breast cancer.
A Comparison of the Identifying Features of Imitated Handwriting and Elderly Handwriting
Jing Wang
2017-01-01
Imitated handwriting and elderly handwriting are two manifestation patterns of altered handwriting. Several similarities in features can be found in both, such as gentle movement and curved jitter. In practice, it is very easy to confuse the two patterns, leading to wrong decisions and difficulties in document examination. The key to solving these problems is to recognize the similarities and differences between imitated handwriting and elderly handwriting. This paper comprises four parts. Th...
Goodman, Sue E
2009-01-01
Beginning Topology is designed to give undergraduate students a broad notion of the scope of topology in areas of point-set, geometric, combinatorial, differential, and algebraic topology, including an introduction to knot theory. A primary goal is to expose students to some recent research and to get them actively involved in learning. Exercises and open-ended projects are placed throughout the text, making it adaptable to seminar-style classes. The book starts with a chapter introducing the basic concepts of point-set topology, with examples chosen to captivate students' imaginations while i
A Novel Technique for Identifying Patients with ICU Needs Using Hemodynamic Features
Directory of Open Access Journals (Sweden)
A. Jalali
2012-01-01
Full Text Available Identification of patients requiring intensive care is a critical issue in clinical treatment. The objective of this study is to develop a novel methodology using hemodynamic features for distinguishing such patients requiring intensive care from a group of healthy subjects. In this study, based on the hemodynamic features, subjects are divided into three groups: healthy, risky and patient. For each of the healthy and patient subjects, the evaluated features are based on the analysis of existing differences between hemodynamic variables: Blood Pressure and Heart Rate. Further, four criteria from the hemodynamic variables are introduced: circle criterion, estimation error criterion, Poincare plot deviation, and autonomic response delay criterion. For each of these criteria, three fuzzy membership functions are defined to distinguish patients from healthy subjects. Furthermore, based on the evaluated criteria, a scoring method is developed. In this scoring method membership degree of each subject is evaluated for the three classifying groups. Then, for each subject, the cumulative sum of membership degree of all four criteria is calculated. Finally, a given subject is classified with the group which has the largest cumulative sum. In summary, the scoring method results in 86% sensitivity, 94.8% positive predictive accuracy and 82.2% total accuracy.
Halim, N. Z. A.; Sulaiman, S. A.; Talib, K.; Ng, E. G.
2018-02-01
This paper explains the process carried out in identifying the relevant features of the National Digital Cadastral Database (NDCDB) for spatial analysis. The research was initially a part of a larger research exercise to identify the significance of NDCDB from the legal, technical, role and land-based analysis perspectives. The research methodology of applying the Delphi technique is substantially discussed in this paper. A heterogeneous panel of 14 experts was created to determine the importance of NDCDB from the technical relevance standpoint. Three statements describing the relevant features of NDCDB for spatial analysis were established after three rounds of consensus building. It highlighted the NDCDB’s characteristics such as its spatial accuracy, functions, and criteria as a facilitating tool for spatial analysis. By recognising the relevant features of NDCDB for spatial analysis in this study, practical application of NDCDB for various analysis and purpose can be widely implemented.
Microbiological Features of KPC-Producing Enterobacter Isolates Identified in a U.S. Hospital System
Ahn, Chulsoo; Syed, Alveena; Hu, Fupin; O’Hara, Jessica A.; Rivera, Jesabel I.; Doi, Yohei
2014-01-01
Microbiological data regarding KPC-producing Enterobacter spp. are scarce. In this study, 11 unique KPC-producing Enterobacter isolates were identified among 44 ertapenem-non-susceptible Enterobacter isolates collected between 2009 and 2013 at a hospital system in Western Pennsylvania. All cases were healthcare-associated and occurred in medically complex patients. While pulsed-field gel electrophoresis (PFGE) showed diverse restriction patterns overall, multilocus sequence typing (MLST) identified Enterobacter cloacae isolates with sequence types (STs) 93 and 171 from two hospitals each. The levels of carbapenem minimum inhibitory concentrations were highly variable. All isolates remained susceptible to colistin, tigecycline, and the majority to amikacin and doxycycline. A blaKPC-carrying IncN plasmid conferring trimethoprim-sulfamethoxazole resistance was identified in three of the isolates. Spread of blaKPC in Enterobacter spp. appears to be due to a combination of plasmid-mediated and clonal processes. PMID:25053203
Buchin, K.; Buchin, M.; Wagner, D.; Wattenhofer, R.
2007-01-01
Information between two nodes in a network is sent based on the network topology, the structure of links connecting pairs of nodes of a network. The task of topology control is to choose a connecting subset from all possible links such that the overall network performance is good. For instance, a
Unique features of a global human ectoparasite identified through sequencing of the bed bug genome.
Benoit, Joshua B; Adelman, Zach N; Reinhardt, Klaus; Dolan, Amanda; Poelchau, Monica; Jennings, Emily C; Szuter, Elise M; Hagan, Richard W; Gujar, Hemant; Shukla, Jayendra Nath; Zhu, Fang; Mohan, M; Nelson, David R; Rosendale, Andrew J; Derst, Christian; Resnik, Valentina; Wernig, Sebastian; Menegazzi, Pamela; Wegener, Christian; Peschel, Nicolai; Hendershot, Jacob M; Blenau, Wolfgang; Predel, Reinhard; Johnston, Paul R; Ioannidis, Panagiotis; Waterhouse, Robert M; Nauen, Ralf; Schorn, Corinna; Ott, Mark-Christoph; Maiwald, Frank; Johnston, J Spencer; Gondhalekar, Ameya D; Scharf, Michael E; Peterson, Brittany F; Raje, Kapil R; Hottel, Benjamin A; Armisén, David; Crumière, Antonin Jean Johan; Refki, Peter Nagui; Santos, Maria Emilia; Sghaier, Essia; Viala, Sèverine; Khila, Abderrahman; Ahn, Seung-Joon; Childers, Christopher; Lee, Chien-Yueh; Lin, Han; Hughes, Daniel S T; Duncan, Elizabeth J; Murali, Shwetha C; Qu, Jiaxin; Dugan, Shannon; Lee, Sandra L; Chao, Hsu; Dinh, Huyen; Han, Yi; Doddapaneni, Harshavardhan; Worley, Kim C; Muzny, Donna M; Wheeler, David; Panfilio, Kristen A; Vargas Jentzsch, Iris M; Vargo, Edward L; Booth, Warren; Friedrich, Markus; Weirauch, Matthew T; Anderson, Michelle A E; Jones, Jeffery W; Mittapalli, Omprakash; Zhao, Chaoyang; Zhou, Jing-Jiang; Evans, Jay D; Attardo, Geoffrey M; Robertson, Hugh M; Zdobnov, Evgeny M; Ribeiro, Jose M C; Gibbs, Richard A; Werren, John H; Palli, Subba R; Schal, Coby; Richards, Stephen
2016-02-02
The bed bug, Cimex lectularius, has re-established itself as a ubiquitous human ectoparasite throughout much of the world during the past two decades. This global resurgence is likely linked to increased international travel and commerce in addition to widespread insecticide resistance. Analyses of the C. lectularius sequenced genome (650 Mb) and 14,220 predicted protein-coding genes provide a comprehensive representation of genes that are linked to traumatic insemination, a reduced chemosensory repertoire of genes related to obligate hematophagy, host-symbiont interactions, and several mechanisms of insecticide resistance. In addition, we document the presence of multiple putative lateral gene transfer events. Genome sequencing and annotation establish a solid foundation for future research on mechanisms of insecticide resistance, human-bed bug and symbiont-bed bug associations, and unique features of bed bug biology that contribute to the unprecedented success of C. lectularius as a human ectoparasite.
Unique features of a global human ectoparasite identified through sequencing of the bed bug genome
Benoit, Joshua B.; Adelman, Zach N.; Reinhardt, Klaus; Dolan, Amanda; Poelchau, Monica; Jennings, Emily C.; Szuter, Elise M.; Hagan, Richard W.; Gujar, Hemant; Shukla, Jayendra Nath; Zhu, Fang; Mohan, M.; Nelson, David R.; Rosendale, Andrew J.; Derst, Christian; Resnik, Valentina; Wernig, Sebastian; Menegazzi, Pamela; Wegener, Christian; Peschel, Nicolai; Hendershot, Jacob M.; Blenau, Wolfgang; Predel, Reinhard; Johnston, Paul R.; Ioannidis, Panagiotis; Waterhouse, Robert M.; Nauen, Ralf; Schorn, Corinna; Ott, Mark-Christoph; Maiwald, Frank; Johnston, J. Spencer; Gondhalekar, Ameya D.; Scharf, Michael E.; Peterson, Brittany F.; Raje, Kapil R.; Hottel, Benjamin A.; Armisén, David; Crumière, Antonin Jean Johan; Refki, Peter Nagui; Santos, Maria Emilia; Sghaier, Essia; Viala, Sèverine; Khila, Abderrahman; Ahn, Seung-Joon; Childers, Christopher; Lee, Chien-Yueh; Lin, Han; Hughes, Daniel S. T.; Duncan, Elizabeth J.; Murali, Shwetha C.; Qu, Jiaxin; Dugan, Shannon; Lee, Sandra L.; Chao, Hsu; Dinh, Huyen; Han, Yi; Doddapaneni, Harshavardhan; Worley, Kim C.; Muzny, Donna M.; Wheeler, David; Panfilio, Kristen A.; Vargas Jentzsch, Iris M.; Vargo, Edward L.; Booth, Warren; Friedrich, Markus; Weirauch, Matthew T.; Anderson, Michelle A. E.; Jones, Jeffery W.; Mittapalli, Omprakash; Zhao, Chaoyang; Zhou, Jing-Jiang; Evans, Jay D.; Attardo, Geoffrey M.; Robertson, Hugh M.; Zdobnov, Evgeny M.; Ribeiro, Jose M. C.; Gibbs, Richard A.; Werren, John H.; Palli, Subba R.; Schal, Coby; Richards, Stephen
2016-01-01
The bed bug, Cimex lectularius, has re-established itself as a ubiquitous human ectoparasite throughout much of the world during the past two decades. This global resurgence is likely linked to increased international travel and commerce in addition to widespread insecticide resistance. Analyses of the C. lectularius sequenced genome (650 Mb) and 14,220 predicted protein-coding genes provide a comprehensive representation of genes that are linked to traumatic insemination, a reduced chemosensory repertoire of genes related to obligate hematophagy, host–symbiont interactions, and several mechanisms of insecticide resistance. In addition, we document the presence of multiple putative lateral gene transfer events. Genome sequencing and annotation establish a solid foundation for future research on mechanisms of insecticide resistance, human–bed bug and symbiont–bed bug associations, and unique features of bed bug biology that contribute to the unprecedented success of C. lectularius as a human ectoparasite. PMID:26836814
New method for identifying features of an image on a digital video display
Doyle, Michael D.
1991-04-01
The MetaMap process extends the concept of direct manipulation human-computer interfaces to new limits. Its specific capabilities include the correlation of discrete image elements to relevant text information and the correlation of these image features to other images as well as to program control mechanisms. The correlation is accomplished through reprogramming of both the color map and the image so that discrete image elements comprise unique sets of color indices. This process allows the correlation to be accomplished with very efficient data storage and program execution times. Image databases adapted to this process become object-oriented as a result. Very sophisticated interrelationships can be set up between images text and program control mechanisms using this process. An application of this interfacing process to the design of an interactive atlas of medical histology as well as other possible applications are described. The MetaMap process is protected by U. S. patent #4
International Nuclear Information System (INIS)
Tamburini, Beth A; Cutter, Gary R; Wojcieszyn, John W; Bellgrau, Donald; Gemmill, Robert M; Hunter, Lawrence E; Modiano, Jaime F; Phang, Tzu L; Fosmire, Susan P; Scott, Milcah C; Trapp, Susan C; Duckett, Megan M; Robinson, Sally R; Slansky, Jill E; Sharkey, Leslie C
2010-01-01
The etiology of hemangiosarcoma remains incompletely understood. Its common occurrence in dogs suggests predisposing factors favor its development in this species. These factors could represent a constellation of heritable characteristics that promote transformation events and/or facilitate the establishment of a microenvironment that is conducive for survival of malignant blood vessel-forming cells. The hypothesis for this study was that characteristic molecular features distinguish hemangiosarcoma from non-malignant endothelial cells, and that such features are informative for the etiology of this disease. We first investigated mutations of VHL and Ras family genes that might drive hemangiosarcoma by sequencing tumor DNA and mRNA (cDNA). Protein expression was examined using immunostaining. Next, we evaluated genome-wide gene expression profiling using the Affymetrix Canine 2.0 platform as a global approach to test the hypothesis. Data were evaluated using routine bioinformatics and validation was done using quantitative real time RT-PCR. Each of 10 tumor and four non-tumor samples analyzed had wild type sequences for these genes. At the genome wide level, hemangiosarcoma cells clustered separately from non-malignant endothelial cells based on a robust signature that included genes involved in inflammation, angiogenesis, adhesion, invasion, metabolism, cell cycle, signaling, and patterning. This signature did not simply reflect a cancer-associated angiogenic phenotype, as it also distinguished hemangiosarcoma from non-endothelial, moderately to highly angiogenic bone marrow-derived tumors (lymphoma, leukemia, osteosarcoma). The data show that inflammation and angiogenesis are important processes in the pathogenesis of vascular tumors, but a definitive ontogeny of the cells that give rise to these tumors remains to be established. The data do not yet distinguish whether functional or ontogenetic plasticity creates this phenotype, although they suggest that cells
Directory of Open Access Journals (Sweden)
Slansky Jill E
2010-11-01
Full Text Available Abstract Background The etiology of hemangiosarcoma remains incompletely understood. Its common occurrence in dogs suggests predisposing factors favor its development in this species. These factors could represent a constellation of heritable characteristics that promote transformation events and/or facilitate the establishment of a microenvironment that is conducive for survival of malignant blood vessel-forming cells. The hypothesis for this study was that characteristic molecular features distinguish hemangiosarcoma from non-malignant endothelial cells, and that such features are informative for the etiology of this disease. Methods We first investigated mutations of VHL and Ras family genes that might drive hemangiosarcoma by sequencing tumor DNA and mRNA (cDNA. Protein expression was examined using immunostaining. Next, we evaluated genome-wide gene expression profiling using the Affymetrix Canine 2.0 platform as a global approach to test the hypothesis. Data were evaluated using routine bioinformatics and validation was done using quantitative real time RT-PCR. Results Each of 10 tumor and four non-tumor samples analyzed had wild type sequences for these genes. At the genome wide level, hemangiosarcoma cells clustered separately from non-malignant endothelial cells based on a robust signature that included genes involved in inflammation, angiogenesis, adhesion, invasion, metabolism, cell cycle, signaling, and patterning. This signature did not simply reflect a cancer-associated angiogenic phenotype, as it also distinguished hemangiosarcoma from non-endothelial, moderately to highly angiogenic bone marrow-derived tumors (lymphoma, leukemia, osteosarcoma. Conclusions The data show that inflammation and angiogenesis are important processes in the pathogenesis of vascular tumors, but a definitive ontogeny of the cells that give rise to these tumors remains to be established. The data do not yet distinguish whether functional or ontogenetic
A topological derivative method for topology optimization
DEFF Research Database (Denmark)
Norato, J.; Bendsøe, Martin P.; Haber, RB
2007-01-01
resource constraint. A smooth and consistent projection of the region bounded by the level set onto the fictitious analysis domain simplifies the response analysis and enhances the convergence of the optimization algorithm. Moreover, the projection supports the reintroduction of solid material in void......We propose a fictitious domain method for topology optimization in which a level set of the topological derivative field for the cost function identifies the boundary of the optimal design. We describe a fixed-point iteration scheme that implements this optimality criterion subject to a volumetric...... regions, a critical requirement for robust topology optimization. We present several numerical examples that demonstrate compliance minimization of fixed-volume, linearly elastic structures....
Identifying Key Features of Effective Active Learning: The Effects of Writing and Peer Discussion
Pangle, Wiline M.; Wyatt, Kevin H.; Powell, Karli N.; Sherwood, Rachel E.
2014-01-01
We investigated some of the key features of effective active learning by comparing the outcomes of three different methods of implementing active-learning exercises in a majors introductory biology course. Students completed activities in one of three treatments: discussion, writing, and discussion + writing. Treatments were rotated weekly between three sections taught by three different instructors in a full factorial design. The data set was analyzed by generalized linear mixed-effect models with three independent variables: student aptitude, treatment, and instructor, and three dependent (assessment) variables: change in score on pre- and postactivity clicker questions, and coding scores on in-class writing and exam essays. All independent variables had significant effects on student performance for at least one of the dependent variables. Students with higher aptitude scored higher on all assessments. Student scores were higher on exam essay questions when the activity was implemented with a writing component compared with peer discussion only. There was a significant effect of instructor, with instructors showing different degrees of effectiveness with active-learning techniques. We suggest that individual writing should be implemented as part of active learning whenever possible and that instructors may need training and practice to become effective with active learning. PMID:25185230
Identifying key features of effective active learning: the effects of writing and peer discussion.
Linton, Debra L; Pangle, Wiline M; Wyatt, Kevin H; Powell, Karli N; Sherwood, Rachel E
2014-01-01
We investigated some of the key features of effective active learning by comparing the outcomes of three different methods of implementing active-learning exercises in a majors introductory biology course. Students completed activities in one of three treatments: discussion, writing, and discussion + writing. Treatments were rotated weekly between three sections taught by three different instructors in a full factorial design. The data set was analyzed by generalized linear mixed-effect models with three independent variables: student aptitude, treatment, and instructor, and three dependent (assessment) variables: change in score on pre- and postactivity clicker questions, and coding scores on in-class writing and exam essays. All independent variables had significant effects on student performance for at least one of the dependent variables. Students with higher aptitude scored higher on all assessments. Student scores were higher on exam essay questions when the activity was implemented with a writing component compared with peer discussion only. There was a significant effect of instructor, with instructors showing different degrees of effectiveness with active-learning techniques. We suggest that individual writing should be implemented as part of active learning whenever possible and that instructors may need training and practice to become effective with active learning. © 2014 D. L. Linton et al. CBE—Life Sciences Education © 2014 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).
Buchstaber, Victor M
2015-01-01
This book is about toric topology, a new area of mathematics that emerged at the end of the 1990s on the border of equivariant topology, algebraic and symplectic geometry, combinatorics, and commutative algebra. It has quickly grown into a very active area with many links to other areas of mathematics, and continues to attract experts from different fields. The key players in toric topology are moment-angle manifolds, a class of manifolds with torus actions defined in combinatorial terms. Construction of moment-angle manifolds relates to combinatorial geometry and algebraic geometry of toric v
Franz, Marcel
2013-01-01
Topological Insulators, volume six in the Contemporary Concepts of Condensed Matter Series, describes the recent revolution in condensed matter physics that occurred in our understanding of crystalline solids. The book chronicles the work done worldwide that led to these discoveries and provides the reader with a comprehensive overview of the field. Starting in 2004, theorists began to explore the effect of topology on the physics of band insulators, a field previously considered well understood. However, the inclusion of topology brings key new elements into this old field. Whereas it was
Yang, Zhaoju; Gao, Fei; Shi, Xihang; Lin, Xiao; Gao, Zhen; Chong, Yidong; Zhang, Baile
2015-03-01
The manipulation of acoustic wave propagation in fluids has numerous applications, including some in everyday life. Acoustic technologies frequently develop in tandem with optics, using shared concepts such as waveguiding and metamedia. It is thus noteworthy that an entirely novel class of electromagnetic waves, known as "topological edge states," has recently been demonstrated. These are inspired by the electronic edge states occurring in topological insulators, and possess a striking and technologically promising property: the ability to travel in a single direction along a surface without backscattering, regardless of the existence of defects or disorder. Here, we develop an analogous theory of topological fluid acoustics, and propose a scheme for realizing topological edge states in an acoustic structure containing circulating fluids. The phenomenon of disorder-free one-way sound propagation, which does not occur in ordinary acoustic devices, may have novel applications for acoustic isolators, modulators, and transducers.
International Nuclear Information System (INIS)
Carroll, S.M.; Trodden, M.
1998-01-01
We propose a class of field theories featuring solitonic solutions in which topological defects can end when they intersect other defects of equal or higher dimensionality. Such configurations may be termed open-quotes Dirichlet topological defects,close quotes in analogy with the D-branes of string theory. Our discussion focuses on defects in scalar field theories with either gauge or global symmetries, in 3+1 dimensions; the types of defects considered include walls ending on walls, strings on walls, and strings on strings. copyright 1998 The American Physical Society
Lynch, Mark
2012-01-01
We continue our study of topological X-rays begun in Lynch ["Topological X-rays and MRI's," iJMEST 33(3) (2002), pp. 389-392]. We modify our definition of a topological magnetic resonance imaging and give an affirmative answer to the question posed there: Can we identify a closed set in a box by defining X-rays to probe the interior and without…
Topology with applications topological spaces via near and far
Naimpally, Somashekhar A
2013-01-01
The principal aim of this book is to introduce topology and its many applications viewed within a framework that includes a consideration of compactness, completeness, continuity, filters, function spaces, grills, clusters and bunches, hyperspace topologies, initial and final structures, metric spaces, metrization, nets, proximal continuity, proximity spaces, separation axioms, and uniform spaces. This book provides a complete framework for the study of topology with a variety of applications in science and engineering that include camouflage filters, classification, digital image processing, forgery detection, Hausdorff raster spaces, image analysis, microscopy, paleontology, pattern recognition, population dynamics, stem cell biology, topological psychology, and visual merchandising. It is the first complete presentation on topology with applications considered in the context of proximity spaces, and the nearness and remoteness of sets of objects. A novel feature throughout this book is the use of near and...
Schmidt, Gunther
2018-01-01
This book introduces and develops new algebraic methods to work with relations, often conceived as Boolean matrices, and applies them to topology. Although these objects mirror the matrices that appear throughout mathematics, numerics, statistics, engineering, and elsewhere, the methods used to work with them are much less well known. In addition to their purely topological applications, the volume also details how the techniques may be successfully applied to spatial reasoning and to logics of computer science. Topologists will find several familiar concepts presented in a concise and algebraically manipulable form which is far more condensed than usual, but visualized via represented relations and thus readily graspable. This approach also offers the possibility of handling topological problems using proof assistants.
DEFF Research Database (Denmark)
A. Kristensen, Anders Schmidt; Damkilde, Lars
2007-01-01
. A way to solve the initial design problem namely finding a form can be solved by so-called topology optimization. The idea is to define a design region and an amount of material. The loads and supports are also fidefined, and the algorithm finds the optimal material distribution. The objective function...... dictates the form, and the designer can choose e.g. maximum stiness, maximum allowable stresses or maximum lowest eigenfrequency. The result of the topology optimization is a relatively coarse map of material layout. This design can be transferred to a CAD system and given the necessary geometrically...... refinements, and then remeshed and reanalysed in other to secure that the design requirements are met correctly. The output of standard topology optimization has seldom well-defined, sharp contours leaving the designer with a tedious interpretation, which often results in less optimal structures. In the paper...
Arnold, Vladimir; Zorich, Anton
1999-01-01
This volume offers an account of the present state of the art in pseudoperiodic topology-a young branch of mathematics, born at the boundary between the ergodic theory of dynamical systems, topology, and number theory. Related topics include the theory of algorithms, convex integer polyhedra, Morse inequalities, real algebraic geometry, statistical physics, and algebraic number theory. The book contains many new results. Most of the articles contain brief surveys on the topics, making the volume accessible to a broad audience. From the Preface by V.I. Arnold: "The authors … have done much to s
Warner, S
1993-01-01
This text brings the reader to the frontiers of current research in topological rings. The exercises illustrate many results and theorems while a comprehensive bibliography is also included. The book is aimed at those readers acquainted with some very basic point-set topology and algebra, as normally presented in semester courses at the beginning graduate level or even at the advanced undergraduate level. Familiarity with Hausdorff, metric, compact and locally compact spaces and basic properties of continuous functions, also with groups, rings, fields, vector spaces and modules, and with Zorn''s Lemma, is also expected.
DEFF Research Database (Denmark)
Bendsøe, Martin P.; Sigmund, Ole
2007-01-01
Taking as a starting point a design case for a compliant mechanism (a force inverter), the fundamental elements of topology optimization are described. The basis for the developments is a FEM format for this design problem and emphasis is given to the parameterization of design as a raster image...
Aganagic, M; Marino, M; Vafa, C; Aganagic, Mina; Klemm, Albrecht; Marino, Marcos; Vafa, Cumrun
2005-01-01
We construct a cubic field theory which provides all genus amplitudes of the topological A-model for all non-compact Calabi-Yau toric threefolds. The topology of a given Feynman diagram encodes the topology of a fixed Calabi-Yau, with Schwinger parameters playing the role of Kahler classes of Calabi-Yau. We interpret this result as an operator computation of the amplitudes in the B-model mirror which is the Kodaira-Spencer quantum theory. The only degree of freedom of this theory is an unconventional chiral scalar on a Riemann surface. In this setup we identify the B-branes on the mirror Riemann surface as fermions related to the chiral boson by bosonization.
Topological strength of magnetic skyrmions
Energy Technology Data Exchange (ETDEWEB)
Bazeia, D.; Ramos, J.G.G.S.; Rodrigues, E.I.B.
2017-02-01
This work deals with magnetic structures that attain integer and half-integer skyrmion numbers. We model and solve the problem analytically, and show how the solutions appear in materials that engender distinct, very specific physical properties, and use them to describe their topological features. In particular, we found a way to model skyrmion with a large transition region correlated with the presence of a two-peak skyrmion number density. Moreover, we run into the issue concerning the topological strength of a vortex-like structure and suggest an experimental realization, important to decide how to modify and measure the topological strength of the magnetic structure.
Lu, Bin; Yang, Yi; Sharma, Santosh K; Zambare, Prachi; Madane, Mayura A
2014-12-23
A method identifies electric load types of a plurality of different electric loads. The method includes providing a load feature database of a plurality of different electric load types, each of the different electric load types including a first load feature vector having at least four different load features; sensing a voltage signal and a current signal for each of the different electric loads; determining a second load feature vector comprising at least four different load features from the sensed voltage signal and the sensed current signal for a corresponding one of the different electric loads; and identifying by a processor one of the different electric load types by determining a minimum distance of the second load feature vector to the first load feature vector of the different electric load types of the load feature database.
Directory of Open Access Journals (Sweden)
Jianhong Lu
2017-08-01
Full Text Available Coronary heart disease (CHD is a complex human disease associated with inflammation and oxidative stress. The underlying mechanisms and diagnostic biomarkers for the different types of CHD remain poorly defined. Metabolomics has been increasingly recognized as an enabling technique with the potential to identify key metabolomic features in an attempt to understand the pathophysiology and differentiate different stages of CHD. We performed comprehensive metabolomic analysis in human plasma from 28 human subjects with stable angina (SA, myocardial infarction (MI, and healthy control (HC. Subsequent analysis demonstrated a uniquely altered metabolic profile in these CHD: a total of 18, 37 and 36 differential metabolites were identified to distinguish SA from HC, MI from SA, and MI from HC groups respectively. Among these metabolites, glycerophospholipid (GPL metabolism emerged as the most significantly disturbed pathway. Next, we used a targeted metabolomic approach to systematically analyze GPL, oxidized phospholipid (oxPL, and downstream metabolites derived from polyunsaturated fatty acids (PUFAs, such as arachidonic acid and linoleic acid. Surprisingly, lipids associated with lipid peroxidation (LPO pathways including oxidized PL and isoprostanes, isomers of prostaglandins, were significantly elevated in plasma of MI patients comparing to HC and SA, consistent with the notion that oxidative stress-induced LPO is a prominent feature in CHD. Our studies using the state-of-the-art metabolomics help to understand the underlying biological mechanisms involved in the pathogenesis of CHD; LPO metabolites may serve as potential biomarkers to differentiation MI from SA and HC. Keywords: Metabolomics, Lipid peroxidation, Lipidomics, Myocardial infarction, Isoprostanes, Coronary heart disease (CHD
Fomenko, Anatoly
2016-01-01
This classic text of the renowned Moscow mathematical school equips the aspiring mathematician with a solid grounding in the core of topology, from a homotopical perspective. Its comprehensiveness and depth of treatment are unmatched among topology textbooks: in addition to covering the basics—the fundamental notions and constructions of homotopy theory, covering spaces and the fundamental group, CW complexes, homology and cohomology, homological algebra—the book treats essential advanced topics, such as obstruction theory, characteristic classes, Steenrod squares, K-theory and cobordism theory, and, with distinctive thoroughness and lucidity, spectral sequences. The organization of the material around the major achievements of the golden era of topology—the Adams conjecture, Bott periodicity, the Hirzebruch–Riemann–Roch theorem, the Atiyah–Singer index theorem, to name a few—paints a clear picture of the canon of the subject. Grassmannians, loop spaces, and classical groups play a central role ...
Jahangardi, Morteza; Hafezi Moghaddas, Naser; Keivan Hosseini, Sayyed; Garazhian, Omran
2015-04-01
We applied the seismic refraction method at archaeological site, Tepe Damghani located in Sabzevar, NE of Iran, in order to determine the structures of archaeological interests. This pre-historical site has special conditions with respect to geographical location and geomorphological setting, so it is an urban archaeological site, and in recent years it has been used as an agricultural field. In spring and summer of 2012, the third season of archaeological excavation was carried out. Test trenches of excavations in this site revealed that cultural layers were often disturbed adversely due to human activities such as farming and road construction in recent years. Conditions of archaeological cultural layers in southern and eastern parts of Tepe are slightly better, for instance, in test trench 3×3 m²1S03, third test trench excavated in the southern part of Tepe, an adobe in situ architectural structure was discovered that likely belongs to cultural features of a complex with 5 graves. After conclusion of the third season of archaeological excavation, all of the test trenches were filled with the same soil of excavated test trenches. Seismic refraction method was applied with12 channels of P geophones in three lines with a geophone interval of 0.5 meter and a 1.5 meter distance between profiles on test trench 1S03. The goal of this operation was evaluation of applicability of seismic method in identification of archaeological features, especially adobe wall structures. Processing of seismic data was done with the seismic software, SiesImager. Results were presented in the form of seismic section for every profile, so that identification of adobe wall structures was achieved hardly. This could be due to that adobe wall had been built with the same materials of the natural surrounding earth. Thus, there is a low contrast and it has an inappropriate effect on seismic processing and identifying of archaeological features. Hence the result could be that application of
Directory of Open Access Journals (Sweden)
Jian Kang
2015-01-01
Full Text Available We propose using multiple observed features of network traffic to identify new high-distributed low-rate quality of services (QoS violation so that detection accuracy may be further improved. For the multiple observed features, we choose F feature in TCP packet header as a microscopic feature and, P feature and D feature of network traffic as macroscopic features. Based on these features, we establish multistream fused hidden Markov model (MF-HMM to detect stealthy low-rate denial of service (LDoS attacks hidden in legitimate network background traffic. In addition, the threshold value is dynamically adjusted by using Kaufman algorithm. Our experiments show that the additive effect of combining multiple features effectively reduces the false-positive rate. The average detection rate of MF-HMM results in a significant 23.39% and 44.64% improvement over typical power spectrum density (PSD algorithm and nonparametric cumulative sum (CUSUM algorithm.
Topological Aspects of Information Retrieval.
Egghe, Leo; Rousseau, Ronald
1998-01-01
Discusses topological aspects of theoretical information retrieval, including retrieval topology; similarity topology; pseudo-metric topology; document spaces as topological spaces; Boolean information retrieval as a subsystem of any topological system; and proofs of theorems. (LRW)
Signature of Topological Phases in Zitterbewegung
Ghosh, Sumit; Manchon, Aurelien
2016-01-01
We have studied the Zitterbewegung effect on an infinite two-dimensional sheet with honeycomb lattice. By tuning the perpendicular electric field and the magnetization of the sheet, it can enter different topological phases. We have shown that the phase and magnitude of Zitterbewegung effect, i.e., the jittering motion of electron wavepackets, correlates with the various topological phases. The topological phase diagram can be reconstructed by analyzing these features. Our findings are applicable to materials like silicene, germanene, stanene, etc.
Signature of Topological Phases in Zitterbewegung
Ghosh, Sumit
2016-09-02
We have studied the Zitterbewegung effect on an infinite two-dimensional sheet with honeycomb lattice. By tuning the perpendicular electric field and the magnetization of the sheet, it can enter different topological phases. We have shown that the phase and magnitude of Zitterbewegung effect, i.e., the jittering motion of electron wavepackets, correlates with the various topological phases. The topological phase diagram can be reconstructed by analyzing these features. Our findings are applicable to materials like silicene, germanene, stanene, etc.
Guillemin, Victor
2010-01-01
Differential Topology provides an elementary and intuitive introduction to the study of smooth manifolds. In the years since its first publication, Guillemin and Pollack's book has become a standard text on the subject. It is a jewel of mathematical exposition, judiciously picking exactly the right mixture of detail and generality to display the richness within. The text is mostly self-contained, requiring only undergraduate analysis and linear algebra. By relying on a unifying idea-transversality-the authors are able to avoid the use of big machinery or ad hoc techniques to establish the main
Vingara, Lisa K.; Yu, Hui Jing; Wagshul, Mark E.; Serafin, Dana; Christodoulou, Christopher; Pelczer, István; Krupp, Lauren B.; Maletić-Savatić, Mirjana
2013-01-01
Proton magnetic resonance spectroscopy (1H-MRS) is capable of noninvasively detecting metabolic changes that occur in the brain tissue in vivo. Its clinical utility has been limited so far, however, by analytic methods that focus on independently evaluated metabolites and require prior knowledge about which metabolites to examine. Here, we applied advanced computational methodologies from the field of metabolomics, specifically partial least squares discriminant analysis and orthogonal partial least squares, to in vivo 1H-MRS from frontal lobe white matter of 27 patients with relapsing–remitting multiple sclerosis (RRMS) and 14 healthy controls. We chose RRMS, a chronic demyelinating disorder of the central nervous system, because its complex pathology and variable disease course make the need for reliable biomarkers of disease progression more pressing. We show that in vivo MRS data, when analyzed by multivariate statistical methods, can provide reliable, distinct profiles of MRS-detectable metabolites in different patient populations. Specifically, we find that brain tissue in RRMS patients deviates significantly in its metabolic profile from that of healthy controls, even though it appears normal by standard MRI techniques. We also identify, using statistical means, the metabolic signatures of certain clinical features common in RRMS, such as disability score, cognitive impairments, and response to stress. This approach to human in vivo MRS data should promote understanding of the specific metabolic changes accompanying disease pathogenesis, and could provide biomarkers of disease progression that would be useful in clinical trials. PMID:23751863
Lu, Bin; Harley, Ronald G.; Du, Liang; Yang, Yi; Sharma, Santosh K.; Zambare, Prachi; Madane, Mayura A.
2014-06-17
A method identifies electric load types of a plurality of different electric loads. The method includes providing a self-organizing map load feature database of a plurality of different electric load types and a plurality of neurons, each of the load types corresponding to a number of the neurons; employing a weight vector for each of the neurons; sensing a voltage signal and a current signal for each of the loads; determining a load feature vector including at least four different load features from the sensed voltage signal and the sensed current signal for a corresponding one of the loads; and identifying by a processor one of the load types by relating the load feature vector to the neurons of the database by identifying the weight vector of one of the neurons corresponding to the one of the load types that is a minimal distance to the load feature vector.
ToNER: A tool for identifying nucleotide enrichment signals in feature-enriched RNA-seq data.
Directory of Open Access Journals (Sweden)
Yuttachon Promworn
Full Text Available Biochemical methods are available for enriching 5' ends of RNAs in prokaryotes, which are employed in the differential RNA-seq (dRNA-seq and the more recent Cappable-seq protocols. Computational methods are needed to locate RNA 5' ends from these data by statistical analysis of the enrichment. Although statistical-based analysis methods have been developed for dRNA-seq, they may not be suitable for Cappable-seq data. The more efficient enrichment method employed in Cappable-seq compared with dRNA-seq could affect data distribution and thus algorithm performance.We present Transformation of Nucleotide Enrichment Ratios (ToNER, a tool for statistical modeling of enrichment from RNA-seq data obtained from enriched and unenriched libraries. The tool calculates nucleotide enrichment scores and determines the global transformation for fitting to the normal distribution using the Box-Cox procedure. From the transformed distribution, sites of significant enrichment are identified. To increase power of detection, meta-analysis across experimental replicates is offered. We tested the tool on Cappable-seq and dRNA-seq data for identifying Escherichia coli transcript 5' ends and compared the results with those from the TSSAR tool, which is designed for analyzing dRNA-seq data. When combining results across Cappable-seq replicates, ToNER detects more known transcript 5' ends than TSSAR. In general, the transcript 5' ends detected by ToNER but not TSSAR occur in regions which cannot be locally modeled by TSSAR.ToNER uses a simple yet robust statistical modeling approach, which can be used for detecting RNA 5'ends from Cappable-seq data, in particular when combining information from experimental replicates. The ToNER tool could potentially be applied for analyzing other RNA-seq datasets in which enrichment for other structural features of RNA is employed. The program is freely available for download at ToNER webpage (http://www4a
ToNER: A tool for identifying nucleotide enrichment signals in feature-enriched RNA-seq data.
Promworn, Yuttachon; Kaewprommal, Pavita; Shaw, Philip J; Intarapanich, Apichart; Tongsima, Sissades; Piriyapongsa, Jittima
2017-01-01
Biochemical methods are available for enriching 5' ends of RNAs in prokaryotes, which are employed in the differential RNA-seq (dRNA-seq) and the more recent Cappable-seq protocols. Computational methods are needed to locate RNA 5' ends from these data by statistical analysis of the enrichment. Although statistical-based analysis methods have been developed for dRNA-seq, they may not be suitable for Cappable-seq data. The more efficient enrichment method employed in Cappable-seq compared with dRNA-seq could affect data distribution and thus algorithm performance. We present Transformation of Nucleotide Enrichment Ratios (ToNER), a tool for statistical modeling of enrichment from RNA-seq data obtained from enriched and unenriched libraries. The tool calculates nucleotide enrichment scores and determines the global transformation for fitting to the normal distribution using the Box-Cox procedure. From the transformed distribution, sites of significant enrichment are identified. To increase power of detection, meta-analysis across experimental replicates is offered. We tested the tool on Cappable-seq and dRNA-seq data for identifying Escherichia coli transcript 5' ends and compared the results with those from the TSSAR tool, which is designed for analyzing dRNA-seq data. When combining results across Cappable-seq replicates, ToNER detects more known transcript 5' ends than TSSAR. In general, the transcript 5' ends detected by ToNER but not TSSAR occur in regions which cannot be locally modeled by TSSAR. ToNER uses a simple yet robust statistical modeling approach, which can be used for detecting RNA 5'ends from Cappable-seq data, in particular when combining information from experimental replicates. The ToNER tool could potentially be applied for analyzing other RNA-seq datasets in which enrichment for other structural features of RNA is employed. The program is freely available for download at ToNER webpage (http://www4a.biotec.or.th/GI/tools/toner) and Git
Energy transformation and flow topology in an elbow draft tube
Directory of Open Access Journals (Sweden)
Štefan D.
2012-06-01
Full Text Available Paper presents a computational study of energy transformation in two geometrical configurations of Kaplan turbine elbow draft tube. Pressure recovery, hydraulic efficiency and loss coefficient are evaluated for a series of flow rates and swirl numbers corresponding to operating regimes of the turbine. These integral characteristics are then correlated with local flow field properties identified by extraction of topological features. Main focus is to find the reasons for hydraulic efficiency drop of the elbow draft tube.
Emerging Trends in Topological Insulators and Topological ...
Indian Academy of Sciences (India)
/fulltext/reso/022/08/0787-0800. Keywords. Superconductor, quantum Hall effect, topological insulator, Majorana fermions. Abstract. Topological insulators are new class of materials which arecharacterized by a bulk band gap like ordinary ...
Margalef-Roig, J
1992-01-01
...there are reasons enough to warrant a coherent treatment of the main body of differential topology in the realm of Banach manifolds, which is at the same time correct and complete. This book fills the gap: whenever possible the manifolds treated are Banach manifolds with corners. Corners add to the complications and the authors have carefully fathomed the validity of all main results at corners. Even in finite dimensions some results at corners are more complete and better thought out here than elsewhere in the literature. The proofs are correct and with all details. I see this book as a reliable monograph of a well-defined subject; the possibility to fall back to it adds to the feeling of security when climbing in the more dangerous realms of infinite dimensional differential geometry. Peter W. Michor
Induced topological pressure for topological dynamical systems
International Nuclear Information System (INIS)
Xing, Zhitao; Chen, Ercai
2015-01-01
In this paper, inspired by the article [J. Jaerisch et al., Stochastics Dyn. 14, 1350016, pp. 1-30 (2014)], we introduce the induced topological pressure for a topological dynamical system. In particular, we prove a variational principle for the induced topological pressure
Prowse, Rebecca L; Dalbeth, Nicola; Kavanaugh, Arthur; Adebajo, Adewale O; Gaffo, Angelo L; Terkeltaub, Robert; Mandell, Brian F; Suryana, Bagus P P; Goldenstein-Schainberg, Claudia; Diaz-Torne, Cèsar; Khanna, Dinesh; Lioté, Frederic; Mccarthy, Geraldine; Kerr, Gail S; Yamanaka, Hisashi; Janssens, Hein; Baraf, Herbert F; Chen, Jiunn-Horng; Vazquez-Mellado, Janitzia; Harrold, Leslie R; Stamp, Lisa K; Van De Laar, Mart A; Janssen, Matthijs; Doherty, Michael; Boers, Maarten; Edwards, N Lawrence; Gow, Peter; Chapman, Peter; Khanna, Puja; Helliwell, Philip S; Grainger, Rebecca; Schumacher, H Ralph; Neogi, Tuhina; Jansen, Tim L; Louthrenoo, Worawit; Sivera, Francisca; Taylor, William J; Alten, Rieke
2013-04-01
To identify a comprehensive list of features that might discriminate between gout and other rheumatic musculoskeletal conditions, to be used subsequently for a case-control study to develop and test new classification criteria for gout. Two Delphi exercises were conducted using Web-based questionnaires: one with physicians from several countries who had an interest in gout and one with patients from New Zealand who had gout. Physicians rated a list of potentially discriminating features that were identified by literature review and expert opinion, and patients rated a list of features that they generated themselves. Agreement was defined by the RAND/UCLA disagreement index. Forty-four experienced physicians and 9 patients responded to all iterations. For physicians, 71 items were identified by literature review and 15 more were suggested by physicians. The physician survey showed agreement for 26 discriminatory features and 15 as not discriminatory. The patients identified 46 features of gout, for which there was agreement on 25 items as being discriminatory and 7 items as not discriminatory. Patients and physicians agreed upon several key features of gout. Physicians emphasized objective findings, imaging, and patterns of symptoms, whereas patients emphasized severity, functional results, and idiographic perception of symptoms.
Directory of Open Access Journals (Sweden)
Sridhar P. Arjunan
2014-01-01
Full Text Available The relationship between force of muscle contraction and muscle fatigue with six different features of surface electromyogram (sEMG was determined by conducting experiments on thirty-five volunteers. The participants performed isometric contractions at 50%, 75%, and 100% of their maximum voluntary contraction (MVC. Six features were considered in this study: normalised spectral index (NSM5, median frequency, root mean square, waveform length, normalised root mean square (NRMS, and increase in synchronization (IIS index. Analysis of variance (ANOVA and linear regression analysis were performed to determine the significance of the feature with respect to the three factors: muscle force, muscle fatigue, and subject. The results show that IIS index of sEMG had the highest correlation with muscle fatigue and the relationship was statistically significant (P0.05.
Arjunan, Sridhar P; Kumar, Dinesh K; Naik, Ganesh
2014-01-01
The relationship between force of muscle contraction and muscle fatigue with six different features of surface electromyogram (sEMG) was determined by conducting experiments on thirty-five volunteers. The participants performed isometric contractions at 50%, 75%, and 100% of their maximum voluntary contraction (MVC). Six features were considered in this study: normalised spectral index (NSM5), median frequency, root mean square, waveform length, normalised root mean square (NRMS), and increase in synchronization (IIS) index. Analysis of variance (ANOVA) and linear regression analysis were performed to determine the significance of the feature with respect to the three factors: muscle force, muscle fatigue, and subject. The results show that IIS index of sEMG had the highest correlation with muscle fatigue and the relationship was statistically significant (P 0.05).
DEFF Research Database (Denmark)
Marcussen, Lars
2003-01-01
Rummets topologi, Historiens topologi: betragtninger om menneskets orientering til rum - fra hulen over beherskelse af flere akser til det flydende rum.......Rummets topologi, Historiens topologi: betragtninger om menneskets orientering til rum - fra hulen over beherskelse af flere akser til det flydende rum....
Charges and Electromagnetic Radiation as Topological Excitations
Directory of Open Access Journals (Sweden)
Manfried Faber
2017-01-01
Full Text Available We discuss a model with stable topological solitons in Minkowski space with only three degrees of freedom, the rotational angles of a spatial Dreibein. This model has four types of solitons differing in two topological quantum numbers which we identify with electric charge and spin. The vacuum has a two-dimensional degeneracy leading to two types of massless excitations, characterised by a topological quantum number which could have a physical equivalent in the photon number.
Comparison of topologies suitable for Capacitor Charging Systems
Maestri, S; Uicich, G; Benedetti, M; Cravero, JM
2014-01-01
This paper presents a comparison between topologies suitable for capacitor charging systems. The topologies under evaluation are a flyback converter, a half-bridge series resonant converter and a full-bridge phase-shifted converter. The main features of these topologies are highlighted, which allows the proper topology selection according to the application requirements. Moreover, the performed analysis permits to characterize the operational range of the main components thus allowing their appropriate sizing and selection. Simulation results are provided.
Performance assessment of topologically diverse power systems subjected to hurricane events
International Nuclear Information System (INIS)
Winkler, James; Duenas-Osorio, Leonardo; Stein, Robert; Subramanian, Devika
2010-01-01
Large tropical cyclones cause severe damage to major cities along the United States Gulf Coast annually. A diverse collection of engineering and statistical models are currently used to estimate the geographical distribution of power outage probabilities stemming from these hurricanes to aid in storm preparedness and recovery efforts. Graph theoretic studies of power networks have separately attempted to link abstract network topology to transmission and distribution system reliability. However, few works have employed both techniques to unravel the intimate connection between network damage arising from storms, topology, and system reliability. This investigation presents a new methodology combining hurricane damage predictions and topological assessment to characterize the impact of hurricanes upon power system reliability. Component fragility models are applied to predict failure probability for individual transmission and distribution power network elements simultaneously. The damage model is calibrated using power network component failure data for Harris County, TX, USA caused by Hurricane Ike in September of 2008, resulting in a mean outage prediction error of 15.59% and low standard deviation. Simulated hurricane events are then applied to measure the hurricane reliability of three topologically distinct transmission networks. The rate of system performance decline is shown to depend on their topological structure. Reliability is found to correlate directly with topological features, such as network meshedness, centrality, and clustering, and the compact irregular ring mesh topology is identified as particularly favorable, which can influence regional lifeline policy for retrofit and hardening activities to withstand hurricane events.
Topological superconductors: a review.
Sato, Masatoshi; Ando, Yoichi
2017-07-01
This review elaborates pedagogically on the fundamental concept, basic theory, expected properties, and materials realizations of topological superconductors. The relation between topological superconductivity and Majorana fermions are explained, and the difference between dispersive Majorana fermions and a localized Majorana zero mode is emphasized. A variety of routes to topological superconductivity are explained with an emphasis on the roles of spin-orbit coupling. Present experimental situations and possible signatures of topological superconductivity are summarized with an emphasis on intrinsic topological superconductors.
Gamelin, Theodore W
1999-01-01
A fresh approach to introductory topology, this volume explains nontrivial applications of metric space topology to analysis, clearly establishing their relationship. Also, topics from elementary algebraic topology focus on concrete results with minimal algebraic formalism. The first two chapters consider metric space and point-set topology; the second two, algebraic topological material. 1983 edition. Solutions to Selected Exercises. List of Notations. Index. 51 illustrations.
Directory of Open Access Journals (Sweden)
Xilong Liu
2012-12-01
Full Text Available In this paper, feature extraction based on data-wave is proposed. The concept of data-wave is introduced to describe the rising and falling trends of the data over the long-term which are detected based on ripple and wave filters. Supported by data-wave, a novel symbol identifier with significant structure features is designed and these features are extracted by constructing pixel chains. On this basis, the corresponding recognition and positioning approach is presented. The effectiveness of the proposed approach is verified by experiments.
Topological Structures on DMC Spaces †
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Rajai Nasser
2018-05-01
Full Text Available Two channels are said to be equivalent if they are degraded from each other. The space of equivalent channels with input alphabet X and output alphabet Y can be naturally endowed with the quotient of the Euclidean topology by the equivalence relation. A topology on the space of equivalent channels with fixed input alphabet X and arbitrary but finite output alphabet is said to be natural if and only if it induces the quotient topology on the subspaces of equivalent channels sharing the same output alphabet. We show that every natural topology is σ -compact, separable and path-connected. The finest natural topology, which we call the strong topology, is shown to be compactly generated, sequential and T 4 . On the other hand, the strong topology is not first-countable anywhere, hence it is not metrizable. We introduce a metric distance on the space of equivalent channels which compares the noise levels between channels. The induced metric topology, which we call the noisiness topology, is shown to be natural. We also study topologies that are inherited from the space of meta-probability measures by identifying channels with their Blackwell measures.
Topological hierarchy matters — topological matters with superlattices of defects
International Nuclear Information System (INIS)
He Jing; Kou Su-Peng
2016-01-01
Topological insulators/superconductors are new states of quantum matter with metallic edge/surface states. In this paper, we review the defects effect in these topological states and study new types of topological matters — topological hierarchy matters. We find that both topological defects (quantized vortices) and non topological defects (vacancies) can induce topological mid-gap states in the topological hierarchy matters after considering the superlattice of defects. These topological mid-gap states have nontrivial topological properties, including the nonzero Chern number and the gapless edge states. Effective tight-binding models are obtained to describe the topological mid-gap states in the topological hierarchy matters. (topical review)
Topological visual mapping in robotics.
Romero, Anna; Cazorla, Miguel
2012-08-01
A key problem in robotics is the construction of a map from its environment. This map could be used in different tasks, like localization, recognition, obstacle avoidance, etc. Besides, the simultaneous location and mapping (SLAM) problem has had a lot of interest in the robotics community. This paper presents a new method for visual mapping, using topological instead of metric information. For that purpose, we propose prior image segmentation into regions in order to group the extracted invariant features in a graph so that each graph defines a single region of the image. Although others methods have been proposed for visual SLAM, our method is complete, in the sense that it makes all the process: it presents a new method for image matching; it defines a way to build the topological map; and it also defines a matching criterion for loop-closing. The matching process will take into account visual features and their structure using the graph transformation matching (GTM) algorithm, which allows us to process the matching and to remove out the outliers. Then, using this image comparison method, we propose an algorithm for constructing topological maps. During the experimentation phase, we will test the robustness of the method and its ability constructing topological maps. We have also introduced new hysteresis behavior in order to solve some problems found building the graph.
Directory of Open Access Journals (Sweden)
Nylander Eva
2009-11-01
Full Text Available Abstract Background The aim of the study was to perform a feature tracking analysis on cine magnetic resonance (MR images to elucidate if functional measurements of the motion of the left ventricular wall may detect scar defined with gadolinium enhanced MR. Myocardial contraction can be measured in terms of the velocity, displacement and local deformation (strain of a particular myocardial segment. Contraction of the myocardial wall will be reduced in the presence of scar and as a consequence of reduced myocardial blood flow. Methods Thirty patients (3 women and 27 men were selected based on the presence or absence of extensive scar in the anteroseptal area of the left ventricle. The patients were investigated in stable clinical condition, 4-8 weeks post ST-elevation myocardial infarction treated with percutaneous coronary intervention. Seventeen had a scar area >75% in at least one anteroseptal segment (scar and thirteen had scar area Results In the scar patients, segments with scar showed lower functional measurements than remote segments. Radial measurements of velocity, displacement and strain performed better in terms of receiver-operator-characteristic curves (ROC than the corresponding longitudinal measurements. The best area-under-curve was for radial strain, 0.89, where a cut-off value of 38.8% had 80% sensitivity and 86% specificity for the detection of a segment with scar area >50%. As a percentage of the mean, intraobserver variability was 16-14-26% for radial measurements of displacement-velocity-strain and corresponding interobserver variability was 13-12-18%. Conclusion Feature tracking analysis of cine-MR displays velocity, displacement and strain in the radial and longitudinal direction and may be used for the detection of transmural scar. The accuracy and repeatability of the radial functional measurements is satisfactory and global measures agree.
Topological insulators Dirac equation in condensed matter
Shen, Shun-Qing
2017-01-01
This new edition presents a unified description of these insulators from one to three dimensions based on the modified Dirac equation. It derives a series of solutions of the bound states near the boundary, and describes the current status of these solutions. Readers are introduced to topological invariants and their applications to a variety of systems from one-dimensional polyacetylene, to two-dimensional quantum spin Hall effect and p-wave superconductors, three-dimensional topological insulators and superconductors or superfluids, and topological Weyl semimetals, helping them to better understand this fascinating field. To reflect research advances in topological insulators, several parts of the book have been updated for the second edition, including: Spin-Triplet Superconductors, Superconductivity in Doped Topological Insulators, Detection of Majorana Fermions and so on. In particular, the book features a new chapter on Weyl semimetals, a topic that has attracted considerable attention and has already b...
Topological transitions in the theory of spacetime
International Nuclear Information System (INIS)
Konstantinov, M.Y.; Melnikov, V.N.
1986-01-01
Results of a realisation of the topological transitions hypothesis are presented. The basic difficulties in the construction of quantum topological transition theory are connected with a necessity to introduce a new non-local interaction defined on a space of topological states. So the general method of construction and study of topological transitions classical models is formulated as a necessary step towards a corresponding quantum description. Their local properties, including an asymptotic behaviour in the neighbourhood of the transition, are studied and applications to problems of gravitation and cosmology are given. The method used is shown to lead to a scalar-tensor theory of topological transitions. Different variants of this theory and its main features are discussed. (author)
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John P Miller
Full Text Available A genome-scale RNAi screen was performed in a mammalian cell-based assay to identify modifiers of mutant huntingtin toxicity. Ontology analysis of suppressor data identified processes previously implicated in Huntington's disease, including proteolysis, glutamate excitotoxicity, and mitochondrial dysfunction. In addition to established mechanisms, the screen identified multiple components of the RRAS signaling pathway as loss-of-function suppressors of mutant huntingtin toxicity in human and mouse cell models. Loss-of-function in orthologous RRAS pathway members also suppressed motor dysfunction in a Drosophila model of Huntington's disease. Abnormal activation of RRAS and a down-stream effector, RAF1, was observed in cellular models and a mouse model of Huntington's disease. We also observe co-localization of RRAS and mutant huntingtin in cells and in mouse striatum, suggesting that activation of R-Ras may occur through protein interaction. These data indicate that mutant huntingtin exerts a pathogenic effect on this pathway that can be corrected at multiple intervention points including RRAS, FNTA/B, PIN1, and PLK1. Consistent with these results, chemical inhibition of farnesyltransferase can also suppress mutant huntingtin toxicity. These data suggest that pharmacological inhibition of RRAS signaling may confer therapeutic benefit in Huntington's disease.
Topology of polymer chains under nanoscale confinement.
Satarifard, Vahid; Heidari, Maziar; Mashaghi, Samaneh; Tans, Sander J; Ejtehadi, Mohammad Reza; Mashaghi, Alireza
2017-08-24
Spatial confinement limits the conformational space accessible to biomolecules but the implications for bimolecular topology are not yet known. Folded linear biopolymers can be seen as molecular circuits formed by intramolecular contacts. The pairwise arrangement of intra-chain contacts can be categorized as parallel, series or cross, and has been identified as a topological property. Using molecular dynamics simulations, we determine the contact order distributions and topological circuits of short semi-flexible linear and ring polymer chains with a persistence length of l p under a spherical confinement of radius R c . At low values of l p /R c , the entropy of the linear chain leads to the formation of independent contacts along the chain and accordingly, increases the fraction of series topology with respect to other topologies. However, at high l p /R c , the fraction of cross and parallel topologies are enhanced in the chain topological circuits with cross becoming predominant. At an intermediate confining regime, we identify a critical value of l p /R c , at which all topological states have equal probability. Confinement thus equalizes the probability of more complex cross and parallel topologies to the level of the more simple, non-cooperative series topology. Moreover, our topology analysis reveals distinct behaviours for ring- and linear polymers under weak confinement; however, we find no difference between ring- and linear polymers under strong confinement. Under weak confinement, ring polymers adopt parallel and series topologies with equal likelihood, while linear polymers show a higher tendency for series arrangement. The radial distribution analysis of the topology reveals a non-uniform effect of confinement on the topology of polymer chains, thereby imposing more pronounced effects on the core region than on the confinement surface. Additionally, our results reveal that over a wide range of confining radii, loops arranged in parallel and cross
Book Review: Computational Topology
DEFF Research Database (Denmark)
Raussen, Martin
2011-01-01
Computational Topology by Herbert Edelsbrunner and John L. Harer. American Matheamtical Society, 2010 - ISBN 978-0-8218-4925-5......Computational Topology by Herbert Edelsbrunner and John L. Harer. American Matheamtical Society, 2010 - ISBN 978-0-8218-4925-5...
Topological massive sigma models
International Nuclear Information System (INIS)
Lambert, N.D.
1995-01-01
In this paper we construct topological sigma models which include a potential and are related to twisted massive supersymmetric sigma models. Contrary to a previous construction these models have no central charge and do not require the manifold to admit a Killing vector. We use the topological massive sigma model constructed here to simplify the calculation of the observables. Lastly it is noted that this model can be viewed as interpolating between topological massless sigma models and topological Landau-Ginzburg models. ((orig.))
Directory of Open Access Journals (Sweden)
Jelle Van Cauwenberg
Full Text Available Experimental evidence of environmental features important for physical activity is challenging to procure in real world settings. The current study aimed to investigate the causal effects of environmental modifications on a photographed street's appeal for older adults' walking for transport. Secondly, we examined whether these effects differed according to gender, functional limitations, and current level of walking for transport. Thirdly, we examined whether different environmental modifications interacted with each other. Qualitative responses were also reported to gain deeper insight into the observed quantitative relationships. Two sets of 16 panoramic photographs of a streetscape were created, in which six environmental factors were manipulated (sidewalk evenness, traffic level, general upkeep, vegetation, separation from traffic, and benches. Sixty older adults sorted these photographs on appeal for walking for transport on a 7-point scale and reported qualitative information on the reasons for their rankings. Sidewalk evenness appeared to have the strongest influence on a street's appeal for transport-related walking. The effect of sidewalk evenness was even stronger when the street's overall upkeep was good and when traffic was absent. Absence of traffic, presence of vegetation, and separation from traffic also increased a street's appeal for walking for transport. There were no moderating effects by gender or functional limitations. The presence of benches increased the streetscape's appeal among participants who already walked for transport at least an hour/week. The protocols and methods used in the current study carry the potential to further our understanding of environment-PA relationships. Our findings indicated sidewalk evenness as the most important environmental factor influencing a street's appeal for walking for transport among older adults. However, future research in larger samples and in real-life settings is needed to
Van Cauwenberg, Jelle; Van Holle, Veerle; De Bourdeaudhuij, Ilse; Clarys, Peter; Nasar, Jack; Salmon, Jo; Goubert, Liesbet; Deforche, Benedicte
2014-01-01
Experimental evidence of environmental features important for physical activity is challenging to procure in real world settings. The current study aimed to investigate the causal effects of environmental modifications on a photographed street's appeal for older adults' walking for transport. Secondly, we examined whether these effects differed according to gender, functional limitations, and current level of walking for transport. Thirdly, we examined whether different environmental modifications interacted with each other. Qualitative responses were also reported to gain deeper insight into the observed quantitative relationships. Two sets of 16 panoramic photographs of a streetscape were created, in which six environmental factors were manipulated (sidewalk evenness, traffic level, general upkeep, vegetation, separation from traffic, and benches). Sixty older adults sorted these photographs on appeal for walking for transport on a 7-point scale and reported qualitative information on the reasons for their rankings. Sidewalk evenness appeared to have the strongest influence on a street's appeal for transport-related walking. The effect of sidewalk evenness was even stronger when the street's overall upkeep was good and when traffic was absent. Absence of traffic, presence of vegetation, and separation from traffic also increased a street's appeal for walking for transport. There were no moderating effects by gender or functional limitations. The presence of benches increased the streetscape's appeal among participants who already walked for transport at least an hour/week. The protocols and methods used in the current study carry the potential to further our understanding of environment-PA relationships. Our findings indicated sidewalk evenness as the most important environmental factor influencing a street's appeal for walking for transport among older adults. However, future research in larger samples and in real-life settings is needed to confirm current
Soti, Valérie; Chevalier, Véronique; Maura, Jonathan; Bégué, Agnès; Lelong, Camille; Lancelot, Renaud; Thiongane, Yaya; Tran, Annelise
2013-03-01
Dynamics of most of vector-borne diseases are strongly linked to global and local environmental changes. Landscape changes are indicators of human activities or natural processes that are likely to modify the ecology of the diseases. Here, a landscape approach developed at a local scale is proposed for extracting mosquito favourable biotopes, and for testing ecological parameters when identifying risk areas of Rift Valley fever (RVF) transmission. The study was carried out around Barkedji village, Ferlo region, Senegal. In order to test whether pond characteristics may influence the density and the dispersal behaviour of RVF vectors, and thus the spatial variation in RVFV transmission, we used a very high spatial resolution remote sensing image (2.4 m resolution) provided by the Quickbird sensor to produce a detailed land-cover map of the study area. Based on knowledge of vector and disease ecology, seven landscape attributes were defined at the pond level and computed from the land-cover map. Then, the relationships between landscape attributes and RVF serologic incidence rates in small ruminants were analyzed through a beta-binomial regression. Finally, the best statistical model according to the Akaike Information Criterion corrected for small samples (AICC), was used to map areas at risk for RVF. Among the derived landscape variables, the vegetation density index (VDI) computed within a 500 m buffer around ponds was positively correlated with serologic incidence (premote sensing data for identifying environmental risk factors and mapping RVF risk areas at a local scale.
Topological setting of Bessel functions
International Nuclear Information System (INIS)
Mekhfi, M.
1995-11-01
We start from the topology of the punctured plane encoded within its homotopy group which is isomorphic to the set of integers Z. We then realize group elements Π(n), n is an element of Z as differential operators on the space of analytic functions. Using plausible physical arguments we select a subset of functions which we identify with integer orders reduced Bessel functions. On the other hand we propose a unifying new formula of topological origin, generating real orders Bessel functions out of integers orders ones, the generator being an operator built entirely out of the Π s . We thus have shown that the topology (of the puntured plane) is underlying the inner structure of Bessel functions, in addition it unifies them independently of the orders being integers or reals. (author). 4 refs
Free Boolean Topological Groups
Directory of Open Access Journals (Sweden)
Ol’ga Sipacheva
2015-11-01
Full Text Available Known and new results on free Boolean topological groups are collected. An account of the properties that these groups share with free or free Abelian topological groups and properties specific to free Boolean groups is given. Special emphasis is placed on the application of set-theoretic methods to the study of Boolean topological groups.
Topology without cooling: instantons and monopoles near to deconfinement
International Nuclear Information System (INIS)
Feurstein, M.; Markum, H.; Thurner, S.
1998-01-01
In an attempt to describe the change of topological structure of pure SU(2) gauge theory near deconfinement a renormalization group inspired method is tested. Instead of cooling, blocking and subsequent inverse blocking is applied to Monte Carlo configurations to capture topological features at a well-defined scale. We check that this procedure largely conserves long range physics like string tension. UV fluctuations and lattice artefacts are removed which otherwise spoil topological charge density and Abelian monopole currents. We report the behaviour of topological susceptibility and monopole current densities across the deconfinement transition and relate the two faces of topology to each other. First results of a cluster analysis are described. (orig.)
Preparing and probing atomic Majorana fermions and topological order in optical lattices
International Nuclear Information System (INIS)
Kraus, C V; Diehl, S; Zoller, P; Baranov, M A
2012-01-01
We introduce a one-dimensional system of fermionic atoms in an optical lattice whose phase diagram includes topological states of different symmetry classes with a simple possibility to switch between them. The states and topological phase transitions between them can be identified by looking at their zero-energy edge modes which are Majorana fermions. We propose several universal methods of detecting the Majorana edge states, based on their genuine features: the zero-energy, localized character of the wave functions and the induced non-local fermionic correlations. (paper)
Núñez-Vivanco, Gabriel; Valdés-Jiménez, Alejandro; Besoaín, Felipe; Reyes-Parada, Miguel
2016-01-01
Since the structure of proteins is more conserved than the sequence, the identification of conserved three-dimensional (3D) patterns among a set of proteins, can be important for protein function prediction, protein clustering, drug discovery and the establishment of evolutionary relationships. Thus, several computational applications to identify, describe and compare 3D patterns (or motifs) have been developed. Often, these tools consider a 3D pattern as that described by the residues surrounding co-crystallized/docked ligands available from X-ray crystal structures or homology models. Nevertheless, many of the protein structures stored in public databases do not provide information about the location and characteristics of ligand binding sites and/or other important 3D patterns such as allosteric sites, enzyme-cofactor interaction motifs, etc. This makes necessary the development of new ligand-independent methods to search and compare 3D patterns in all available protein structures. Here we introduce Geomfinder, an intuitive, flexible, alignment-free and ligand-independent web server for detailed estimation of similarities between all pairs of 3D patterns detected in any two given protein structures. We used around 1100 protein structures to form pairs of proteins which were assessed with Geomfinder. In these analyses each protein was considered in only one pair (e.g. in a subset of 100 different proteins, 50 pairs of proteins can be defined). Thus: (a) Geomfinder detected identical pairs of 3D patterns in a series of monoamine oxidase-B structures, which corresponded to the effectively similar ligand binding sites at these proteins; (b) we identified structural similarities among pairs of protein structures which are targets of compounds such as acarbose, benzamidine, adenosine triphosphate and pyridoxal phosphate; these similar 3D patterns are not detected using sequence-based methods; (c) the detailed evaluation of three specific cases showed the versatility
Belda, Xavier; Nadal, Roser; Armario, Antonio
2016-08-11
Stress-induced sensitization represents a process whereby prior exposure to severe stressors leaves animals or humans in a hyper-responsive state to further stressors. Indeed, this phenomenon is assumed to be the basis of certain stress-associated pathologies, including post-traumatic stress disorder and psychosis. One biological system particularly prone to sensitization is the hypothalamic-pituitary-adrenal (HPA) axis, the prototypic stress system. It is well established that under certain conditions, prior exposure of animals to acute and chronic (triggering) stressors enhances HPA responses to novel (heterotypic) stressors on subsequent days (e.g. raised plasma ACTH and corticosterone levels). However, such changes remain somewhat controversial and thus, the present study aimed to identify the critical characteristics of the triggering and challenging stressors that affect acute stress-induced HPA cross-sensitization in adult rats. We found that HPA cross-sensitization is markedly influenced by the intensity of the triggering stressor, whereas the length of exposure mainly affects its persistence. Importantly, HPA sensitization is more evident with mild than strong challenging stressors, and it may remain unnoticed if exposure to the challenging stressor is prolonged beyond 15 min. We speculate that heterotypic HPA sensitization might have developed to optimize biologically adaptive responses to further brief stressors.
Matsumura, Erika; Yamaguchi, Tetsuto; Tomidokoro, Yasushi; Ishii, Akiko; Tamaoka, Akira
2014-01-01
A 68-year-old man, with a history of type 2 diabetes mellitus and chronic kidney impairment, had been suffering from progressive knee joint contracture and dysesthesia of the lower extremities for 4 years. When he walked, his knees remained bent owing to contracture of the knee joints. There was no evidence of muscle pseudohypertrophy, intramuscular nodules, or muscle weakness. Clinical examination revealed IgA λ M-protein, reticular high-signal intensity lesions demonstrated by magnetic resonance T2-short TI IR(STIR) imaging of the lower extremity muscles, and a mixture of neurogenic and myogenic changes demonstrated by needle electromyography. A biopsy specimen from the vastus lateralis muscle identified Aλ amyloid deposits around the vessels, establishing a diagnosis of amyloid myopathy based on systemic AL amyloidosis. This case demonstrated that joint contracture and reticular lesions shown by magnetic resonance STIR imaging of the muscles can alert the physician to consider muscle biopsy to investigate deposition of amyloid in the skeletal muscles even in the absence of muscle pseudohypertrophy or weakness, both of which are characteristic of amyloid myopathy.
Teixeira, Aline F.; de Morais, Zenaide M.; Kirchgatter, Karin; Romero, Eliete C.; Vasconcellos, Silvio A.; Nascimento, Ana Lucia T. O.
2015-01-01
Leptospirosis is an acute febrile disease caused by pathogenic spirochetes of the genus Leptospira. It is considered an important re-emerging infectious disease that affects humans worldwide. The knowledge about the mechanisms by which pathogenic leptospires invade and colonize the host remains limited since very few virulence factors contributing to the pathogenesis of the disease have been identified. Here, we report the identification and characterization of two new leptospiral proteins with OmpA-like domains. The recombinant proteins, which exhibit extracellular matrix-binding properties, are called Lsa46 - LIC13479 and Lsa77 - LIC10050 (Leptospiral surface adhesins of 46 and 77 kDa, respectively). Attachment of Lsa46 and Lsa77 to laminin was specific, dose dependent and saturable, with KD values of 24.3 ± 17.0 and 53.0 ± 17.5 nM, respectively. Lsa46 and Lsa77 also bind plasma fibronectin, and both adhesins are plasminogen (PLG)-interacting proteins, capable of generating plasmin (PLA) and as such, increase the proteolytic ability of leptospires. The proteins corresponding to Lsa46 and Lsa77 are present in virulent L. interrogans L1-130 and in saprophyte L. biflexa Patoc 1 strains, as detected by immunofluorescence. The adhesins are recognized by human leptospirosis serum samples at the onset and convalescent phases of the disease, suggesting that they are expressed during infection. Taken together, our data could offer valuable information to the understanding of leptospiral pathogenesis. PMID:25849456
Directory of Open Access Journals (Sweden)
Aline F Teixeira
Full Text Available Leptospirosis is an acute febrile disease caused by pathogenic spirochetes of the genus Leptospira. It is considered an important re-emerging infectious disease that affects humans worldwide. The knowledge about the mechanisms by which pathogenic leptospires invade and colonize the host remains limited since very few virulence factors contributing to the pathogenesis of the disease have been identified. Here, we report the identification and characterization of two new leptospiral proteins with OmpA-like domains. The recombinant proteins, which exhibit extracellular matrix-binding properties, are called Lsa46 - LIC13479 and Lsa77 - LIC10050 (Leptospiral surface adhesins of 46 and 77 kDa, respectively. Attachment of Lsa46 and Lsa77 to laminin was specific, dose dependent and saturable, with KD values of 24.3 ± 17.0 and 53.0 ± 17.5 nM, respectively. Lsa46 and Lsa77 also bind plasma fibronectin, and both adhesins are plasminogen (PLG-interacting proteins, capable of generating plasmin (PLA and as such, increase the proteolytic ability of leptospires. The proteins corresponding to Lsa46 and Lsa77 are present in virulent L. interrogans L1-130 and in saprophyte L. biflexa Patoc 1 strains, as detected by immunofluorescence. The adhesins are recognized by human leptospirosis serum samples at the onset and convalescent phases of the disease, suggesting that they are expressed during infection. Taken together, our data could offer valuable information to the understanding of leptospiral pathogenesis.
Kebir, Sied; Khurshid, Zain; Gaertner, Florian C; Essler, Markus; Hattingen, Elke; Fimmers, Rolf; Scheffler, Björn; Herrlinger, Ulrich; Bundschuh, Ralph A; Glas, Martin
2017-01-31
Timely detection of pseudoprogression (PSP) is crucial for the management of patients with high-grade glioma (HGG) but remains difficult. Textural features of O-(2-[18F]fluoroethyl)-L-tyrosine positron emission tomography (FET-PET) mirror tumor uptake heterogeneity; some of them may be associated with tumor progression. Fourteen patients with HGG and suspected of PSP underwent FET-PET imaging. A set of 19 conventional and textural FET-PET features were evaluated and subjected to unsupervised consensus clustering. The final diagnosis of true progression vs. PSP was based on follow-up MRI using RANO criteria. Three robust clusters have been identified based on 10 predominantly textural FET-PET features. None of the patients with PSP fell into cluster 2, which was associated with high values for textural FET-PET markers of uptake heterogeneity. Three out of 4 patients with PSP were assigned to cluster 3 that was largely associated with low values of textural FET-PET features. By comparison, tumor-to-normal brain ratio (TNRmax) at the optimal cutoff 2.1 was less predictive of PSP (negative predictive value 57% for detecting true progression, p=0.07 vs. 75% with cluster 3, p=0.04). Clustering based on textural O-(2-[18F]fluoroethyl)-L-tyrosine PET features may provide valuable information in assessing the elusive phenomenon of pseudoprogression.
Optimal topologies for maximizing network transmission capacity
Chen, Zhenhao; Wu, Jiajing; Rong, Zhihai; Tse, Chi K.
2018-04-01
It has been widely demonstrated that the structure of a network is a major factor that affects its traffic dynamics. In this work, we try to identify the optimal topologies for maximizing the network transmission capacity, as well as to build a clear relationship between structural features of a network and the transmission performance in terms of traffic delivery. We propose an approach for designing optimal network topologies against traffic congestion by link rewiring and apply them on the Barabási-Albert scale-free, static scale-free and Internet Autonomous System-level networks. Furthermore, we analyze the optimized networks using complex network parameters that characterize the structure of networks, and our simulation results suggest that an optimal network for traffic transmission is more likely to have a core-periphery structure. However, assortative mixing and the rich-club phenomenon may have negative impacts on network performance. Based on the observations of the optimized networks, we propose an efficient method to improve the transmission capacity of large-scale networks.
The role of topology in materials
Saxena, Avadh
2018-01-01
This book presents the most important advances in the class of topological materials and discusses the topological characterization, modeling and metrology of materials. Further, it addresses currently emerging characterization techniques such as optical and acoustic, vibrational spectroscopy (Brillouin, infrared, Raman), electronic, magnetic, fluorescence correlation imaging, laser lithography, small angle X-ray and neutron scattering and other techniques, including site-selective nanoprobes. The book analyzes the topological aspects to identify and quantify these effects in terms of topology metrics. The topological materials are ubiquitous and range from (i) de novo nanoscale allotropes of carbons in various forms such as nanotubes, nanorings, nanohorns, nanowalls, peapods, graphene, etc. to (ii) metallo-organic frameworks, (iii) helical gold nanotubes, (iv) Möbius conjugated polymers, (v) block co-polymers, (vi) supramolecular assemblies, to (vii) a variety of biological and soft-matter systems, e.g. foa...
Cultural Topology of Creativity
Directory of Open Access Journals (Sweden)
L. M. Andryukhina
2015-02-01
Full Text Available The man in the modern culture faces the challenge of either being creative or forced to leave the stage, which reflects the essential basics of life. The price of lost opportunities, caused by mental stereotypes and encapsulation, is gradually rising. The paper reveals the socio-cultural conditions and the necessary cultural topology of creativity development, as well as the man’s creative potential in the 21st century. The content of the creativity concept is specified along with the phenomenon of its fast expansion in the modern discourse. That results from the global spreading of numerous creative practices in various spheres of life, affecting the progress directions in economics, business, industrial technologies, labor, employment and social stratification. The author emphasizes the social features of creativity, the rising number of, so called, creative class, and outlines the two opposing strategies influencing the topology modification of the social and cultural environment. The first one, applied by the developed countries, facilitates the development of the creative human potential, whereas the other one, inherent in our country, holds that a creative person is able to make progress by himself. However, for solving the urgent problem of innovative development, the creative potential of modern Russia is not sufficient, and following the second strategy will result in unrealized social opportunities and ever lasting social and cultural situation demanding further investment. According to the author, to avoid such a perspective, it is necessary to overcome the three deeply rooted archetypes: the educational disciplinary centrism, organizational absolutism and cultural ostracism.
Cultural Topology of Creativity
Directory of Open Access Journals (Sweden)
L. M. Andryukhina
2012-01-01
Full Text Available The man in the modern culture faces the challenge of either being creative or forced to leave the stage, which reflects the essential basics of life. The price of lost opportunities, caused by mental stereotypes and encapsulation, is gradually rising. The paper reveals the socio-cultural conditions and the necessary cultural topology of creativity development, as well as the man’s creative potential in the 21st century. The content of the creativity concept is specified along with the phenomenon of its fast expansion in the modern discourse. That results from the global spreading of numerous creative practices in various spheres of life, affecting the progress directions in economics, business, industrial technologies, labor, employment and social stratification. The author emphasizes the social features of creativity, the rising number of, so called, creative class, and outlines the two opposing strategies influencing the topology modification of the social and cultural environment. The first one, applied by the developed countries, facilitates the development of the creative human potential, whereas the other one, inherent in our country, holds that a creative person is able to make progress by himself. However, for solving the urgent problem of innovative development, the creative potential of modern Russia is not sufficient, and following the second strategy will result in unrealized social opportunities and ever lasting social and cultural situation demanding further investment. According to the author, to avoid such a perspective, it is necessary to overcome the three deeply rooted archetypes: the educational disciplinary centrism, organizational absolutism and cultural ostracism.
Ranking beta sheet topologies with applications to protein structure prediction
DEFF Research Database (Denmark)
Fonseca, Rasmus; Helles, Glennie; Winter, Pawel
2011-01-01
One reason why ab initio protein structure predictors do not perform very well is their inability to reliably identify long-range interactions between amino acids. To achieve reliable long-range interactions, all potential pairings of ß-strands (ß-topologies) of a given protein are enumerated......, including the native ß-topology. Two very different ß-topology scoring methods from the literature are then used to rank all potential ß-topologies. This has not previously been attempted for any scoring method. The main result of this paper is a justification that one of the scoring methods, in particular......, consistently top-ranks native ß-topologies. Since the number of potential ß-topologies grows exponentially with the number of ß-strands, it is unrealistic to expect that all potential ß-topologies can be enumerated for large proteins. The second result of this paper is an enumeration scheme of a subset of ß-topologies...
Insulator function and topological domain border strength scale with architectural protein occupancy
2014-01-01
Background Chromosome conformation capture studies suggest that eukaryotic genomes are organized into structures called topologically associating domains. The borders of these domains are highly enriched for architectural proteins with characterized roles in insulator function. However, a majority of architectural protein binding sites localize within topological domains, suggesting sites associated with domain borders represent a functionally different subclass of these regulatory elements. How topologically associating domains are established and what differentiates border-associated from non-border architectural protein binding sites remain unanswered questions. Results By mapping the genome-wide target sites for several Drosophila architectural proteins, including previously uncharacterized profiles for TFIIIC and SMC-containing condensin complexes, we uncover an extensive pattern of colocalization in which architectural proteins establish dense clusters at the borders of topological domains. Reporter-based enhancer-blocking insulator activity as well as endogenous domain border strength scale with the occupancy level of architectural protein binding sites, suggesting co-binding by architectural proteins underlies the functional potential of these loci. Analyses in mouse and human stem cells suggest that clustering of architectural proteins is a general feature of genome organization, and conserved architectural protein binding sites may underlie the tissue-invariant nature of topologically associating domains observed in mammals. Conclusions We identify a spectrum of architectural protein occupancy that scales with the topological structure of chromosomes and the regulatory potential of these elements. Whereas high occupancy architectural protein binding sites associate with robust partitioning of topologically associating domains and robust insulator function, low occupancy sites appear reserved for gene-specific regulation within topological domains. PMID
Transportation Network Topologies
Alexandrov, Natalia (Editor)
2004-01-01
The existing U.S. hub-and-spoke air transportation system is reaching saturation. Major aspects of the current system, such as capacity, safety, mobility, customer satisfaction, security, communications, and ecological effects, require improvements. The changing dynamics - increased presence of general aviation, unmanned autonomous vehicles, military aircraft in civil airspace as part of homeland defense - contributes to growing complexity of airspace. The system has proven remarkably resistant to change. NASA Langley Research Center and the National Institute of Aerospace conducted a workshop on Transportation Network Topologies on 9-10 December 2003 in Williamsburg, Virginia. The workshop aimed to examine the feasibility of traditional methods for complex system analysis and design as well as potential novel alternatives in application to transportation systems, identify state-of-the-art models and methods, conduct gap analysis, and thus to lay a foundation for establishing a focused research program in complex systems applied to air transportation.
Analysis of Network Topologies Underlying Ethylene Growth Response Kinetics.
Prescott, Aaron M; McCollough, Forest W; Eldreth, Bryan L; Binder, Brad M; Abel, Steven M
2016-01-01
Most models for ethylene signaling involve a linear pathway. However, measurements of seedling growth kinetics when ethylene is applied and removed have resulted in more complex network models that include coherent feedforward, negative feedback, and positive feedback motifs. The dynamical responses of the proposed networks have not been explored in a quantitative manner. Here, we explore (i) whether any of the proposed models are capable of producing growth-response behaviors consistent with experimental observations and (ii) what mechanistic roles various parts of the network topologies play in ethylene signaling. To address this, we used computational methods to explore two general network topologies: The first contains a coherent feedforward loop that inhibits growth and a negative feedback from growth onto itself (CFF/NFB). In the second, ethylene promotes the cleavage of EIN2, with the product of the cleavage inhibiting growth and promoting the production of EIN2 through a positive feedback loop (PFB). Since few network parameters for ethylene signaling are known in detail, we used an evolutionary algorithm to explore sets of parameters that produce behaviors similar to experimental growth response kinetics of both wildtype and mutant seedlings. We generated a library of parameter sets by independently running the evolutionary algorithm many times. Both network topologies produce behavior consistent with experimental observations, and analysis of the parameter sets allows us to identify important network interactions and parameter constraints. We additionally screened these parameter sets for growth recovery in the presence of sub-saturating ethylene doses, which is an experimentally-observed property that emerges in some of the evolved parameter sets. Finally, we probed simplified networks maintaining key features of the CFF/NFB and PFB topologies. From this, we verified observations drawn from the larger networks about mechanisms underlying ethylene
Analysis of Network Topologies Underlying Ethylene Growth Response Kinetics
Directory of Open Access Journals (Sweden)
Aaron M. Prescott
2016-08-01
Full Text Available Most models for ethylene signaling involve a linear pathway. However, measurements of seedling growth kinetics when ethylene is applied and removed have resulted in more complex network models that include coherent feedforward, negative feedback, and positive feedback motifs. However, the dynamical responses of the proposed networks have not been explored in a quantitative manner. Here, we explore (i whether any of the proposed models are capable of producing growth-response behaviors consistent with experimental observations and (ii what mechanistic roles various parts of the network topologies play in ethylene signaling. To address this, we used computational methods to explore two general network topologies: The first contains a coherent feedforward loop that inhibits growth and a negative feedback from growth onto itself (CFF/NFB. In the second, ethylene promotes the cleavage of EIN2, with the product of the cleavage inhibiting growth and promoting the production of EIN2 through a positive feedback loop (PFB. Since few network parameters for ethylene signaling are known in detail, we used an evolutionary algorithm to explore sets of parameters that produce behaviors similar to experimental growth response kinetics of both wildtype and mutant seedlings. We generated a library of parameter sets by independently running the evolutionary algorithm many times. Both network topologies produce behavior consistent with experimental observations and analysis of the parameter sets allows us to identify important network interactions and parameter constraints. We additionally screened these parameter sets for growth recovery in the presence of sub-saturating ethylene doses, which is an experimentally-observed property that emerges in some of the evolved parameter sets. Finally, we probed simplified networks maintaining key features of the CFF/NFB and PFB topologies. From this, we verified observations drawn from the larger networks about mechanisms
Brenneis, Georg; Scholtz, Gerhard
2015-07-10
The arthropod ventral nerve cord features a comparably low number of serotonin-immunoreactive neurons, occurring in segmentally repeated arrays. In different crustaceans and hexapods, these neurons have been individually identified and even inter-specifically homologized, based on their soma positions and neurite morphologies. Stereotypic sets of serotonin-immunoreactive neurons are also present in myriapods, whereas in the investigated chelicerates segmental neuron clusters with higher and variable cell numbers have been reported. This led to the suggestion that individually identifiable serotonin-immunoreactive neurons are an apomorphic feature of the Mandibulata. To test the validity of this neurophylogenetic hypothesis, we studied serotonin-immunoreactivity in three species of Pycnogonida (sea spiders). This group of marine arthropods is nowadays most plausibly resolved as sister group to all other extant chelicerates, rendering its investigation crucial for a reliable reconstruction of arthropod nervous system evolution. In all three investigated pycnogonids, the ventral walking leg ganglia contain different types of serotonin-immunoreactive neurons, the somata of which occurring mostly singly or in pairs within the ganglionic cortex. Several of these neurons are readily and consistently identifiable due to their stereotypic soma position and characteristic neurite morphology. They can be clearly homologized across different ganglia and different specimens as well as across the three species. Based on these homologous neurons, we reconstruct for their last common ancestor (presumably the pycnogonid stem species) a minimal repertoire of at least seven identified serotonin-immunoreactive neurons per hemiganglion. Beyond that, each studied species features specific pattern variations, which include also some neurons that were not reliably labeled in all specimens. Our results unequivocally demonstrate the presence of individually identifiable serotonin
International Nuclear Information System (INIS)
Eberhart, M.
1996-01-01
A systematic study of the charge density topologies corresponding to a number of transition metal aluminides with the B2 structure indicates that unstable crystal structures are sometimes associated with uncharacteristic topologies. This observation invites the speculation that the distance to a topological instability might relate to a metals phase behavior. Following this speculation, a metric is imposed on the topological theory of Bader, producing a geometrical theory, where it is now possible to assign a distance from a calculated charge density topology to a topological instability. For the cubic transition metals, these distances are shown to correlate with single crystal elastic constants, where the metals that are furthest from an instability are observed to be the stiffest. (author). 16 refs., 1 tab., 9 figs
Topological mirror superconductivity.
Zhang, Fan; Kane, C L; Mele, E J
2013-08-02
We demonstrate the existence of topological superconductors (SCs) protected by mirror and time-reversal symmetries. D-dimensional (D=1, 2, 3) crystalline SCs are characterized by 2(D-1) independent integer topological invariants, which take the form of mirror Berry phases. These invariants determine the distribution of Majorana modes on a mirror symmetric boundary. The parity of total mirror Berry phase is the Z(2) index of a class DIII SC, implying that a DIII topological SC with a mirror line must also be a topological mirror SC but not vice versa and that a DIII SC with a mirror plane is always time-reversal trivial but can be mirror topological. We introduce representative models and suggest experimental signatures in feasible systems. Advances in quantum computing, the case for nodal SCs, the case for class D, and topological SCs protected by rotational symmetries are pointed out.
Interactive Topology Optimization
DEFF Research Database (Denmark)
Nobel-Jørgensen, Morten
Interactivity is the continuous interaction between the user and the application to solve a task. Topology optimization is the optimization of structures in order to improve stiffness or other objectives. The goal of the thesis is to explore how topology optimization can be used in applications...... on theory of from human-computer interaction which is described in Chapter 2. Followed by a description of the foundations of topology optimization in Chapter 3. Our applications for topology optimization in 2D and 3D are described in Chapter 4 and a game which trains the human intuition of topology...... optimization is presented in Chapter 5. Topology optimization can also be used as an interactive modeling tool with local control which is presented in Chapter 6. Finally, Chapter 7 contains a summary of the findings and concludes the dissertation. Most of the presented applications of the thesis are available...
Directory of Open Access Journals (Sweden)
Tsutomu Ogata
Full Text Available BACKGROUND: Although TBX1 mutations have been identified in patients with 22q11.2 deletion syndrome (22q11.2DS-like phenotypes including characteristic craniofacial features, cardiovascular anomalies, hypoparathyroidism, and thymic hypoplasia, the frequency of TBX1 mutations remains rare in deletion-negative patients. Thus, it would be reasonable to perform a comprehensive genetic analysis in deletion-negative patients with 22q11.2DS-like phenotypes. METHODOLOGY/PRINCIPAL FINDINGS: We studied three subjects with craniofacial features and hypocalcemia (group 1, two subjects with craniofacial features alone (group 2, and three subjects with normal phenotype within a single Japanese family. Fluorescence in situ hybridization analysis excluded chromosome 22q11.2 deletion, and genomewide array comparative genomic hybridization analysis revealed no copy number change specific to group 1 or groups 1+2. However, exome sequencing identified a heterozygous TBX1 frameshift mutation (c.1253delA, p.Y418fsX459 specific to groups 1+2, as well as six missense variants and two in-frame microdeletions specific to groups 1+2 and two missense variants specific to group 1. The TBX1 mutation resided at exon 9C and was predicted to produce a non-functional truncated protein missing the nuclear localization signal and most of the transactivation domain. CONCLUSIONS/SIGNIFICANCE: Clinical features in groups 1+2 are well explained by the TBX1 mutation, while the clinical effects of the remaining variants are largely unknown. Thus, the results exemplify the usefulness of exome sequencing in the identification of disease-causing mutations in familial disorders. Furthermore, the results, in conjunction with the previous data, imply that TBX1 isoform C is the biologically essential variant and that TBX1 mutations are associated with a wide phenotypic spectrum, including most of 22q11.2DS phenotypes.
Machine Learning Topological Invariants with Neural Networks
Zhang, Pengfei; Shen, Huitao; Zhai, Hui
2018-02-01
In this Letter we supervisedly train neural networks to distinguish different topological phases in the context of topological band insulators. After training with Hamiltonians of one-dimensional insulators with chiral symmetry, the neural network can predict their topological winding numbers with nearly 100% accuracy, even for Hamiltonians with larger winding numbers that are not included in the training data. These results show a remarkable success that the neural network can capture the global and nonlinear topological features of quantum phases from local inputs. By opening up the neural network, we confirm that the network does learn the discrete version of the winding number formula. We also make a couple of remarks regarding the role of the symmetry and the opposite effect of regularization techniques when applying machine learning to physical systems.
Topological Foundations of Electromagnetism
Barrett, Terrence W
2008-01-01
Topological Foundations of Electromagnetism seeks a fundamental understanding of the dynamics of electromagnetism; and marshals the evidence that in certain precisely defined topological conditions, electromagnetic theory (Maxwell's theory) must be extended or generalized in order to provide an explanation and understanding of, until now, unusual electromagnetic phenomena. Key to this generalization is an understanding of the circumstances under which the so-called A potential fields have physical effects. Basic to the approach taken is that the topological composition of electromagnetic field
Siino, Masaru
1997-01-01
The topologies of event horizons are investigated. Considering the existence of the endpoint of the event horizon, it cannot be differentiable. Then there are the new possibilities of the topology of the event horizon though they are excluded in smooth event horizons. The relation between the topology of the event horizon and the endpoint of it is revealed. A torus event horizon is caused by two-dimensional endpoints. One-dimensional endpoints provide the coalescence of spherical event horizo...
Gulamsarwar, Syazwani; Salleh, Zabidin
2017-08-01
The purpose of this paper is to generalize the notions of Adler's topological entropy along with their several fundamental properties. A function f : X → Y is said to be R-map if f-1 (V) is regular open in X for every regular open set V in Y. Thus, we initiated a notion of topological nearly entropy for topological R-dynamical systems which is based on nearly compact relative to the space by using R-map.
Decorrelating topology with HMC
International Nuclear Information System (INIS)
Lippert, Th.; Alles, B.; Bali, G.; D'Elia, M.; Di Giacomo, A.; Eicker, N.; Guesken, S.; Schilling, K.; Spitz, A.; Struckmann, T.; Ueberholz, P.; Viehoff, J.
1999-01-01
The investigation of the decorrelation efficiency of the HMC algorithm with respect to vacuum topology is a prerequisite for trustworthy full QCD simulations, in particular for the computation of topology sensitive quantities. We demonstrate that for ((m π )/(m ρ ))-ratios ≥ 0.69 sufficient tunneling between the topological sectors can be achieved, for two flavours of dynamical Wilson fermions close to the scaling region (β 5.6). Our results are based on time series of length 5000 trajectories
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Ali Bajravani
2018-04-01
Full Text Available By substituting the usual notion of open sets in a topological space $X$ with a suitable collection of maps from $X$ to a frame $L$, we introduce the notion of L-topological spaces. Then, we proceed to study the classical notions and properties of usual topological spaces to the newly defined mathematical notion. Our emphasis would be concentrated on the well understood classical connectedness, quotient and compactness notions, where we prove the Thychonoff's theorem and connectedness property for ultra product of $L$-compact and $L$-connected topological spaces, respectively.
Singh, Tej Bahadur
2013-01-01
Topological SpacesMetric Spaces Topologies Derived Concepts Bases Subspaces Continuity and ProductsContinuityProduct TopologyConnectednessConnected Spaces Components Path-Connected Spaces Local ConnectivityConvergence Sequences Nets Filters Hausdorff SpacesCountability Axioms 1st and 2nd Countable Spaces Separable and Lindelöf SpacesCompactnessCompact Spaces Countably Compact Spaces Compact Metric Spaces Locally Compact Spaces Proper Maps Topological Constructions Quotient Spaces Identification Maps Cones, Suspensions and Joins Wedge Sums and Smash Products Adjunction Spaces Coherent Topologie
Topological Gyroscopic Metamaterials
Nash, Lisa Michelle
Topological materials are generally insulating in their bulk, with protected conducting states on their boundaries that are robust against disorder and perturbation of material property. The existence of these conducting edge states is characterized by an integer topological invariant. Though the phenomenon was first discovered in electronic systems, recent years have shown that topological states exist in classical systems as well. In this thesis we are primarily concerned with the topological properties of gyroscopic materials, which are created by coupling networks of fast-spinning objects. Through a series of simulations, numerical calculations, and experiments, we show that these materials can support topological edge states. We find that edge states in these gyroscopic metamaterials bear the hallmarks of topology related to broken time reversal symmetry: they transmit excitations unidirectionally and are extremely robust against experimental disorder. We also explore requirements for topology by studying several lattice configurations and find that topology emerges naturally in gyroscopic systems.A simple prescription can be used to create many gyroscopic lattices. Though many of our gyroscopic networks are periodic, we explore amorphous point-sets and find that topology also emerges in these networks.
Morita, K
1989-01-01
Being an advanced account of certain aspects of general topology, the primary purpose of this volume is to provide the reader with an overview of recent developments.The papers cover basic fields such as metrization and extension of maps, as well as newly-developed fields like categorical topology and topological dynamics. Each chapter may be read independently of the others, with a few exceptions. It is assumed that the reader has some knowledge of set theory, algebra, analysis and basic general topology.
Morse theory interpretation of topological quantum field theories
International Nuclear Information System (INIS)
Labastida, J.M.F.
1989-01-01
Topological quantum field theories are interpreted as a generalized form of Morse theory. This interpretation is applied to formulate the simplest topological quantum field theory: Topological quantum mechanics. The only non-trivial topological invariant corresponding to this theory is computed and identified with the Euler characteristic. Using field theoretical methods this topological invariant is calculated in different ways and in the process a proof of the Gauss-Bonnet-Chern-Avez formula as well as some results of degenerate Morse theory are obtained. (orig.)
General Topology of the Universe
Pandya, Aalok
2002-01-01
General topology of the universe is descibed. It is concluded that topology of the present universe is greater or stronger than the topology of the universe in the past and topology of the future universe will be stronger or greater than the present topology of the universe. Consequently, the universe remains unbounded.
Pseudogap and Fermi-Surface Topology in the Two-Dimensional Hubbard Model
Wu, Wei; Scheurer, Mathias S.; Chatterjee, Shubhayu; Sachdev, Subir; Georges, Antoine; Ferrero, Michel
2018-04-01
One of the distinctive features of hole-doped cuprate superconductors is the onset of a "pseudogap" below a temperature T* . Recent experiments suggest that there may be a connection between the existence of the pseudogap and the topology of the Fermi surface. Here, we address this issue by studying the two-dimensional Hubbard model with two distinct numerical methods. We find that the pseudogap only exists when the Fermi surface is holelike and that, for a broad range of parameters, its opening is concomitant with a Fermi-surface topology change from electronlike to holelike. We identify a common link between these observations: The polelike feature of the electronic self-energy associated with the formation of the pseudogap is found to also control the degree of particle-hole asymmetry, and hence the Fermi-surface topology transition. We interpret our results in the framework of an SU(2) gauge theory of fluctuating antiferromagnetism. We show that a mean-field treatment of this theory in a metallic state with U(1) topological order provides an explanation of this polelike feature and a good description of our numerical results. We discuss the relevance of our results to experiments on cuprates.
Hopf algebras and topological recursion
International Nuclear Information System (INIS)
Esteves, João N
2015-01-01
We consider a model for topological recursion based on the Hopf algebra of planar binary trees defined by Loday and Ronco (1998 Adv. Math. 139 293–309 We show that extending this Hopf algebra by identifying pairs of nearest neighbor leaves, and thus producing graphs with loops, we obtain the full recursion formula discovered by Eynard and Orantin (2007 Commun. Number Theory Phys. 1 347–452). (paper)
Optimization-based topology identification of complex networks
International Nuclear Information System (INIS)
Tang Sheng-Xue; Chen Li; He Yi-Gang
2011-01-01
In many cases, the topological structures of a complex network are unknown or uncertain, and it is of significance to identify the exact topological structure. An optimization-based method of identifying the topological structure of a complex network is proposed in this paper. Identification of the exact network topological structure is converted into a minimal optimization problem by using the estimated network. Then, an improved quantum-behaved particle swarm optimization algorithm is used to solve the optimization problem. Compared with the previous adaptive synchronization-based method, the proposed method is simple and effective and is particularly valid to identify the topological structure of synchronization complex networks. In some cases where the states of a complex network are only partially observable, the exact topological structure of a network can also be identified by using the proposed method. Finally, numerical simulations are provided to show the effectiveness of the proposed method. (general)
Taguchi, Y-H
2017-12-21
Although post-traumatic stress disorder (PTSD) is primarily a mental disorder, it can cause additional symptoms that do not seem to be directly related to the central nervous system, which PTSD is assumed to directly affect. PTSD-mediated heart diseases are some of such secondary disorders. In spite of the significant correlations between PTSD and heart diseases, spatial separation between the heart and brain (where PTSD is primarily active) prevents researchers from elucidating the mechanisms that bridge the two disorders. Our purpose was to identify genes linking PTSD and heart diseases. In this study, gene expression profiles of various murine tissues observed under various types of stress or without stress were analyzed in an integrated manner using tensor decomposition (TD). Based upon the obtained features, ∼ 400 genes were identified as candidate genes that may mediate heart diseases associated with PTSD. Various gene enrichment analyses supported biological reliability of the identified genes. Ten genes encoding protein-, DNA-, or mRNA-interacting proteins-ILF2, ILF3, ESR1, ESR2, RAD21, HTT, ATF2, NR3C1, TP53, and TP63-were found to be likely to regulate expression of most of these ∼ 400 genes and therefore are candidate primary genes that cause PTSD-mediated heart diseases. Approximately 400 genes in the heart were also found to be strongly affected by various drugs whose known adverse effects are related to heart diseases and/or fear memory conditioning; these data support the reliability of our findings. TD-based unsupervised feature extraction turned out to be a useful method for gene selection and successfully identified possible genes causing PTSD-mediated heart diseases.
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Tomoko Miyata
2015-01-01
Full Text Available Uterine leiomyosarcoma (LMS is the worst malignancy among the gynecologic cancers. Uterine leiomyoma (LM, a benign tumor of myometrial origin, is the most common among women of childbearing age. Because of their similar symptoms, it is difficult to preoperatively distinguish the two conditions only by ultrasound and pelvic MRI. While histopathological diagnosis is currently the main approach used to distinguish them postoperatively, unusual histologic variants of LM tend to be misdiagnosed as LMS. Therefore, development of molecular diagnosis as an alternative or confirmatory means will help to diagnose LMS more accurately. We adopted omics-based technologies to identify genome-wide features to distinguish LMS from LM and revealed that copy number, gene expression, and DNA methylation profiles successfully distinguished these tumors. LMS was found to possess features typically observed in malignant solid tumors, such as extensive chromosomal abnormalities, overexpression of cell cycle-related genes, hypomethylation spreading through large genomic regions, and frequent hypermethylation at the polycomb group target genes and protocadherin genes. We also identified candidate expression and DNA methylation markers, which will facilitate establishing postoperative molecular diagnostic tests based on conventional quantitative assays. Our results demonstrate the feasibility of establishing such tests and the possibility of developing preoperative and noninvasive methods.
Complete theory of symmetry-based indicators of band topology.
Po, Hoi Chun; Vishwanath, Ashvin; Watanabe, Haruki
2017-06-30
The interplay between symmetry and topology leads to a rich variety of electronic topological phases, protecting states such as the topological insulators and Dirac semimetals. Previous results, like the Fu-Kane parity criterion for inversion-symmetric topological insulators, demonstrate that symmetry labels can sometimes unambiguously indicate underlying band topology. Here we develop a systematic approach to expose all such symmetry-based indicators of band topology in all the 230 space groups. This is achieved by first developing an efficient way to represent band structures in terms of elementary basis states, and then isolating the topological ones by removing the subset of atomic insulators, defined by the existence of localized symmetric Wannier functions. Aside from encompassing all earlier results on such indicators, including in particular the notion of filling-enforced quantum band insulators, our theory identifies symmetry settings with previously hidden forms of band topology, and can be applied to the search for topological materials.Understanding the role of topology in determining electronic structure can lead to the discovery, or appreciation, of materials with exotic properties such as protected surface states. Here, the authors present a framework for identifying topologically distinct band-structures for all 3D space groups.
Geometry and topology of wild translation surfaces
Randecker, Anja
2016-01-01
A translation surface is a two-dimensional manifold, equipped with a translation structure. It can be obtained by considering Euclidean polygons and identifying their edges via translations. The vertices of the polygons form singularities if the translation structure can not be extended to them. We study translation surfaces with wild singularities, regarding the topology (genus and space of ends), the geometry (behavior of the singularities), and how the topology and the geometry are related.
Topology optimization approaches
DEFF Research Database (Denmark)
Sigmund, Ole; Maute, Kurt
2013-01-01
Topology optimization has undergone a tremendous development since its introduction in the seminal paper by Bendsøe and Kikuchi in 1988. By now, the concept is developing in many different directions, including “density”, “level set”, “topological derivative”, “phase field”, “evolutionary...
Mendelson, Bert
1990-01-01
Highly regarded for its exceptional clarity, imaginative and instructive exercises, and fine writing style, this concise book offers an ideal introduction to the fundamentals of topology. It provides a simple, thorough survey of elementary topics, starting with set theory and advancing to metric and topological spaces, connectedness, and compactness. 1975 edition.
Modeling Internet Topology Dynamics
Haddadi, H.; Uhlig, S.; Moore, A.; Mortier, R.; Rio, M.
Despite the large number of papers on network topology modeling and inference, there still exists ambiguity about the real nature of the Internet AS and router level topology. While recent findings have illustrated the inaccuracies in maps inferred from BGP peering and traceroute measurements,
Directory of Open Access Journals (Sweden)
Coghetto Roland
2015-12-01
If to each element x of a set X there corresponds a set B(x of subsets of X such that the properties VI, VII, VIII and VIV are satisfied, then there is a unique topological structure on X such that, for each x ∈ X, B(x is the set of neighborhoods of x in this topology.
Reconfigurable topological photonic crystal
Shalaev, Mikhail I.; Desnavi, Sameerah; Walasik, Wiktor; Litchinitser, Natalia M.
2018-02-01
Topological insulators are materials that conduct on the surface and insulate in their interior due to non-trivial topology of the band structure. The edge states on the interface between topological (non-trivial) and conventional (trivial) insulators are topologically protected from scattering due to structural defects and disorders. Recently, it was shown that photonic crystals (PCs) can serve as a platform for realizing a scatter-free propagation of light waves. In conventional PCs, imperfections, structural disorders, and surface roughness lead to significant losses. The breakthrough in overcoming these problems is likely to come from the synergy of the topological PCs and silicon-based photonics technology that enables high integration density, lossless propagation, and immunity to fabrication imperfections. For many applications, reconfigurability and capability to control the propagation of these non-trivial photonic edge states is essential. One way to facilitate such dynamic control is to use liquid crystals (LCs), which allow to modify the refractive index with external electric field. Here, we demonstrate dynamic control of topological edge states by modifying the refractive index of a LC background medium. Background index is changed depending on the orientation of a LC, while preserving the topology of the system. This results in a change of the spectral position of the photonic bandgap and the topological edge states. The proposed concept might be implemented using conventional semiconductor technology, and can be used for robust energy transport in integrated photonic devices, all-optical circuity, and optical communication systems.
Pavement cells and the topology puzzle.
Carter, Ross; Sánchez-Corrales, Yara E; Hartley, Matthew; Grieneisen, Verônica A; Marée, Athanasius F M
2017-12-01
D'Arcy Thompson emphasised the importance of surface tension as a potential driving force in establishing cell shape and topology within tissues. Leaf epidermal pavement cells grow into jigsaw-piece shapes, highly deviating from such classical forms. We investigate the topology of developing Arabidopsis leaves composed solely of pavement cells. Image analysis of around 50,000 cells reveals a clear and unique topological signature, deviating from previously studied epidermal tissues. This topological distribution is established early during leaf development, already before the typical pavement cell shapes emerge, with topological homeostasis maintained throughout growth and unaltered between division and maturation zones. Simulating graph models, we identify a heuristic cellular division rule that reproduces the observed topology. Our parsimonious model predicts how and when cells effectively place their division plane with respect to their neighbours. We verify the predicted dynamics through in vivo tracking of 800 mitotic events, and conclude that the distinct topology is not a direct consequence of the jigsaw piece-like shape of the cells, but rather owes itself to a strongly life history-driven process, with limited impact from cell-surface mechanics. © 2017. Published by The Company of Biologists Ltd.
How to model wireless mesh networks topology
International Nuclear Information System (INIS)
Sanni, M L; Hashim, A A; Anwar, F; Ali, S; Ahmed, G S M
2013-01-01
The specification of network connectivity model or topology is the beginning of design and analysis in Computer Network researches. Wireless Mesh Networks is an autonomic network that is dynamically self-organised, self-configured while the mesh nodes establish automatic connectivity with the adjacent nodes in the relay network of wireless backbone routers. Researches in Wireless Mesh Networks range from node deployment to internetworking issues with sensor, Internet and cellular networks. These researches require modelling of relationships and interactions among nodes including technical characteristics of the links while satisfying the architectural requirements of the physical network. However, the existing topology generators model geographic topologies which constitute different architectures, thus may not be suitable in Wireless Mesh Networks scenarios. The existing methods of topology generation are explored, analysed and parameters for their characterisation are identified. Furthermore, an algorithm for the design of Wireless Mesh Networks topology based on square grid model is proposed in this paper. The performance of the topology generated is also evaluated. This research is particularly important in the generation of a close-to-real topology for ensuring relevance of design to the intended network and validity of results obtained in Wireless Mesh Networks researches
Algebraic topology a first course
Fulton, William
1995-01-01
To the Teacher. This book is designed to introduce a student to some of the important ideas of algebraic topology by emphasizing the re lations of these ideas with other areas of mathematics. Rather than choosing one point of view of modem topology (homotopy theory, simplicial complexes, singular theory, axiomatic homology, differ ential topology, etc.), we concentrate our attention on concrete prob lems in low dimensions, introducing only as much algebraic machin ery as necessary for the problems we meet. This makes it possible to see a wider variety of important features of the subject than is usual in a beginning text. The book is designed for students of mathematics or science who are not aiming to become practicing algebraic topol ogists-without, we hope, discouraging budding topologists. We also feel that this approach is in better harmony with the historical devel opment of the subject. What would we like a student to know after a first course in to pology (assuming we reject the answer: ...
Topological Acoustic Delay Line
Zhang, Zhiwang; Tian, Ye; Cheng, Ying; Wei, Qi; Liu, Xiaojun; Christensen, Johan
2018-03-01
Topological protected wave engineering in artificially structured media is at the frontier of ongoing metamaterials research that is inspired by quantum mechanics. Acoustic analogues of electronic topological insulators have recently led to a wealth of new opportunities in manipulating sound propagation with strikingly unconventional acoustic edge modes immune to backscattering. Earlier fabrications of topological insulators are characterized by an unreconfigurable geometry and a very narrow frequency response, which severely hinders the exploration and design of useful devices. Here we establish topologically protected sound in reconfigurable phononic crystals that can be switched on and off simply by rotating its three-legged "atoms" without altering the lattice structure. In particular, we engineer robust phase delay defects that take advantage of the ultrabroadband reflection-free sound propagation. Such topological delay lines serve as a paradigm in compact acoustic devices, interconnects, and electroacoustic integrated circuits.
Machine learning topological states
Deng, Dong-Ling; Li, Xiaopeng; Das Sarma, S.
2017-11-01
Artificial neural networks and machine learning have now reached a new era after several decades of improvement where applications are to explode in many fields of science, industry, and technology. Here, we use artificial neural networks to study an intriguing phenomenon in quantum physics—the topological phases of matter. We find that certain topological states, either symmetry-protected or with intrinsic topological order, can be represented with classical artificial neural networks. This is demonstrated by using three concrete spin systems, the one-dimensional (1D) symmetry-protected topological cluster state and the 2D and 3D toric code states with intrinsic topological orders. For all three cases, we show rigorously that the topological ground states can be represented by short-range neural networks in an exact and efficient fashion—the required number of hidden neurons is as small as the number of physical spins and the number of parameters scales only linearly with the system size. For the 2D toric-code model, we find that the proposed short-range neural networks can describe the excited states with Abelian anyons and their nontrivial mutual statistics as well. In addition, by using reinforcement learning we show that neural networks are capable of finding the topological ground states of nonintegrable Hamiltonians with strong interactions and studying their topological phase transitions. Our results demonstrate explicitly the exceptional power of neural networks in describing topological quantum states, and at the same time provide valuable guidance to machine learning of topological phases in generic lattice models.
Emerging Trends in Topological Insulators and Topological ...
Indian Academy of Sciences (India)
tems can lead to a state that supports zero energy Majorana fermions .... orbital motion is a relativistic effect most pronounced in heavy ... 1D helical edge states appear within the gap with a linear disper- ... free fermion in 1D. .... less, and electrically neutral. ... to be used as a building block for the next generation topological.
Reality of the fundamental topological structure in the QCD vacuum
International Nuclear Information System (INIS)
Alexandru, Andrei; Horvath, Ivan; Zhang Jianbo
2005-01-01
Long-range order of a specific kind has recently been found directly in configurations dominating the regularized QCD path integral. In particular, a low-dimensional global structure was identified in typical space-time distributions of topological charge defined via the overlap Dirac matrix. The presence of the order has been concluded from the fact that the structure disappears after random permutation of position coordinates in measured densities. Here we complete the argument for the reality of this structure (namely the conjecture that its existence is a consequence of QCD dynamics and not an artifact of the overlap-based definition of lattice topological field) by showing that the structure ceases to exist after randomizing the space-time coordinates of the underlying gauge field. This implies that the long-range order present in the overlap-based topological density is indeed a manifestation of the QCD vacuum, and that the notion of the fundamental structure (structure involving relevant features at all scales) is viable
International Nuclear Information System (INIS)
Vieno, T.; Hautojaervi, A.; Raiko, H.; Ahonen, L.; Salo, J.P.
1994-12-01
Rock Engineering Systems (RES) is an approach to discover the important characteristics and interactions of a complex problem. Recently RES has been applied to identify features, events and processes (FEPs) for performance analysis of nuclear waste repositories. The RES methodology was applied to identify FEPs for the near-field analysis of the copper-steel canister for spent fuel disposal. The aims of the exercise were to learn and test the RES methodology and, secondly, to find out how much the results differ when RES is applied by two different groups on the same problem. A similar exercise was previously carried out by a SKB group. A total of 90 potentially significant FEPs were identified. The exercise showed that the RES methodology is a practicable tool to get a comprehensive and transparent picture of a complex problem. The approach is easy to learn and use. It reveals the important characteristics and interactions and organizes them in a format easy to understand. (9 refs., 5 figs., 3 tabs.)
TOPOLOGY OF RANDOM POINTS YOGESHWARAN. D.
Indian Academy of Sciences (India)
Balls grow at unit rate centred at the points of the point cloud/ process. ... Idea of persistence : Keep track of births and deaths of topological features. ..... holes, Betti numbers, etc., one will be more interested in the distribution of such objects on ...
Realization of a topological phase transition in a gyroscopic lattice
Mitchell, Noah P.; Nash, Lisa M.; Irvine, William T. M.
2018-03-01
Topological metamaterials exhibit unusual behaviors at their boundaries, such as unidirectional chiral waves, that are protected by a topological feature of their band structures. The ability to tune such a material through a topological phase transition in real time could enable the use of protected waves for information storage and readout. Here we dynamically tune through a topological phase transition by breaking inversion symmetry in a metamaterial composed of interacting gyroscopes. Through the transition, we track the divergence of the edge modes' localization length and the change in Chern number characterizing the topology of the material's band structure. This Rapid Communication provides a new axis with which to tune the response of mechanical topological metamaterials.
Wen, Hongwei; Liu, Yue; Rekik, Islem; Wang, Shengpei; Zhang, Jishui; Zhang, Yue; Peng, Yun; He, Huiguang
2017-08-01
Tourette syndrome (TS) is a childhood-onset neurobehavioral disorder. Although previous TS studies revealed structural abnormalities in distinct corticobasal ganglia circuits, the topological alterations of the whole-brain white matter (WM) structural networks remain poorly understood. Here, we used diffusion MRI probabilistic tractography and graph theoretical analysis to investigate the topological organization of WM networks in 44 drug-naive TS children and 41 age- and gender-matched healthy children. The WM networks were constructed by estimating inter-regional connectivity probability and the topological properties were characterized using graph theory. We found that both TS and control groups showed an efficient small-world organization in WM networks. However, compared to controls, TS children exhibited decreased global and local efficiency, increased shortest path length and small worldness, indicating a disrupted balance between local specialization and global integration in structural networks. Although both TS and control groups showed highly similar hub distributions, TS children exhibited significant decreased nodal efficiency, mainly distributed in the default mode, language, visual, and sensorimotor systems. Furthermore, two separate networks showing significantly decreased connectivity in TS group were identified using network-based statistical (NBS) analysis, primarily composed of the parieto-occipital cortex, precuneus, and paracentral lobule. Importantly, we combined support vector machine and multiple kernel learning frameworks to fuse multiple levels of network topological features for classification of individuals, achieving high accuracy of 86.47%. Together, our study revealed the disrupted topological organization of structural networks related to pathophysiology of TS, and the discriminative topological features for classification are potential quantitative neuroimaging biomarkers for clinical TS diagnosis. Hum Brain Mapp 38:3988-4008, 2017
Topology of classical vacuum space-time
International Nuclear Information System (INIS)
Cho, Y.M.
2007-04-01
We present a topological classification of classical vacuum space-time. Assuming the 3-dimensional space allows a global chart, we show that the static vacuum space-time of Einstein's theory can be classified by the knot topology π 3 (S 3 ) = π 3 (S 2 ). Viewing Einstein's theory as a gauge theory of Lorentz group and identifying the gravitational connection as the gauge potential of Lorentz group, we construct all possible vacuum gravitational connections which give a vanishing curvature tensor. With this we show that the vacuum connection has the knot topology, the same topology which describes the multiple vacua of SU(2) gauge theory. We discuss the physical implications of our result in quantum gravity. (author)
Composite symmetry-protected topological order and effective models
Nietner, A.; Krumnow, C.; Bergholtz, E. J.; Eisert, J.
2017-12-01
Strongly correlated quantum many-body systems at low dimension exhibit a wealth of phenomena, ranging from features of geometric frustration to signatures of symmetry-protected topological order. In suitable descriptions of such systems, it can be helpful to resort to effective models, which focus on the essential degrees of freedom of the given model. In this work, we analyze how to determine the validity of an effective model by demanding it to be in the same phase as the original model. We focus our study on one-dimensional spin-1 /2 systems and explain how nontrivial symmetry-protected topologically ordered (SPT) phases of an effective spin-1 model can arise depending on the couplings in the original Hamiltonian. In this analysis, tensor network methods feature in two ways: on the one hand, we make use of recent techniques for the classification of SPT phases using matrix product states in order to identify the phases in the effective model with those in the underlying physical system, employing Künneth's theorem for cohomology. As an intuitive paradigmatic model we exemplify the developed methodology by investigating the bilayered Δ chain. For strong ferromagnetic interlayer couplings, we find the system to transit into exactly the same phase as an effective spin-1 model. However, for weak but finite coupling strength, we identify a symmetry broken phase differing from this effective spin-1 description. On the other hand, we underpin our argument with a numerical analysis making use of matrix product states.
Signatures of topological superconductivity
Energy Technology Data Exchange (ETDEWEB)
Peng, Yang
2017-07-19
The prediction and experimental discovery of topological insulators brought the importance of topology in condensed matter physics into the limelight. Topology hence acts as a new dimension along which more and more new states of matter start to emerge. One of these topological states of matter, namely topological superconductors, comes into the focus because of their gapless excitations. These gapless excitations, especially in one dimensional topological superconductors, are Majorana zero modes localized at the ends of the superconductor and exhibit exotic nonabelian statistics, which can be potentially applied to fault-tolerant quantum computation. Given their highly interesting physical properties and potential applications to quantum computation, both theorists and experimentalists spend great efforts to realize topological supercondoctors and to detect Majoranas. In two projects within this thesis, we investigate the properties of Majorana zero modes in realistic materials which are absent in simple theoretical models. We find that the superconducting proximity effect, an essential ingredient in all existing platforms for topological superconductors, plays a significant role in determining the localization property of the Majoranas. Strong proximity coupling between the normal system and the superconducting substrate can lead to strongly localized Majoranas, which can explain the observation in a recent experiment. Motivated by experiments in Molenkamp's group, we also look at realistic quantum spin Hall Josephson junctions, in which charge puddles acting as magnetic impurities are coupled to the helical edge states. We find that with this setup, the junction generically realizes an exotic 8π periodic Josephson effect, which is absent in a pristine Josephson junction. In another two projects, we propose more pronounced signatures of Majoranas that are accessible with current experimental techniques. The first one is a transport measurement, which uses
Flegg, H Graham
2001-01-01
This excellent introduction to topology eases first-year math students and general readers into the subject by surveying its concepts in a descriptive and intuitive way, attempting to build a bridge from the familiar concepts of geometry to the formalized study of topology. The first three chapters focus on congruence classes defined by transformations in real Euclidean space. As the number of permitted transformations increases, these classes become larger, and their common topological properties become intuitively clear. Chapters 4-12 give a largely intuitive presentation of selected topics.
Topologically massive supergravity
Directory of Open Access Journals (Sweden)
S. Deser
1983-01-01
Full Text Available The locally supersymmetric extension of three-dimensional topologically massive gravity is constructed. Its fermionic part is the sum of the (dynamically trivial Rarita-Schwinger action and a gauge-invariant topological term, of second derivative order, analogous to the gravitational one. It is ghost free and represents a single massive spin 3/2 excitation. The fermion-gravity coupling is minimal and the invariance is under the usual supergravity transformations. The system's energy, as well as that of the original topological gravity, is therefore positive.
Sacramento, P. D.; Vieira, V. R.
2018-04-01
Mappings between models may be obtained by unitary transformations with preservation of the spectra but in general a change in the states. Non-canonical transformations in general also change the statistics of the operators involved. In these cases one may expect a change of topological properties as a consequence of the mapping. Here we consider some dualities resulting from mappings, by systematically using a Majorana fermion representation of spin and fermionic problems. We focus on the change of topological invariants that results from unitary transformations taking as examples the mapping between a spin system and a topological superconductor, and between different fermionic systems.
Algebraic topology and concurrency
DEFF Research Database (Denmark)
Fajstrup, Lisbeth; Raussen, Martin; Goubault, Eric
2006-01-01
We show in this article that some concepts from homotopy theory, in algebraic topology,are relevant for studying concurrent programs. We exhibit a natural semantics of semaphore programs, based on partially ordered topological spaces, which are studied up to “elastic deformation” or homotopy...... differences between ordinary and directed homotopy through examples. We also relate the topological view to a combinatorial view of concurrent programs closer to transition systems, through the notion of a cubical set. Finally we apply some of these concepts to the proof of the safeness of a two...
Chatterjee, D
2007-01-01
About the Book: This book provides exposition of the subject both in its general and algebraic aspects. It deals with the notions of topological spaces, compactness, connectedness, completeness including metrizability and compactification, algebraic aspects of topological spaces through homotopy groups and homology groups. It begins with the basic notions of topological spaces but soon going beyond them reaches the domain of algebra through the notions of homotopy, homology and cohomology. How these approaches work in harmony is the subject matter of this book. The book finally arrives at the
Topological pregauge-pregeometry
International Nuclear Information System (INIS)
Akama, Keiichi; Oda, Ichiro.
1990-12-01
The pregauge-pregeometric action, i.e. the fundamental matter action whose quantum fluctuations give rise to the Einstein-Hilbert and the Yang-Mills actions is investigated from the viewpoint of the topological field theory. We show that the scalar pregauge-pregeometric action is a topological invariant for appropriate choices of the internal gauge group. This model realizes the picture that the gravitational and internal gauge theory at the low energy scale is induced as the quantum effects of the topological field theory at the Planck scale. (author)
Elementary topology problem textbook
Viro, O Ya; Netsvetaev, N Yu; Kharlamov, V M
2008-01-01
This textbook on elementary topology contains a detailed introduction to general topology and an introduction to algebraic topology via its most classical and elementary segment centered at the notions of fundamental group and covering space. The book is tailored for the reader who is determined to work actively. The proofs of theorems are separated from their formulations and are gathered at the end of each chapter. This makes the book look like a pure problem book and encourages the reader to think through each formulation. A reader who prefers a more traditional style can either find the pr
Multiple topological phase transitions in a gyromagnetic photonic crystal
Chen, Zeguo; Mei, Jun; Sun, Xiao Cheng; Zhang, Xiujuan; Zhao, Jiajun; Wu, Ying
2017-01-01
reveals that the topological property is associated with the pseudospin orientations and that it is characterized by the spin Chern number. The emerging quantum anomalous Hall phase features a single helical edge state that is locked by a specific
Directory of Open Access Journals (Sweden)
Yang Hoon Huh
2015-03-01
Full Text Available There is a long-standing unmet clinical need for biomarkers with high specificity for distributed stem cells (DSCs in tissues, or for use in diagnostic and therapeutic cell preparations (e.g., bone marrow. Although DSCs are essential for tissue maintenance and repair, accurate determination of their numbers for medical applications has been problematic. Previous searches for biomarkers expressed specifically in DSCs were hampered by difficulty obtaining pure DSCs and by the challenges in mining complex molecular expression data. To identify such useful and specific DSC biomarkers, we combined a novel sparse feature selection method with combinatorial molecular expression data focused on asymmetric self-renewal, a conspicuous property of DSCs. The analysis identified reduced expression of the histone H2A variant H2A.Z as a superior molecular discriminator for DSC asymmetric self-renewal. Subsequent molecular expression studies showed H2A.Z to be a novel “pattern-specific biomarker” for asymmetrically self-renewing cells, with sufficient specificity to count asymmetrically self-renewing DSCs in vitro and potentially in situ.
Petruolo, Oriana A; Pilewskie, Melissa; Patil, Sujata; Barrio, Andrea V; Stempel, Michelle; Wen, Hannah Y; Morrow, Monica
2017-09-01
The benefit of neoadjuvant chemotherapy (NAC) in patients with estrogen receptor-positive (ER+)/human epidermal growth factor receptor 2-negative (HER2-) breast cancers and in invasive lobular carcinoma (ILC) is uncertain due to the low rates of pathologic complete response (pCR). The aim of this study was to determine if pathologic features can identify subsets likely to benefit from NAC. Patients with stage I-III ER+, HER2- breast cancer receiving NAC were retrospectively reviewed. Endpoints were downstaging to breast-conserving surgery (BCS) and nodal pCR after NAC. Patients were grouped by progesterone receptor (PR) status and grade/differentiation (high grade or poor [HP] vs. non-HP). From 2007 to 2016, 402 ER+/HER2- cancers in patients receiving NAC were identified. Median age was 50 years, 98% were clinical stage II-III, and 75% were cN+. Overall pCR rate was 5%; breast pCR in 7% and nodal pCR in 15% of cN+ patients (p benefit from NAC are those with PR- and HP tumors. Patients with ILC are unlikely to downstage in the breast or axilla compared with IDC. The use of these criteria can assist in defining the initial treatment approach.
Topology optimized microbioreactors
DEFF Research Database (Denmark)
Schäpper, Daniel; Lencastre Fernandes, Rita; Eliasson Lantz, Anna
2011-01-01
This article presents the fusion of two hitherto unrelated fields—microbioreactors and topology optimization. The basis for this study is a rectangular microbioreactor with homogeneously distributed immobilized brewers yeast cells (Saccharomyces cerevisiae) that produce a recombinant protein...
Real topological string amplitudes
Energy Technology Data Exchange (ETDEWEB)
Narain, K.S. [The Abdus Salam International Centre for Theoretical Physics (ICTP),Strada Costiera 11, Trieste, 34151 (Italy); Piazzalunga, N. [Simons Center for Geometry and Physics, State University of New York,Stony Brook, NY, 11794-3636 (United States); International School for Advanced Studies (SISSA) and INFN, Sez. di Trieste,via Bonomea 265, Trieste, 34136 (Italy); Tanzini, A. [International School for Advanced Studies (SISSA) and INFN, Sez. di Trieste,via Bonomea 265, Trieste, 34136 (Italy)
2017-03-15
We discuss the physical superstring correlation functions in type I theory (or equivalently type II with orientifold) that compute real topological string amplitudes. We consider the correlator corresponding to holomorphic derivative of the real topological amplitude G{sub χ}, at fixed worldsheet Euler characteristic χ. This corresponds in the low-energy effective action to N=2 Weyl multiplet, appropriately reduced to the orientifold invariant part, and raised to the power g{sup ′}=−χ+1. We show that the physical string correlator gives precisely the holomorphic derivative of topological amplitude. Finally, we apply this method to the standard closed oriented case as well, and prove a similar statement for the topological amplitude F{sub g}.
Topological Susceptibility from Slabs
Bietenholz, Wolfgang; Gerber, Urs
2015-01-01
In quantum field theories with topological sectors, a non-perturbative quantity of interest is the topological susceptibility chi_t. In principle it seems straightforward to measure chi_t by means of Monte Carlo simulations. However, for local update algorithms and fine lattice spacings, this tends to be difficult, since the Monte Carlo history rarely changes the topological sector. Here we test a method to measure chi_t even if data from only one sector are available. It is based on the topological charges in sub-volumes, which we denote as slabs. Assuming a Gaussian distribution of these charges, this method enables the evaluation of chi_t, as we demonstrate with numerical results for non-linear sigma-models.
Topological susceptibility from slabs
Energy Technology Data Exchange (ETDEWEB)
Bietenholz, Wolfgang [Instituto de Ciencias Nucleares, Universidad Nacional Autónoma de México, A.P. 70-543, Distrito Federal, C.P. 04510 (Mexico); Forcrand, Philippe de [Institute for Theoretical Physics, ETH Zürich,CH-8093 Zürich (Switzerland); CERN, Physics Department, TH Unit, CH-1211 Geneva 23 (Switzerland); Gerber, Urs [Instituto de Ciencias Nucleares, Universidad Nacional Autónoma de México, A.P. 70-543, Distrito Federal, C.P. 04510 (Mexico); Instituto de Física y Matemáticas, Universidad Michoacana de San Nicolás de Hidalgo,Edificio C-3, Apdo. Postal 2-82, Morelia, Michoacán, C.P. 58040 (Mexico)
2015-12-14
In quantum field theories with topological sectors, a non-perturbative quantity of interest is the topological susceptibility χ{sub t}. In principle it seems straightforward to measure χ{sub t} by means of Monte Carlo simulations. However, for local update algorithms and fine lattice spacings, this tends to be difficult, since the Monte Carlo history rarely changes the topological sector. Here we test a method to measure χ{sub t} even if data from only one sector are available. It is based on the topological charges in sub-volumes, which we denote as slabs. Assuming a Gaussian distribution of these charges, this method enables the evaluation of χ{sub t}, as we demonstrate with numerical results for non-linear σ-models.
Contact and symplectic topology
Colin, Vincent; Stipsicz, András
2014-01-01
Symplectic and contact geometry naturally emerged from the mathematical description of classical physics. The discovery of new rigidity phenomena and properties satisfied by these geometric structures launched a new research field worldwide. The intense activity of many European research groups in this field is reflected by the ESF Research Networking Programme "Contact And Symplectic Topology" (CAST). The lectures of the Summer School in Nantes (June 2011) and of the CAST Summer School in Budapest (July 2012) provide a nice panorama of many aspects of the present status of contact and symplectic topology. The notes of the minicourses offer a gentle introduction to topics which have developed in an amazing speed in the recent past. These topics include 3-dimensional and higher dimensional contact topology, Fukaya categories, asymptotically holomorphic methods in contact topology, bordered Floer homology, embedded contact homology, and flexibility results for Stein manifolds.
Wilansky, Albert
2008-01-01
Three levels of examples and problems make this volume appropriate for students and professionals. Abundant exercises, ordered and numbered by degree of difficulty, illustrate important topological concepts. 1970 edition.
DEFF Research Database (Denmark)
Soberano de Oliveira, Ana Paula; Patil, Kiran Raosaheb; Nielsen, Jens
2008-01-01
is to use the topology of bio-molecular interaction networks in order to constrain the solution space. Such approaches systematically integrate the existing biological knowledge with the 'omics' data. Results: Here we introduce a hypothesis-driven method that integrates bio-molecular network topology......Background: Uncovering the operating principles underlying cellular processes by using 'omics' data is often a difficult task due to the high-dimensionality of the solution space that spans all interactions among the bio-molecules under consideration. A rational way to overcome this problem...... with transcriptome data, thereby allowing the identification of key biological features (Reporter Features) around which transcriptional changes are significantly concentrated. We have combined transcriptome data with different biological networks in order to identify Reporter Gene Ontologies, Reporter Transcription...
Fall Foliage Topology Seminars
1990-01-01
This book demonstrates the lively interaction between algebraic topology, very low dimensional topology and combinatorial group theory. Many of the ideas presented are still in their infancy, and it is hoped that the work here will spur others to new and exciting developments. Among the many techniques disussed are the use of obstruction groups to distinguish certain exact sequences and several graph theoretic techniques with applications to the theory of groups.
Differential and symplectic topology of knots and curves
Tabachnikov, S
1999-01-01
This book presents a collection of papers on two related topics: topology of knots and knot-like objects (such as curves on surfaces) and topology of Legendrian knots and links in 3-dimensional contact manifolds. Featured is the work of international experts in knot theory (""quantum"" knot invariants, knot invariants of finite type), in symplectic and contact topology, and in singularity theory. The interplay of diverse methods from these fields makes this volume unique in the study of Legendrian knots and knot-like objects such as wave fronts. A particularly enticing feature of the volume is
Tunable Topological Phononic Crystals
Chen, Zeguo; Wu, Ying
2016-01-01
Topological insulators first observed in electronic systems have inspired many analogues in photonic and phononic crystals in which remarkable one-way propagation edge states are supported by topologically nontrivial band gaps. Such band gaps can be achieved by breaking the time-reversal symmetry to lift the degeneracy associated with Dirac cones at the corners of the Brillouin zone. Here, we report on our construction of a phononic crystal exhibiting a Dirac-like cone in the Brillouin zone center. We demonstrate that simultaneously breaking the time-reversal symmetry and altering the geometric size of the unit cell result in a topological transition that we verify by the Chern number calculation and edge-mode analysis. We develop a complete model based on the tight binding to uncover the physical mechanisms of the topological transition. Both the model and numerical simulations show that the topology of the band gap is tunable by varying both the velocity field and the geometric size; such tunability may dramatically enrich the design and use of acoustic topological insulators.
Tunable Topological Phononic Crystals
Chen, Zeguo
2016-05-27
Topological insulators first observed in electronic systems have inspired many analogues in photonic and phononic crystals in which remarkable one-way propagation edge states are supported by topologically nontrivial band gaps. Such band gaps can be achieved by breaking the time-reversal symmetry to lift the degeneracy associated with Dirac cones at the corners of the Brillouin zone. Here, we report on our construction of a phononic crystal exhibiting a Dirac-like cone in the Brillouin zone center. We demonstrate that simultaneously breaking the time-reversal symmetry and altering the geometric size of the unit cell result in a topological transition that we verify by the Chern number calculation and edge-mode analysis. We develop a complete model based on the tight binding to uncover the physical mechanisms of the topological transition. Both the model and numerical simulations show that the topology of the band gap is tunable by varying both the velocity field and the geometric size; such tunability may dramatically enrich the design and use of acoustic topological insulators.
Muszynski, G.; Kashinath, K.; Wehner, M. F.; Prabhat, M.; Kurlin, V.
2017-12-01
We investigate novel approaches to detecting, classifying and characterizing extreme weather events, such as atmospheric rivers (ARs), in large high-dimensional climate datasets. ARs are narrow filaments of concentrated water vapour in the atmosphere that bring much of the precipitation in many mid-latitude regions. The precipitation associated with ARs is also responsible for major flooding events in many coastal regions of the world, including the west coast of the United States and western Europe. In this study we combine ideas from Topological Data Analysis (TDA) with Machine Learning (ML) for detecting, classifying and characterizing extreme weather events, like ARs. TDA is a new field that sits at the interface between topology and computer science, that studies "shape" - hidden topological structure - in raw data. It has been applied successfully in many areas of applied sciences, including complex networks, signal processing and image recognition. Using TDA we provide ARs with a shape characteristic as a new feature descriptor for the task of AR classification. In particular, we track the change in topology in precipitable water (integrated water vapour) fields using the Union-Find algorithm. We use the generated feature descriptors with ML classifiers to establish reliability and classification performance of our approach. We utilize the parallel toolkit for extreme climate events analysis (TECA: Petascale Pattern Recognition for Climate Science, Prabhat et al., Computer Analysis of Images and Patterns, 2015) for comparison (it is assumed that events identified by TECA is ground truth). Preliminary results indicate that our approach brings new insight into the study of ARs and provides quantitative information about the relevance of topological feature descriptors in analyses of a large climate datasets. We illustrate this method on climate model output and NCEP reanalysis datasets. Further, our method outperforms existing methods on detection and
On the Hardness of Topology Inference
Acharya, H. B.; Gouda, M. G.
Many systems require information about the topology of networks on the Internet, for purposes like management, efficiency, testing of new protocols and so on. However, ISPs usually do not share the actual topology maps with outsiders; thus, in order to obtain the topology of a network on the Internet, a system must reconstruct it from publicly observable data. The standard method employs traceroute to obtain paths between nodes; next, a topology is generated such that the observed paths occur in the graph. However, traceroute has the problem that some routers refuse to reveal their addresses, and appear as anonymous nodes in traces. Previous research on the problem of topology inference with anonymous nodes has demonstrated that it is at best NP-complete. In this paper, we improve upon this result. In our previous research, we showed that in the special case where nodes may be anonymous in some traces but not in all traces (so all node identifiers are known), there exist trace sets that are generable from multiple topologies. This paper extends our theory of network tracing to the general case (with strictly anonymous nodes), and shows that the problem of computing the network that generated a trace set, given the trace set, has no general solution. The weak version of the problem, which allows an algorithm to output a "small" set of networks- any one of which is the correct one- is also not solvable. Any algorithm guaranteed to output the correct topology outputs at least an exponential number of networks. Our results are surprisingly robust: they hold even when the network is known to have exactly two anonymous nodes, and every node as well as every edge in the network is guaranteed to occur in some trace. On the basis of this result, we suggest that exact reconstruction of network topology requires more powerful tools than traceroute.
Sampling Algorithms of Pure Network Topologies: Stability and Separability of Metric Embeddings
National Research Council Canada - National Science Library
Airoldi, Edoardo M
2005-01-01
... has become a central theme for KDD. The intuition behind the plethora of approaches relies upon a few basic types of networks, which are identified by specific local and global topological properties, and which the authors term "pure" topology types...
The Topology of Symmetric Tensor Fields
Levin, Yingmei; Batra, Rajesh; Hesselink, Lambertus; Levy, Yuval
1997-01-01
Combinatorial topology, also known as "rubber sheet geometry", has extensive applications in geometry and analysis, many of which result from connections with the theory of differential equations. A link between topology and differential equations is vector fields. Recent developments in scientific visualization have shown that vector fields also play an important role in the analysis of second-order tensor fields. A second-order tensor field can be transformed into its eigensystem, namely, eigenvalues and their associated eigenvectors without loss of information content. Eigenvectors behave in a similar fashion to ordinary vectors with even simpler topological structures due to their sign indeterminacy. Incorporating information about eigenvectors and eigenvalues in a display technique known as hyperstreamlines reveals the structure of a tensor field. The simplify and often complex tensor field and to capture its important features, the tensor is decomposed into an isotopic tensor and a deviator. A tensor field and its deviator share the same set of eigenvectors, and therefore they have a similar topological structure. A a deviator determines the properties of a tensor field, while the isotopic part provides a uniform bias. Degenerate points are basic constituents of tensor fields. In 2-D tensor fields, there are only two types of degenerate points; while in 3-D, the degenerate points can be characterized in a Q'-R' plane. Compressible and incompressible flows share similar topological feature due to the similarity of their deviators. In the case of the deformation tensor, the singularities of its deviator represent the area of vortex core in the field. In turbulent flows, the similarities and differences of the topology of the deformation and the Reynolds stress tensors reveal that the basic addie-viscosity assuptions have their validity in turbulence modeling under certain conditions.
Topological Oxide Insulator in Cubic Perovskite Structure
Jin, Hosub; Rhim, Sonny H.; Im, Jino; Freeman, Arthur J.
2013-01-01
The emergence of topologically protected conducting states with the chiral spin texture is the most prominent feature at the surface of topological insulators. On the application side, large band gap and high resistivity to distinguish surface from bulk degrees of freedom should be guaranteed for the full usage of the surface states. Here, we suggest that the oxide cubic perovskite YBiO3, more than just an oxide, defines itself as a new three-dimensional topological insulator exhibiting both a large bulk band gap and a high resistivity. Based on first-principles calculations varying the spin-orbit coupling strength, the non-trivial band topology of YBiO3 is investigated, where the spin-orbit coupling of the Bi 6p orbital plays a crucial role. Taking the exquisite synthesis techniques in oxide electronics into account, YBiO3 can also be used to provide various interface configurations hosting exotic topological phenomena combined with other quantum phases. PMID:23575973
An Algebro-Topological Description of Protein Domain Structure
Penner, Robert Clark; Knudsen, Michael; Wiuf, Carsten; Andersen, Jørgen Ellegaard
2011-01-01
The space of possible protein structures appears vast and continuous, and the relationship between primary, secondary and tertiary structure levels is complex. Protein structure comparison and classification is therefore a difficult but important task since structure is a determinant for molecular interaction and function. We introduce a novel mathematical abstraction based on geometric topology to describe protein domain structure. Using the locations of the backbone atoms and the hydrogen bonds, we build a combinatorial object – a so-called fatgraph. The description is discrete yet gives rise to a 2-dimensional mathematical surface. Thus, each protein domain corresponds to a particular mathematical surface with characteristic topological invariants, such as the genus (number of holes) and the number of boundary components. Both invariants are global fatgraph features reflecting the interconnectivity of the domain by hydrogen bonds. We introduce the notion of robust variables, that is variables that are robust towards minor changes in the structure/fatgraph, and show that the genus and the number of boundary components are robust. Further, we invesigate the distribution of different fatgraph variables and show how only four variables are capable of distinguishing different folds. We use local (secondary) and global (tertiary) fatgraph features to describe domain structures and illustrate that they are useful for classification of domains in CATH. In addition, we combine our method with two other methods thereby using primary, secondary, and tertiary structure information, and show that we can identify a large percentage of new and unclassified structures in CATH. PMID:21629687
Countable Fuzzy Topological Space and Countable Fuzzy Topological Vector Space
Directory of Open Access Journals (Sweden)
Apu Kumar Saha
2015-06-01
Full Text Available This paper deals with countable fuzzy topological spaces, a generalization of the notion of fuzzy topological spaces. A collection of fuzzy sets F on a universe X forms a countable fuzzy topology if in the definition of a fuzzy topology, the condition of arbitrary supremum is relaxed to countable supremum. In this generalized fuzzy structure, the continuity of fuzzy functions and some other related properties are studied. Also the class of countable fuzzy topological vector spaces as a generalization of the class of fuzzy topological vector spaces has been introduced and investigated.
Importance of being topologically excited
International Nuclear Information System (INIS)
Caldi, D.G.
1980-08-01
A class of Euclidean configurations that appear to be dominant in the functional integral of the CP/sup N-1/ models is identified. These configurations are point-like topological excitations, and they may be viewed as constituents of instantons, although they are defined independently of instantons through a continuum duality transformation. Not only do these configurations survive as N → infinity, but in the plasma phase they are responsible for the effects encountered within the 1/N expansion - confinement, theta dependence, and dynamical mass generation
Evolution of IPv6 Internet topology with unusual sudden changes
Ai, Jun; Zhao, Hai; Kathleen, M. Carley; Su, Zhan; Li, Hui
2013-07-01
The evolution of Internet topology is not always smooth but sometimes with unusual sudden changes. Consequently, identifying patterns of unusual topology evolution is critical for Internet topology modeling and simulation. We analyze IPv6 Internet topology evolution in IP-level graph to demonstrate how it changes in uncommon ways to restructure the Internet. After evaluating the changes of average degree, average path length, and some other metrics over time, we find that in the case of a large-scale growing the Internet becomes more robust; whereas in a top—bottom connection enhancement the Internet maintains its efficiency with links largely decreased.
Evolution of IPv6 Internet topology with unusual sudden changes
International Nuclear Information System (INIS)
Ai Jun; Su Zhan; Li Hui; Zhao Hai; Carley, Kathleen M.
2013-01-01
The evolution of Internet topology is not always smooth but sometimes with unusual sudden changes. Consequently, identifying patterns of unusual topology evolution is critical for Internet topology modeling and simulation. We analyze IPv6 Internet topology evolution in IP-level graph to demonstrate how it changes in uncommon ways to restructure the Internet. After evaluating the changes of average degree, average path length, and some other metrics over time, we find that in the case of a large-scale growing the Internet becomes more robust; whereas in a top—bottom connection enhancement the Internet maintains its efficiency with links largely decreased
Community detection with consideration of non-topological information
International Nuclear Information System (INIS)
Zou Sheng-Rong; Peng Yu-Jing; Liu Ai-Fen; Xu Xiu-Lian; He Da-Ren
2011-01-01
In a network described by a graph, only topological structure information is considered to determine how the nodes are connected by edges. Non-topological information denotes that which cannot be determined directly from topological information. This paper shows, by a simple example where scientists in three research groups and one external group form four communities, that in some real world networks non-topological information (in this example, the research group affiliation) dominates community division. If the information has some influence on the network topological structure, the question arises as to how to find a suitable algorithm to identify the communities based only on the network topology. We show that weighted Newman algorithm may be the best choice for this example. We believe that this idea is general for real-world complex networks. (interdisciplinary physics and related areas of science and technology)
LHCb Topological Trigger Reoptimization
International Nuclear Information System (INIS)
Likhomanenko, Tatiana; Khairullin, Egor; Rogozhnikov, Alex; Ustyuzhanin, Andrey; Ilten, Philip; Williams, Michael
2015-01-01
The main b-physics trigger algorithm used by the LHCb experiment is the so- called topological trigger. The topological trigger selects vertices which are a) detached from the primary proton-proton collision and b) compatible with coming from the decay of a b-hadron. In the LHC Run 1, this trigger, which utilized a custom boosted decision tree algorithm, selected a nearly 100% pure sample of b-hadrons with a typical efficiency of 60-70%; its output was used in about 60% of LHCb papers. This talk presents studies carried out to optimize the topological trigger for LHC Run 2. In particular, we have carried out a detailed comparison of various machine learning classifier algorithms, e.g., AdaBoost, MatrixNet and neural networks. The topological trigger algorithm is designed to select all ’interesting” decays of b-hadrons, but cannot be trained on every such decay. Studies have therefore been performed to determine how to optimize the performance of the classification algorithm on decays not used in the training. Methods studied include cascading, ensembling and blending techniques. Furthermore, novel boosting techniques have been implemented that will help reduce systematic uncertainties in Run 2 measurements. We demonstrate that the reoptimized topological trigger is expected to significantly improve on the Run 1 performance for a wide range of b-hadron decays. (paper)
p-topological Cauchy completions
Directory of Open Access Journals (Sweden)
J. Wig
1999-01-01
Full Text Available The duality between “regular” and “topological” as convergence space properties extends in a natural way to the more general properties “p-regular” and “p-topological.” Since earlier papers have investigated regular, p-regular, and topological Cauchy completions, we hereby initiate a study of p-topological Cauchy completions. A p-topological Cauchy space has a p-topological completion if and only if it is “cushioned,” meaning that each equivalence class of nonconvergent Cauchy filters contains a smallest filter. For a Cauchy space allowing a p-topological completion, it is shown that a certain class of Reed completions preserve the p-topological property, including the Wyler and Kowalsky completions, which are, respectively, the finest and the coarsest p-topological completions. However, not all p-topological completions are Reed completions. Several extension theorems for p-topological completions are obtained. The most interesting of these states that any Cauchy-continuous map between Cauchy spaces allowing p-topological and p′-topological completions, respectively, can always be extended to a θ-continuous map between any p-topological completion of the first space and any p′-topological completion of the second.
Manufacturing tolerant topology optimization
DEFF Research Database (Denmark)
Sigmund, Ole
2009-01-01
In this paper we present an extension of the topology optimization method to include uncertainties during the fabrication of macro, micro and nano structures. More specifically, we consider devices that are manufactured using processes which may result in (uniformly) too thin (eroded) or too thick...... (dilated) structures compared to the intended topology. Examples are MEMS devices manufactured using etching processes, nano-devices manufactured using e-beam lithography or laser micro-machining and macro structures manufactured using milling processes. In the suggested robust topology optimization...... approach, under- and over-etching is modelled by image processing-based "erode" and "dilate" operators and the optimization problem is formulated as a worst case design problem. Applications of the method to the design of macro structures for minimum compliance and micro compliant mechanisms show...
Riemann, topology, and physics
Monastyrsky, Michael I
2008-01-01
This significantly expanded second edition of Riemann, Topology, and Physics combines a fascinating account of the life and work of Bernhard Riemann with a lucid discussion of current interaction between topology and physics. The author, a distinguished mathematical physicist, takes into account his own research at the Riemann archives of Göttingen University and developments over the last decade that connect Riemann with numerous significant ideas and methods reflected throughout contemporary mathematics and physics. Special attention is paid in part one to results on the Riemann–Hilbert problem and, in part two, to discoveries in field theory and condensed matter such as the quantum Hall effect, quasicrystals, membranes with nontrivial topology, "fake" differential structures on 4-dimensional Euclidean space, new invariants of knots and more. In his relatively short lifetime, this great mathematician made outstanding contributions to nearly all branches of mathematics; today Riemann’s name appears prom...
International Nuclear Information System (INIS)
Zou, L.P.; Zhang, P.M.; Pak, D.G.
2013-01-01
We consider topological structure of classical vacuum solutions in quantum chromodynamics. Topologically non-equivalent vacuum configurations are classified by non-trivial second and third homotopy groups for coset of the color group SU(N) (N=2,3) under the action of maximal Abelian stability group. Starting with explicit vacuum knot configurations we study possible exact classical solutions. Exact analytic non-static knot solution in a simple CP 1 model in Euclidean space–time has been obtained. We construct an ansatz based on knot and monopole topological vacuum structure for searching new solutions in SU(2) and SU(3) QCD. We show that singular knot-like solutions in QCD in Minkowski space–time can be naturally obtained from knot solitons in integrable CP 1 models. A family of Skyrme type low energy effective theories of QCD admitting exact analytic solutions with non-vanishing Hopf charge is proposed
Sadun, Lorenzo
2008-01-01
Aperiodic tilings are interesting to mathematicians and scientists for both theoretical and practical reasons. The serious study of aperiodic tilings began as a solution to a problem in logic. Simpler aperiodic tilings eventually revealed hidden "symmetries" that were previously considered impossible, while the tilings themselves were quite striking. The discovery of quasicrystals showed that such aperiodicity actually occurs in nature and led to advances in materials science. Many properties of aperiodic tilings can be discerned by studying one tiling at a time. However, by studying families of tilings, further properties are revealed. This broader study naturally leads to the topology of tiling spaces. This book is an introduction to the topology of tiling spaces, with a target audience of graduate students who wish to learn about the interface of topology with aperiodic order. It isn't a comprehensive and cross-referenced tome about everything having to do with tilings, which would be too big, too hard to ...
Topology, calculus and approximation
Komornik, Vilmos
2017-01-01
Presenting basic results of topology, calculus of several variables, and approximation theory which are rarely treated in a single volume, this textbook includes several beautiful, but almost forgotten, classical theorems of Descartes, Erdős, Fejér, Stieltjes, and Turán. The exposition style of Topology, Calculus and Approximation follows the Hungarian mathematical tradition of Paul Erdős and others. In the first part, the classical results of Alexandroff, Cantor, Hausdorff, Helly, Peano, Radon, Tietze and Urysohn illustrate the theories of metric, topological and normed spaces. Following this, the general framework of normed spaces and Carathéodory's definition of the derivative are shown to simplify the statement and proof of various theorems in calculus and ordinary differential equations. The third and final part is devoted to interpolation, orthogonal polynomials, numerical integration, asymptotic expansions and the numerical solution of algebraic and differential equations. Students of both pure an...
Deo, Satya
2018-01-01
This book presents the first concepts of the topics in algebraic topology such as the general simplicial complexes, simplicial homology theory, fundamental groups, covering spaces and singular homology theory in greater detail. Originally published in 2003, this book has become one of the seminal books. Now, in the completely revised and enlarged edition, the book discusses the rapidly developing field of algebraic topology. Targeted to undergraduate and graduate students of mathematics, the prerequisite for this book is minimal knowledge of linear algebra, group theory and topological spaces. The book discusses about the relevant concepts and ideas in a very lucid manner, providing suitable motivations and illustrations. All relevant topics are covered, including the classical theorems like the Brouwer’s fixed point theorem, Lefschetz fixed point theorem, Borsuk-Ulam theorem, Brouwer’s separation theorem and the theorem on invariance of the domain. Most of the exercises are elementary, but sometimes chal...
Topological and non-topological soliton solutions to some time
Indian Academy of Sciences (India)
Topological and non-topological soliton solutions to some time-fractional differential equations ... These equations have been widely applied in many branches of nonlinear ... Department of Engineering Sciences, Faculty of Technology and ...
Filters in topology optimization
DEFF Research Database (Denmark)
Bourdin, Blaise
1999-01-01
In this article, a modified (``filtered'') version of the minimum compliance topology optimization problem is studied. The direct dependence of the material properties on its pointwise density is replaced by a regularization of the density field using a convolution operator. In this setting...... it is possible to establish the existence of solutions. Moreover, convergence of an approximation by means of finite elements can be obtained. This is illustrated through some numerical experiments. The ``filtering'' technique is also shown to cope with two important numerical problems in topology optimization...
Kostov, Ivan
2010-01-01
We study the quasiclassical expansion associated with a complex curve. In a more specific context this is the 1/N expansion in U(N)-invariant matrix integrals. We compare two approaches, the CFT approach and the topological recursion, and show their equivalence. The CFT approach reformulates the problem in terms of a conformal field theory on a Riemann surface, while the topological recursion is based on a recurrence equation for the observables representing symplectic invariants on the complex curve. The two approaches lead to two different graph expansions, one of which can be obtained as a partial resummation of the other.
Coghetto Roland
2015-01-01
Using Mizar [9], and the formal topological space structure (FMT_Space_Str) [19], we introduce the three U-FMT conditions (U-FMT filter, U-FMT with point and U-FMT local) similar to those VI, VII, VIII and VIV of the proposition 2 in [10]: If to each element x of a set X there corresponds a set B(x) of subsets of X such that the properties VI, VII, VIII and VIV are satisfied, then there is a unique topological structure on X such that, for each x ∈ X, B(x) is the set of neighborhoods of x ...
Monastyrsky, M I
2006-01-01
This book reports new results in condensed matter physics for which topological methods and ideas are important. It considers, on the one hand, recently discovered systems such as carbon nanocrystals and, on the other hand, new topological methods used to describe more traditional systems such as the Fermi surfaces of normal metals, liquid crystals and quasicrystals. The authors of the book are renowned specialists in their fields and present the results of ongoing research, some of it obtained only very recently and not yet published in monograph form.
Free topological vector spaces
Gabriyelyan, Saak S.; Morris, Sidney A.
2016-01-01
We define and study the free topological vector space $\\mathbb{V}(X)$ over a Tychonoff space $X$. We prove that $\\mathbb{V}(X)$ is a $k_\\omega$-space if and only if $X$ is a $k_\\omega$-space. If $X$ is infinite, then $\\mathbb{V}(X)$ contains a closed vector subspace which is topologically isomorphic to $\\mathbb{V}(\\mathbb{N})$. It is proved that if $X$ is a $k$-space, then $\\mathbb{V}(X)$ is locally convex if and only if $X$ is discrete and countable. If $X$ is a metrizable space it is shown ...
A first course in topology continuity and dimension
McCleary, John
2006-01-01
How many dimensions does our universe require for a comprehensive physical description? In 1905, Poincar� argued philosophically about the necessity of the three familiar dimensions, while recent research is based on 11 dimensions or even 23 dimensions. The notion of dimension itself presented a basic problem to the pioneers of topology. Cantor asked if dimension was a topological feature of Euclidean space. To answer this question, some important topological ideas were introduced by Brouwer, giving shape to a subject whose development dominated the twentieth century. The basic notions in topology are varied and a comprehensive grounding in point-set topology, the definition and use of the fundamental group, and the beginnings of homology theory requires considerable time. The goal of this book is a focused introduction through these classical topics, aiming throughout at the classical result of the Invariance of Dimension. This text is based on the author's course given at Vassar College and is intended fo...
Topological superconductivity, topological confinement, and the vortex quantum Hall effect
International Nuclear Information System (INIS)
Diamantini, M. Cristina; Trugenberger, Carlo A.
2011-01-01
Topological matter is characterized by the presence of a topological BF term in its long-distance effective action. Topological defects due to the compactness of the U(1) gauge fields induce quantum phase transitions between topological insulators, topological superconductors, and topological confinement. In conventional superconductivity, because of spontaneous symmetry breaking, the photon acquires a mass due to the Anderson-Higgs mechanism. In this paper we derive the corresponding effective actions for the electromagnetic field in topological superconductors and topological confinement phases. In topological superconductors magnetic flux is confined and the photon acquires a topological mass through the BF mechanism: no symmetry breaking is involved, the ground state has topological order, and the transition is induced by quantum fluctuations. In topological confinement, instead, electric charge is linearly confined and the photon becomes a massive antisymmetric tensor via the Stueckelberg mechanism. Oblique confinement phases arise when the string condensate carries both magnetic and electric flux (dyonic strings). Such phases are characterized by a vortex quantum Hall effect potentially relevant for the dissipationless transport of information stored on vortices.
Photoinduced Topological Phase Transitions in Topological Magnon Insulators.
Owerre, S A
2018-03-13
Topological magnon insulators are the bosonic analogs of electronic topological insulators. They are manifested in magnetic materials with topologically nontrivial magnon bands as realized experimentally in a quasi-two-dimensional (quasi-2D) kagomé ferromagnet Cu(1-3, bdc), and they also possess protected magnon edge modes. These topological magnetic materials can transport heat as well as spin currents, hence they can be useful for spintronic applications. Moreover, as magnons are charge-neutral spin-1 bosonic quasiparticles with a magnetic dipole moment, topological magnon materials can also interact with electromagnetic fields through the Aharonov-Casher effect. In this report, we study photoinduced topological phase transitions in intrinsic topological magnon insulators in the kagomé ferromagnets. Using magnonic Floquet-Bloch theory, we show that by varying the light intensity, periodically driven intrinsic topological magnetic materials can be manipulated into different topological phases with different sign of the Berry curvatures and the thermal Hall conductivity. We further show that, under certain conditions, periodically driven gapped topological magnon insulators can also be tuned to synthetic gapless topological magnon semimetals with Dirac-Weyl magnon cones. We envision that this work will pave the way for interesting new potential practical applications in topological magnetic materials.
Elementary symplectic topology and mechanics
Cardin, Franco
2015-01-01
This is a short tract on the essentials of differential and symplectic geometry together with a basic introduction to several applications of this rich framework: analytical mechanics, the calculus of variations, conjugate points & Morse index, and other physical topics. A central feature is the systematic utilization of Lagrangian submanifolds and their Maslov-Hörmander generating functions. Following this line of thought, first introduced by Wlodemierz Tulczyjew, geometric solutions of Hamilton-Jacobi equations, Hamiltonian vector fields and canonical transformations are described by suitable Lagrangian submanifolds belonging to distinct well-defined symplectic structures. This unified point of view has been particularly fruitful in symplectic topology, which is the modern Hamiltonian environment for the calculus of variations, yielding sharp sufficient existence conditions. This line of investigation was initiated by Claude Viterbo in 1992; here, some primary consequences of this theory are exposed in...
Topological field theories and duality
International Nuclear Information System (INIS)
Stephany, J.; Universidad Simon Bolivar, Caracas
1996-05-01
Topologically non trivial effects appearing in the discussion of duality transformations in higher genus manifold are discussed in a simple example, and their relation with the properties of Topological Field Theories is established. (author). 16 refs
Wireless sensor network topology control
Zuk, Olexandr; Romanjuk, Valeriy; Sova, Oleg
2010-01-01
Topology control process for the wireless sensor network is considered. In this article the use of rule base for making decision on the search of optimum network topology is offered for the realization of different aims of network management.
Topology optimization of viscoelastic rectifiers
DEFF Research Database (Denmark)
Jensen, Kristian Ejlebjærg; Szabo, Peter; Okkels, Fridolin
2012-01-01
An approach for the design of microfluidic viscoelastic rectifiers is presented based on a combination of a viscoelastic model and the method of topology optimization. This presumption free approach yields a material layout topologically different from experimentally realized rectifiers...
From topological strings to minimal models
International Nuclear Information System (INIS)
Foda, Omar; Wu, Jian-Feng
2015-01-01
We glue four refined topological vertices to obtain the building block of 5D U(2) quiver instanton partition functions. We take the 4D limit of the result to obtain the building block of 4D instanton partition functions which, using the AGT correspondence, are identified with Virasoro conformal blocks. We show that there is a choice of the parameters of the topological vertices that we start with, as well as the parameters and the intermediate states involved in the gluing procedure, such that we obtain Virasoro minimal model conformal blocks.
From topological strings to minimal models
Energy Technology Data Exchange (ETDEWEB)
Foda, Omar [School of Mathematics and Statistics, University of Melbourne,Royal Parade, Parkville, VIC 3010 (Australia); Wu, Jian-Feng [Department of Mathematics and Statistics, Henan University,Minglun Street, Kaifeng city, Henan (China); Beijing Institute of Theoretical Physics and Mathematics,3rd Shangdi Street, Beijing (China)
2015-07-24
We glue four refined topological vertices to obtain the building block of 5D U(2) quiver instanton partition functions. We take the 4D limit of the result to obtain the building block of 4D instanton partition functions which, using the AGT correspondence, are identified with Virasoro conformal blocks. We show that there is a choice of the parameters of the topological vertices that we start with, as well as the parameters and the intermediate states involved in the gluing procedure, such that we obtain Virasoro minimal model conformal blocks.
Topological phase in two flavor neutrino oscillations
International Nuclear Information System (INIS)
Mehta, Poonam
2009-01-01
We show that the phase appearing in neutrino flavor oscillation formulae has a geometric and topological contribution. We identify a topological phase appearing in the two flavor neutrino oscillation formula using Pancharatnam's prescription of quantum collapses between nonorthogonal states. Such quantum collapses appear naturally in the expression for appearance and survival probabilities of neutrinos. Our analysis applies to neutrinos propagating in vacuum or through matter. For the minimal case of two flavors with CP conservation, our study shows for the first time that there is a geometric interpretation of the neutrino oscillation formulae for the detection probability of neutrino species.
Topological Fluid Mechanics with Applications to Free Surfaces and Axisymmetric Flows
DEFF Research Database (Denmark)
Brøns, Morten
1996-01-01
Topological fluid mechanics is the study of qualitative features of fluid patterns. We discuss applications to the flow beneath a stagnant surface film, and to patterns in axisymmetric flow.......Topological fluid mechanics is the study of qualitative features of fluid patterns. We discuss applications to the flow beneath a stagnant surface film, and to patterns in axisymmetric flow....
Towards topological quantum computer
Melnikov, D.; Mironov, A.; Mironov, S.; Morozov, A.; Morozov, An.
2018-01-01
Quantum R-matrices, the entangling deformations of non-entangling (classical) permutations, provide a distinguished basis in the space of unitary evolutions and, consequently, a natural choice for a minimal set of basic operations (universal gates) for quantum computation. Yet they play a special role in group theory, integrable systems and modern theory of non-perturbative calculations in quantum field and string theory. Despite recent developments in those fields the idea of topological quantum computing and use of R-matrices, in particular, practically reduce to reinterpretation of standard sets of quantum gates, and subsequently algorithms, in terms of available topological ones. In this paper we summarize a modern view on quantum R-matrix calculus and propose to look at the R-matrices acting in the space of irreducible representations, which are unitary for the real-valued couplings in Chern-Simons theory, as the fundamental set of universal gates for topological quantum computer. Such an approach calls for a more thorough investigation of the relation between topological invariants of knots and quantum algorithms.
Slope constrained Topology Optimization
DEFF Research Database (Denmark)
Petersson, J.; Sigmund, Ole
1998-01-01
The problem of minimum compliance topology optimization of an elastic continuum is considered. A general continuous density-energy relation is assumed, including variable thickness sheet models and artificial power laws. To ensure existence of solutions, the design set is restricted by enforcing...
Architecture, Drawing, Topology
DEFF Research Database (Denmark)
Meldgaard, Morten
This book presents contributions of drawing and text along with their many relationalities from ontology to history and vice versa in a range of reflections on architecture, drawing and topology. We hope to thereby indicate the potential of the theme in understanding not only the architecture of ...
LHCb Topological Trigger Reoptimization
INSPIRE-00400931; Ilten, Philip; Khairullin, Egor; Rogozhnikov, Alex; Ustyuzhanin, Andrey; Williams, Michael
2015-12-23
The main b-physics trigger algorithm used by the LHCb experiment is the so-called topological trigger. The topological trigger selects vertices which are a) detached from the primary proton-proton collision and b) compatible with coming from the decay of a b-hadron. In the LHC Run 1, this trigger, which utilized a custom boosted decision tree algorithm, selected a nearly 100% pure sample of b-hadrons with a typical efficiency of 60-70%; its output was used in about 60% of LHCb papers. This talk presents studies carried out to optimize the topological trigger for LHC Run 2. In particular, we have carried out a detailed comparison of various machine learning classifier algorithms, e.g., AdaBoost, MatrixNet and neural networks. The topological trigger algorithm is designed to select all "interesting" decays of b-hadrons, but cannot be trained on every such decay. Studies have therefore been performed to determine how to optimize the performance of the classification algorithm on decays not used in the training. ...
International Nuclear Information System (INIS)
Marmo, G.; Morandi, G.
1995-01-01
In this lecture some mathematical problems that arise when one deals with low-dimensional field theories, such as homotopy and topological invariants, differential calculus on Lie groups and coset spaces, fiber spaces and parallel transport, differential calculus on fiber bundles, sequences on principal bundles and Chern-Simons terms are discussed
Rendering the Topological Spines
Energy Technology Data Exchange (ETDEWEB)
Nieves-Rivera, D. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
2015-05-05
Many tools to analyze and represent high dimensional data already exits yet most of them are not flexible, informative and intuitive enough to help the scientists make the corresponding analysis and predictions, understand the structure and complexity of scientific data, get a complete picture of it and explore a greater number of hypotheses. With this in mind, N-Dimensional Data Analysis and Visualization (ND²AV) is being developed to serve as an interactive visual analysis platform with the purpose of coupling together a number of these existing tools that range from statistics, machine learning, and data mining, with new techniques, in particular with new visualization approaches. My task is to create the rendering and implementation of a new concept called topological spines in order to extend ND²AV's scope. Other existing visualization tools create a representation preserving either the topological properties or the structural (geometric) ones because it is challenging to preserve them both simultaneously. Overcoming such challenge by creating a balance in between them, the topological spines are introduced as a new approach that aims to preserve them both. Its render using OpenGL and C++ and is currently being tested to further on be implemented on ND²AV. In this paper I will present what are the Topological Spines and how they are rendered.
Coherence Multiplex System Topologies
Meijerink, Arjan; Taniman, R.O.; Heideman, G.H.L.M.; van Etten, Wim
2007-01-01
Coherence multiplexing is a potentially inexpensive form of optical code-division multiple access, which is particularly suitable for short-range applications with moderate bandwidth requirements, such as access networks, LANs, or interconnects. Various topologies are known for constructing an
Topological Trigger Developments
Likhomanenko, Tatiana
2015-01-01
The main b-physics trigger algorithm used by the LHCb experiment is the so-called topological trigger. The topological trigger selects vertices which are a) detached from the primary proton-proton collision and b) compatible with coming from the decay of a b-hadron. In the LHC Run 1, this trigger utilized a custom boosted decision tree algorithm, selected an almost 100% pure sample of b-hadrons with a typical efficiency of 60-70%, and its output was used in about 60% of LHCb papers. This talk presents studies carried out to optimize the topological trigger for LHC Run 2. In particular, we have carried out a detailed comparison of various machine learning classifier algorithms, e.g., AdaBoost, MatrixNet and uBoost. The topological trigger algorithm is designed to select all "interesting" decays of b-hadrons, but cannot be trained on every such decay. Studies have therefore been performed to determine how to optimize the performance of the classification algorithm on decays not used in the training. These inclu...
Towards topological quantum computer
Directory of Open Access Journals (Sweden)
D. Melnikov
2018-01-01
Full Text Available Quantum R-matrices, the entangling deformations of non-entangling (classical permutations, provide a distinguished basis in the space of unitary evolutions and, consequently, a natural choice for a minimal set of basic operations (universal gates for quantum computation. Yet they play a special role in group theory, integrable systems and modern theory of non-perturbative calculations in quantum field and string theory. Despite recent developments in those fields the idea of topological quantum computing and use of R-matrices, in particular, practically reduce to reinterpretation of standard sets of quantum gates, and subsequently algorithms, in terms of available topological ones. In this paper we summarize a modern view on quantum R-matrix calculus and propose to look at the R-matrices acting in the space of irreducible representations, which are unitary for the real-valued couplings in Chern–Simons theory, as the fundamental set of universal gates for topological quantum computer. Such an approach calls for a more thorough investigation of the relation between topological invariants of knots and quantum algorithms.
Adjoint entropy vs topological entropy
Giordano Bruno, Anna
2012-01-01
Recently the adjoint algebraic entropy of endomorphisms of abelian groups was introduced and studied. We generalize the notion of adjoint entropy to continuous endomorphisms of topological abelian groups. Indeed, the adjoint algebraic entropy is defined using the family of all finite-index subgroups, while we take only the subfamily of all open finite-index subgroups to define the topological adjoint entropy. This allows us to compare the (topological) adjoint entropy with the known topologic...
Topological and trivial magnetic oscillations in nodal loop semimetals
Oroszlány, László; Dóra, Balázs; Cserti, József; Cortijo, Alberto
2018-05-01
Nodal loop semimetals are close descendants of Weyl semimetals and possess a topologically dressed band structure. We argue by combining the conventional theory of magnetic oscillation with topological arguments that nodal loop semimetals host coexisting topological and trivial magnetic oscillations. These originate from mapping the topological properties of the extremal Fermi surface cross sections onto the physics of two dimensional semi-Dirac systems, stemming from merging two massless Dirac cones. By tuning the chemical potential and the direction of magnetic field, a sharp transition is identified from purely trivial oscillations, arising from the Landau levels of a normal two dimensional (2D) electron gas, to a phase where oscillations of topological and trivial origin coexist, originating from 2D massless Dirac and semi-Dirac points, respectively. These could in principle be directly identified in current experiments.
Energy Technology Data Exchange (ETDEWEB)
Schwieterman, Edward W.; Meadows, Victoria S.; Arney, Giada N.; Luger, Rodrigo; Misra, Amit; Barnes, Rory [Astronomy Department, University of Washington, Box 351580, Seattle, WA 98195 (United States); Domagal-Goldman, Shawn D.; Deming, Drake; Harman, Chester E., E-mail: eschwiet@uw.edu [NASA Astrobiology Institute’s Virtual Planetary Laboratory, Seattle, WA 981195 (United States)
2016-03-01
O{sub 2} and O{sub 3} have been long considered the most robust individual biosignature gases in a planetary atmosphere, yet multiple mechanisms that may produce them in the absence of life have been described. However, these abiotic planetary mechanisms modify the environment in potentially identifiable ways. Here we briefly discuss two of the most detectable spectral discriminants for abiotic O{sub 2}/O{sub 3}: CO and O{sub 4}. We produce the first explicit self-consistent simulations of these spectral discriminants as they may be seen by James Webb Space Telescope (JWST). If JWST-NIRISS and/or NIRSpec observe CO (2.35, 4.6 μm) in conjunction with CO{sub 2} (1.6, 2.0, 4.3 μm) in the transmission spectrum of a terrestrial planet it could indicate robust CO{sub 2} photolysis and suggest that a future detection of O{sub 2} or O{sub 3} might not be biogenic. Strong O{sub 4} bands seen in transmission at 1.06 and 1.27 μm could be diagnostic of a post-runaway O{sub 2}-dominated atmosphere from massive H-escape. We find that for these false positive scenarios, CO at 2.35 μm, CO{sub 2} at 2.0 and 4.3 μm, and O{sub 4} at 1.27 μm are all stronger features in transmission than O{sub 2}/O{sub 3} and could be detected with S/Ns ≳ 3 for an Earth-size planet orbiting a nearby M dwarf star with as few as 10 transits, assuming photon-limited noise. O{sub 4} bands could also be sought in UV/VIS/NIR reflected light (at 0.345, 0.36, 0.38, 0.445, 0.475, 0.53, 0.57, 0.63, 1.06, and 1.27 μm) by a next generation direct-imaging telescope such as LUVOIR/HDST or HabEx and would indicate an oxygen atmosphere too massive to be biologically produced.
Ranking beta sheet topologies of proteins
DEFF Research Database (Denmark)
Fonseca, Rasmus; Helles, Glennie; Winter, Pawel
2010-01-01
One of the challenges of protein structure prediction is to identify long-range interactions between amino acids. To reliably predict such interactions, we enumerate, score and rank all beta-topologies (partitions of beta-strands into sheets, orderings of strands within sheets and orientations...... of paired strands) of a given protein. We show that the beta-topology corresponding to the native structure is, with high probability, among the top-ranked. Since full enumeration is very time-consuming, we also suggest a method to deal with proteins with many beta-strands. The results reported...... in this paper are highly relevant for ab initio protein structure prediction methods based on decoy generation. The top-ranked beta-topologies can be used to find initial conformations from which conformational searches can be started. They can also be used to filter decoys by removing those with poorly...
Distribution network topology identification based on synchrophasor
Directory of Open Access Journals (Sweden)
Stefania Conti
2018-03-01
Full Text Available A distribution system upgrade moving towards Smart Grid implementation is necessary to face the proliferation of distributed generators and electric vehicles, in order to satisfy the increasing demand for high quality, efficient, secure, reliable energy supply. This perspective requires taking into account system vulnerability to cyber attacks. An effective attack could destroy stored information about network structure, historical data and so on. Countermeasures and network applications could be made impracticable since most of them are based on the knowledge of network topology. Usually, the location of each link between nodes in a network is known. Therefore, the methods used for topology identification determine if a link is open or closed. When no information on the location of the network links is available, these methods become totally unfeasible. This paper presents a method to identify the network topology using only nodal measures obtained by means of phasor measurement units.
Topology of Document Retrieval Systems.
Everett, Daniel M.; Cater, Steven C.
1992-01-01
Explains the use of a topological structure to examine the closeness between documents in retrieval systems and analyzes the topological structure of a vector-space model, a fuzzy-set model, an extended Boolean model, a probabilistic model, and a TIRS (Topological Information Retrieval System) model. Proofs for the results are appended. (17…
Geometry and topology of porous materials
International Nuclear Information System (INIS)
Cohen, M.H.
1985-01-01
A very general definition of porous materials is given. The method of Lin and Cohen for the simple but exact description of the topology of porous materials is reviewed. The method leads to a precise definition of chambers, channels, and throats in the pore space. The power and utility of the method is illustrated via a discussion of the remarkable morphological features of porous rocks. These are enumerated and explained
Comparing topological charge definitions using topology fixing actions
International Nuclear Information System (INIS)
Bruckmann, Falk; Gruber, Florian; Jansen, Karl; Marinkovic, Marina; Urbach, Carsten; Wagner, Marc
2009-05-01
We investigate both the hyperbolic action and the determinant ratio action designed to fix the topological charge on the lattice. We show to what extent topology is fixed depending on the parameters of these actions, keeping the physical situation fixed. At the same time the agreement between different definitions of topological charge - the field theoretic and the index definition - is directly correlated to the degree topology is fixed. Moreover, it turns out that the two definitions agree very well. We also study finite volume effects arising in the static potential and related quantities due to topology fixing. (orig.)
Fine topology and locally Minkowskian manifolds
Agrawal, Gunjan; Sinha, Soami Pyari
2018-05-01
Fine topology is one of the several well-known topologies of physical and mathematical relevance. In the present paper, it is obtained that the nonempty open sets of different dimensional Minkowski spaces with the fine topology are not homeomorphic. This leads to the introduction of a new class of manifolds. It turns out that the technique developed here is also applicable to some other topologies, namely, the s-topology, space topology, f-topology, and A-topology.
Reduction of initial stress stiffening by topology optimization
DEFF Research Database (Denmark)
Philippine, M. A.; Sigmund, Ole; Rebeiz, G. M.
2012-01-01
Topology optimization is a rigorous method of obtaining non-intuitive designs. We use it to obtain a capacitive RF switch that stiffens little in response to an increase of the in-plane biaxial stresses that typically develop during MEMS fabrication. The actuation voltage is closely related...... level. We include a volume constraint and a compliance constraint. Topology optimized designs are compared to an intuitively-designed RF switch. The switches contain similar features. The compliance constraint is varied such that the topology optimized switch performance approaches the intuitively......-designed one. Finally, the importance of the compliance constraint and of the robust formulation are discussed....
Owerre, S A
2017-09-27
In the conventional ferromagnetic systems, topological magnon bands and thermal Hall effect are due to the Dzyaloshinskii-Moriya interaction (DMI). In principle, however, the DMI is either negligible or it is not allowed by symmetry in some quantum magnets. Therefore, we expect that topological magnon features will not be present in those systems. In addition, quantum magnets on the triangular-lattice are not expected to possess topological features as the DMI or spin-chirality cancels out due to equal and opposite contributions from adjacent triangles. Here, however, we predict that the isomorphic frustrated honeycomb-lattice and bilayer triangular-lattice antiferromagnetic system will exhibit topological magnon bands and topological thermal Hall effect in the absence of an intrinsic DMI. These unconventional topological magnon features are present as a result of magnetic-field-induced non-coplanar spin configurations with nonzero scalar spin chirality. The relevance of the results to realistic bilayer triangular antiferromagnetic materials are discussed.
Panasevich, E A; Tsitseroshin, M N
2015-01-01
We studied the correlation of intellectual development according to The Wechsler Intelligence Scale for Children (WISC test) with the spatial organization of resting EEG in 52 children aged 5-6 years. It was found that the patterns of interregional interactions of different parts of the cortex which correspond with the best performance in the subtests in boys (n = 23) and girls (n = 29) have significant topological differences. In girls, successful subtest performance positively correlated to a greater extent with interhemispheric interactions; in boys--long longitudinal rostral-caudal interactions between various regions of the cortex. The results showed that there are important gender differences in the spatial organization of brain activity associated with the performance of different cognitive activities in preschool children. The successful performance of various subtests by boys required considerable variability in the organization of spatial patterns of interregional interactions; on the contrary, the spatial structure of these patterns in girls was relatively invariable. Obviously, for the successful performance of various cognitive activities at this age in boys, the cortex need to form highly specialized organization of intracortical interactions, while in girls the brain uses relatively similar reorganization of interactions. The data suggest that 5-6-year-old boys and girls use different cognitive strategies when performing the same subtests of the WISC test.
Topological patterns of mesh textures in serpentinites
Miyazawa, M.; Suzuki, A.; Shimizu, H.; Okamoto, A.; Hiraoka, Y.; Obayashi, I.; Tsuji, T.; Ito, T.
2017-12-01
Serpentinization is a hydration process that forms serpentine minerals and magnetite within the oceanic lithosphere. Microfractures crosscut these minerals during the reactions, and the structures look like mesh textures. It has been known that the patterns of microfractures and the system evolutions are affected by the hydration reaction and fluid transport in fractures and within matrices. This study aims at quantifying the topological patterns of the mesh textures and understanding possible conditions of fluid transport and reaction during serpentinization in the oceanic lithosphere. Two-dimensional simulation by the distinct element method (DEM) generates fracture patterns due to serpentinization. The microfracture patterns are evaluated by persistent homology, which measures features of connected components of a topological space and encodes multi-scale topological features in the persistence diagrams. The persistence diagrams of the different mesh textures are evaluated by principal component analysis to bring out the strong patterns of persistence diagrams. This approach help extract feature values of fracture patterns from high-dimensional and complex datasets.
A Technique for Presenting a Deceptive Dynamic Network Topology
2013-03-01
more complicated network topologies in our experiments. We used a Watts- Strogatz [35] model to generate a synthetic topology for experimentation due...generated Watts- Strogatz model except for the intelligent router and the web server. The actual router used does not impact the results of our experiment...library for the Python [43] programming language. NetworkX provides two features useful for this experiment. It was used to generate a Watts- Strogatz model
Generating a hot big bang via a change in topology
International Nuclear Information System (INIS)
Kandvup, H.E.
1990-01-01
This paper uses ideas developed recently in semiclassical quantum gravity to argue that many qualitative features of the hot big bang generally assumed in cosmology may be explained by the hypothesis that, interpreted semiclassically, the universe tunnelled into being via a quantum fluctuation from a small (Planck-sized), topologically complex entity to a topologically trivial entity (like a Friedmann universe) that rapidly grew to a more macroscopic size
Generating a hot big bang via a change in topology
Energy Technology Data Exchange (ETDEWEB)
Kandvup, H.E. (Florida Univ., Gainesville, FL (USA). Space Astronomy Lab.); Masur, P.O. (Institute for Fundamental Theory, Univ. of Florida, Gainesville, FL (US))
1990-08-01
This paper uses ideas developed recently in semiclassical quantum gravity to argue that many qualitative features of the hot big bang generally assumed in cosmology may be explained by the hypothesis that, interpreted semiclassically, the universe tunnelled into being via a quantum fluctuation from a small (Planck-sized), topologically complex entity to a topologically trivial entity (like a Friedmann universe) that rapidly grew to a more macroscopic size.
Singh, Bahadur; Zhou, Xiaoting; Lin, Hsin; Bansil, Arun
2018-02-01
Topological nodal-line semimetals are exotic conductors that host symmetry-protected conducting nodal lines in their bulk electronic spectrum and nontrivial drumhead states on the surface. Based on first-principles calculations and an effective model analysis, we identify the presence of topological nodal-line semimetal states in the low crystalline symmetric T T'X family of compounds (T ,T' = transition metal, X = Si or Ge) in the absence of spin-orbit coupling (SOC). Taking ZrPtGe as an exemplar system, we show that owing to small lattice symmetry this material harbors a single nodal line on the ky=0 plane with large energy dispersion and unique drumhead surface state with a saddlelike energy dispersion. When the SOC is included, the nodal line gaps out and the system transitions to a strong topological insulator state with Z2=(1 ;000 ) . The topological surface state evolves from the drumhead surface state via the sharing of its saddlelike energy dispersion within the bulk energy gap. These features differ remarkably from those of the currently known topological surface states in topological insulators such as Bi2Se3 with Dirac-cone-like energy dispersions.
Topology optimized permanent magnet systems
Bjørk, R.; Bahl, C. R. H.; Insinga, A. R.
2017-09-01
Topology optimization of permanent magnet systems consisting of permanent magnets, high permeability iron and air is presented. An implementation of topology optimization for magnetostatics is discussed and three examples are considered. The Halbach cylinder is topology optimized with iron and an increase of 15% in magnetic efficiency is shown. A topology optimized structure to concentrate a homogeneous field is shown to increase the magnitude of the field by 111%. Finally, a permanent magnet with alternating high and low field regions is topology optimized and a Λcool figure of merit of 0.472 is reached, which is an increase of 100% compared to a previous optimized design.
Undergraduate topology a working textbook
McCluskey, Aisling
2014-01-01
This textbook offers an accessible, modern introduction at undergraduate level to an area known variously as general topology, point-set topology or analytic topology with a particular focus on helping students to build theory for themselves. It is the result of several years of the authors' combined university teaching experience stimulated by sustained interest in advanced mathematical thinking and learning, alongside established research careers in analytic topology. Point-set topology is a discipline that needs relatively little background knowledge, but sufficient determination to grasp i
Topology optimized permanent magnet systems
DEFF Research Database (Denmark)
Bjørk, Rasmus; Bahl, Christian; Insinga, Andrea Roberto
2017-01-01
Topology optimization of permanent magnet systems consisting of permanent magnets, high permeability iron and air is presented. An implementation of topology optimization for magnetostatics is discussed and three examples are considered. The Halbach cylinder is topology optimized with iron...... and an increase of 15% in magnetic efficiency is shown. A topology optimized structure to concentrate a homogeneous field is shown to increase the magnitude of the field by 111%. Finally, a permanent magnet with alternating high and low field regions is topology optimized and a ΛcoolΛcool figure of merit of 0...
Nobel Lecture: Topological quantum matter*
Haldane, F. Duncan M.
2017-10-01
Nobel Lecture, presented December 8, 2016, Aula Magna, Stockholm University. I will describe the history and background of three discoveries cited in this Nobel Prize: The "TKNN" topological formula for the integer quantum Hall effect found by David Thouless and collaborators, the Chern insulator or quantum anomalous Hall effect, and its role in the later discovery of time-reversal-invariant topological insulators, and the unexpected topological spin-liquid state of the spin-1 quantum antiferromagnetic chain, which provided an initial example of topological quantum matter. I will summarize how these early beginnings have led to the exciting, and currently extremely active, field of "topological matter."
Graph topologies on closed multifunctions
Directory of Open Access Journals (Sweden)
Giuseppe Di Maio
2003-10-01
Full Text Available In this paper we study function space topologies on closed multifunctions, i.e. closed relations on X x Y using various hypertopologies. The hypertopologies are in essence, graph topologies i.e topologies on functions considered as graphs which are subsets of X x Y . We also study several topologies, including one that is derived from the Attouch-Wets filter on the range. We state embedding theorems which enable us to generalize and prove some recent results in the literature with the use of known results in the hyperspace of the range space and in the function space topologies of ordinary functions.
Ultrafilters and topologies on groups
Zelenyuk, Yevhen
2011-01-01
This book presents the relationship between ultrafilters and topologies on groups. It shows how ultrafilters are used in constructing topologies on groups with extremal properties and how topologies on groups serve in deriving algebraic results aboutultrafilters. Topics covered include: topological and left topological groups, ultrafilter semigroups, local homomorphisms and automorphisms, subgroups and ideal structure of ßG, almost maximal spaces and projectives of finite semigroups, resolvability of groups. This is a self-contained book aimed at graduate students and researchers working in to
Topological dynamics in supramolecular rotors.
Palma, Carlos-Andres; Björk, Jonas; Rao, Francesco; Kühne, Dirk; Klappenberger, Florian; Barth, Johannes V
2014-08-13
Artificial molecular switches, rotors, and machines are set to establish design rules and applications beyond their biological counterparts. Herein we exemplify the role of noncovalent interactions and transient rearrangements in the complex behavior of supramolecular rotors caged in a 2D metal-organic coordination network. Combined scanning tunneling microscopy experiments and molecular dynamics modeling of a supramolecular rotor with respective rotation rates matching with 0.2 kcal mol(-1) (9 meV) precision, identify key steps in collective rotation events and reconfigurations. We notably reveal that stereoisomerization of the chiral trimeric units entails topological isomerization whereas rotation occurs in a topology conserving, two-step asynchronous process. In supramolecular constructs, distinct displacements of subunits occur inducing a markedly lower rotation barrier as compared to synchronous mechanisms of rigid rotors. Moreover, the chemical environment can be instructed to control the system dynamics. Our observations allow for a definition of mechanical cooperativity based on a significant reduction of free energy barriers in supramolecules compared to rigid molecules.
Characterizing granular networks using topological metrics
Dijksman, Joshua A.; Kovalcinova, Lenka; Ren, Jie; Behringer, Robert P.; Kramar, Miroslav; Mischaikow, Konstantin; Kondic, Lou
2018-04-01
We carry out a direct comparison of experimental and numerical realizations of the exact same granular system as it undergoes shear jamming. We adjust the numerical methods used to optimally represent the experimental settings and outcomes up to microscopic contact force dynamics. Measures presented here range from microscopic through mesoscopic to systemwide characteristics of the system. Topological properties of the mesoscopic force networks provide a key link between microscales and macroscales. We report two main findings: (1) The number of particles in the packing that have at least two contacts is a good predictor for the mechanical state of the system, regardless of strain history and packing density. All measures explored in both experiments and numerics, including stress-tensor-derived measures and contact numbers depend in a universal manner on the fraction of nonrattler particles, fNR. (2) The force network topology also tends to show this universality, yet the shape of the master curve depends much more on the details of the numerical simulations. In particular we show that adding force noise to the numerical data set can significantly alter the topological features in the data. We conclude that both fNR and topological metrics are useful measures to consider when quantifying the state of a granular system.
Floquet topological insulators for sound
Fleury, Romain; Khanikaev, Alexander B.; Alù, Andrea
2016-06-01
The unique conduction properties of condensed matter systems with topological order have recently inspired a quest for the similar effects in classical wave phenomena. Acoustic topological insulators, in particular, hold the promise to revolutionize our ability to control sound, allowing for large isolation in the bulk and broadband one-way transport along their edges, with topological immunity against structural defects and disorder. So far, these fascinating properties have been obtained relying on moving media, which may introduce noise and absorption losses, hindering the practical potential of topological acoustics. Here we overcome these limitations by modulating in time the acoustic properties of a lattice of resonators, introducing the concept of acoustic Floquet topological insulators. We show that acoustic waves provide a fertile ground to apply the anomalous physics of Floquet topological insulators, and demonstrate their relevance for a wide range of acoustic applications, including broadband acoustic isolation and topologically protected, nonreciprocal acoustic emitters.
Quist, Daniel A [Los Alamos, NM; Gavrilov, Eugene M [Los Alamos, NM; Fisk, Michael E [Jemez, NM
2008-01-15
A method enables the topology of an acyclic fully propagated network to be discovered. A list of switches that comprise the network is formed and the MAC address cache for each one of the switches is determined. For each pair of switches, from the MAC address caches the remaining switches that see the pair of switches are located. For each pair of switches the remaining switches are determined that see one of the pair of switches on a first port and the second one of the pair of switches on a second port. A list of insiders is formed for every pair of switches. It is determined whether the insider for each pair of switches is a graph edge and adjacent ones of the graph edges are determined. A symmetric adjacency matrix is formed from the graph edges to represent the topology of the data link network.
Robinson, Michael
2014-01-01
Signal processing is the discipline of extracting information from collections of measurements. To be effective, the measurements must be organized and then filtered, detected, or transformed to expose the desired information. Distortions caused by uncertainty, noise, and clutter degrade the performance of practical signal processing systems. In aggressively uncertain situations, the full truth about an underlying signal cannot be known. This book develops the theory and practice of signal processing systems for these situations that extract useful, qualitative information using the mathematics of topology -- the study of spaces under continuous transformations. Since the collection of continuous transformations is large and varied, tools which are topologically-motivated are automatically insensitive to substantial distortion. The target audience comprises practitioners as well as researchers, but the book may also be beneficial for graduate students.
Monastyrsky, Michail Ilych
2007-01-01
The book presents a class of new results in molecular biology for which topological methods and ideas are important. These include: the large-scale conformation properties of DNA; computational methods (Monte Carlo) allowing the simulation of large-scale properties of DNA; the tangle model of DNA recombination and other applications of Knot theory; dynamics of supercoiled DNA and biocatalitic properties of DNA; the structure of proteins; and other very recent problems in molecular biology. The text also provides a short course of modern topology intended for the broad audience of biologists and physicists. The authors are renowned specialists in their fields and some of the new results presented here are documented for the first time in monographic form.
DNA topology and transcription
Kouzine, Fedor; Levens, David; Baranello, Laura
2014-01-01
Chromatin is a complex assembly that compacts DNA inside the nucleus while providing the necessary level of accessibility to regulatory factors conscripted by cellular signaling systems. In this superstructure, DNA is the subject of mechanical forces applied by variety of molecular motors. Rather than being a rigid stick, DNA possesses dynamic structural variability that could be harnessed during critical steps of genome functioning. The strong relationship between DNA structure and key genomic processes necessitates the study of physical constrains acting on the double helix. Here we provide insight into the source, dynamics, and biology of DNA topological domains in the eukaryotic cells and summarize their possible involvement in gene transcription. We emphasize recent studies that might inspire and impact future experiments on the involvement of DNA topology in cellular functions. PMID:24755522
DEFF Research Database (Denmark)
Blok, Anders
2010-01-01
Climate change is quickly becoming a ubiquitous socionatural reality, mediating extremes of sociospatial scale from the bodily to the planetary. Although environmentalism invites us to ‘think globally and act locally', the meaning of these scalar designations remains ambiguous. This paper explores...... the topological presuppositions of social theory in the context of global climate change, asking how carbon emissions ‘translate' into various sociomaterial forms. Staging a meeting between Tim Ingold's phenomenology of globes and spheres and the social topologies of actor-network theory (ANT), the paper advances...... a ‘relational-scalar' analytics of spatial practices, technoscience, and power. As technoscience gradually constructs a networked global climate, this ‘grey box' comes to circulate within fluid social spaces, taking on new shades as it hybridizes knowledges, symbols, and practices. Global climates thus come...
Topological confinement and superconductivity
Energy Technology Data Exchange (ETDEWEB)
Al-hassanieh, Dhaled A [Los Alamos National Laboratory; Batista, Cristian D [Los Alamos National Laboratory
2008-01-01
We derive a Kondo Lattice model with a correlated conduction band from a two-band Hubbard Hamiltonian. This mapping allows us to describe the emergence of a robust pairing mechanism in a model that only contains repulsive interactions. The mechanism is due to topological confinement and results from the interplay between antiferromagnetism and delocalization. By using Density-Matrix-Renormalization-Group (DMRG) we demonstrate that this mechanism leads to dominant superconducting correlations in aID-system.
DEFF Research Database (Denmark)
Schwerdtfeger, Peter; Wirz, Lukas; Avery, James Emil
2014-01-01
Fullerenes are carbon molecules that form polyhedral cages. Their bond structures are exactly the planar cubic graphs that have only pentagon and hexagon faces. Strikingly, a number of chemical properties of a fullerene can be derived from its graph structure. A rich mathematics of cubic planar g....... In this paper, we present a general overview of recent topological and graph theoretical developments in fullerene research over the past two decades, describing both solved and open problems....
Technologies for converter topologies
Zhou, Yan; Zhang, Haiyu
2017-02-28
In some embodiments of the disclosed inverter topologies, an inverter may include a full bridge LLC resonant converter, a first boost converter, and a second boost converter. In such embodiments, the first and second boost converters operate in an interleaved manner. In other disclosed embodiments, the inverter may include a half-bridge inverter circuit, a resonant circuit, a capacitor divider circuit, and a transformer.
Operator algebras and topology
International Nuclear Information System (INIS)
Schick, T.
2002-01-01
These notes, based on three lectures on operator algebras and topology at the 'School on High Dimensional Manifold Theory' at the ICTP in Trieste, introduce a new set of tools to high dimensional manifold theory, namely techniques coming from the theory of operator algebras, in particular C*-algebras. These are extensively studied in their own right. We will focus on the basic definitions and properties, and on their relevance to the geometry and topology of manifolds. A central pillar of work in the theory of C*-algebras is the Baum-Connes conjecture. This is an isomorphism conjecture, as discussed in the talks of Luck, but with a certain special flavor. Nevertheless, it has important direct applications to the topology of manifolds, it implies e.g. the Novikov conjecture. In the first chapter, the Baum-Connes conjecture will be explained and put into our context. Another application of the Baum-Connes conjecture is to the positive scalar curvature question. This will be discussed by Stephan Stolz. It implies the so-called 'stable Gromov-Lawson-Rosenberg conjecture'. The unstable version of this conjecture said that, given a closed spin manifold M, a certain obstruction, living in a certain (topological) K-theory group, vanishes if and only M admits a Riemannian metric with positive scalar curvature. It turns out that this is wrong, and counterexamples will be presented in the second chapter. The third chapter introduces another set of invariants, also using operator algebra techniques, namely L 2 -cohomology, L 2 -Betti numbers and other L 2 -invariants. These invariants, their basic properties, and the central questions about them, are introduced in the third chapter. (author)
Topology-function conservation in protein-protein interaction networks.
Davis, Darren; Yaveroğlu, Ömer Nebil; Malod-Dognin, Noël; Stojmirovic, Aleksandar; Pržulj, Nataša
2015-05-15
Proteins underlay the functioning of a cell and the wiring of proteins in protein-protein interaction network (PIN) relates to their biological functions. Proteins with similar wiring in the PIN (topology around them) have been shown to have similar functions. This property has been successfully exploited for predicting protein functions. Topological similarity is also used to guide network alignment algorithms that find similarly wired proteins between PINs of different species; these similarities are used to transfer annotation across PINs, e.g. from model organisms to human. To refine these functional predictions and annotation transfers, we need to gain insight into the variability of the topology-function relationships. For example, a function may be significantly associated with specific topologies, while another function may be weakly associated with several different topologies. Also, the topology-function relationships may differ between different species. To improve our understanding of topology-function relationships and of their conservation among species, we develop a statistical framework that is built upon canonical correlation analysis. Using the graphlet degrees to represent the wiring around proteins in PINs and gene ontology (GO) annotations to describe their functions, our framework: (i) characterizes statistically significant topology-function relationships in a given species, and (ii) uncovers the functions that have conserved topology in PINs of different species, which we term topologically orthologous functions. We apply our framework to PINs of yeast and human, identifying seven biological process and two cellular component GO terms to be topologically orthologous for the two organisms. © The Author 2015. Published by Oxford University Press.
Topological Substituent Descriptors
Directory of Open Access Journals (Sweden)
Mircea V. DIUDEA
2002-12-01
Full Text Available Motivation. Substituted 1,3,5-triazines are known as useful herbicidal substances. In view of reducing the cost of biological screening, computational methods are carried out for evaluating the biological activity of organic compounds. Often a class of bioactives differs only in the substituent attached to a basic skeleton. In such cases substituent descriptors will give the same prospecting results as in case of using the whole molecule description, but with significantly reduced computational time. Such descriptors are useful in describing steric effects involved in chemical reactions. Method. Molecular topology is the method used for substituent description and multi linear regression analysis as a statistical tool. Results. Novel topological descriptors, XLDS and Ws, based on the layer matrix of distance sums and walks in molecular graphs, respectively, are proposed for describing the topology of substituents linked on a chemical skeleton. They are tested for modeling the esterification reaction in the class of benzoic acids and herbicidal activity of 2-difluoromethylthio-4,6-bis(monoalkylamino-1,3,5-triazines. Conclusions. Ws substituent descriptor, based on walks in graph, satisfactorily describes the steric effect of alkyl substituents behaving in esterification reaction, with good correlations to the Taft and Charton steric parameters, respectively. Modeling the herbicidal activity of the seo of 1,3,5-triazines exceeded the models reported in literature, so far.
Transportation Network Topologies
Holmes, Bruce J.; Scott, John
2004-01-01
A discomforting reality has materialized on the transportation scene: our existing air and ground infrastructures will not scale to meet our nation's 21st century demands and expectations for mobility, commerce, safety, and security. The consequence of inaction is diminished quality of life and economic opportunity in the 21st century. Clearly, new thinking is required for transportation that can scale to meet to the realities of a networked, knowledge-based economy in which the value of time is a new coin of the realm. This paper proposes a framework, or topology, for thinking about the problem of scalability of the system of networks that comprise the aviation system. This framework highlights the role of integrated communication-navigation-surveillance systems in enabling scalability of future air transportation networks. Scalability, in this vein, is a goal of the recently formed Joint Planning and Development Office for the Next Generation Air Transportation System. New foundations for 21st thinking about air transportation are underpinned by several technological developments in the traditional aircraft disciplines as well as in communication, navigation, surveillance and information systems. Complexity science and modern network theory give rise to one of the technological developments of importance. Scale-free (i.e., scalable) networks represent a promising concept space for modeling airspace system architectures, and for assessing network performance in terms of scalability, efficiency, robustness, resilience, and other metrics. The paper offers an air transportation system topology as framework for transportation system innovation. Successful outcomes of innovation in air transportation could lay the foundations for new paradigms for aircraft and their operating capabilities, air transportation system architectures, and airspace architectures and procedural concepts. The topology proposed considers air transportation as a system of networks, within which
A quantized microwave quadrupole insulator with topologically protected corner states
Peterson, Christopher W.; Benalcazar, Wladimir A.; Hughes, Taylor L.; Bahl, Gaurav
2018-03-01
The theory of electric polarization in crystals defines the dipole moment of an insulator in terms of a Berry phase (geometric phase) associated with its electronic ground state. This concept not only solves the long-standing puzzle of how to calculate dipole moments in crystals, but also explains topological band structures in insulators and superconductors, including the quantum anomalous Hall insulator and the quantum spin Hall insulator, as well as quantized adiabatic pumping processes. A recent theoretical study has extended the Berry phase framework to also account for higher electric multipole moments, revealing the existence of higher-order topological phases that have not previously been observed. Here we demonstrate experimentally a member of this predicted class of materials—a quantized quadrupole topological insulator—produced using a gigahertz-frequency reconfigurable microwave circuit. We confirm the non-trivial topological phase using spectroscopic measurements and by identifying corner states that result from the bulk topology. In addition, we test the critical prediction that these corner states are protected by the topology of the bulk, and are not due to surface artefacts, by deforming the edges of the crystal lattice from the topological to the trivial regime. Our results provide conclusive evidence of a unique form of robustness against disorder and deformation, which is characteristic of higher-order topological insulators.
Emergence of topological and topological crystalline phases in TlBiS2 and TlSbS2
Zhang, Qingyun; Cheng, Yingchun; Schwingenschlö gl, Udo
2015-01-01
Using first-principles calculations, we investigate the band structure evolution and topological phase transitions in TlBiS2 and TlSbS2 under hydrostatic pressure as well as uniaxial and biaxial strain. The phase transitions are identified by parity analysis and by calculating the surface states. Zero, one, and four Dirac cones are found for the (111) surfaces of both TlBiS2 and TlSbS2 when the pressure grows, which confirms trivial-nontrivial-trivial phase transitions. The Dirac cones at the (M) over bar points are anisotropic with large out-of-plane component. TlBiS2 shows normal, topological, and topological crystalline insulator phases under hydrostatic pressure, thus being the first compound to exhibit a phase transition from a topological to a topological crystalline insulator.
Emergence of topological and topological crystalline phases in TlBiS2 and TlSbS2
Zhang, Qingyun
2015-02-11
Using first-principles calculations, we investigate the band structure evolution and topological phase transitions in TlBiS2 and TlSbS2 under hydrostatic pressure as well as uniaxial and biaxial strain. The phase transitions are identified by parity analysis and by calculating the surface states. Zero, one, and four Dirac cones are found for the (111) surfaces of both TlBiS2 and TlSbS2 when the pressure grows, which confirms trivial-nontrivial-trivial phase transitions. The Dirac cones at the (M) over bar points are anisotropic with large out-of-plane component. TlBiS2 shows normal, topological, and topological crystalline insulator phases under hydrostatic pressure, thus being the first compound to exhibit a phase transition from a topological to a topological crystalline insulator.
Topological evolution of the internet public opinion
Lian, Ying; Dong, Xuefan; Liu, Yijun
2017-11-01
The Internet forms a platform featured with high liquidity, accessibility and concealment for the public to express their respective views on certain events, thus leading to a large network graph. Due to such environmental features, the public opinions formed on the Internet are different from those on traditional media. Studies focusing on the former area are relatively fewer. In addition, the majority of existing methods proposed for constructing the Internet public opinion topological structure are based on the classic BA model, thus resulting in drawbacks in the range of simplicity and a lack of strict deduction. Therefore, based on the complex networks theory, a model applied to describe the topology of the Internet public opinion is deduced with rigorous derivation in the present paper. Results show that the proposed expression could well reflect the degree distribution of Internet public opinion which follows an analogous power law distribution, and that the peak value and the degree distribution are not correlative to each other. Moreover, it has been also proved that compared to the classic BA model, the proposed model has better accuracy performance in the description of the degree distribution of the Internet public opinion, which contributes to future studies focusing on this area. Thus, an attempt has been made to give the first theoretical description of the Internet public opinion topology in the present paper. In addition, it is also the first paper focusing on the solution of networks degree distribution with an exponential growth form.
Engineering topological phases with a three-dimensional nodal-loop semimetal
Li, Linhu; Yap, Han Hoe; Araújo, Miguel A. N.; Gong, Jiangbin
2017-12-01
A three-dimensional (3D) nodal-loop semimetal phase is exploited to engineer a number of intriguing phases featuring different peculiar topological surface states. In particular, by introducing various two-dimensional gap terms to a 3D tight-binding model of a nodal-loop semimetal, we obtain a rich variety of topological phases of great interest to ongoing theoretical and experimental studies, including a chiral insulator, degenerate-surface-loop insulator, and second-order topological insulator, as well as a Weyl semimetal with tunable Fermi arc profiles. The unique concept underlying our approach is to engineer topological surface states that inherit their dispersion relations from a gap term. The results provide one rather unified principle for the creation of novel topological phases and can guide the search for new topological materials. Two-terminal transport studies are also carried out to distinguish the engineered topological phases.
Patch layout generation by detecting feature networks
Cao, Yuanhao; Yan, Dongming; Wonka, Peter
2015-01-01
The patch layout of 3D surfaces reveals the high-level geometric and topological structures. In this paper, we study the patch layout computation by detecting and enclosing feature loops on surfaces. We present a hybrid framework which combines
Topological semimetal in honeycomb lattice LnSI
Nie, Simin; Xu, Gang; Prinz, Fritz B.; Zhang, Shou-cheng
2017-10-01
Recognized as elementary particles in the standard model, Weyl fermions in condensed matter have received growing attention. However, most of the previously reported Weyl semimetals exhibit rather complicated electronic structures that, in turn, may have raised questions regarding the underlying physics. Here, we report promising topological phases that can be realized in specific honeycomb lattices, including ideal Weyl semimetal structures, 3D strong topological insulators, and nodal-line semimetal configurations. In particular, we highlight a semimetal featuring both Weyl nodes and nodal lines. Guided by this model, we showed that GdSI, the long-perceived ideal Weyl semimetal, has two pairs of Weyl nodes residing at the Fermi level and that LuSI (YSI) is a 3D strong topological insulator with the right-handed helical surface states. Our work provides a mechanism to study topological semimetals and proposes a platform for exploring the physics of Weyl semimetals as well as related device designs.
Topological imprint for periodic orbits
International Nuclear Information System (INIS)
Martín, Jesús San; Moscoso, Ma José; Gómez, A González
2012-01-01
The more self-crossing points an orbit has the more complex it is. We introduce the topological imprint to characterize crossing points and focus on the period-doubling cascade. The period-doubling cascade topological imprint determines the topological imprint for orbits in chaotic bands. In addition, there is a closer link between this concept and the braids studied by Lettelier et al (2000 J. Phys. A: Math. Gen. 33 1809–25). (paper)
Intuitionistic supra fuzzy topological spaces
International Nuclear Information System (INIS)
Abbas, S.E.
2004-01-01
In this paper, We introduce an intuitionistic supra fuzzy closure space and investigate the relationship between intuitionistic supra fuzzy topological spaces and intuitionistic supra fuzzy closure spaces. Moreover, we can obtain intuitionistic supra fuzzy topological space induced by an intuitionistic fuzzy bitopological space. We study the relationship between intuitionistic supra fuzzy closure space and the intuitionistic supra fuzzy topological space induced by an intuitionistic fuzzy bitopological space
Topology and geometry for physicists
Nash, Charles
1983-01-01
Differential geometry and topology are essential tools for many theoretical physicists, particularly in the study of condensed matter physics, gravity, and particle physics. Written by physicists for physics students, this text introduces geometrical and topological methods in theoretical physics and applied mathematics. It assumes no detailed background in topology or geometry, and it emphasizes physical motivations, enabling students to apply the techniques to their physics formulas and research. ""Thoroughly recommended"" by The Physics Bulletin, this volume's physics applications range fr
OPTIMAL NETWORK TOPOLOGY DESIGN
Yuen, J. H.
1994-01-01
This program was developed as part of a research study on the topology design and performance analysis for the Space Station Information System (SSIS) network. It uses an efficient algorithm to generate candidate network designs (consisting of subsets of the set of all network components) in increasing order of their total costs, and checks each design to see if it forms an acceptable network. This technique gives the true cost-optimal network, and is particularly useful when the network has many constraints and not too many components. It is intended that this new design technique consider all important performance measures explicitly and take into account the constraints due to various technical feasibilities. In the current program, technical constraints are taken care of by the user properly forming the starting set of candidate components (e.g. nonfeasible links are not included). As subsets are generated, they are tested to see if they form an acceptable network by checking that all requirements are satisfied. Thus the first acceptable subset encountered gives the cost-optimal topology satisfying all given constraints. The user must sort the set of "feasible" link elements in increasing order of their costs. The program prompts the user for the following information for each link: 1) cost, 2) connectivity (number of stations connected by the link), and 3) the stations connected by that link. Unless instructed to stop, the program generates all possible acceptable networks in increasing order of their total costs. The program is written only to generate topologies that are simply connected. Tests on reliability, delay, and other performance measures are discussed in the documentation, but have not been incorporated into the program. This program is written in PASCAL for interactive execution and has been implemented on an IBM PC series computer operating under PC DOS. The disk contains source code only. This program was developed in 1985.
Probing the Topology of Density Matrices
Directory of Open Access Journals (Sweden)
Charles-Edouard Bardyn
2018-02-01
Full Text Available The mixedness of a quantum state is usually seen as an adversary to topological quantization of observables. For example, exact quantization of the charge transported in a so-called Thouless adiabatic pump is lifted at any finite temperature in symmetry-protected topological insulators. Here, we show that certain directly observable many-body correlators preserve the integrity of topological invariants for mixed Gaussian quantum states in one dimension. Our approach relies on the expectation value of the many-body momentum-translation operator and leads to a physical observable—the “ensemble geometric phase” (EGP—which represents a bona fide geometric phase for mixed quantum states, in the thermodynamic limit. In cyclic protocols, the EGP provides a topologically quantized observable that detects encircled spectral singularities (“purity-gap” closing points of density matrices. While we identify the many-body nature of the EGP as a key ingredient, we propose a conceptually simple, interferometric setup to directly measure the latter in experiments with mesoscopic ensembles of ultracold atoms.
A Conclusive Test of Abelian Dominance Hypothesis for Topological Charge in the QCD Vacuum
Sasaki, Shoichi; Miyamura, Osamu
1998-01-01
We study the topological feature in the QCD vacuum based on the hypothesis of abelian dominance. The topological charge $Q_{\\rm SU(2)}$ can be explicitly represented in terms of the monopole current in the abelian dominated system. To appreciate its justification, we directly measure the corresponding topological charge $Q_{\\rm Mono}$, which is reconstructed only from the monopole current and the abelian component of gauge fields, by using the Monte Carlo simulation on SU(2) lattice. We find ...
International Nuclear Information System (INIS)
Hudetz, T.
1989-01-01
As a 'by-product' of the Connes-Narnhofer-Thirring theory of dynamical entropy for (originally non-Abelian) nuclear C * -algebras, the well-known variational principle for topological entropy is eqivalently reformulated in purly algebraically defined terms for (separable) Abelian C * -algebras. This 'algebraic variational principle' should not only nicely illustrate the 'feed-back' of methods developed for quantum dynamical systems to the classical theory, but it could also be proved directly by 'algebraic' methods and could thus further simplify the original proof of the variational principle (at least 'in principle'). 23 refs. (Author)
Topologically nontrivial quantum layers
International Nuclear Information System (INIS)
Carron, G.; Exner, P.; Krejcirik, D.
2004-01-01
Given a complete noncompact surface Σ embedded in R 3 , we consider the Dirichlet Laplacian in the layer Ω that is defined as a tubular neighborhood of constant width about Σ. Using an intrinsic approach to the geometry of Ω, we generalize the spectral results of the original paper by Duclos et al. [Commun. Math. Phys. 223, 13 (2001)] to the situation when Σ does not possess poles. This enables us to consider topologically more complicated layers and state new spectral results. In particular, we are interested in layers built over surfaces with handles or several cylindrically symmetric ends. We also discuss more general regions obtained by compact deformations of certain Ω
International Nuclear Information System (INIS)
Schultz, J.H.
1981-01-01
The use of limiter pumps as the principle plasma exhaust system of a magnetic confinement fusion device promises significant simplification, when compared to previously investigating divertor based systems. Further simplifications, such as the integration of the exhaust system with a radio frequency heating system and with the main reactor shield and structure are investigated below. The integrity of limiters in a reactor environment is threatened by many mechanisms, the most severe of which may be erosion by sputtering. Two novel topologies are suggested which allow high erosion without limiter failure
Foundations of combinatorial topology
Pontryagin, L S
2015-01-01
Hailed by The Mathematical Gazette as ""an extremely valuable addition to the literature of algebraic topology,"" this concise but rigorous introductory treatment focuses on applications to dimension theory and fixed-point theorems. The lucid text examines complexes and their Betti groups, including Euclidean space, application to dimension theory, and decomposition into components; invariance of the Betti groups, with consideration of the cone construction and barycentric subdivisions of a complex; and continuous mappings and fixed points. Proofs are presented in a complete, careful, and eleg
DEFF Research Database (Denmark)
Ekman, Ulrik
2015-01-01
that increasingly develop mixed reality environments with context-aware out-of-the-box computing as well as the soci-ocultural and experiental horizon of a virtually and physically mobile citizenry. Design here must meet an ongoing and exceedingly complex interactivity among environmental, technical, social...... and personal multiplicities of urban nodes on the move. This chapter focuses on the design of a busy traffic intersection in the South Korean u-city Songdo. Hence, the discussion whether and how Songdo may be approached via design as topology primarily considers the situation, event, and experience in which...
Nagata, J-I
1985-01-01
This classic work has been fundamentally revised to take account of recent developments in general topology. The first three chapters remain unchanged except for numerous minor corrections and additional exercises, but chapters IV-VII and the new chapter VIII cover the rapid changes that have occurred since 1968 when the first edition appeared.The reader will find many new topics in chapters IV-VIII, e.g. theory of Wallmann-Shanin's compactification, realcompact space, various generalizations of paracompactness, generalized metric spaces, Dugundji type extension theory, linearly ordered topolo
Grain topology in Ti-6Al-4V welds-Monte Carlo simulation and experiments
International Nuclear Information System (INIS)
Mishra, S; DebRoy, T
2004-01-01
The importance of topological features of grains in the evolution of grain structure is well recognized in isothermal systems. However, during fusion welding, strong spatial gradients of temperature exist in the heat-affected zone (HAZ), and this region undergoes rapid heating and cooling. The effects of spatial and temporal variations of temperature on the topological class distribution, relationship between size and topology of grains and the interdependence between grain topology and its neighbours are not known. Topological features of grains in the HAZ of Ti-6Al-4V alloy welds were measured for various heat inputs in the range 0.55-4.33 MJ m -1 . The topological class distributions were also calculated using a three-dimensional Monte Carlo model utilizing thermal cycles computed from a well tested numerical heat transfer and fluid flow model. The computed results showed that the topological class distributions were unaffected by the spatial and temporal variations of temperature. Experimental investigations of a few sections confirmed the simulation results. The average grain size for each edge class varied linearly with the edge class number. The local topological environment, i.e. the average number of sides of neighbours, n n , varied linearly with the inverse of the number of sides of grains, 1/n r , at a given location in the HAZ. Locations with the same topological environment showed the same grain size, indicating the significant influence of grain topology on grain growth in the HAZ
Xu, Yanjun; Li, Feng; Wu, Tan; Xu, Yingqi; Yang, Haixiu; Dong, Qun; Zheng, Meiyu; Shang, Desi; Zhang, Chunlong; Zhang, Yunpeng; Li, Xia
2017-02-28
Long non-coding RNAs (lncRNAs) play important roles in various biological processes, including the development of many diseases. Pathway analysis is a valuable aid for understanding the cellular functions of these transcripts. We have developed and characterized LncSubpathway, a novel method that integrates lncRNA and protein coding gene (PCG) expression with interactome data to identify disease risk subpathways that functionally associated with risk lncRNAs. LncSubpathway identifies the most relevance regions which are related with risk lncRNA set and implicated with study conditions through simultaneously considering the dysregulation extent of lncRNAs, PCGs and their correlations. Simulation studies demonstrated that the sensitivity and false positive rates of LncSubpathway were within acceptable ranges, and that LncSubpathway could accurately identify dysregulated regions that related with disease risk lncRNAs within pathways. When LncSubpathway was applied to colorectal carcinoma and breast cancer subtype datasets, it identified cancer type- and breast cancer subtype-related meaningful subpathways. Further, analysis of its robustness and reproducibility indicated that LncSubpathway was a reliable means of identifying subpathways that functionally associated with lncRNAs. LncSubpathway is freely available at http://www.bio-bigdata.com/lncSubpathway/.
Topological effects on the mechanical properties of polymer knots
Zhao, Yani; Ferrari, Franco
2017-11-01
The mechanical properties of knotted polymer rings under stretching in a bad or good solvent are investigated by applying a force F to a point of the knot while keeping another point fixed. The Monte Carlo sampling of the polymer conformations is performed on a simple cubic lattice using the Wang-Landau algorithm. The specific energy, specific heat capacity, gyration radius and the force-elongation curves are computed for several knot topologies with lengths up to 120 lattice units. The common features of the mechanical and thermal behavior of stretched short polymer rings forming knots of a given topological type are analyzed as well as the differences arising due to topology and size effects. It is found that these systems admit three different phases depending on the values of the tensile force F and the temperature T. The transitions from one phase to the other are well characterized by the peaks of the specific heat capacity and by the data of the gyration radius and specific energy. At very low temperatures the force-elongation curves show that the stretching of a knot is a stepwise process, which becomes smooth at higher temperatures. Criteria for distinguishing topological and size effects are provided. It turns out from our study that the behavior of short polymer rings is strongly influenced by topological effects. In particular, the swelling and the swelling rate of knots are severely limited by the topological constraints. Several other properties that are affected by topology, like the decay of the specific energy at high tensile forces, are discussed. The fading out of the influences of topological origin with increasing knot lengths has been verified. Some anomalies detected in the plots of the specific heat capacity of very short and complex knots have been explained by the limitations in the number of accessible energy states due to the topological constraints.
Visualizing vector field topology in fluid flows
Helman, James L.; Hesselink, Lambertus
1991-01-01
Methods of automating the analysis and display of vector field topology in general and flow topology in particular are discussed. Two-dimensional vector field topology is reviewed as the basis for the examination of topology in three-dimensional separated flows. The use of tangent surfaces and clipping in visualizing vector field topology in fluid flows is addressed.
Foundations of topological racks and quandles
Mohamed Moutuou, El-Kaioum; Elhamdadi, Mohamed
2016-01-01
We give a foundational account on topological racks and quandles. Specifically, we define the notions of ideals, kernels, units, and inner automorphism group in the context of topological racks. Further, we investigate topological rack modules and principal rack bundles. Central extensions of topological racks are then introduced providing a first step towards a general continuous cohomology theory for topological racks and quandles
Topology Identification of General Dynamical Network with Distributed Time Delays
International Nuclear Information System (INIS)
Zhao-Yan, Wu; Xin-Chu, Fu
2009-01-01
General dynamical networks with distributed time delays are studied. The topology of the networks are viewed as unknown parameters, which need to be identified. Some auxiliary systems (also called the network estimators) are designed to achieve this goal. Both linear feedback control and adaptive strategy are applied in designing these network estimators. Based on linear matrix inequalities and the Lyapunov function method, the sufficient condition for the achievement of topology identification is obtained. This method can also better monitor the switching topology of dynamical networks. Illustrative examples are provided to show the effectiveness of this method. (general)
Even-dimensional topological gravity from Chern-Simons gravity
International Nuclear Information System (INIS)
Merino, N.; Perez, A.; Salgado, P.
2009-01-01
It is shown that the topological action for gravity in 2n-dimensions can be obtained from the (2n+1)-dimensional Chern-Simons gravity genuinely invariant under the Poincare group. The 2n-dimensional topological gravity is described by the dynamics of the boundary of a (2n+1)-dimensional Chern-Simons gravity theory with suitable boundary conditions. The field φ a , which is necessary to construct this type of topological gravity in even dimensions, is identified with the coset field associated with the non-linear realizations of the Poincare group ISO(d-1,1).
Graph topology and gap topology for unstable systems
Zhu, S.Q.
1989-01-01
A reformation is provided of the graph topology and the gap topology for a general setting (including lumped linear time-invariant systems and distributed linear time-invariant systems) in the frequency domain. Some essential properties and their comparisons are clearly presented in the
1997-01-01
The origins of this volume can be traced back to a conference on "Ethics, Economic and Business" organized by Columbia Busi ness School in March of 1993, and held in the splendid facilities of Columbia's Casa Italiana. Preliminary versions of several of the papers were presented at that meeting. In July 1994 the Fields Institute of Mathematical Sciences sponsored a workshop on "Geometry, Topology and Markets": additional papers and more refined versions of the original papers were presented there. They were published in their present versions in Social Choice and Wel fare, volume 14, number 2, 1997. The common aim of these workshops and this volume is to crystallize research in an area which has emerged rapidly in the last fifteen years, the area of topological approaches to social choice and the theory of games. The area is attracting increasing interest from social choice theorists, game theorists, mathematical econ omists and mathematicians, yet there is no authoritative collection of papers in the a...
Topological gravity from a transgression gauge field theory
International Nuclear Information System (INIS)
Merino, N.; Perez, A.; Salgado, P.; Valdivia, O.
2010-01-01
It is shown that a topological action for gravity in even dimensions can be obtained from a gravity theory whose Lagrangian is given by a transgression form invariant under the Poincare group. The field φ a , which is necessary to construct this type of topological gravity in even dimensions, is identified with the coset field associated with the non-linear realizations of the Poincare group ISO(d-1,1).
Histological image classification using biologically interpretable shape-based features
International Nuclear Information System (INIS)
Kothari, Sonal; Phan, John H; Young, Andrew N; Wang, May D
2013-01-01
Automatic cancer diagnostic systems based on histological image classification are important for improving therapeutic decisions. Previous studies propose textural and morphological features for such systems. These features capture patterns in histological images that are useful for both cancer grading and subtyping. However, because many of these features lack a clear biological interpretation, pathologists may be reluctant to adopt these features for clinical diagnosis. We examine the utility of biologically interpretable shape-based features for classification of histological renal tumor images. Using Fourier shape descriptors, we extract shape-based features that capture the distribution of stain-enhanced cellular and tissue structures in each image and evaluate these features using a multi-class prediction model. We compare the predictive performance of the shape-based diagnostic model to that of traditional models, i.e., using textural, morphological and topological features. The shape-based model, with an average accuracy of 77%, outperforms or complements traditional models. We identify the most informative shapes for each renal tumor subtype from the top-selected features. Results suggest that these shapes are not only accurate diagnostic features, but also correlate with known biological characteristics of renal tumors. Shape-based analysis of histological renal tumor images accurately classifies disease subtypes and reveals biologically insightful discriminatory features. This method for shape-based analysis can be extended to other histological datasets to aid pathologists in diagnostic and therapeutic decisions
Topology optimized RF MEMS switches
DEFF Research Database (Denmark)
Philippine, M. A.; Zareie, H.; Sigmund, Ole
2013-01-01
Topology optimization is a rigorous and powerful method that should become a standard MEMS design tool - it can produce unique and non-intuitive designs that meet complex objectives and can dramatically improve the performance and reliability of MEMS devices. We present successful uses of topology...
Topology optimization of turbulent flows
DEFF Research Database (Denmark)
Dilgen, Cetin B.; Dilgen, Sumer B.; Fuhrman, David R.
2018-01-01
The aim of this work is to present a fast and viable approach for taking into account turbulence in topology optimization of complex fluid flow systems, without resorting to any simplifying assumptions in the derivation of discrete adjoints. Topology optimization is an iterative gradient...
Coverings, Networks and Weak Topologies
Czech Academy of Sciences Publication Activity Database
Dow, A.; Junnila, H.; Pelant, Jan
2006-01-01
Roč. 53, č. 2 (2006), s. 287-320 ISSN 0025-5793 R&D Projects: GA ČR GA201/97/0216 Institutional research plan: CEZ:AV0Z10190503 Keywords : Banach spaces * weak topologies * networks topologies Subject RIV: BA - General Mathematics
Observational modeling of topological spaces
International Nuclear Information System (INIS)
Molaei, M.R.
2009-01-01
In this paper a model for a multi-dimensional observer by using of the fuzzy theory is presented. Relative form of Tychonoff theorem is proved. The notion of topological entropy is extended. The persistence of relative topological entropy under relative conjugate relation is proved.
Topological strings from Liouville gravity
International Nuclear Information System (INIS)
Ishibashi, N.; Li, M.
1991-01-01
We study constrained SU(2) WZW models, which realize a class of two-dimensional conformal field theories. We show that they give rise to topological gravity coupled to the topological minimal models when they are coupled to Liouville gravity. (orig.)
Novel topological invariants and anomalies
International Nuclear Information System (INIS)
Hirayama, M.; Sugimasa, N.
1987-01-01
It is shown that novel topological invariants are associated with a class of Dirac operators. Trace formulas which are similar to but different from Callias's formula are derived. Implications of these topological invariants to anomalies in quantum field theory are discussed. A new class of anomalies are calculated for two models: one is two dimensional and the other four dimensional
On Neutrosophic Soft Topological Space
Directory of Open Access Journals (Sweden)
Tuhin Bera
2018-03-01
Full Text Available In this paper, the concept of connectedness and compactness on neutrosophic soft topological space have been introduced along with the investigation of their several characteristics. Some related theorems have been established also. Then, the notion of neutrosophic soft continuous mapping on a neutrosophic soft topological space and it’s properties are developed here.
Solving equations by topological methods
Directory of Open Access Journals (Sweden)
Lech Górniewicz
2005-01-01
Full Text Available In this paper we survey most important results from topological fixed point theory which can be directly applied to differential equations. Some new formulations are presented. We believe that our article will be useful for analysts applying topological fixed point theory in nonlinear analysis and in differential equations.
Newton-type method for the variational discretization of topology optimization problems
DEFF Research Database (Denmark)
Evgrafov, Anton
2013-01-01
We present a locally quadratically convergent optimization algorithm for solving topology optimization problems. The distinguishing feature of the algorithm is to treat the design as a smooth function of the state and not vice versa as in the traditional nested approach to topology optimization, ...
The Status of Cosmic Topology after Planck Data
Directory of Open Access Journals (Sweden)
Jean-Pierre Luminet
2016-01-01
Full Text Available In the last decade, the study of the overall shape of the universe, called Cosmic Topology, has become testable by astronomical observations, especially the data from the Cosmic Microwave Background (hereafter CMB obtained by WMAP and Planck telescopes. Cosmic Topology involves both global topological features and more local geometrical properties such as curvature. It deals with questions such as whether space is finite or infinite, simply-connected or multi-connected, and smaller or greater than its observable counterpart. A striking feature of some relativistic, multi-connected small universe models is to create multiples images of faraway cosmic sources. While the last CMB (Planck data fit well the simplest model of a zero-curvature, infinite space model, they remain consistent with more complex shapes such as the spherical Poincaré Dodecahedral Space, the flat hypertorus or the hyperbolic Picard horn. We review the theoretical and observational status of the field.
Magnetic Topology of Coronal Hole Linkages
Titov, V. S.; Mikic, Z.; Linker, J. A.; Lionello, R.; Antiochos, S. K.
2010-01-01
In recent work, Antiochos and coworkers argued that the boundary between the open and closed field regions on the Sun can be extremely complex with narrow corridors of open ux connecting seemingly disconnected coronal holes from the main polar holes, and that these corridors may be the sources of the slow solar wind. We examine, in detail, the topology of such magnetic configurations using an analytical source surface model that allows for analysis of the eld with arbitrary resolution. Our analysis reveals three important new results: First, a coronal hole boundary can join stably to the separatrix boundary of a parasitic polarity region. Second, a single parasitic polarity region can produce multiple null points in the corona and, more important, separator lines connecting these points. Such topologies are extremely favorable for magnetic reconnection, because it can now occur over the entire length of the separators rather than being con ned to a small region around the nulls. Finally, the coronal holes are not connected by an open- eld corridor of finite width, but instead are linked by a singular line that coincides with the separatrix footprint of the parasitic polarity. We investigate how the topological features described above evolve in response to motion of the parasitic polarity region. The implications of our results for the sources of the slow solar wind and for coronal and heliospheric observations are discussed.
Combined Shape and Topology Optimization
DEFF Research Database (Denmark)
Christiansen, Asger Nyman
Shape and topology optimization seeks to compute the optimal shape and topology of a structure such that one or more properties, for example stiffness, balance or volume, are improved. The goal of the thesis is to develop a method for shape and topology optimization which uses the Deformable...... Simplicial Complex (DSC) method. Consequently, we present a novel method which combines current shape and topology optimization methods. This method represents the surface of the structure explicitly and discretizes the structure into non-overlapping elements, i.e. a simplicial complex. An explicit surface...... representation usually limits the optimization to minor shape changes. However, the DSC method uses a single explicit representation and still allows for large shape and topology changes. It does so by constantly applying a set of mesh operations during deformations of the structure. Using an explicit instead...
Streamline topology of axisymmetric flows
DEFF Research Database (Denmark)
Brøns, Morten
Topological fluid mechanics in the sense of the present paper is the study and classification of flow patterns close to a critical point. Here we discuss the topology of steady viscous incompressible axisymmetric flows in the vicinity of the axis. Following previous studies the velocity field $v...... to the authors knowledge has not been used systematically to high orders in topological fluid mechanics. We compare the general results with experimental and computational results on the Vogel-Ronneberg flow. We show that the topology changes observed when recirculating bubbles on the vortex axis are created...... and interact follow the topological classification and that the complete set of patterns found is contained in a codimension-4 unfolding of the most simple singular configuration....
Chiral topological insulator of magnons
Li, Bo; Kovalev, Alexey A.
2018-05-01
We propose a magnon realization of 3D topological insulator in the AIII (chiral symmetry) topological class. The topological magnon gap opens due to the presence of Dzyaloshinskii-Moriya interactions. The existence of the topological invariant is established by calculating the bulk winding number of the system. Within our model, the surface magnon Dirac cone is protected by the sublattice chiral symmetry. By analyzing the magnon surface modes, we confirm that the backscattering is prohibited. By weakly breaking the chiral symmetry, we observe the magnon Hall response on the surface due to opening of the gap. Finally, we show that by changing certain parameters, the system can be tuned between the chiral topological insulator, three-dimensional magnon anomalous Hall, and Weyl magnon phases.
Lv, Yang-Yang; Zhang, Bin-Bin; Li, Xiao; Zhang, Kai-Wen; Li, Xiang-Bing; Yao, Shu-Hua; Chen, Y. B.; Zhou, Jian; Zhang, Shan-Tao; Lu, Ming-Hui; Li, Shao-Chun; Chen, Yan-Feng
2018-03-01
The study of ZrT e5 crystals is revived because of the recent theoretical prediction of topological phase in bulk ZrT e5 . However, the current conclusions for the topological character of bulk ZrT e5 are quite contradictory. To resolve this puzzle, we here identify the Berry phase on both b - and c planes of high-quality ZrT e5 crystals by the Shubnikov-de-Hass (SdH) oscillation under tilted magnetic field at 2 K. The angle-dependent SdH oscillation frequency, both on b - and c planes of ZrT e5 , demonstrates the two-dimensional feature. However, phase analysis of SdH verifies that a nontrivial π-Berry phase is observed in the c -plane SdH oscillation, but not in the b -plane one. Compared to bulk Fermi surface predicted by the first-principle calculation, the two-dimensional-like behavior of SdH oscillation measured at b plane comes from the bulk electron. Based on these analyses, it is suggested that bulk ZrT e5 at low temperature (˜2 K) belongs to a weak topological insulator, rather than Dirac semimetal or strong topological insulator as reported previously.
International Nuclear Information System (INIS)
Gregoire, Thomas; Wacker, Jay G.
2002-01-01
New theories of electroweak symmetry breaking have recently been constructed that stabilize the weak scale and do not rely upon supersymmetry. In these theories the Higgs boson is a weakly coupled pseudo-Goldstone boson. In this note we study the class of theories that can be described by theory spaces and show that the fundamental group of theory space describes all the relevant classical physics in the low energy theory. The relationship between the low energy physics and the topological properties of theory space allow a systematic method for constructing theory spaces that give any desired low energy particle content and potential. This provides us with tools for analyzing and constructing new theories of electroweak symmetry breaking. (author)
Tamura, Itiro
1992-01-01
This book provides historical background and a complete overview of the qualitative theory of foliations and differential dynamical systems. Senior mathematics majors and graduate students with background in multivariate calculus, algebraic and differential topology, differential geometry, and linear algebra will find this book an accessible introduction. Upon finishing the book, readers will be prepared to take up research in this area. Readers will appreciate the book for its highly visual presentation of examples in low dimensions. The author focuses particularly on foliations with compact leaves, covering all the important basic results. Specific topics covered include: dynamical systems on the torus and the three-sphere, local and global stability theorems for foliations, the existence of compact leaves on three-spheres, and foliated cobordisms on three-spheres. Also included is a short introduction to the theory of differentiable manifolds.
Plasma transport in mixed magnetic topologies
International Nuclear Information System (INIS)
Hegna, C.C.; Callen, J.D.
1992-12-01
A simple model is introduced to illustrate some features concerning anomalous transport associated with magnetic turbulence. For magnetic topologies that are described as bands of stochasticity separated by regions with good flux surfaces, the transport coefficients deviate significantly from those describing completely stochastic magnetic fields. It is possible to have the electron heat diffusivity exceed a runaway electron diffusion coefficient, despite the existence of widespread magnetic stochasticity. Comparing the ratios of transport coefficients is not an accurate way to determine whether anomalous plasma transport is controlled by electrostatic or electromagnetic fluctuations
Linux software for large topology optimization problems
DEFF Research Database (Denmark)
evolving product, which allows a parallel solution of the PDE, it lacks the important feature that the matrix-generation part of the computations is localized to each processor. This is well-known to be critical for obtaining a useful speedup on a Linux cluster and it motivates the search for a COMSOL......-like package for large topology optimization problems. One candidate for such software is developed for Linux by Sandia Nat’l Lab in the USA being the Sundance system. Sundance also uses a symbolic representation of the PDE and a scalable numerical solution is achieved by employing the underlying Trilinos...
Topological quantum phase transitions and edge states in spin-orbital coupled Fermi gases.
Zhou, Tao; Gao, Yi; Wang, Z D
2014-06-11
We study superconducting states in the presence of spin-orbital coupling and Zeeman field. It is found that a phase transition from a Fulde-Ferrell-Larkin-Ovchinnikov state to the topological superconducting state occurs upon increasing the spin-orbital coupling. The nature of this topological phase transition and its critical property are investigated numerically. Physical properties of the topological superconducting phase are also explored. Moreover, the local density of states is calculated, through which the topological feature may be tested experimentally.
Litinski, Daniel; Kesselring, Markus S.; Eisert, Jens; von Oppen, Felix
2017-07-01
We present a scalable architecture for fault-tolerant topological quantum computation using networks of voltage-controlled Majorana Cooper pair boxes and topological color codes for error correction. Color codes have a set of transversal gates which coincides with the set of topologically protected gates in Majorana-based systems, namely, the Clifford gates. In this way, we establish color codes as providing a natural setting in which advantages offered by topological hardware can be combined with those arising from topological error-correcting software for full-fledged fault-tolerant quantum computing. We provide a complete description of our architecture, including the underlying physical ingredients. We start by showing that in topological superconductor networks, hexagonal cells can be employed to serve as physical qubits for universal quantum computation, and we present protocols for realizing topologically protected Clifford gates. These hexagonal-cell qubits allow for a direct implementation of open-boundary color codes with ancilla-free syndrome read-out and logical T gates via magic-state distillation. For concreteness, we describe how the necessary operations can be implemented using networks of Majorana Cooper pair boxes, and we give a feasibility estimate for error correction in this architecture. Our approach is motivated by nanowire-based networks of topological superconductors, but it could also be realized in alternative settings such as quantum-Hall-superconductor hybrids.
Directory of Open Access Journals (Sweden)
Daniel Litinski
2017-09-01
Full Text Available We present a scalable architecture for fault-tolerant topological quantum computation using networks of voltage-controlled Majorana Cooper pair boxes and topological color codes for error correction. Color codes have a set of transversal gates which coincides with the set of topologically protected gates in Majorana-based systems, namely, the Clifford gates. In this way, we establish color codes as providing a natural setting in which advantages offered by topological hardware can be combined with those arising from topological error-correcting software for full-fledged fault-tolerant quantum computing. We provide a complete description of our architecture, including the underlying physical ingredients. We start by showing that in topological superconductor networks, hexagonal cells can be employed to serve as physical qubits for universal quantum computation, and we present protocols for realizing topologically protected Clifford gates. These hexagonal-cell qubits allow for a direct implementation of open-boundary color codes with ancilla-free syndrome read-out and logical T gates via magic-state distillation. For concreteness, we describe how the necessary operations can be implemented using networks of Majorana Cooper pair boxes, and we give a feasibility estimate for error correction in this architecture. Our approach is motivated by nanowire-based networks of topological superconductors, but it could also be realized in alternative settings such as quantum-Hall–superconductor hybrids.
The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides.
Tsirigos, Konstantinos D; Peters, Christoph; Shu, Nanjiang; Käll, Lukas; Elofsson, Arne
2015-07-01
TOPCONS (http://topcons.net/) is a widely used web server for consensus prediction of membrane protein topology. We hereby present a major update to the server, with some substantial improvements, including the following: (i) TOPCONS can now efficiently separate signal peptides from transmembrane regions. (ii) The server can now differentiate more successfully between globular and membrane proteins. (iii) The server now is even slightly faster, although a much larger database is used to generate the multiple sequence alignments. For most proteins, the final prediction is produced in a matter of seconds. (iv) The user-friendly interface is retained, with the additional feature of submitting batch files and accessing the server programmatically using standard interfaces, making it thus ideal for proteome-wide analyses. Indicatively, the user can now scan the entire human proteome in a few days. (v) For proteins with homology to a known 3D structure, the homology-inferred topology is also displayed. (vi) Finally, the combination of methods currently implemented achieves an overall increase in performance by 4% as compared to the currently available best-scoring methods and TOPCONS is the only method that can identify signal peptides and still maintain a state-of-the-art performance in topology predictions. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.
Equivariant topological quantum field theory and symmetry protected topological phases
Energy Technology Data Exchange (ETDEWEB)
Kapustin, Anton [Division of Physics, California Institute of Technology,1200 E California Blvd, Pasadena, CA, 91125 (United States); Turzillo, Alex [Simons Center for Geometry and Physics, State University of New York,Stony Brook, NY, 11794 (United States)
2017-03-01
Short-Range Entangled topological phases of matter are closely related to Topological Quantum Field Theory. We use this connection to classify Symmetry Protected Topological phases in low dimensions, including the case when the symmetry involves time-reversal. To accomplish this, we generalize Turaev’s description of equivariant TQFT to the unoriented case. We show that invertible unoriented equivariant TQFTs in one or fewer spatial dimensions are classified by twisted group cohomology, in agreement with the proposal of Chen, Gu, Liu and Wen. We also show that invertible oriented equivariant TQFTs in spatial dimension two or fewer are classified by ordinary group cohomology.
Pierce, S. A.
2017-12-01
Decision making for groundwater systems is becoming increasingly important, as shifting water demands increasingly impact aquifers. As buffer systems, aquifers provide room for resilient responses and augment the actual timeframe for hydrological response. Yet the pace impacts, climate shifts, and degradation of water resources is accelerating. To meet these new drivers, groundwater science is transitioning toward the emerging field of Integrated Water Resources Management, or IWRM. IWRM incorporates a broad array of dimensions, methods, and tools to address problems that tend to be complex. Computational tools and accessible cyberinfrastructure (CI) are needed to cross the chasm between science and society. Fortunately cloud computing environments, such as the new Jetstream system, are evolving rapidly. While still targeting scientific user groups systems such as, Jetstream, offer configurable cyberinfrastructure to enable interactive computing and data analysis resources on demand. The web-based interfaces allow researchers to rapidly customize virtual machines, modify computing architecture and increase the usability and access for broader audiences to advanced compute environments. The result enables dexterous configurations and opening up opportunities for IWRM modelers to expand the reach of analyses, number of case studies, and quality of engagement with stakeholders and decision makers. The acute need to identify improved IWRM solutions paired with advanced computational resources refocuses the attention of IWRM researchers on applications, workflows, and intelligent systems that are capable of accelerating progress. IWRM must address key drivers of community concern, implement transdisciplinary methodologies, adapt and apply decision support tools in order to effectively support decisions about groundwater resource management. This presentation will provide an overview of advanced computing services in the cloud using integrated groundwater management case
Rule-based topology system for spatial databases to validate complex geographic datasets
Martinez-Llario, J.; Coll, E.; Núñez-Andrés, M.; Femenia-Ribera, C.
2017-06-01
A rule-based topology software system providing a highly flexible and fast procedure to enforce integrity in spatial relationships among datasets is presented. This improved topology rule system is built over the spatial extension Jaspa. Both projects are open source, freely available software developed by the corresponding author of this paper. Currently, there is no spatial DBMS that implements a rule-based topology engine (considering that the topology rules are designed and performed in the spatial backend). If the topology rules are applied in the frontend (as in many GIS desktop programs), ArcGIS is the most advanced solution. The system presented in this paper has several major advantages over the ArcGIS approach: it can be extended with new topology rules, it has a much wider set of rules, and it can mix feature attributes with topology rules as filters. In addition, the topology rule system can work with various DBMSs, including PostgreSQL, H2 or Oracle, and the logic is performed in the spatial backend. The proposed topology system allows users to check the complex spatial relationships among features (from one or several spatial layers) that require some complex cartographic datasets, such as the data specifications proposed by INSPIRE in Europe and the Land Administration Domain Model (LADM) for Cadastral data.
International Nuclear Information System (INIS)
Ni, Xu; He, Cheng; Sun, Xiao-Chen; Liu, Xiao-ping; Lu, Ming-Hui; Chen, Yan-Feng; Feng, Liang
2015-01-01
Recent explorations of topology in physical systems have led to a new paradigm of condensed matters characterized by topologically protected states and phase transition, for example, topologically protected photonic crystals enabled by magneto-optical effects. However, in other wave systems such as acoustics, topological states cannot be simply reproduced due to the absence of similar magnetics-related sound–matter interactions in naturally available materials. Here, we propose an acoustic topological structure by creating an effective gauge magnetic field for sound using circularly flowing air in the designed acoustic ring resonators. The created gauge magnetic field breaks the time-reversal symmetry, and therefore topological properties can be designed to be nontrivial with non-zero Chern numbers and thus to enable a topological sonic crystal, in which the topologically protected acoustic edge-state transport is observed, featuring robust one-way propagation characteristics against a variety of topological defects and impurities. Our results open a new venue to non-magnetic topological structures and promise a unique approach to effective manipulation of acoustic interfacial transport at will. (paper)
Strain-induced topological magnon phase transitions: applications to kagome-lattice ferromagnets
Owerre, S. A.
2018-06-01
A common feature of topological insulators is that they are characterized by topologically invariant quantity such as the Chern number and the index. This quantity distinguishes a nontrivial topological system from a trivial one. A topological phase transition may occur when there are two topologically distinct phases, and it is usually defined by a gap closing point where the topologically invariant quantity is ill-defined. In this paper, we show that the magnon bands in the strained (distorted) kagome-lattice ferromagnets realize an example of a topological magnon phase transition in the realistic parameter regime of the system. When spin–orbit coupling (SOC) is neglected (i.e. no Dzyaloshinskii–Moriya interaction), we show that all three magnon branches are dispersive with no flat band, and there exists a critical point where tilted Dirac and semi-Dirac point coexist in the magnon spectra. The critical point separates two gapless magnon phases as opposed to the usual phase transition. Upon the inclusion of SOC, we realize a topological magnon phase transition point at the critical strain , where D and J denote the perturbative SOC and the Heisenberg spin exchange interaction respectively. It separates two distinct topological magnon phases with different Chern numbers for and for . The associated anomalous thermal Hall conductivity develops an abrupt change at , due to the divergence of the Berry curvature in momentum space. The proposed topological magnon phase transition is experimentally feasible by applying external perturbations such as uniaxial strain or pressure.
Orbifold line topology and the cosmic microwave background
Energy Technology Data Exchange (ETDEWEB)
Rathaus, Ben; Ben-David, Assaf; Itzhaki, Nissan, E-mail: ben.rathaus@gmail.com, E-mail: bd.assaf@gmail.com, E-mail: nitzhaki@post.tau.ac.il [Raymond and Beverly Sackler Faculty of Exact Sciences, School of Physics and Astronomy, Tel-Aviv University, Ramat-Aviv, 69978 (Israel)
2013-10-01
We extend our study of a universe with a non-classical stringy topology, and consider an orbifold line topology, R × R{sup 2}/Z{sub p}. This topology has a fixed line and identifies each point in space with p−1 other points. An observable imprint of an orbifold line on the CMB is the appearance of up to (p−1)/2 pairs of matching circles. Searching the WMAP data for matching circles, we can rule out an orbifold line topology with p up to 10, except for p = 8. While the significance of the peak at p = 8 varies between data releases of WMAP, it does not appear in Planck data, enabling us to rule out p = 8 as well.
Disorder-induced transitions in resonantly driven Floquet topological insulators
Titum, Paraj; Lindner, Netanel H.; Refael, Gil
2017-08-01
We investigate the effects of disorder in Floquet topological insulators (FTIs) occurring in semiconductor quantum wells. Such FTIs are induced by resonantly driving a transition between the valence and conduction bands. We show that when disorder is added, the topological nature of such FTIs persists as long as there is a mobility gap at the resonant quasienergy. For strong enough disorder, this gap closes and all the states become localized as the system undergoes a transition to a trivial insulator. Interestingly, the effects of disorder are not necessarily adverse: we show that in the same quantum well, disorder can also induce a transition from a trivial to a topological system, thereby establishing a Floquet topological Anderson insulator (FTAI). We identify the conditions on the driving field necessary for observing such a transition.
Topological Classification of Crystalline Insulators through Band Structure Combinatorics
Kruthoff, Jorrit; de Boer, Jan; van Wezel, Jasper; Kane, Charles L.; Slager, Robert-Jan
2017-10-01
We present a method for efficiently enumerating all allowed, topologically distinct, electronic band structures within a given crystal structure in all physically relevant dimensions. The algorithm applies to crystals without time-reversal, particle-hole, chiral, or any other anticommuting or anti-unitary symmetries. The results presented match the mathematical structure underlying the topological classification of these crystals in terms of K -theory and therefore elucidate this abstract mathematical framework from a simple combinatorial perspective. Using a straightforward counting procedure, we classify all allowed topological phases of spinless particles in crystals in class A . Employing this classification, we study transitions between topological phases within class A that are driven by band inversions at high-symmetry points in the first Brillouin zone. This enables us to list all possible types of phase transitions within a given crystal structure and to identify whether or not they give rise to intermediate Weyl semimetallic phases.
Topological Rankings in Communication Networks
DEFF Research Database (Denmark)
Aabrandt, Andreas; Hansen, Vagn Lundsgaard; Træholt, Chresten
2015-01-01
In the theory of communication the central problem is to study how agents exchange information. This problem may be studied using the theory of connected spaces in topology, since a communication network can be modelled as a topological space such that agents can communicate if and only...... if they belong to the same path connected component of that space. In order to study combinatorial properties of such a communication network, notions from algebraic topology are applied. This makes it possible to determine the shape of a network by concrete invariants, e.g. the number of connected components...
Topology optimization for coated structures
DEFF Research Database (Denmark)
Clausen, Anders; Andreassen, Erik; Sigmund, Ole
2015-01-01
This paper presents new results within the design of three-dimensional (3D) coated structures using topology optimization.The work is an extension of a recently published two-dimensional (2D) method for including coatedstructures into the minimum compliance topology optimization problem. The high...... level of control over key parameters demonstrated for the 2D model can likewise be achieved in 3D. The effectiveness of the approach isdemonstrated with numerical examples, which for the 3D problems have been solved using a parallel topology optimization implementation based on the PETSc toolkit....
Topology optimised wavelength dependent splitters
DEFF Research Database (Denmark)
Hede, K. K.; Burgos Leon, J.; Frandsen, Lars Hagedorn
A photonic crystal wavelength dependent splitter has been constructed by utilising topology optimisation1. The splitter has been fabricated in a silicon-on-insulator material (Fig. 1). The topology optimised wavelength dependent splitter demonstrates promising 3D FDTD simulation results....... This complex photonic crystal structure is very sensitive against small fabrication variations from the expected topology optimised design. A wavelength dependent splitter is an important basic building block for high-performance nanophotonic circuits. 1J. S. Jensen and O. Sigmund, App. Phys. Lett. 84, 2022...
Topology Optimization for Convection Problems
DEFF Research Database (Denmark)
Alexandersen, Joe
2011-01-01
This report deals with the topology optimization of convection problems.That is, the aim of the project is to develop, implement and examine topology optimization of purely thermal and coupled thermomechanical problems,when the design-dependent eects of convection are taken into consideration.......This is done by the use of a self-programmed FORTRAN-code, which builds on an existing 2D-plane thermomechanical nite element code implementing during the course `41525 FEM-Heavy'. The topology optimizationfeatures have been implemented from scratch, and allows the program to optimize elastostatic mechanical...
The ABCD of topological recursion
DEFF Research Database (Denmark)
Andersen, Jorgen Ellegaard; Borot, Gaëtan; Chekhov, Leonid O.
Kontsevich and Soibelman reformulated and slightly generalised the topological recursion of math-ph/0702045, seeing it as a quantization of certain quadratic Lagrangians in T*V for some vector space V. KS topological recursion is a procedure which takes as initial data a quantum Airy structure...... the 2d TQFT partition function as a special case), non-commutative Frobenius algebras, loop spaces of Frobenius algebras and a Z2-invariant version of the latter. This Z2-invariant version in the case of a semi-simple Frobenius algebra corresponds to the topological recursion of math-ph/0702045....
Irrational Charge from Topological Order
Moessner, R.; Sondhi, S. L.
2010-10-01
Topological or deconfined phases of matter exhibit emergent gauge fields and quasiparticles that carry a corresponding gauge charge. In systems with an intrinsic conserved U(1) charge, such as all electronic systems where the Coulombic charge plays this role, these quasiparticles are also characterized by their intrinsic charge. We show that one can take advantage of the topological order fairly generally to produce periodic Hamiltonians which endow the quasiparticles with continuously variable, generically irrational, intrinsic charges. Examples include various topologically ordered lattice models, the three-dimensional resonating valence bond liquid on bipartite lattices as well as water and spin ice. By contrast, the gauge charges of the quasiparticles retain their quantized values.
Reconstructing Topological Graphs and Continua
Gartside, Paul; Pitz, Max F.; Suabedissen, Rolf
2015-01-01
The deck of a topological space $X$ is the set $\\mathcal{D}(X)=\\{[X \\setminus \\{x\\}] \\colon x \\in X\\}$, where $[Z]$ denotes the homeomorphism class of $Z$. A space $X$ is topologically reconstructible if whenever $\\mathcal{D}(X)=\\mathcal{D}(Y)$ then $X$ is homeomorphic to $Y$. It is shown that all metrizable compact connected spaces are reconstructible. It follows that all finite graphs, when viewed as a 1-dimensional cell-complex, are reconstructible in the topological sense, and more genera...
Focus on topological quantum computation
International Nuclear Information System (INIS)
Pachos, Jiannis K; Simon, Steven H
2014-01-01
Topological quantum computation started as a niche area of research aimed at employing particles with exotic statistics, called anyons, for performing quantum computation. Soon it evolved to include a wide variety of disciplines. Advances in the understanding of anyon properties inspired new quantum algorithms and helped in the characterization of topological phases of matter and their experimental realization. The conceptual appeal of topological systems as well as their promise for building fault-tolerant quantum technologies fuelled the fascination in this field. This ‘focus on’ collection brings together several of the latest developments in the field and facilitates the synergy between different approaches. (editorial)
When quantum optics meets topology
Amo, Alberto
2018-02-01
Routing photons at the micrometer scale remains one of the greatest challenges of integrated quantum optics. The main difficulty is the scattering losses at bends and splitters in the photonic circuit. Current approaches imply elaborate designs, quite sensitive to fabrication details (1). Inspired by the physics underlying the one-way transport of electrons in topological insulators, on page 666 of this issue, Barik et al. (2) report a topological photonic crystal in which single photons are emitted and routed through bends with negligible loss. The marriage between quantum optics and topology promises new opportunities for compact quantum optics gating and manipulation.
Topological susceptibility from the overlap
DEFF Research Database (Denmark)
Del Debbio, Luigi; Pica, Claudio
2003-01-01
The chiral symmetry at finite lattice spacing of Ginsparg-Wilson fermionic actions constrains the renormalization of the lattice operators; in particular, the topological susceptibility does not require any renormalization, when using a fermionic estimator to define the topological charge....... Therefore, the overlap formalism appears as an appealing candidate to study the continuum limit of the topological susceptibility while keeping the systematic errors under theoretical control. We present results for the SU(3) pure gauge theory using the index of the overlap Dirac operator to study...
International Nuclear Information System (INIS)
Li, Jian; Dueñas-Osorio, Leonardo; Chen, Changkun; Shi, Congling
2016-01-01
As infrastructure systems evolve, their design, maintenance, and optimal performance require mature tools from system reliability theory, as well as principles to handle emerging system features, such as controllability. This paper conducts a comparative study of the connectivity reliability (CR) and topological controllability (TC) of infrastructure systems in terms of three aspects: topology, robustness, and node importance. Taking eight city-level power transmission networks and thousands of artificial networks as examples, this paper reveals that a dense and homogeneous network topology is better to satisfy CR and TC requirements, than more common sparse and heterogeneous networks when node attributes are generic. It is observed that the average degree's impact on CR is more significant than on TC, while degree heterogeneity is more significant on TC. When node attributes are accounted for, for generators the reliability-based node importance measure may underestimate some important nodes in terms of TC, and vice versa—an issue not observed for substation nodes. The findings in this paper suggest a potential new direction to enhance reliability-based design by integrating it with emerging controllability-based measures relevant in the future as infrastructure networks increase reliance on information systems. - Highlights: • Compares connectivity reliability (CR) and topological controllability (TC) metrics. • Develops a controllability index and a controllability-based node importance metric. • CR is more sensitive to degree while TC is more sensitive to degree heterogeneity. • CR-based importance measures match TC-based measures for substation nodes. • CR- and TC-based measures are complementary to identify important generator nodes.
Topological structure of the space of phenotypes: the case of RNA neutral networks.
Directory of Open Access Journals (Sweden)
Jacobo Aguirre
Full Text Available The evolution and adaptation of molecular populations is constrained by the diversity accessible through mutational processes. RNA is a paradigmatic example of biopolymer where genotype (sequence and phenotype (approximated by the secondary structure fold are identified in a single molecule. The extreme redundancy of the genotype-phenotype map leads to large ensembles of RNA sequences that fold into the same secondary structure and can be connected through single-point mutations. These ensembles define neutral networks of phenotypes in sequence space. Here we analyze the topological properties of neutral networks formed by 12-nucleotides RNA sequences, obtained through the exhaustive folding of sequence space. A total of 4(12 sequences fragments into 645 subnetworks that correspond to 57 different secondary structures. The topological analysis reveals that each subnetwork is far from being random: it has a degree distribution with a well-defined average and a small dispersion, a high clustering coefficient, and an average shortest path between nodes close to its minimum possible value, i.e. the Hamming distance between sequences. RNA neutral networks are assortative due to the correlation in the composition of neighboring sequences, a feature that together with the symmetries inherent to the folding process explains the existence of communities. Several topological relationships can be analytically derived attending to structural restrictions and generic properties of the folding process. The average degree of these phenotypic networks grows logarithmically with their size, such that abundant phenotypes have the additional advantage of being more robust to mutations. This property prevents fragmentation of neutral networks and thus enhances the navigability of sequence space. In summary, RNA neutral networks show unique topological properties, unknown to other networks previously described.
Formation of topological defects
International Nuclear Information System (INIS)
Vachaspati, T.
1991-01-01
We consider the formation of point and line topological defects (monopoles and strings) from a general point of view by allowing the probability of formation of a defect to vary. To investigate the statistical properties of the defects at formation we give qualitative arguments that are independent of any particular model in which such defects occur. These arguments are substantiated by numerical results in the case of strings and for monopoles in two dimensions. We find that the network of strings at formation undergoes a transition at a certain critical density below which there are no infinite strings and the closed-string (loop) distribution is exponentially suppressed at large lengths. The results are contrasted with the results of statistical arguments applied to a box of strings in dynamical equilibrium. We argue that if point defects were to form with smaller probability, the distance between monopoles and antimonopoles would decrease while the monopole-to-monopole distance would increase. We find that monopoles are always paired with antimonopoles but the pairing becomes clean only when the number density of defects is small. A similar reasoning would also apply to other defects
International Nuclear Information System (INIS)
Rome, J.A.; Peng, Y.K.M.
1978-09-01
Guiding center orbits in noncircular axisymmetric tokamak plasmas are studied in the constants of motion (COM) space of (v, zeta, psi/sub m/). Here, v is the particle speed, zeta is the pitch angle with respect to the parallel equilibrium current, J/sub parallels/, and psi/sub m/ is the maximum value of the poloidal flux function (increasing from the magnetic axis) along the guiding center orbit. Two D-shaped equilibria in a flux-conserving tokamak having β's of 1.3% and 7.7% are used as examples. In this space, each confined orbit corresponds to one and only one point and different types of orbits (e.g., circulating, trapped, stagnation and pinch orbits) are represented by separate regions or surfaces in the space. It is also shown that the existence of an absolute minimum B in the higher β (7.7%) equilibrium results in a dramatically different orbit topology from that of the lower β case. The differences indicate the confinement of additional high energy (v → c, within the guiding center approximation) trapped, co- and countercirculating particles whose orbit psi/sub m/ falls within the absolute B well
Renormalization of topological field theory
International Nuclear Information System (INIS)
Birmingham, D.; Rakowski, M.; Thompson, G.
1988-11-01
One loop corrections to topological field theory in three and four dimensions are presented. By regularizing determinants, we compute the effective action and β-function in four dimensional topological Yang-Mills theory and find that the BRST symmetry is preserved. Moreover, the minima of the effective action still correspond to instanton configurations. In three dimensions, an analysis of the Chern-Simons theory shows that the topological nature of the theory is also preserved to this order. In addition, we find that this theory possesses an extra supersymmetry when quantized in the Landau gauge. Using dimensional regularization, we then study the Ward identities of the extended BRST symmetry in the three dimensional topological Yang-Mills-Higgs model. (author). 22 refs
Topology optimized electrothermal polysilicon microgrippers
DEFF Research Database (Denmark)
Sardan Sukas, Özlem; Petersen, Dirch Hjorth; Mølhave, Kristian
2008-01-01
This paper presents the topology optimized design procedure and fabrication of electrothermal polysilicon microgrippers for nanomanipulation purposes. Performance of the optimized microactuators is compared with a conventional three-beam microactuator design through finite element analysis...
Cartography – morphology – topology
DEFF Research Database (Denmark)
Dinesen, Cort Ross; Peder Pedersen, Claus
I 2004 a Summer School was established on the Greek island of Hydra. The was to be the basis of research-based morphological and topological studies, which have since taken place for 4 weeks of every year. Starting with Hydra’s topography different ways of considering topology were developed....... The work was approached from a new angle every year through a series of associated questions, resulting in an extensive body of drawings describing the various discourses raised. The developed observational forms reflected in the collected body of drawings constitute a topological landscape with a great...... and developing topological emergence as a passage between cartographic appropriation and creative becoming while simultaneously lifting the material out of its mimetic reference, makes room for the of a movement towards a production of meaning as well as a basis for initiating architectonic practices. We seek...
Topological Insulator Nanowires and Nanoribbons
Kong, Desheng; Randel, Jason C.; Peng, Hailin; Cha, Judy J.; Meister, Stefan; Lai, Keji; Chen, Yulin; Shen, Zhi-Xun; Manoharan, Hari C.; Cui, Yi
2010-01-01
Recent theoretical calculations and photoemission spectroscopy measurements on the bulk Bi2Se3 material show that it is a three-dimensional topological insulator possessing conductive surface states with nondegenerate spins, attractive
Topology of helical fluid flow
DEFF Research Database (Denmark)
Andersen, Morten; Brøns, Morten
2014-01-01
function for the topology of the streamline pattern in incompressible flows. On this basis, we perform a comprehensive study of the topology of the flow field generated by a helical vortex filament in an ideal fluid. The classical expression for the stream function obtained by Hardin (Hardin, J. C. 1982...... the zeroes of a single real function of one variable, and we show that three different flow topologies can occur, depending on a single dimensionless parameter. By including the self-induced velocity on the vortex filament by a localised induction approximation, the stream function is slightly modified...... and an extra parameter is introduced. In this setting two new flow topologies arise, but not more than two critical points occur for any combination of parameters....
A topological quantum optics interface.
Barik, Sabyasachi; Karasahin, Aziz; Flower, Christopher; Cai, Tao; Miyake, Hirokazu; DeGottardi, Wade; Hafezi, Mohammad; Waks, Edo
2018-02-09
The application of topology in optics has led to a new paradigm in developing photonic devices with robust properties against disorder. Although considerable progress on topological phenomena has been achieved in the classical domain, the realization of strong light-matter coupling in the quantum domain remains unexplored. We demonstrate a strong interface between single quantum emitters and topological photonic states. Our approach creates robust counterpropagating edge states at the boundary of two distinct topological photonic crystals. We demonstrate the chiral emission of a quantum emitter into these modes and establish their robustness against sharp bends. This approach may enable the development of quantum optics devices with built-in protection, with potential applications in quantum simulation and sensing. Copyright © 2018 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.
Topology Based Domain Search (TBDS)
National Research Council Canada - National Science Library
Manning, William
2002-01-01
This effort will explore radical changes in the way Domain Name System (DNS) is used by endpoints in a network to improve the resilience of the endpoint and its applications in the face of dynamically changing infrastructure topology...
Two-dimensional topological photonics
Khanikaev, Alexander B.; Shvets, Gennady
2017-12-01
Originating from the studies of two-dimensional condensed-matter states, the concept of topological order has recently been expanded to other fields of physics and engineering, particularly optics and photonics. Topological photonic structures have already overturned some of the traditional views on wave propagation and manipulation. The application of topological concepts to guided wave propagation has enabled novel photonic devices, such as reflection-free sharply bent waveguides, robust delay lines, spin-polarized switches and non-reciprocal devices. Discrete degrees of freedom, widely used in condensed-matter physics, such as spin and valley, are now entering the realm of photonics. In this Review, we summarize the latest advances in this highly dynamic field, with special emphasis on the experimental work on two-dimensional photonic topological structures.
Topological gravity with minimal matter
International Nuclear Information System (INIS)
Li Keke
1991-01-01
Topological minimal matter, obtained by twisting the minimal N = 2 supeconformal field theory, is coupled to two-dimensional topological gravity. The free field formulation of the coupled system allows explicit representations of BRST charge, physical operators and their correlation functions. The contact terms of the physical operators may be evaluated by extending the argument used in a recent solution of topological gravity without matter. The consistency of the contact terms in correlation functions implies recursion relations which coincide with the Virasoro constraints derived from the multi-matrix models. Topological gravity with minimal matter thus provides the field theoretic description for the multi-matrix models of two-dimensional quantum gravity. (orig.)
Classical topology and quantum states
Indian Academy of Sciences (India)
structures) can be reconstructed using Gel'fand–Naimark theory and its ..... pair production and annihilation [23], quantum gravity too can be expected to become ..... showed their utility for research of current interest such as topology change ...
Topological objects in hadron physics
International Nuclear Information System (INIS)
Rho, M.
1988-01-01
The notion of topological objects in hadronic physics is discussed, with emphasis on the role of the Wess-Zumino term and induced transmutation of quantum numbers in chiral bag models. Some applications to nuclear systems are given
Intuitive concepts in elementary topology
Arnold, BH
2011-01-01
Classroom-tested and much-cited, this concise text is designed for undergraduates. It offers a valuable and instructive introduction to the basic concepts of topology, taking an intuitive rather than an axiomatic viewpoint. 1962 edition.
Extended topologies of tapped-inductor Z-source inverters
DEFF Research Database (Denmark)
Zhu, Miao; Li, Ding; Gao, Feng
2011-01-01
In this paper, two distinct types of tapped-inductor Z-source impedance networks are proposed for implementing high performance voltage-type inverters topologies with strong voltage boost inversion abilities and less components' stresses. All proposed topologies can in principle be unified...... into a generic network entity, which is termed hybrid-source tapped-inductor impedance network. The resulting novel Z-source inverters would have a higher output voltage gain and other unique advantages that currently have not yet been investigated. Theoretical analysis for explaining these operating features...
Protein folding and the organization of the protein topology universe
DEFF Research Database (Denmark)
Lindorff-Larsen,, Kresten; Røgen, Peter; Paci, Emanuele
2005-01-01
residues and, in addition, that the topology of the transition state is closer to that of the native state than to that of any other fold in the protein universe. Here, we review the evidence for these conclusions and suggest a molecular mechanism that rationalizes these findings by presenting a view...... of protein folds that is based on the topological features of the polypeptide backbone, rather than the conventional view that depends on the arrangement of different types of secondary-structure elements. By linking the folding process to the organization of the protein structure universe, we propose...
A first course in topology an introduction to mathematical thinking
Conover, Robert A
1975-01-01
Students must prove all of the theorems in this undergraduate-level text, which features extensive outlines to assist in study and comprehension. Thorough and well-written, the treatment provides sufficient material for a one-year undergraduate course. The logical presentation anticipates students' questions, and complete definitions and expositions of topics relate new concepts to previously discussed subjects.Most of the material focuses on point-set topology with the exception of the last chapter. Topics include sets and functions, infinite sets and transfinite numbers, topological spaces a
Topologically-based visualization of large-scale volume data
International Nuclear Information System (INIS)
Takeshima, Y.; Tokunaga, M.; Fujishiro, I.; Takahashi, S.
2004-01-01
Due to the recent progress in the performance of computing/measurement environments and the advent of ITBL environments, volume datasets have become larger and more complicated. Although computer visualization is one of the tools to analyze such datasets effectively, it is almost impossible to adjust the visualization parameter value by trial and error without taking the feature of a given volume dataset into consideration. In this article, we introduce a scheme of topologically-based volume visualization, which is intended to choose appropriate visualization parameter values automatically through topological volume skeletonization. (author)
Topological materials discovery using electron filling constraints
Chen, Ru; Po, Hoi Chun; Neaton, Jeffrey B.; Vishwanath, Ashvin
2018-01-01
Nodal semimetals are classes of topological materials that have nodal-point or nodal-line Fermi surfaces, which give them novel transport and topological properties. Despite being highly sought after, there are currently very few experimental realizations, and identifying new materials candidates has mainly relied on exhaustive database searches. Here we show how recent studies on the interplay between electron filling and nonsymmorphic space-group symmetries can guide the search for filling-enforced nodal semimetals. We recast the previously derived constraints on the allowed band-insulator fillings in any space group into a new form, which enables effective screening of materials candidates based solely on their space group, electron count in the formula unit, and multiplicity of the formula unit. This criterion greatly reduces the computation load for discovering topological materials in a database of previously synthesized compounds. As a demonstration, we focus on a few selected nonsymmorphic space groups which are predicted to host filling-enforced Dirac semimetals. Of the more than 30,000 entires listed, our filling criterion alone eliminates 96% of the entries before they are passed on for further analysis. We discover a handful of candidates from this guided search; among them, the monoclinic crystal Ca2Pt2Ga is particularly promising.
Casimir amplitudes in topological quantum phase transitions.
Griffith, M A; Continentino, M A
2018-01-01
Topological phase transitions constitute a new class of quantum critical phenomena. They cannot be described within the usual framework of the Landau theory since, in general, the different phases cannot be distinguished by an order parameter, neither can they be related to different symmetries. In most cases, however, one can identify a diverging length at these topological transitions. This allows us to describe them using a scaling approach and to introduce a set of critical exponents that characterize their universality class. Here we consider some relevant models of quantum topological transitions associated with well-defined critical exponents that are related by a quantum hyperscaling relation. We extend to these models a finite-size scaling approach based on techniques for calculating the Casimir force in electromagnetism. This procedure allows us to obtain universal Casimir amplitudes at their quantum critical points. Our results verify the validity of finite-size scaling in these systems and confirm the values of the critical exponents obtained previously.
Topology Optimization of Nanophotonic Devices
DEFF Research Database (Denmark)
Yang, Lirong
This thesis explores the various aspects of utilizing topology optimization in designing nanophotonic devices. Either frequency-domain or time-domain methods is used in combination with the optimization algorithms, depending on various aims of the designing problems. The frequency-domain methods...... lengthscale and flexible pulse delay are addressed to demonstrate time-domain based topology optimization’s potential in designing complicated photonic structures with specifications on the time characteristics of pulses....
Elements of mathematics general topology
Bourbaki, Nicolas
1995-01-01
This is the softcover reprint of the English translation of 1971 (available from Springer since 1989) of the first 4 chapters of Bourbaki's Topologie générale. It gives all the basics of the subject, starting from definitions. Important classes of topological spaces are studied, uniform structures are introduced and applied to topological groups. Real numbers are constructed and their properties established. Part II, comprising the later chapters, Ch. 5-10, is also available in English in softcover.
Topological interpretation of Luttinger theorem
Seki, Kazuhiro; Yunoki, Seiji
2017-01-01
Based solely on the analytical properties of the single-particle Green's function of fermions at finite temperatures, we show that the generalized Luttinger theorem inherently possesses topological aspects. The topological interpretation of the generalized Luttinger theorem can be introduced because i) the Luttinger volume is represented as the winding number of the single-particle Green's function and thus ii) the deviation of the theorem, expressed with a ratio between the interacting and n...
The topology of galaxy clustering.
Coles, P.; Plionis, M.
The authors discuss an objective method for quantifying the topology of the galaxy distribution using only projected galaxy counts. The method is a useful complement to fully three-dimensional studies of topology based on the genus by virtue of the enormous projected data sets available. Applying the method to the Lick counts they find no evidence for large-scale non-gaussian behaviour, whereas the small-scale distribution is strongly non-gaussian, with a shift in the meatball direction.
Symmetry and topology in evolution
International Nuclear Information System (INIS)
Lukacs, B.; Berczi, S.; Molnar, I.; Paal, G.
1991-10-01
This volume contains papers of an interdisciplinary symposium on evolution. The aim of this symposium, held in Budapest, Hungary, 28-29 May 1991, was to clear the role of symmetry and topology at different levels of the evolutionary processes. 21 papers were presented, their topics included evolution of the Universe, symmetry of elementary particles, asymmetry of the Earth, symmetry and asymmetry of biomolecules, symmetry and topology of lining objects, human asymmetry etc. (R.P.)
Topological excitations in semiconductor heterostructures
International Nuclear Information System (INIS)
Koushik, R.; Mukerjee, Subroto; Ghosh, Arindam; Baenninger, Matthias; Narayan, Vijay; Pepper, Michael; Farrer, Ian; Ritchie, David A.
2013-01-01
Topological defects play an important role in the melting phenomena in two-dimensions. In this work, we report experimental observation of topological defect induced melting in two-dimensional electron systems (2DES) in the presence of strong Coulomb interaction and disorder. The phenomenon is characterised by measurement of conductivity which goes to zero in a Berezinskii-Kosterlitz-Thouless like transition. Further evidence is provided via low-frequency conductivity noise measurements
Topology Optimized Photonic Wire Splitters
DEFF Research Database (Denmark)
Frandsen, Lars Hagedorn; Borel, Peter Ingo; Jensen, Jakob Søndergaard
2006-01-01
Photonic wire splitters have been designed using topology optimization. The splitters have been fabricated in silicon-on-insulator material and display broadband low-loss 3dB splitting in a bandwidth larger than 100 nm.......Photonic wire splitters have been designed using topology optimization. The splitters have been fabricated in silicon-on-insulator material and display broadband low-loss 3dB splitting in a bandwidth larger than 100 nm....
Topological surface states in nodal superconductors.
Schnyder, Andreas P; Brydon, Philip M R
2015-06-24
Topological superconductors have become a subject of intense research due to their potential use for technical applications in device fabrication and quantum information. Besides fully gapped superconductors, unconventional superconductors with point or line nodes in their order parameter can also exhibit nontrivial topological characteristics. This article reviews recent progress in the theoretical understanding of nodal topological superconductors, with a focus on Weyl and noncentrosymmetric superconductors and their protected surface states. Using selected examples, we review the bulk topological properties of these systems, study different types of topological surface states, and examine their unusual properties. Furthermore, we survey some candidate materials for topological superconductivity and discuss different experimental signatures of topological surface states.
Dynamical topological invariant after a quantum quench
Yang, Chao; Li, Linhu; Chen, Shu
2018-02-01
We show how to define a dynamical topological invariant for one-dimensional two-band topological systems after a quantum quench. By analyzing general two-band models of topological insulators, we demonstrate that the reduced momentum-time manifold can be viewed as a series of submanifolds S2, and thus we are able to define a dynamical topological invariant on each of the spheres. We also unveil the intrinsic relation between the dynamical topological invariant and the difference in the topological invariant of the initial and final static Hamiltonian. By considering some concrete examples, we illustrate the calculation of the dynamical topological invariant and its geometrical meaning explicitly.
Identifying Image Manipulation Software from Image Features
2015-03-26
scales”. Educational and Psychological Measurement, 20(1):37, 1960. 7. Committee, Technical Standardization. Exchangeable image file format for digital...Digital Forensics. Springer, 2005. 23. Photography, Technical Committee. Photography and graphic technology - Ex- tended colour encodings for digital image
Cyberprints: Identifying Cyber Attackers by Feature Analysis
Blakely, Benjamin A.
2012-01-01
The problem of attributing cyber attacks is one of increasing importance. Without a solid method of demonstrating the origin of a cyber attack, any attempts to deter would-be cyber attackers are wasted. Existing methods of attribution make unfounded assumptions about the environment in which they will operate: omniscience (the ability to gather,…
Topology identification of the complex networks with non-delayed and delayed coupling
International Nuclear Information System (INIS)
Guo Wanli; Chen Shihua; Sun Wen
2009-01-01
In practical situation, there exists many uncertain information in complex networks, such as the topological structures. So the topology identification is an important issue in the research of the complex networks. Based on LaSalle's invariance principle, in this Letter, an adaptive controlling method is proposed to identify the topology of a weighted general complex network model with non-delayed and delayed coupling. Finally, simulation results show that the method is effective.
Topological phase transition in the quench dynamics of a one-dimensional Fermi gas
Wang, Pei; Yi, Wei; Xianlong, Gao
2014-01-01
We study the quench dynamics of a one-dimensional ultracold Fermi gas in an optical lattice potential with synthetic spin-orbit coupling. At equilibrium, the ground state of the system can undergo a topological phase transition and become a topological superfluid with Majorana edge states. As the interaction is quenched near the topological phase boundary, we identify an interesting dynamical phase transition of the quenched state in the long-time limit, characterized by an abrupt change of t...
Topological orders in rigid states
International Nuclear Information System (INIS)
Wen, X.G.
1990-01-01
The authors study a new kind of ordering topological order in rigid states (the states with no local gapless excitations). This paper concentrates on characterization of the different topological orders. As an example the authors discuss in detail chiral spin states of 2+1 dimensional spin systems. Chiral spin states are described by the topological Chern-Simons theories in the continuum limit. The authors show that the topological orders can be characterized by a non-Abelian gauge structure over the moduli space which parametrizes a family of the model Hamiltonians supporting topologically ordered ground states. In 2 + 1 dimensions, the non-Abelian gauge structure determines possible fractional statistics of the quasi-particle excitations over the topologically ordered ground states. The dynamics of the low lying global excitations is shown to be independent of random spatial dependent perturbations. The ground state degeneracy and the non-Abelian gauge structures discussed in this paper are very robust, even against those perturbations that break translation symmetry. The authors also discuss the symmetry properties of the degenerate ground states of chiral spin states. The authors find that some degenerate ground states of chiral spin states on torus carry non-trivial quantum numbers of the 90 degrees rotation
Topological Photonics for Continuous Media
Silveirinha, Mario
Photonic crystals have revolutionized light-based technologies during the last three decades. Notably, it was recently discovered that the light propagation in photonic crystals may depend on some topological characteristics determined by the manner how the light states are mutually entangled. The usual topological classification of photonic crystals explores the fact that these structures are periodic. The periodicity is essential to ensure that the underlying wave vector space is a closed surface with no boundary. In this talk, we prove that it is possible calculate Chern invariants for a wide class of continuous bianisotropic electromagnetic media with no intrinsic periodicity. The nontrivial topology of the relevant continuous materials is linked with the emergence of edge states. Moreover, we will demonstrate that continuous photonic media with the time-reversal symmetry can be topologically characterized by a Z2 integer. This novel classification extends for the first time the theory of electronic topological insulators to a wide range of photonic platforms, and is expected to have an impact in the design of novel photonic systems that enable a topologically protected transport of optical energy. This work is supported in part by Fundacao para a Ciencia e a Tecnologia Grant Number PTDC/EEI-TEL/4543/2014.
Topology change and quantum physics
International Nuclear Information System (INIS)
Balachandran, A.P.; Marmo, G.; Simoni, A.
1995-01-01
The role of topology in elementary quantum physics is discussed in detail. It is argued that attributes of classical spatial topology emerge from properties of state vectors with suitably smooth time evolution. Equivalently, they emerge from considerations on the domain of the quantum Hamiltonian, this domain being often specified by boundary conditions in elementary quantum physics. Examples are presented where classical topology is changed by smoothly altering the boundary conditions. When the parameters labelling the latter are treated as quantum variables, quantum states need not give a well-defined classical topology, instead they can give a quantum superposition of such topologies. An existing argument of Sorkin based on the spin-statistics connection and indicating the necessity of topology change in quantum gravity is recalled. It is suggested therefrom and our results here that Einstein gravity and its minor variants are effective theories of a deeper description with additional novel degrees of freedom. Other reasons for suspecting such a microstructure are also summarized. (orig.)
Relativity of topology and dynamics
International Nuclear Information System (INIS)
Finkelstein, D.; Rodriguez, E.
1984-01-01
Recent developments in quantum set theory are used to formulate a program for quantum topological physics. The world is represented in Hilbert space whose psi vectors represent abstract complexes generated from the null set by one bracket operator and the usual Grassmann (or Clifford) product. Such a theory may be more basic than field theory, in that it may generate its own natural topology, time, kinematics and dynamics, without benefit of an absolute time-space dimension, topology, or Hamiltonian. For example there is a natural expression for the quantum gravitational field in terms of quantum topological operators. In such a theory the usual spectrum of possible dimensions describes only one of an indefinite hierarchy of levels, each with a similar spectrum, describing nonspatial infrastructure. While c simplices have no continuous symmetry, the q simplex has an orthogonal group (O(m,n). Because quantum theory cannot take the universe as physical system, a ''third relativity'' is proposed. The division between observer and observed is arbitrary. Then it is wrong to ask for ''the'' topology and dynamics of a system, in the same sense that it is wrong to ask for the ''the'' psi vectors of a system; topology and dynamics, like psi vectors, are not absolute but relative to the observer. (author)
Topology change and quantum physics
International Nuclear Information System (INIS)
Balachandran, A.P.; Marmo, G.; Simoni, A.
1995-03-01
The role of topology in elementary quantum physics is discussed in detail. It is argued that attributes of classical spatial topology emerge from properties of state vectors with suitably smooth time evolution. Equivalently, they emerge from considerations on the domain of the quantum Hamiltonian, this domain being often specified by boundary conditions in elementary quantum physics. Several examples are presented where classical topology is changed by smoothly altering the boundary conditions. When the parameters labelling the latter are treated as quantum variables, quantum states need not give a well-defined classical topology, instead they can give a quantum superposition of such topologies. An existing argument of Sorkin based on the spin-statistics connection and indicating the necessity of topology change in quantum gravity is recalled. It is suggested therefrom and our results here that Einstein gravity and its minor variants are effective theories of a deeper description with additional novel degrees of freedom. Other reasons for suspecting such a microstructure are also summarized. (author). 22 refs, 3 figs
Topological BF field theory description of topological insulators
International Nuclear Information System (INIS)
Cho, Gil Young; Moore, Joel E.
2011-01-01
Research highlights: → We show that a BF theory is the effective theory of 2D and 3D topological insulators. → The non-gauge-invariance of the bulk theory yields surface terms for a bosonized Dirac fermion. → The 'axion' term in electromagnetism is correctly obtained from gapped surfaces. → Generalizations to possible fractional phases are discussed in closing. - Abstract: Topological phases of matter are described universally by topological field theories in the same way that symmetry-breaking phases of matter are described by Landau-Ginzburg field theories. We propose that topological insulators in two and three dimensions are described by a version of abelian BF theory. For the two-dimensional topological insulator or quantum spin Hall state, this description is essentially equivalent to a pair of Chern-Simons theories, consistent with the realization of this phase as paired integer quantum Hall effect states. The BF description can be motivated from the local excitations produced when a π flux is threaded through this state. For the three-dimensional topological insulator, the BF description is less obvious but quite versatile: it contains a gapless surface Dirac fermion when time-reversal-symmetry is preserved and yields 'axion electrodynamics', i.e., an electromagnetic E . B term, when time-reversal symmetry is broken and the surfaces are gapped. Just as changing the coefficients and charges of 2D Chern-Simons theory allows one to obtain fractional quantum Hall states starting from integer states, BF theory could also describe (at a macroscopic level) fractional 3D topological insulators with fractional statistics of point-like and line-like objects.
Topology optimization under stochastic stiffness
Asadpoure, Alireza
Topology optimization is a systematic computational tool for optimizing the layout of materials within a domain for engineering design problems. It allows variation of structural boundaries and connectivities. This freedom in the design space often enables discovery of new, high performance designs. However, solutions obtained by performing the optimization in a deterministic setting may be impractical or suboptimal when considering real-world engineering conditions with inherent variabilities including (for example) variabilities in fabrication processes and operating conditions. The aim of this work is to provide a computational methodology for topology optimization in the presence of uncertainties associated with structural stiffness, such as uncertain material properties and/or structural geometry. Existing methods for topology optimization under deterministic conditions are first reviewed. Modifications are then proposed to improve the numerical performance of the so-called Heaviside Projection Method (HPM) in continuum domains. Next, two approaches, perturbation and Polynomial Chaos Expansion (PCE), are proposed to account for uncertainties in the optimization procedure. These approaches are intrusive, allowing tight and efficient coupling of the uncertainty quantification with the optimization sensitivity analysis. The work herein develops a robust topology optimization framework aimed at reducing the sensitivity of optimized solutions to uncertainties. The perturbation-based approach combines deterministic topology optimization with a perturbation method for the quantification of uncertainties. The use of perturbation transforms the problem of topology optimization under uncertainty to an augmented deterministic topology optimization problem. The PCE approach combines the spectral stochastic approach for the representation and propagation of uncertainties with an existing deterministic topology optimization technique. The resulting compact representations
Multiple topological phase transitions in a gyromagnetic photonic crystal
Chen, Zeguo
2017-04-19
We present the design of a tunable two-dimensional photonic crystal that exhibits multiple topological phases, including a conventional insulator phase, a quantum spin Hall phase, and a quantum anomalous Hall phase under different combinations of geometric parameters and external magnetic fields. Our photonic crystal enables a platform to study the topology evolution attributed to the interplay between crystalline symmetry and time-reversal symmetry. A four-band tight-binding model unambiguously reveals that the topological property is associated with the pseudospin orientations and that it is characterized by the spin Chern number. The emerging quantum anomalous Hall phase features a single helical edge state that is locked by a specific pseudospin. Simulation results demonstrate that the propagation of such a single helical edge state is robust against magnetic impurities. Potential applications, such as spin splitters, are described.
Torsional Topological Invariants (and their relevance for real life)
Chandia, O; Chandia, Osvaldo; Zanelli, Jorge
1997-01-01
The existence of topological invariants analogous to Chern/Pontryagin classes for a standard $SO(D)$ or SU(N) connection, but constructed out of the torsion tensor, is discussed. These invariants exhibit many of the features of the Chern/Pontryagin invariants: they can be expressed as integrals over the manifold of local densities and take integer values on compact spaces without boundary; their spectrum is determined by the homotopy groups determined by the connection bundle but depend also on the bundle of local orthonormal frames on the tangent space of the manifold. It is shown that in spacetimes with nonvanishing torsion there can occur topologically stable configurations associated with the frame bundle which are independent of the curvature. Explicit examples of topologically stable configurations carrying nonvanishing instanton number in four and eight dimensions are given, and they can be conjectured to exist in dimension $4k$. It is also shown that the chiral anomaly in a spacetime with torsion rece...
Topological phase transitions from Harper to Fibonacci crystals
Amit, Guy; Dana, Itzhack
2018-02-01
Topological properties of Harper and generalized Fibonacci chains are studied in crystalline cases, i.e., for rational values of the modulation frequency. The Harper and Fibonacci crystals at fixed frequency are connected by an interpolating one-parameter Hamiltonian. As the parameter is varied, one observes topological phase transitions, i.e., changes in the Chern integers of two bands due to the degeneracy of these bands at some parameter value. For small frequency, corresponding to a semiclassical regime, the degeneracies are shown to occur when the average energy of the two bands is approximately equal to the energy of the classical separatrix. Spectral and topological features of the Fibonacci crystal for small frequency leave a clear imprint on the corresponding Hofstadter butterfly for arbitrary frequency.
Investigating the Cosmic Web with Topological Data Analysis
Cisewski-Kehe, Jessi; Wu, Mike; Fasy, Brittany; Hellwing, Wojciech; Lovell, Mark; Rinaldo, Alessandro; Wasserman, Larry
2018-01-01
Data exhibiting complicated spatial structures are common in many areas of science (e.g. cosmology, biology), but can be difficult to analyze. Persistent homology is a popular approach within the area of Topological Data Analysis that offers a new way to represent, visualize, and interpret complex data by extracting topological features, which can be used to infer properties of the underlying structures. In particular, TDA may be useful for analyzing the large-scale structure (LSS) of the Universe, which is an intricate and spatially complex web of matter. In order to understand the physics of the Universe, theoretical and computational cosmologists develop large-scale simulations that allow for visualizing and analyzing the LSS under varying physical assumptions. Each point in the 3D data set represents a galaxy or a cluster of galaxies, and topological summaries ("persistent diagrams") can be obtained summarizing the different ordered holes in the data (e.g. connected components, loops, voids).The topological summaries are interesting and informative descriptors of the Universe on their own, but hypothesis tests using the topological summaries would provide a way to make more rigorous comparisons of LSS under different theoretical models. For example, the received cosmological model has cold dark matter (CDM); however, while the case is strong for CDM, there are some observational inconsistencies with this theory. Another possibility is warm dark matter (WDM). It is of interest to see if a CDM Universe and WDM Universe produce LSS that is topologically distinct.We present several possible test statistics for two-sample hypothesis tests using the topological summaries, carryout a simulation study to investigate the suitableness of the proposed test statistics using simulated data from a variation of the Voronoi foam model, and finally we apply the proposed inference framework to WDM vs. CDM cosmological simulation data.
Polydispersity-driven topological defects as order-restoring excitations.
Yao, Zhenwei; Olvera de la Cruz, Monica
2014-04-08
The engineering of defects in crystalline matter has been extensively exploited to modify the mechanical and electrical properties of many materials. Recent experiments on manipulating extended defects in graphene, for example, show that defects direct the flow of electric charges. The fascinating possibilities offered by defects in two dimensions, known as topological defects, to control material properties provide great motivation to perform fundamental investigations to uncover their role in various systems. Previous studies mostly focus on topological defects in 2D crystals on curved surfaces. On flat geometries, topological defects can be introduced via density inhomogeneities. We investigate here topological defects due to size polydispersity on flat surfaces. Size polydispersity is usually an inevitable feature of a large variety of systems. In this work, simulations show well-organized induced topological defects around an impurity particle of a wrong size. These patterns are not found in systems of identical particles. Our work demonstrates that in polydispersed systems topological defects play the role of restoring order. The simulations show a perfect hexagonal lattice beyond a small defective region around the impurity particle. Elasticity theory has demonstrated an analogy between the elementary topological defects named disclinations to electric charges by associating a charge to a disclination, whose sign depends on the number of its nearest neighbors. Size polydispersity is shown numerically here to be an essential ingredient to understand short-range attractions between like-charge disclinations. Our study suggests that size polydispersity has a promising potential to engineer defects in various systems including nanoparticles and colloidal crystals.
Topologically protected bound states in one-dimensional Floquet acoustic waveguide systems
Peng, Yu-Gui; Geng, Zhi-Guo; Zhu, Xue-Feng
2018-03-01
Topological manipulation of sound has recently been a hot spot in acoustics due to the fascinating property of defect immune transport. To the best of our knowledge, the studies on one-dimensional (1D) topological acoustic systems hitherto mainly focus on the case of the Su-Schrieffer-Heeger model. Here, we show that topologically protected bound states may also exist in 1D periodically modulated acoustic waveguide systems, viz., 1D Floquet topological insulators. The results show that tuning the coupling strength in a waveguide lattice could trigger topological phase transition, which gives rise to topologically protected interface states as we put together two waveguide lattices featured with different topological phases or winding numbers. However, for the combined lattice, input at the waveguides other than the interfacial ones will excite bulk states. We have further verified the robustness of interface bound states against the variation of coupling strengths between the two distinct waveguide lattices. This work extends the scope of topological acoustics and may promote potential applications for acoustic devices with topological functionalities.
Integrated topology and shape optimization in structural design
Bremicker, M.; Chirehdast, M.; Kikuchi, N.; Papalambros, P. Y.
1990-01-01
Structural optimization procedures usually start from a given design topology and vary its proportions or boundary shapes to achieve optimality under various constraints. Two different categories of structural optimization are distinguished in the literature, namely sizing and shape optimization. A major restriction in both cases is that the design topology is considered fixed and given. Questions concerning the general layout of a design (such as whether a truss or a solid structure should be used) as well as more detailed topology features (e.g., the number and connectivities of bars in a truss or the number of holes in a solid) have to be resolved by design experience before formulating the structural optimization model. Design quality of an optimized structure still depends strongly on engineering intuition. This article presents a novel approach for initiating formal structural optimization at an earlier stage, where the design topology is rigorously generated in addition to selecting shape and size dimensions. A three-phase design process is discussed: an optimal initial topology is created by a homogenization method as a gray level image, which is then transformed to a realizable design using computer vision techniques; this design is then parameterized and treated in detail by sizing and shape optimization. A fully automated process is described for trusses. Optimization of two dimensional solid structures is also discussed. Several application-oriented examples illustrate the usefulness of the proposed methodology.
Topology of membrane proteins-predictions, limitations and variations.
Tsirigos, Konstantinos D; Govindarajan, Sudha; Bassot, Claudio; Västermark, Åke; Lamb, John; Shu, Nanjiang; Elofsson, Arne
2017-10-26
Transmembrane proteins perform a variety of important biological functions necessary for the survival and growth of the cells. Membrane proteins are built up by transmembrane segments that span the lipid bilayer. The segments can either be in the form of hydrophobic alpha-helices or beta-sheets which create a barrel. A fundamental aspect of the structure of transmembrane proteins is the membrane topology, that is, the number of transmembrane segments, their position in the protein sequence and their orientation in the membrane. Along these lines, many predictive algorithms for the prediction of the topology of alpha-helical and beta-barrel transmembrane proteins exist. The newest algorithms obtain an accuracy close to 80% both for alpha-helical and beta-barrel transmembrane proteins. However, lately it has been shown that the simplified picture presented when describing a protein family by its topology is limited. To demonstrate this, we highlight examples where the topology is either not conserved in a protein superfamily or where the structure cannot be described solely by the topology of a protein. The prediction of these non-standard features from sequence alone was not successful until the recent revolutionary progress in 3D-structure prediction of proteins. Copyright © 2017 Elsevier Ltd. All rights reserved.
The new protein topology graph library web server.
Schäfer, Tim; Scheck, Andreas; Bruneß, Daniel; May, Patrick; Koch, Ina
2016-02-01
We present a new, extended version of the Protein Topology Graph Library web server. The Protein Topology Graph Library describes the protein topology on the super-secondary structure level. It allows to compute and visualize protein ligand graphs and search for protein structural motifs. The new server features additional information on ligand binding to secondary structure elements, increased usability and an application programming interface (API) to retrieve data, allowing for an automated analysis of protein topology. The Protein Topology Graph Library server is freely available on the web at http://ptgl.uni-frankfurt.de. The website is implemented in PHP, JavaScript, PostgreSQL and Apache. It is supported by all major browsers. The VPLG software that was used to compute the protein ligand graphs and all other data in the database is available under the GNU public license 2.0 from http://vplg.sourceforge.net. tim.schaefer@bioinformatik.uni-frankfurt.de; ina.koch@bioinformatik.uni-frankfurt.de Supplementary data are available at Bioinformatics online. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.
Topology in dynamical lattice QCD simulations
Energy Technology Data Exchange (ETDEWEB)
Gruber, Florian
2012-08-20
Lattice simulations of Quantum Chromodynamics (QCD), the quantum field theory which describes the interaction between quarks and gluons, have reached a point were contact to experimental data can be made. The underlying mechanisms, like chiral symmetry breaking or the confinement of quarks, are however still not understood. This thesis focuses on topological structures in the QCD vacuum. Those are not only mathematically interesting but also closely related to chiral symmetry and confinement. We consider methods to identify these objects in lattice QCD simulations. Based on this, we explore the structures resulting from different discretizations and investigate the effect of a very strong electromagnetic field on the QCD vacuum.
Topology in dynamical lattice QCD simulations
International Nuclear Information System (INIS)
Gruber, Florian
2012-01-01
Lattice simulations of Quantum Chromodynamics (QCD), the quantum field theory which describes the interaction between quarks and gluons, have reached a point were contact to experimental data can be made. The underlying mechanisms, like chiral symmetry breaking or the confinement of quarks, are however still not understood. This thesis focuses on topological structures in the QCD vacuum. Those are not only mathematically interesting but also closely related to chiral symmetry and confinement. We consider methods to identify these objects in lattice QCD simulations. Based on this, we explore the structures resulting from different discretizations and investigate the effect of a very strong electromagnetic field on the QCD vacuum.
Novel topological descriptors for analyzing biological networks
Directory of Open Access Journals (Sweden)
Varmuza Kurt K
2010-06-01
Full Text Available Abstract Background Topological descriptors, other graph measures, and in a broader sense, graph-theoretical methods, have been proven as powerful tools to perform biological network analysis. However, the majority of the developed descriptors and graph-theoretical methods does not have the ability to take vertex- and edge-labels into account, e.g., atom- and bond-types when considering molecular graphs. Indeed, this feature is important to characterize biological networks more meaningfully instead of only considering pure topological information. Results In this paper, we put the emphasis on analyzing a special type of biological networks, namely bio-chemical structures. First, we derive entropic measures to calculate the information content of vertex- and edge-labeled graphs and investigate some useful properties thereof. Second, we apply the mentioned measures combined with other well-known descriptors to supervised machine learning methods for predicting Ames mutagenicity. Moreover, we investigate the influence of our topological descriptors - measures for only unlabeled vs. measures for labeled graphs - on the prediction performance of the underlying graph classification problem. Conclusions Our study demonstrates that the application of entropic measures to molecules representing graphs is useful to characterize such structures meaningfully. For instance, we have found that if one extends the measures for determining the structural information content of unlabeled graphs to labeled graphs, the uniqueness of the resulting indices is higher. Because measures to structurally characterize labeled graphs are clearly underrepresented so far, the further development of such methods might be valuable and fruitful for solving problems within biological network analysis.
Braiding knots with topological strings
International Nuclear Information System (INIS)
Gu, Jie
2015-08-01
For an arbitrary knot in a three-sphere, the Ooguri-Vafa conjecture associates to it a unique stack of branes in type A topological string on the resolved conifold, and relates the colored HOMFLY invariants of the knot to the free energies on the branes. For torus knots, we use a modified version of the topological recursion developed by Eynard and Orantin to compute the free energies on the branes from the Aganagic-Vafa spectral curves of the branes, and find they are consistent with the known colored HOMFLY knot invariants a la the Ooguri-Vafa conjecture. In addition our modified topological recursion can reproduce the correct closed string free energies, which encode the information of the background geometry. We conjecture the modified topological recursion is applicable for branes associated to hyperbolic knots as well, encouraged by the observation that the modified topological recursion yields the correct planar closed string free energy from the Aganagic-Vafa spectral curves of hyperbolic knots. This has implications for the knot theory concerning distinguishing mutant knots with colored HOMFLY invariants. Furthermore, for hyperbolic knots, we present methods to compute colored HOMFLY invariants in nonsymmetric representations of U(N). The key step in this computation is computing quantum 6j-symbols in the quantum group U q (sl N ).
Topological strings from quantum mechanics
International Nuclear Information System (INIS)
Grassi, Alba; Marino, Marcos; Hatsuda, Yasuyuki
2014-12-01
We propose a general correspondence which associates a non-perturbative quantum-mechanical operator to a toric Calabi-Yau manifold, and we conjecture an explicit formula for its spectral determinant in terms of an M-theoretic version of the topological string free energy. As a consequence, we derive an exact quantization condition for the operator spectrum, in terms of the vanishing of a generalized θ function. The perturbative part of this quantization condition is given by the Nekrasov-Shatashvili limit of the refined topological string, but there are non-perturbative corrections determined by the conventional topological string. We analyze in detail the cases of local P 2 , local P 1 x P 1 and local F 1 . In all these cases, the predictions for the spectrum agree with the existing numerical results. We also show explicitly that our conjectured spectral determinant leads to the correct spectral traces of the corresponding operators, which are closely related to topological string theory at orbifold points. Physically, our results provide a Fermi gas picture of topological strings on toric Calabi-Yau manifolds, which is fully non-perturbative and background independent. They also suggest the existence of an underlying theory of M2 branes behind this formulation. Mathematically, our results lead to precise, surprising conjectures relating the spectral theory of functional difference operators to enumerative geometry.
Topological susceptibility from the overlap
International Nuclear Information System (INIS)
Del Debbio, Luigi; Pica, Claudio
2004-01-01
The chiral symmetry at finite lattice spacing of Ginsparg-Wilson fermionic actions constrains the renormalization of the lattice operators; in particular, the topological susceptibility does not require any renormalization, when using a fermionic estimator to define the topological charge. Therefore, the overlap formalism appears as an appealing candidate to study the continuum limit of the topological susceptibility while keeping the systematic errors under theoretical control. We present results for the SU(3) pure gauge theory using the index of the overlap Dirac operator to study the topology of the gauge configurations. The topological charge is obtained from the zero modes of the overlap and using a new algorithm for the spectral flow analysis. A detailed comparison with cooling techniques is presented. Particular care is taken in assessing the systematic errors. Relatively high statistics (500 to 1000 independent configurations) yield an extrapolated continuum limit with errors that are comparable with other methods. Our current value from the overlap is χ 1/4 = 188±12±5MeV (author)
Topological Strings and Integrable Hierarchies
Aganagic, M; Klemm, A D; Marino, M; Vafa, C; Aganagic, Mina; Dijkgraaf, Robbert; Klemm, Albrecht; Marino, Marcos; Vafa, Cumrun
2006-01-01
We consider the topological B-model on local Calabi-Yau geometries. We show how one can solve for the amplitudes by using W-algebra symmetries which encodes the symmetries of holomorphic diffeomorphisms of the Calabi-Yau. In the highly effective fermionic/brane formulation this leads to a free fermion description of the amplitudes. Furthermore we argue that topological strings on Calabi-Yau geometries provide a unifying picture connecting non-critical (super)strings, integrable hierarchies, and various matrix models. In particular we show how the ordinary matrix model, the double scaling limit of matrix models, and Kontsevich-like matrix model are all related and arise from studying branes in specific local Calabi-Yau three-folds. We also show how A-model topological string on P^1 and local toric threefolds (and in particular the topological vertex) can be realized and solved as B-model topological string amplitudes on a Calabi-Yau manifold.
Topological origin of edge states in two-dimensional inversion-symmetric insulators and semimetals
Miert, Guido van|info:eu-repo/dai/nl/413490378; Ortix, Carmine|info:eu-repo/dai/nl/413315304; de Morais Smith, C.|info:eu-repo/dai/nl/304836346
2017-01-01
Symmetries play an essential role in identifying and characterizing topological states of matter. Here, we classify topologically two-dimensional (2D) insulators and semimetals with vanishing spin-orbit coupling using time-reversal ($\\mathcal{T}$) and inversion ($\\mathcal{I}$) symmetry. This allows
Topological Derivatives in Shape Optimization
Novotny, Antonio André
2013-01-01
The topological derivative is defined as the first term (correction) of the asymptotic expansion of a given shape functional with respect to a small parameter that measures the size of singular domain perturbations, such as holes, inclusions, defects, source-terms and cracks. Over the last decade, topological asymptotic analysis has become a broad, rich and fascinating research area from both theoretical and numerical standpoints. It has applications in many different fields such as shape and topology optimization, inverse problems, imaging processing and mechanical modeling including synthesis and/or optimal design of microstructures, sensitivity analysis in fracture mechanics and damage evolution modeling. Since there is no monograph on the subject at present, the authors provide here the first account of the theory which combines classical sensitivity analysis in shape optimization with asymptotic analysis by means of compound asymptotic expansions for elliptic boundary value problems. This book is intende...
Wave Manipulation by Topology Optimization
DEFF Research Database (Denmark)
Andkjær, Jacob Anders
topology optimization can be used to design structures for manipulation of the electromagnetic and acoustic waves. The wave problems considered here fall within three classes. The first class concerns the design of cloaks, which when wrapped around an object will render the object undetectable...... for the cloak is to delay the waves in regions of higher permittivity than the background and subsequently phase match them to the waves outside. Directional acoustic cloaks can also be designed using the topology optimization method. Aluminum cylinders constitutes the design and their placement and size...... concerns the design of planar Fresnel zone plate lenses for focusing electromagnetic waves. The topology optimized zone plates improve the focusing performance compared to results known from the literature....
Aeroelastic Wingbox Stiffener Topology Optimization
Stanford, Bret K.
2017-01-01
This work considers an aeroelastic wingbox model seeded with run-out blade stiffeners along the skins. Topology optimization is conducted within the shell webs of the stiffeners, in order to add cutouts and holes for mass reduction. This optimization is done with a global-local approach in order to moderate the computational cost: aeroelastic loads are computed at the wing-level, but the topology and sizing optimization is conducted at the panel-level. Each panel is optimized separately under stress, buckling, and adjacency constraints, and periodically reassembled to update the trimmed aeroelastic loads. The resulting topology is baselined against a design with standard full-depth solid stiffener blades, and found to weigh 7.43% less.
Topological analysis of metabolic control.
Sen, A K
1990-12-01
A topological approach is presented for the analysis of control and regulation in metabolic pathways. In this approach, the control structure of a metabolic pathway is represented by a weighted directed graph. From an inspection of the topology of the graph, the control coefficients of the enzymes are evaluated in a heuristic manner in terms of the enzyme elasticities. The major advantage of the topological approach is that it provides a visual framework for (1) calculating the control coefficients of the enzymes, (2) analyzing the cause-effect relationships of the individual enzymes, (3) assessing the relative importance of the enzymes in metabolic regulation, and (4) simplifying the structure of a given pathway, from a regulatory viewpoint. Results are obtained for (a) an unbranched pathway in the absence of feedback the feedforward regulation and (b) an unbranched pathway with feedback inhibition. Our formulation is based on the metabolic control theory of Kacser and Burns (1973) and Heinrich and Rapoport (1974).
A Transmedia Topology of 'Making a Murderer'
Directory of Open Access Journals (Sweden)
Alan Hook
2016-12-01
Full Text Available This article constructs a transmedia topology of the Making a Murderer text, demonstrating influences of various forms of documentary, interactive gaming culture, and post-digital writing on the series itself as well as on the paratextual cloud of works that grew up around it. Here we define transmedia topology as a tracing of what we could call the geography of the text, as defined by its features and boundaries (or lack thereof. We will discuss the intentionality of the series creators, as well as the emergence of a transmedial textuality that is owed largely to audiences and the textual terrain. The Making a Murderer series thus becomes the basis for a larger transmedia narrative that sprawls across social-digital networks, a pastiche of multifarious public reaction and unsanctioned investigation.The article maps the ecologies of interaction, participation and creation with and of the text by the audience to map the thresholds of the transmedial text and investigate new approaches to analysing transmedial work in the context of non-fiction media forms.
Topological transport from a black hole
Directory of Open Access Journals (Sweden)
Dmitry Melnikov
2018-03-01
Full Text Available In this paper the low temperature zero-frequency transport in a 2+1-dimensional theory dual to a dyonic black hole is discussed. It is shown that transport exhibits topological features: the transverse electric and heat conductivities satisfy the Wiedemann–Franz law of free electrons; the direct heat conductivity is measured in units of the central charge of CFT2+1, while the direct electric conductivity vanishes; the thermoelectric conductivity is non-zero at vanishing temperature, while the O(T behavior, controlled by the Mott relation, is subleading. Provided that the entropy of the black hole, and the dual system, is non-vanishing at T=0, the observations indicate that the dyonic black hole describes a ħ→0 limit of a highly degenerate topological state, in which the black hole charge measures the density of excited non-abelian quasiparticles. The holographic description gives further evidence that non-abelian nature of quasiparticles can be determined by the low temperature behavior of the thermoelectric transport.
Topological Characterization of Fractured Coal
Jing, Yu; Armstrong, Ryan T.; Ramandi, Hamed L.; Mostaghimi, Peyman
2017-12-01
Coal transport properties are highly dependent on the underlying fractured network, known as cleats, which are characterized by geometrical and topological properties. X-ray microcomputed tomography (micro-CT) has been widely applied to obtain 3-D digital representations of the cleat network. However, segmentation of 3-D data is often problematic due to image noise, which will result in inaccurate estimation of coal properties (e.g., porosity and specific surface area). To circumvent this issue, a discrete fracture network (DFN) model is proposed. We develop a characterization framework to determine if the developed DFN models can preserve the topological properties of the coal cleat network found in micro-CT data. We compute the Euler characteristic, fractal dimension, and percolation quantities to analyze the topology locally and globally and compare the results between micro-CT data (before denoising), filtered micro-CT data (after denoising), and the DFN model. We find that micro-CT data with noise have extensive connectivity while filtered micro-CT data and DFN models have similar topology both globally and locally. It is concluded that the topology of the DFN models are closer to that of the realistic cleat network that do not have segmentation-induced pores. In addition, micro-CT imaging always struggles with the trade-off between sample size and resolution, while the presented DFN models are not restricted by imaging resolution and thus can be constructed with extended domain size. Overall, the presented DFN model is a reliable alternative with realistic cleat topology, extended domain size and favorable data format for direct numerical simulations.
Optimal Network-Topology Design
Li, Victor O. K.; Yuen, Joseph H.; Hou, Ting-Chao; Lam, Yuen Fung
1987-01-01
Candidate network designs tested for acceptability and cost. Optimal Network Topology Design computer program developed as part of study on topology design and analysis of performance of Space Station Information System (SSIS) network. Uses efficient algorithm to generate candidate network designs consisting of subsets of set of all network components, in increasing order of total costs and checks each design to see whether it forms acceptable network. Technique gives true cost-optimal network and particularly useful when network has many constraints and not too many components. Program written in PASCAL.
Topological insulators fundamentals and perspectives
Ortmann, Frank; Valenzuela, Sergio O
2015-01-01
There are only few discoveries and new technologies in physical sciences that have the potential to dramatically alter and revolutionize our electronic world. Topological insulators are one of them. The present book for the first time provides a full overview and in-depth knowledge about this hot topic in materials science and condensed matter physics. Techniques such as angle-resolved photoemission spectrometry (ARPES), advanced solid-state Nuclear Magnetic Resonance (NMR) or scanning-tunnel microscopy (STM) together with key principles of topological insulators such as spin-locked electronic
Acoustic design by topology optimization
DEFF Research Database (Denmark)
Dühring, Maria Bayard; Jensen, Jakob Søndergaard; Sigmund, Ole
2008-01-01
To bring down noise levels in human surroundings is an important issue and a method to reduce noise by means of topology optimization is presented here. The acoustic field is modeled by Helmholtz equation and the topology optimization method is based on continuous material interpolation functions...... in the density and bulk modulus. The objective function is the squared sound pressure amplitude. First, room acoustic problems are considered and it is shown that the sound level can be reduced in a certain part of the room by an optimized distribution of reflecting material in a design domain along the ceiling...
International Nuclear Information System (INIS)
Tellis, D.R.
2000-01-01
Full text: Instantons in pure Yang-Mills gauge theory have been studied extensively by physicists and mathematicians alike. The surprisingly rich topological structure plays an important role in hadron structure. A crucial role is played by how the boundary conditions on the gauge fields are imposed. While the topology of gauge fields in pure Yang-Mills gauge theory is understood for the compact manifold of the 4-sphere, the manifold of the 4-torus remains an active area of study. The latter is particularly important in the study of Lattice QCD
Topological vector spaces and distributions
Horvath, John
2012-01-01
""The most readable introduction to the theory of vector spaces available in English and possibly any other language.""-J. L. B. Cooper, MathSciNet ReviewMathematically rigorous but user-friendly, this classic treatise discusses major modern contributions to the field of topological vector spaces. The self-contained treatment includes complete proofs for all necessary results from algebra and topology. Suitable for undergraduate mathematics majors with a background in advanced calculus, this volume will also assist professional mathematicians, physicists, and engineers.The precise exposition o
International Conference on Algebraic Topology
Cohen, Ralph; Miller, Haynes; Ravenel, Douglas
1989-01-01
These are proceedings of an International Conference on Algebraic Topology, held 28 July through 1 August, 1986, at Arcata, California. The conference served in part to mark the 25th anniversary of the journal Topology and 60th birthday of Edgar H. Brown. It preceded ICM 86 in Berkeley, and was conceived as a successor to the Aarhus conferences of 1978 and 1982. Some thirty papers are included in this volume, mostly at a research level. Subjects include cyclic homology, H-spaces, transformation groups, real and rational homotopy theory, acyclic manifolds, the homotopy theory of classifying spaces, instantons and loop spaces, and complex bordism.
Robustness of edge states in topological quantum dots against global electric field
Qu, Jin-Xian; Zhang, Shu-Hui; Liu, Ding-Yang; Wang, Ping; Yang, Wen
2017-07-01
The topological insulator has attracted increasing attention as a new state of quantum matter featured by the symmetry-protected edge states. Although the qualitative robustness of the edge states against local perturbations has been well established, it is not clear how these topological edge states respond quantitatively to a global perturbation. Here, we study the response of topological edge states in a HgTe quantum dot to an external in-plane electric field—a paradigmatic global perturbation in solid-state environments. We find that the stability of the topological edge state could be larger than that of the ground bulk state by several orders of magnitudes. This robustness may be verified by standard transport measurements in the Coulomb blockage regime. Our work may pave the way towards utilizing these topological edge states as stable memory devices for charge and/or spin information and stable emitter of single terahertz photons or entangled terahertz photon pairs for quantum communication.
Convex integration theory solutions to the h-principle in geometry and topology
Spring, David
1998-01-01
This book provides a comprehensive study of convex integration theory in immersion-theoretic topology. Convex integration theory, developed originally by M. Gromov, provides general topological methods for solving the h-principle for a wide variety of problems in differential geometry and topology, with applications also to PDE theory and to optimal control theory. Though topological in nature, the theory is based on a precise analytical approximation result for higher order derivatives of functions, proved by M. Gromov. This book is the first to present an exacting record and exposition of all of the basic concepts and technical results of convex integration theory in higher order jet spaces, including the theory of iterated convex hull extensions and the theory of relative h-principles. A second feature of the book is its detailed presentation of applications of the general theory to topics in symplectic topology, divergence free vector fields on 3-manifolds, isometric immersions, totally real embeddings, u...
M-Polynomials and Topological Indices of Dominating David Derived Networks
Directory of Open Access Journals (Sweden)
Kang Shin Min
2018-03-01
Full Text Available There is a strong relationship between the chemical characteristics of chemical compounds and their molecular structures. Topological indices are numerical values associated with the chemical molecular graphs that help to understand the physical features, chemical reactivity, and biological activity of chemical compound. Thus, the study of the topological indices is important. M-polynomial helps to recover many degree-based topological indices for example Zagreb indices, Randic index, symmetric division idex, inverse sum index etc. In this article we compute M-polynomials of dominating David derived networks of the first type, second type and third type of dimension n and find some topological properties by using these M-polynomials. The results are plotted using Maple to see the dependence of topological indices on the involved parameters.
Exploring photonic topological insulator states in a circuit-QED lattice
Li, Jing-Ling; Shan, Chuan-Jia; Zhao, Feng
2018-04-01
We propose a simple protocol to explore the topological properties of photonic integer quantum Hall states in a one-dimensional circiut-QED lattice. By periodically modulating the on-site photonic energies in such a lattice, we demonstrate that this one-dimensional lattice model can be mapped into a two-dimensional integer quantum Hall insulator model. Based on the lattice-based cavity input-output theory, we show that both the photonic topological protected edge states and topological invariants can be clearly measured from the final steady state of the resonator lattice after taking into account cavity dissipation. Interestingly, we also find that the measurement signals associated with the above topological features are quite unambitious even in five coupled dissipative resonators. Our work opens up a new prospect of exploring topological states with a small-size dissipative quantum artificial lattice, which is quite attractive to the current quantum optics community.
Topological entropy of continuous functions on topological spaces
International Nuclear Information System (INIS)
Liu Lei; Wang Yangeng; Wei Guo
2009-01-01
Adler, Konheim and McAndrew introduced the concept of topological entropy of a continuous mapping for compact dynamical systems. Bowen generalized the concept to non-compact metric spaces, but Walters indicated that Bowen's entropy is metric-dependent. We propose a new definition of topological entropy for continuous mappings on arbitrary topological spaces (compactness, metrizability, even axioms of separation not necessarily required), investigate fundamental properties of the new entropy, and compare the new entropy with the existing ones. The defined entropy generates that of Adler, Konheim and McAndrew and is metric-independent for metrizable spaces. Yet, it holds various basic properties of Adler, Konheim and McAndrew's entropy, e.g., the entropy of a subsystem is bounded by that of the original system, topologically conjugated systems have a same entropy, the entropy of the induced hyperspace system is larger than or equal to that of the original system, and in particular this new entropy coincides with Adler, Konheim and McAndrew's entropy for compact systems
Topological phases of topological-insulator thin films
Asmar, Mahmoud M.; Sheehy, Daniel E.; Vekhter, Ilya
2018-02-01
We study the properties of a thin film of topological insulator material. We treat the coupling between helical states at opposite surfaces of the film in the properly-adapted tunneling approximation, and show that the tunneling matrix element oscillates as a function of both the film thickness and the momentum in the plane of the film for Bi2Se3 and Bi2Te3 . As a result, while the magnitude of the matrix element at the center of the surface Brillouin zone gives the gap in the energy spectrum, the sign of the matrix element uniquely determines the topological properties of the film, as demonstrated by explicitly computing the pseudospin textures and the Chern number. We find a sequence of transitions between topological and nontopological phases, separated by semimetallic states, as the film thickness varies. In the topological phase, the edge states of the film always exist but only carry a spin current if the edge potentials break particle-hole symmetry. The edge states decay very slowly away from the boundary in Bi2Se3 , making Bi2Te3 , where this scale is shorter, a more promising candidate for the observation of these states. Our results hold for free-standing films as well as heterostructures with large-gap insulators.
Choi, J.; Seong, J.C.; Kim, B.; Usery, E.L.
2008-01-01
A feature relies on three dimensions (space, theme, and time) for its representation. Even though spatiotemporal models have been proposed, they have principally focused on the spatial changes of a feature. In this paper, a feature-based temporal model is proposed to represent the changes of both space and theme independently. The proposed model modifies the ISO's temporal schema and adds new explicit temporal relationship structure that stores temporal topological relationship with the ISO's temporal primitives of a feature in order to keep track feature history. The explicit temporal relationship can enhance query performance on feature history by removing topological comparison during query process. Further, a prototype system has been developed to test a proposed feature-based temporal model by querying land parcel history in Athens, Georgia. The result of temporal query on individual feature history shows the efficiency of the explicit temporal relationship structure. ?? Springer Science+Business Media, LLC 2007.
Categorification in geometry, topology, and physics
Beliakova, Anna
2017-01-01
The emergent mathematical philosophy of categorification is reshaping our view of modern mathematics by uncovering a hidden layer of structure in mathematics, revealing richer and more robust structures capable of describing more complex phenomena. Categorification is a powerful tool for relating various branches of mathematics and exploiting the commonalities between fields. It provides a language emphasizing essential features and allowing precise relationships between vastly different fields. This volume focuses on the role categorification plays in geometry, topology, and physics. These articles illustrate many important trends for the field including geometric representation theory, homotopical methods in link homology, interactions between higher representation theory and gauge theory, and double affine Hecke algebra approaches to link homology. The companion volume (Contemporary Mathematics, Volume 683) is devoted to categorification and higher representation theory.
Topological phases: Wormholes in quantum matter
Schoutens, K.
2009-01-01
Proliferation of so-called anyonic defects in a topological phase of quantum matter leads to a critical state that can be visualized as a 'quantum foam', with topology-changing fluctuations on all length scales.
An algebraic topological method for multimodal brain networks comparison
Directory of Open Access Journals (Sweden)
Tiago eSimas
2015-07-01
Full Text Available Understanding brain connectivity is one of the most important issues in neuroscience. Nonetheless, connectivity data can reflect either functional relationships of brain activities or anatomical connections between brain areas. Although both representations should be related, this relationship is not straightforward. We have devised a powerful method that allows different operations between networks that share the same set of nodes, by embedding them in a common metric space, enforcing transitivity to the graph topology. Here, we apply this method to construct an aggregated network from a set of functional graphs, each one from a different subject. Once this aggregated functional network is constructed, we use again our method to compare it with the structural connectivity to identify particular brain regions that differ in both modalities (anatomical and functional. Remarkably, these brain regions include functional areas that form part of the classical resting state networks. We conclude that our method -based on the comparison of the aggregated functional network- reveals some emerging features that could not be observed when the comparison is performed with the classical averaged functional network.
Topologically protected loop flows in high voltage AC power grids
International Nuclear Information System (INIS)
Coletta, T; Delabays, R; Jacquod, Ph; Adagideli, I
2016-01-01
Geographical features such as mountain ranges or big lakes and inland seas often result in large closed loops in high voltage AC power grids. Sizable circulating power flows have been recorded around such loops, which take up transmission line capacity and dissipate but do not deliver electric power. Power flows in high voltage AC transmission grids are dominantly governed by voltage angle differences between connected buses, much in the same way as Josephson currents depend on phase differences between tunnel-coupled superconductors. From this previously overlooked similarity we argue here that circulating power flows in AC power grids are analogous to supercurrents flowing in superconducting rings and in rings of Josephson junctions. We investigate how circulating power flows can be created and how they behave in the presence of ohmic dissipation. We show how changing operating conditions may generate them, how significantly more power is ohmically dissipated in their presence and how they are topologically protected, even in the presence of dissipation, so that they persist when operating conditions are returned to their original values. We identify three mechanisms for creating circulating power flows, (i) by loss of stability of the equilibrium state carrying no circulating loop flow, (ii) by tripping of a line traversing a large loop in the network and (iii) by reclosing a loop that tripped or was open earlier. Because voltages are uniquely defined, circulating power flows can take on only discrete values, much in the same way as circulation around vortices is quantized in superfluids. (paper)
Aspects of NT ≥ 2 topological gauge theories and D-branes
International Nuclear Information System (INIS)
Blau, M.; Thompson, G.
1996-12-01
Recently, topological field theories with extended N T > 1 topological symmetries have appeared in various contexts, e.g. in the discussion of S-duality in supersymmetry gauge theories, as world volume theories of Dirichlet p-branes in string theory, and in a general discussion of 'balanced' or critical topological theories. Here we will comment on, explain, or expand on various aspects of these theories, thus complementing the already existing discussions of such models in the literature. We comment on various aspects of topological gauge theories possessing N T ≥ 2 topological symmetry: 1. We show that the construction of Vafa-Witten and Dijkgraaf-Moore of 'balanced' topological field theories is equivalent to an earlier construction in terms of N T = 2 superfields inspired by supersymmetric quantum mechanics. 2. We explain the relation between topological field theories calculating signed and unsigned sums of Euler numbers of moduli spaces. 3. We show that the topological twist of N = 4 d = 4 Yang-Mills theory recently constructed by Marcus is formally a deformation of four-dimensional super-BF theory. 4. We construct a novel N T = 2 topological twist of N = 4 d = 3 Yang-Mills theory, a 'mirror' of the Casson invariant model, with certain unusual features (e.g. no bosonic scalar field and hence no underlying equivariant cohomology). 5. We give a complete classification of the topological twists of N = 8 d = 3 Yang-Mills theory and show that they are realized as world-volume theories of Dirichlet two-brane instantons wrapping supersymmetric three-cycles of Calabi-Yau three-folds and G 2 -holonomy Joyce manifolds. 6. We describe the topological gauge theories associated to D-string instantons on holomorphic curves in K3s and Calabi-Yau 3-folds. 48 refs
Topology optimization of microfluidic mixers
DEFF Research Database (Denmark)
Andreasen, Casper Schousboe; Gersborg, Allan Roulund; Sigmund, Ole
2009-01-01
This paper demonstrates the application of the topology optimization method as a general and systematic approach for microfluidic mixer design. The mixing process is modeled as convection dominated transport in low Reynolds number incompressible flow. The mixer performance is maximized by altering...
Magnetic Field Topology in Jets
Gardiner, T. A.; Frank, A.
2000-01-01
We present results on the magnetic field topology in a pulsed radiative. jet. For initially helical magnetic fields and periodic velocity variations, we find that the magnetic field alternates along the, length of the jet from toroidally dominated in the knots to possibly poloidally dominated in the intervening regions.
Approximate Reanalysis in Topology Optimization
DEFF Research Database (Denmark)
Amir, Oded; Bendsøe, Martin P.; Sigmund, Ole
2009-01-01
In the nested approach to structural optimization, most of the computational effort is invested in the solution of the finite element analysis equations. In this study, the integration of an approximate reanalysis procedure into the framework of topology optimization of continuum structures...
Topological freeness for Hilbert bimodules
DEFF Research Database (Denmark)
Kwasniewski, Bartosz
2014-01-01
It is shown that topological freeness of Rieffel’s induced representation functor implies that any C*-algebra generated by a faithful covariant representation of a Hilbert bimodule X over a C*-algebra A is canonically isomorphic to the crossed product A ⋊ X ℤ. An ideal lattice description...
Topological interpretation of multiquark states
International Nuclear Information System (INIS)
Nicolescu, B.
1980-12-01
In this talk we discuss the topological selection rules which govern the physics of multiquark states in the framework in the DTU theory. These new selection rules lead us to expect that narrow multiquark hadrons are rare, are strongly coupled only to some particular channels, and appear only in some restricted mass regions
Topological methods in Euclidean spaces
Naber, Gregory L
2000-01-01
Extensive development of a number of topics central to topology, including elementary combinatorial techniques, Sperner's Lemma, the Brouwer Fixed Point Theorem, homotopy theory and the fundamental group, simplicial homology theory, the Hopf Trace Theorem, the Lefschetz Fixed Point Theorem, the Stone-Weierstrass Theorem, and Morse functions. Includes new section of solutions to selected problems.
Topological Order in Silicon Photonics
2017-02-07
photonic edge states and quantum emitters [ S. Barik , H. Miyake, W. DeGottardi, E. Waks and M. Hafezi, New J. Phys., 18, 11301 (2016) ]. Entanglement... Barik , H. Miyake, W. DeGottardi, E. Waks, and M. Hafezi “Two-Dimensionally Confined Topological Edge States in Photonic Crystals”, New J. Phys., 18
Algebraic topology of spin glasses
International Nuclear Information System (INIS)
Koma, Tohru
2011-01-01
We study the topology of frustration in d-dimensional Ising spin glasses with d ≥ 2 with nearest-neighbor interactions. We prove the following. For any given spin configuration, the domain walls on the unfrustration network are all transverse to a frustrated loop on the unfrustration network, where a domain wall is defined to be a connected element of the collection of all the (d - 1)-cells which are dual to the bonds having an unfavorable energy, and the unfrustration network is the collection of all the unfrustrated plaquettes. These domain walls are topologically nontrivial because they are all related to the global frustration of a loop on the unfrustration network. Taking account of the thermal stability for the domain walls, we can explain the numerical results that three- or higher-dimensional systems exhibit a spin glass phase, whereas two-dimensional ones do not. Namely, in two dimensions, the thermal fluctuations of the topologically nontrivial domain walls destroy the order of the frozen spins on the unfrustration network, whereas they do not in three or higher dimensions. This may be interpreted as a global topological effect of the frustrations.
Independent Study Project, Topic: Topology.
Notre Dame High School, Easton, PA.
Using this guide and the four popular books noted in it, a student, working independently, will learn about some of the classical ideas and problems of topology: the Meobius strip and Klein bottle, the four color problem, genus of a surface, networks, Euler's formula, and the Jordan Curve Theorem. The unit culminates in a project of the students'…
Topology of molecular interaction networks
Winterbach, W.; Van Mieghem, P.; Reinders, M.; Wang, H.; De Ridder, D.
2013-01-01
Molecular interactions are often represented as network models which have become the common language of many areas of biology. Graphs serve as convenient mathematical representations of network models and have themselves become objects of study. Their topology has been intensively researched over
Nuclear Pasta: Topology and Defects
da Silva Schneider, Andre; Horowitz, Charles; Berry, Don; Caplan, Matt; Briggs, Christian
2015-04-01
A layer of complex non-uniform phases of matter known as nuclear pasta is expected to exist at the base of the crust of neutron stars. Using large scale molecular dynamics we study the topology of some pasta shapes, the formation of defects and how these may affect properties of neutron star crusts.
Topology optimization for acoustic problems
DEFF Research Database (Denmark)
Dühring, Maria Bayard
2006-01-01
In this paper a method to control acoustic properties in a room with topology optimization is presented. It is shown how the squared sound pressure amplitude in a certain part of a room can be minimized by distribution of material in a design domain along the ceiling in 2D and 3D. Nice 0-1 designs...
Topological domain walls in helimagnets
Schoenherr, P.; Müller, J.; Köhler, L.; Rosch, A.; Kanazawa, N.; Tokura, Y.; Garst, M.; Meier, D.
2018-05-01
Domain walls naturally arise whenever a symmetry is spontaneously broken. They interconnect regions with different realizations of the broken symmetry, promoting structure formation from cosmological length scales to the atomic level1,2. In ferroelectric and ferromagnetic materials, domain walls with unique functionalities emerge, holding great promise for nanoelectronics and spintronics applications3-5. These walls are usually of Ising, Bloch or Néel type and separate homogeneously ordered domains. Here we demonstrate that a wide variety of new domain walls occurs in the presence of spatially modulated domain states. Using magnetic force microscopy and micromagnetic simulations, we show three fundamental classes of domain walls to arise in the near-room-temperature helimagnet iron germanium. In contrast to conventional ferroics, the domain walls exhibit a well-defined inner structure, which—analogous to cholesteric liquid crystals—consists of topological disclination and dislocation defects. Similar to the magnetic skyrmions that form in the same material6,7, the domain walls can carry a finite topological charge, permitting an efficient coupling to spin currents and contributions to a topological Hall effect. Our study establishes a new family of magnetic nano-objects with non-trivial topology, opening the door to innovative device concepts based on helimagnetic domain walls.
Spacetime representation of topological phononics
Deymier, Pierre A.; Runge, Keith; Lucas, Pierre; Vasseur, Jérôme O.
2018-05-01
Non-conventional topology of elastic waves arises from breaking symmetry of phononic structures either intrinsically through internal resonances or extrinsically via application of external stimuli. We develop a spacetime representation based on twistor theory of an intrinsic topological elastic structure composed of a harmonic chain attached to a rigid substrate. Elastic waves in this structure obey the Klein–Gordon and Dirac equations and possesses spinorial character. We demonstrate the mapping between straight line trajectories of these elastic waves in spacetime and the twistor complex space. The twistor representation of these Dirac phonons is related to their topological and fermion-like properties. The second topological phononic structure is an extrinsic structure composed of a one-dimensional elastic medium subjected to a moving superlattice. We report an analogy between the elastic behavior of this time-dependent superlattice, the scalar quantum field theory and general relativity of two types of exotic particle excitations, namely temporal Dirac phonons and temporal ghost (tachyonic) phonons. These phonons live on separate sides of a two-dimensional frequency space and are delimited by ghost lines reminiscent of the conventional light cone. Both phonon types exhibit spinorial amplitudes that can be measured by mapping the particle behavior to the band structure of elastic waves.
Lateral topological crystalline insulator heterostructure
Sun, Qilong; Dai, Ying; Niu, Chengwang; Ma, Yandong; Wei, Wei; Yu, Lin; Huang, Baibiao
2017-06-01
The emergence of lateral heterostructures fabricated by two-dimensional building blocks brings many exciting realms in material science and device physics. Enriching available nanomaterials for creating such heterostructures and enabling the underlying new physics is highly coveted for the integration of next-generation devices. Here, we report a breakthrough in lateral heterostructure based on the monolayer square transition-metal dichalcogenides MX2 (M = W, X = S/Se) modules. Our results reveal that the MX2 lateral heterostructure (1S-MX2 LHS) can possess excellent thermal and dynamical stability. Remarkably, the highly desired two-dimensional topological crystalline insulator phase is confirmed by the calculated mirror Chern number {{n}\\text{M}}=-1 . A nontrivial band gap of 65 meV is obtained with SOC, indicating the potential for room-temperature observation and applications. The topologically protected edge states emerge at the edges of two different nanoribbons between the bulk band gap, which is consistent with the mirror Chern number. In addition, a strain-induced topological phase transition in 1S-MX2 LHS is also revealed, endowing the potential utilities in electronics and spintronics. Our predictions not only introduce new member and vitality into the studies of lateral heterostructures, but also highlight the promise of lateral heterostructure as appealing topological crystalline insulator platforms with excellent stability for future devices.
Topological excitations in magnetic materials
Energy Technology Data Exchange (ETDEWEB)
Bazeia, D., E-mail: bazeia@fisica.ufpb.br [Departamento de Física, Universidade Federal da Paraíba, 58051-970 João Pessoa, PB (Brazil); Doria, M.M. [Instituto de Física, Universidade Federal do Rio de Janeiro, Rio de Janeiro (Brazil); Dipartimento di Fisica, Università di Camerino, I-62032 Camerino (Italy); Rodrigues, E.I.B. [Departamento de Física, Universidade Federal da Paraíba, 58051-970 João Pessoa, PB (Brazil)
2016-05-20
In this work we propose a new route to describe topological excitations in magnetic systems through a single real scalar field. We show here that spherically symmetric structures in two spatial dimensions, which map helical excitations in magnetic materials, admit this formulation and can be used to model skyrmion-like structures in magnetic materials.
Topologically Massive Higher Spin Gravity
Bagchi, A.; Lal, S.; Saha, A.; Sahoo, B.
2011-01-01
We look at the generalisation of topologically massive gravity (TMG) to higher spins, specifically spin-3. We find a special "chiral" point for the spin-three, analogous to the spin-two example, which actually coincides with the usual spin-two chiral point. But in contrast to usual TMG, there is the
Asymptotically optimal load balancing topologies
Mukherjee, D.; Borst, S.C.; van Leeuwaarden, J.S.H.
2017-01-01
We consider a system of N servers inter-connected by some underlying graph topology G N . Tasks arrive at the various servers as independent Poisson processes of rate λ . Each incoming task is irrevocably assigned to whichever server has the smallest number of tasks among the one where it appears
A Macdonald refined topological vertex
Foda, Omar; Wu, Jian-Feng
2017-07-01
We consider the refined topological vertex of Iqbal et al (2009 J. High Energy Phys. JHEP10(2009)069), as a function of two parameters ≤ft\\lgroup x, y \\right\\rgroup , and deform it by introducing the Macdonald parameters ≤ft\\lgroup q, t \\right\\rgroup , as in the work of Vuletić on plane partitions (Vuletić M 2009 Trans. Am. Math. Soc. 361 2789-804), to obtain ‘a Macdonald refined topological vertex’. In the limit q → t , we recover the refined topological vertex of Iqbal et al and in the limit x → y , we obtain a qt-deformation of the original topological vertex of Aganagic et al (2005 Commun. Math. Phys. 25 425-78). Copies of the vertex can be glued to obtain qt-deformed 5D instanton partition functions that have well-defined 4D limits and, for generic values of ≤ft\\lgroup q, t\\right\\rgroup , contain infinite-towers of poles for every pole present in the limit q → t .
Deformations of topological open strings
Hofman, C.; Ma, Whee Ky
Deformations of topological open string theories are described, with an emphasis on their algebraic structure. They are encoded in the mixed bulk-boundary correlators. They constitute the Hochschild complex of the open string algebra - the complex of multilinear maps on the boundary Hilbert space.
Lectures on cosmic topological defects
Energy Technology Data Exchange (ETDEWEB)
Vachaspati, T [Department of Astronomy and Astrophysics, Colaba, Mumbai (India) and Physics Department, Case Western Reserve University, Cleveland (United States)
2001-11-15
These lectures review certain topological defects and aspects of their cosmology. Unconventional material includes brief descriptions of electroweak defects, the structure of domain walls in non-Abelian theories, and the spectrum of magnetic monopoles in SU(5) Grand Unified theory. (author)
Topological Insulator Nanowires and Nanoribbons
Kong, Desheng
2010-01-13
Recent theoretical calculations and photoemission spectroscopy measurements on the bulk Bi2Se3 material show that it is a three-dimensional topological insulator possessing conductive surface states with nondegenerate spins, attractive for dissipationless electronics and spintronics applications. Nanoscale topological insulator materials have a large surface-to-volume ratio that can manifest the conductive surface states and are promising candidates for devices. Here we report the synthesis and characterization of high quality single crystalline Bi2Se5 nanomaterials with a variety of morphologies. The synthesis of Bi 2Se5 nanowires and nanoribbons employs Au-catalyzed vapor-liquid-solid (VLS) mechanism. Nanowires, which exhibit rough surfaces, are formed by stacking nanoplatelets along the axial direction of the wires. Nanoribbons are grown along [1120] direction with a rectangular cross-section and have diverse morphologies, including quasi-one-dimensional, sheetlike, zigzag and sawtooth shapes. Scanning tunneling microscopy (STM) studies on nanoribbons show atomically smooth surfaces with ∼ 1 nm step edges, indicating single Se-Bi-Se-Bi-Se quintuple layers. STM measurements reveal a honeycomb atomic lattice, suggesting that the STM tip couples not only to the top Se atomic layer, but also to the Bi atomic layer underneath, which opens up the possibility to investigate the contribution of different atomic orbitais to the topological surface states. Transport measurements of a single nanoribbon device (four terminal resistance and Hall resistance) show great promise for nanoribbons as candidates to study topological surface states. © 2010 American Chemical Society.
Topological Properties of Spatial Coherence Function
International Nuclear Information System (INIS)
Ji-Rong, Ren; Tao, Zhu; Yi-Shi, Duan
2008-01-01
The topological properties of the spatial coherence function are investigated rigorously. The phase singular structures (coherence vortices) of coherence function can be naturally deduced from the topological current, which is an abstract mathematical object studied previously. We find that coherence vortices are characterized by the Hopf index and Brouwer degree in topology. The coherence flux quantization and the linking of the closed coherence vortices are also studied from the topological properties of the spatial coherence function
Jakob Nielsen and His Contributions to Topology
DEFF Research Database (Denmark)
Hansen, Vagn Lundsgaard
1999-01-01
The Danish mathematician Jakob Nielsen won international recognition as one of the developers of combinatorial group theory and the topology of surfaces. This article describes the life and work of Jakob Nielsen with emphasis on his contributions to topology.......The Danish mathematician Jakob Nielsen won international recognition as one of the developers of combinatorial group theory and the topology of surfaces. This article describes the life and work of Jakob Nielsen with emphasis on his contributions to topology....