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Sample records for graph ramsey numbers

  1. Generalized Ramsey numbers through adiabatic quantum optimization

    NASA Astrophysics Data System (ADS)

    Ranjbar, Mani; Macready, William G.; Clark, Lane; Gaitan, Frank

    2016-09-01

    Ramsey theory is an active research area in combinatorics whose central theme is the emergence of order in large disordered structures, with Ramsey numbers marking the threshold at which this order first appears. For generalized Ramsey numbers r( G, H), the emergent order is characterized by graphs G and H. In this paper we: (i) present a quantum algorithm for computing generalized Ramsey numbers by reformulating the computation as a combinatorial optimization problem which is solved using adiabatic quantum optimization; and (ii) determine the Ramsey numbers r({{T}}m,{{T}}n) for trees of order m,n = 6,7,8, most of which were previously unknown.

  2. Ramsey numbers and adiabatic quantum computing.

    PubMed

    Gaitan, Frank; Clark, Lane

    2012-01-06

    The graph-theoretic Ramsey numbers are notoriously difficult to calculate. In fact, for the two-color Ramsey numbers R(m,n) with m, n≥3, only nine are currently known. We present a quantum algorithm for the computation of the Ramsey numbers R(m,n). We show how the computation of R(m,n) can be mapped to a combinatorial optimization problem whose solution can be found using adiabatic quantum evolution. We numerically simulate this adiabatic quantum algorithm and show that it correctly determines the Ramsey numbers R(3,3) and R(2,s) for 5≤s≤7. We then discuss the algorithm's experimental implementation, and close by showing that Ramsey number computation belongs to the quantum complexity class quantum Merlin Arthur.

  3. Experimental Determination of Ramsey Numbers

    NASA Astrophysics Data System (ADS)

    Bian, Zhengbing; Chudak, Fabian; Macready, William G.; Clark, Lane; Gaitan, Frank

    2013-09-01

    Ramsey theory is a highly active research area in mathematics that studies the emergence of order in large disordered structures. Ramsey numbers mark the threshold at which order first appears and are extremely difficult to calculate due to their explosive rate of growth. Recently, an algorithm that can be implemented using adiabatic quantum evolution has been proposed that calculates the two-color Ramsey numbers R(m,n). Here we present results of an experimental implementation of this algorithm and show that it correctly determines the Ramsey numbers R(3,3) and R(m,2) for 4≤m≤8. The R(8,2) computation used 84 qubits of which 28 were computational qubits. This computation is the largest experimental implementation of a scientifically meaningful adiabatic evolution algorithm that has been done to date.

  4. Experimental determination of Ramsey numbers.

    PubMed

    Bian, Zhengbing; Chudak, Fabian; Macready, William G; Clark, Lane; Gaitan, Frank

    2013-09-27

    Ramsey theory is a highly active research area in mathematics that studies the emergence of order in large disordered structures. Ramsey numbers mark the threshold at which order first appears and are extremely difficult to calculate due to their explosive rate of growth. Recently, an algorithm that can be implemented using adiabatic quantum evolution has been proposed that calculates the two-color Ramsey numbers R(m,n). Here we present results of an experimental implementation of this algorithm and show that it correctly determines the Ramsey numbers R(3,3) and R(m,2) for 4≤m≤8. The R(8,2) computation used 84 qubits of which 28 were computational qubits. This computation is the largest experimental implementation of a scientifically meaningful adiabatic evolution algorithm that has been done to date.

  5. On Ramsey (3K2, K3) - minimal graphs

    NASA Astrophysics Data System (ADS)

    Wijaya, Kristiana; Baskoro, Edy Tri; Assiyatun, Hilda; Suprijanto, Djoko

    2016-02-01

    The Ramsey graph theory has many interesting applications, such as in the fields of communications, information retrieval, and decision making. One of growing topics in Ramsey theory is Ramsey minimal graph. For any given graphs G and H, find graphs F such that any red-blue coloring of all edges of F contains either a red copy of G or a blue copy of H. If this condition is not satisfied by the graph F - e, then we call the graph F as a Ramsey (G, H) - minimal. In this paper, we derive the properties of (3K2, K3) - minimal graphs. We, then, characterize all Ramsey (3K2, K3) - minimal graphs.

  6. Connected size Ramsey numbers of matchings and stars

    NASA Astrophysics Data System (ADS)

    Rahadjeng, Budi; Baskoro, Edy Tri; Assiyatun, Hilda

    2016-02-01

    Let F, G, and H be finite, simple, and undirected graphs. The notation F → (G, H) means that if the edge set of F is arbitrarily colored by red or blue, then there always exists either a red copy of G or a blue copy of H. The connected size Ramsey number r̂c(G, H) is min{|E(F)| : F → (G, H), F is connected}. In this paper, we determine the connected size Ramsey numbers r̂c(nK2, mK2), for n, m ≥ 2. Furthermore, an upper bound of r̂c(nK2, K1,m), for n ≥ 2 and m ≥ 3, and the exact value of r̂c(nK2, K1,m), for n = 2, 3, are presented.

  7. Computing the isoperimetric number of a graph

    SciTech Connect

    Golovach, P.A.

    1995-01-01

    Let G be a finite graph. Denote by {partial_derivative}X, where X {contained_in} VG, the set of edges of the graph G with one end in X and the other end in the set VG{backslash}X. The ratio i(G) = min {vert_bar}{vert_bar}X{vert_bar}/{vert_bar}X{vert_bar}, where the minimum is over all nonempty subsets X of the set VG such that {vert_bar}X{vert_bar} {le} {vert_bar} VG {vert_bar}/2, is called the isoperimetric number of the graph G. It is easy to see that the isoperimetric number may be used as a {open_quotes}measure of connectivity{close_quotes} of the graph. The problem of determining the isoperimetric number is clearly linked with graph partition problems, which often arise in various applications. The isoperimetric number is also important for studying Riemann surfaces. These and other applications of the isoperimetric number justify the analysis of graphs of this kind. The properties of the isoperimetric number are presented in more detail elsewhere. It is shown elsewhere that the computation of the isoperimetric number is an NP-hard problem for graphs with multiple edges. We will show that the decision problem {open_quotes}given the graph G and two integers s and t decide if i(G) {le} s/t{close_quotes} is NP-complete even for simple graphs with vertex degrees not exceeding 3. Note that the isoperimetric number of a tree can be computed by a known polynomial-time algorithm.

  8. Graphing Powers and Roots of Complex Numbers.

    ERIC Educational Resources Information Center

    Embse, Charles Vonder

    1993-01-01

    Using De Moivre's theorem and a parametric graphing utility, examines powers and roots of complex numbers and allows students to establish connections between the visual and numerical representations of complex numbers. Provides a program to numerically verify the roots of complex numbers. (MDH)

  9. Noise-assisted Ramsey interferometry

    NASA Astrophysics Data System (ADS)

    Dorner, U.

    2013-12-01

    I analyze a metrological strategy for improving the precision of frequency estimation via Ramsey interferometry with strings of atoms in the presence of correlated dephasing. This strategy does not employ entangled states but rather a product state which evolves into a stationary state under the influence of correlated dephasing. It is shown that by using this state an improvement in precision compared to standard Ramsey interferometry can be gained. This improvement is not an improvement in scaling; i.e., the estimation precision has the same scaling with the number of atoms as the standard quantum limit but gains an improvement proportional to the free evolution time in the Ramsey interferometer. Since a stationary state is used, this evolution time can be substantially larger than in standard Ramsey interferometry which is limited by the coherence time of the atoms.

  10. The rainbow connection number of some subdivided roof graphs

    NASA Astrophysics Data System (ADS)

    Susanti, Bety Hayat; Salman, A. N. M.; Simanjuntak, Rinovia

    2016-02-01

    Let G be an edge-colored graph where adjacent edges may have the same color. A path in G is called rainbow if its edges have distinct colors. A graph G is rainbow connected if any two distinct vertices in G are connected by a rainbow path. The smallest number of colors that are needed in order to make G rainbow connected is called the rainbow connection number of G, denoted by rc(G). In this paper, we determine the rainbow connection number of some subdivided roof graphs.

  11. Explicit and probabilistic constructions of distance graphs with small clique numbers and large chromatic numbers

    NASA Astrophysics Data System (ADS)

    Kupavskii, A. B.

    2014-02-01

    We study distance graphs with exponentially large chromatic numbers and without k-cliques, that is, complete subgraphs of size k. Explicit constructions of such graphs use vectors in the integer lattice. For a large class of graphs we find a sharp threshold for containing a k-clique. This enables us to improve the lower bounds for the maximum of the chromatic numbers of such graphs. We give a new probabilistic approach to the construction of distance graphs without k-cliques, and this yields better lower bounds for the maximum of the chromatic numbers for large k.

  12. Optomechanical Ramsey interferometry

    NASA Astrophysics Data System (ADS)

    Qu, Kenan; Dong, Chunhua; Wang, Hailin; Agarwal, G. S.

    2014-11-01

    We adopt Ramsey's method of separated oscillatory fields to study coherences of the mechanical system in an optomechanical resonator. The high-resolution Ramsey fringes are observed in the emission optical field, when two pulses separated in time are applied. We develop a theory to describe the transient optomechanical behavior underlying the Ramsey fringes. We also perform the experimental demonstration using a silica microresonator. The method is versatile and can be adopted for different types of mechanical resonators and electromechanical resonators.

  13. The (strong) rainbow connection number of stellar graphs

    NASA Astrophysics Data System (ADS)

    Shulhany, M. A.; Salman, A. N. M.

    2016-02-01

    Let G = (V,E) be a simple, connected, and finite graph. A function c from E to {1, 2, …, k} is said rainbow k-coloring of G, if for any pair of vertices u and v in V, there exists au - vpath whose edges have different colors. The rainbow connection number of G, denoted by rc(G), is the smallest positive integer k such that Ghas a rainbow k-coloring. Furthermore, such the function c is said strong rainbow k-coloring, if for any pair of vertices u and v in V, there exists a rainbow u-v path with its length is equal to distance betweenu and v. The smallest positive integer k such that G has a strong rainbow k-coloring is defined as the strong rainbow connection number, denoted by src(G).In this paper, we introduce a new class of graphs, namely stellar graphs. A stellar graph on 2mn+1 vertices, denoted by Stm,n, is the corona product of a trivial graph and mcopies ladder graph on 2n vertices (K1⊙m.Ln). We determine the (strong) rainbow connection number of stellar graphs.

  14. Protected subspace Ramsey spectroscopy

    NASA Astrophysics Data System (ADS)

    Ostermann, L.; Plankensteiner, D.; Ritsch, H.; Genes, C.

    2014-11-01

    We study a modified Ramsey spectroscopy technique employing slowly decaying states for quantum metrology applications using dense ensembles. While closely positioned atoms exhibit super-radiant collective decay and dipole-dipole induced frequency shifts, recent results [L. Ostermann, H. Ritsch, and C. Genes, Phys. Rev. Lett. 111, 123601 (2013), 10.1103/PhysRevLett.111.123601] suggest the possibility to suppress such detrimental effects and achieve an even better scaling of the frequency sensitivity with interrogation time than for noninteracting particles. Here we present an in-depth analysis of this "protected subspace Ramsey technique" using improved analytical modeling and numerical simulations including larger three-dimensional (3D) samples. Surprisingly we find that using subradiant states of N particles to encode the atomic coherence yields a scaling of the optimal sensitivity better than 1 /√{N } . Applied to ultracold atoms in 3D optical lattices we predict a precision beyond the single atom linewidth.

  15. On Ramsey's conjecture.

    PubMed

    Mitra, Tapan; Sorger, Gerhard

    2013-09-01

    Studying a one-sector economy populated by finitely many heterogeneous households that are subject to no-borrowing constraints, we confirm a conjecture by Frank P. Ramsey according to which, in the long run, society would be divided into the set of patient households who own the entire capital stock and impatient ones without any physical wealth. More specifically, we prove (i) that there exists a unique steady state equilibrium that is globally asymptotically stable and (ii) that along every equilibrium the most patient household owns the entire capital of the economy after some finite time. Furthermore, we prove that despite the presence of the no-borrowing constraints all equilibria are efficient. Our results are derived for the continuous-time formulation of the model that was originally used by Ramsey, and they stand in stark contrast to results that - over the last three decades - have been found in the discrete-time version of the model.

  16. Independence numbers and chromatic numbers of the random subgraphs of some distance graphs

    NASA Astrophysics Data System (ADS)

    Bogolubsky, L. I.; Gusev, A. S.; Pyaderkin, M. M.; Raigorodskii, A. M.

    2015-10-01

    This work is concerned with the Nelson-Hadwiger classical problem of finding the chromatic numbers of distance graphs in ℝn. Most consideration is given to the class of graphs G(n, r, s)= (V(n, r), E(n, r, s)) defined as follows: \\displaystyle V(n, r)=\\bigl\\{\\mathbf{x}=(x_1,\\dots,x_n) : x_i\\in\\{0, 1\\}, x_1+\\dots+x_n=r\\bigr\\},//\\displaystyle E(n, r, s)=\\bigl\\{\\{\\mathbf{x}, \\mathbf{y}: (\\mathbf{x}, \\mathbf{y})=s\\}\\bigr\\}, where (x, y) is the Euclidean inner product. In particular, the chromatic number of G(n, 3, 1) was recently found by Balogh, Kostochka and Raigorodskii. The objects of the study are the random subgraphs 𝒢(G(n, r, s), p) whose edges are independently taken from the set E(n, r, s), each with probability p. The independence number and the chromatic number of such graphs are estimated both from below and from above. In the case when r - s is a prime power and r <= 2s + 1, the order of growth of α(𝒢(G(n, r, s), p)) and χ(𝒢(G(n, r, s), p)) is established. Bibliography: 51 titles.

  17. A Graph Theoretic Criterion for Determining the Number of Clusters in a Data Set.

    ERIC Educational Resources Information Center

    Krolak-Schwerdt, Sabine; Eckes, Thomas

    1992-01-01

    Procedures for determining the number of clusters in a data set are explored. A proposed stopping rule, the GRAPH criterion, is compared to four stopping rules currently in use. The GRAPH criterion's mathematically attractive properties and utility in solving the number-of-clusters problem are demonstrated. (SLD)

  18. Locating-coloring on Halin graphs with a certain number of inner faces

    NASA Astrophysics Data System (ADS)

    Purwasih, I. A.; Baskoro, E. T.; Assiyatun, H.; Suprijanto, D.

    2016-02-01

    For any tree T with at least four vertices and no vertices of degree two, define a Halin graph H(T) as a planar graph constructed from an embedding of T in a plane by connecting all the leaves (the vertices of degree 1) of T to form a cycle C that passes around T in the natural cyclic order defined by the embedding of T . The study of the properties of a Halin graph has received much attention. For instances, it has been shown that every Halin graph is 3-connected and Hamiltonian. A Halin graph has also treewidth at most three, so that many graph optimization problems that are NP-complete for arbitrary planar graphs may be solved in linear time on Halin graphs using dynamic programming. In this paper, we characterize all Halin graphs with 3,4,5,6, and 7 inner faces and give their locating-chromatic number. Furthermore, we show that there exist a Halin graph having locating-chromatic number k ≥ 4 with r ≥max {3 ,(k/-2) 3-(k-2 ) 2 2 +1 } inner faces.

  19. On the characterization of claw-free graphs with given total restrained domination number.

    PubMed

    Pi, Xiaoming

    2016-01-01

    A set S of vertices in graph [Formula: see text] is a [Formula: see text], abbreviated TRDS, of G if every vertex of G is adjacent to a vertex in S and every vertex of [Formula: see text] is adjacent to a vertex in [Formula: see text]. The [Formula: see text] of G, denoted by [Formula: see text], is the minimum cardinality of a TRDS of G. Jiang and Kang (J Comb Optim. 19:60-68, 2010) characterized the connected claw-free graph G of order n with [Formula: see text]. This paper studies the total restrained domination number of claw-free graphs and characterizes the connected claw-free graph G of order n with [Formula: see text].

  20. Ramsey Interference with Single Photons

    NASA Astrophysics Data System (ADS)

    Clemmen, Stéphane; Farsi, Alessandro; Ramelow, Sven; Gaeta, Alexander L.

    2016-11-01

    Interferometry using discrete energy levels of nuclear, atomic, or molecular systems is the foundation for a wide range of physical phenomena and enables powerful techniques such as nuclear magnetic resonance, electron spin resonance, Ramsey-based spectroscopy, and laser or maser technology. It also plays a unique role in quantum information processing as qubits may be implemented as energy superposition states of simple quantum systems. Here, we demonstrate quantum interference involving energy states of single quanta of light. In full analogy to the energy levels of atoms or nuclear spins, we implement a Ramsey interferometer with single photons. We experimentally generate energy superposition states of a single photon and manipulate them with unitary transformations to realize arbitrary projective measurements. Our approach opens the path for frequency-encoded photonic qubits in quantum information processing and quantum communication.

  1. A PVS Graph Theory Library

    NASA Technical Reports Server (NTRS)

    Butler, Ricky W.; Sjogren, Jon A.

    1998-01-01

    This paper documents the NASA Langley PVS graph theory library. The library provides fundamental definitions for graphs, subgraphs, walks, paths, subgraphs generated by walks, trees, cycles, degree, separating sets, and four notions of connectedness. Theorems provided include Ramsey's and Menger's and the equivalence of all four notions of connectedness.

  2. From Number Lines to Graphs in the Coordinate Plane: Investigating Problem Solving across Mathematical Representations

    ERIC Educational Resources Information Center

    Earnest, Darrell

    2015-01-01

    This article reports on students' problem-solving approaches across three representations--number lines, coordinate planes, and function graphs--the axes of which conventional mathematics treats in terms of consistent geometric and numeric coordinations. I consider these representations to be a part of a "hierarchical representational…

  3. Distance graphs having large chromatic numbers and containing no cliques or cycles of a given size

    SciTech Connect

    Demekhin, Evgenii E; Raigorodskii, Andrei M; Rubanov, Oleg I

    2013-04-30

    It is established that there exist sequences of distance graphs G{sub n} subset of R{sup n}, with chromatic numbers which grow exponentially, but, at the same time, without cliques or cycles of a given size. Bibliography: 42 titles.

  4. Ramsey effect of coherent population trapping in anti-relaxation-coated Rb vapor cells

    NASA Astrophysics Data System (ADS)

    Lee, Hyun-Joon; Moon, Han Seb

    2013-08-01

    We examine experimentally and theoretically the Ramsey effects on the coherent population trapping (CPT) resonance in a paraffin-coated Rb vapor cell. The observed CPT spectrum in the Hanle configuration of the 5 S 1/2( F = 2)-5 P 1/2( F' = 1) transition of 87Rb atoms consists of a narrow structure with a spectral width of 0.10 mG due to the wall-induced Ramsey effect and a broad structure with a spectral width of 23 mG due to the transit effect. Considering the velocity distribution of atoms and the number of wall-atom collisions, we numerically calculated the transmittance of the laser beam as a function of the longitudinal magnetic field. The experimental results of the CPT Ramsey interference were in good agreement with the theoretical results, and the dependences of the CPT Ramsey effects on the atom-laser interaction time were investigated in detail.

  5. Large Deviation Function for the Number of Eigenvalues of Sparse Random Graphs Inside an Interval

    NASA Astrophysics Data System (ADS)

    Metz, Fernando L.; Pérez Castillo, Isaac

    2016-09-01

    We present a general method to obtain the exact rate function Ψ[a ,b ](k ) controlling the large deviation probability Prob[IN[a ,b ]=k N ]≍e-N Ψ[a ,b ](k ) that an N ×N sparse random matrix has IN[a ,b ]=k N eigenvalues inside the interval [a ,b ]. The method is applied to study the eigenvalue statistics in two distinct examples: (i) the shifted index number of eigenvalues for an ensemble of Erdös-Rényi graphs and (ii) the number of eigenvalues within a bounded region of the spectrum for the Anderson model on regular random graphs. A salient feature of the rate function in both cases is that, unlike rotationally invariant random matrices, it is asymmetric with respect to its minimum. The asymmetric character depends on the disorder in a way that is compatible with the distinct eigenvalue statistics corresponding to localized and delocalized eigenstates. The results also show that the level compressibility κ2/κ1 for the Anderson model on a regular graph satisfies 0 <κ2/κ1<1 in the bulk regime, in contrast with the behavior found in Gaussian random matrices. Our theoretical findings are thoroughly compared to numerical diagonalization in both cases, showing a reasonable good agreement.

  6. Large Deviation Function for the Number of Eigenvalues of Sparse Random Graphs Inside an Interval.

    PubMed

    Metz, Fernando L; Pérez Castillo, Isaac

    2016-09-02

    We present a general method to obtain the exact rate function Ψ_{[a,b]}(k) controlling the large deviation probability Prob[I_{N}[a,b]=kN]≍e^{-NΨ_{[a,b]}(k)} that an N×N sparse random matrix has I_{N}[a,b]=kN eigenvalues inside the interval [a,b]. The method is applied to study the eigenvalue statistics in two distinct examples: (i) the shifted index number of eigenvalues for an ensemble of Erdös-Rényi graphs and (ii) the number of eigenvalues within a bounded region of the spectrum for the Anderson model on regular random graphs. A salient feature of the rate function in both cases is that, unlike rotationally invariant random matrices, it is asymmetric with respect to its minimum. The asymmetric character depends on the disorder in a way that is compatible with the distinct eigenvalue statistics corresponding to localized and delocalized eigenstates. The results also show that the level compressibility κ_{2}/κ_{1} for the Anderson model on a regular graph satisfies 0<κ_{2}/κ_{1}<1 in the bulk regime, in contrast with the behavior found in Gaussian random matrices. Our theoretical findings are thoroughly compared to numerical diagonalization in both cases, showing a reasonable good agreement.

  7. The Fibonacci Number of a Grid Graph and a New Class of Integer Sequences

    NASA Astrophysics Data System (ADS)

    Euler, Reinhardt

    2005-05-01

    Given a grid graph G of size mn, we study the number i(m,n) of independent sets in G, as well as b(m,n), the number of maximal such sets. It turns out that the initial cases b(1,n) and b(2,n) lead to a Padovan and a Fibonacci sequence. To determine b(m,n) for m > 2 we present an adaptation of the transfer matrix method, well known for calculating i(m,n). Finally, we apply our method to obtain explicit values of b(m,n) for m=3,4,5 and provide the corresponding generating functions.

  8. Graph Embedding Techniques for Bounding Condition Numbers of Incomplete Factor Preconditioning

    NASA Technical Reports Server (NTRS)

    Guattery, Stephen

    1997-01-01

    We extend graph embedding techniques for bounding the spectral condition number of preconditioned systems involving symmetric, irreducibly diagonally dominant M-matrices to systems where the preconditioner is not diagonally dominant. In particular, this allows us to bound the spectral condition number when the preconditioner is based on an incomplete factorization. We provide a review of previous techniques, describe our extension, and give examples both of a bound for a model problem, and of ways in which our techniques give intuitive way of looking at incomplete factor preconditioners.

  9. The maximum number of 3- and 4-cliques within a planar maximally filtered graph

    NASA Astrophysics Data System (ADS)

    Birch, Jenna; Pantelous, Athanasios A.; Zuev, Konstantin

    2015-01-01

    Planar Maximally Filtered Graphs (PMFG) are an important tool for filtering the most relevant information from correlation based networks such as stock market networks. One of the main characteristics of a PMFG is the number of its 3- and 4-cliques. Recently in a few high impact papers it was stated that, based on heuristic evidence, the maximum number of 3- and 4-cliques that can exist in a PMFG with n vertices is 3 n - 8 and n - 4 respectively. In this paper, we prove that this is indeed the case.

  10. Embeddings of graphs into Euclidean space under which the number of points that belong to a hyperplane is minimal

    SciTech Connect

    Oblakov, Konstantin I; Oblakova, Tat'yana A

    2012-10-31

    The paper is devoted to the characteristic of a graph that is the minimal (over all embeddings of the graph into a space of given dimension) number of points that belong to the same hyperplane. Upper and lower estimates for this number are given that linearly depend on the dimension of the space. For trees a more precise upper estimate is obtained, which asymptotically coincides with the lower one for large dimension of the space. Bibliography: 9 titles.

  11. Designing Better Graphs by Including Distributional Information and Integrating Words, Numbers, and Images

    ERIC Educational Resources Information Center

    Lane, David M.; Sandor, Aniko

    2009-01-01

    Statistical graphs are commonly used in scientific publications. Unfortunately, graphs in psychology journals rarely portray distributional information beyond central tendency, and few graphs portray inferential statistics. Moreover, those that do portray inferential information generally do not portray it in a way that is useful for interpreting…

  12. A Novel Graph-based Algorithm to Infer Recurrent Copy Number Variations in Cancer

    PubMed Central

    Chi, Chen; Ajwad, Rasif; Kuang, Qin; Hu, Pingzhao

    2016-01-01

    Many cancers have been linked to copy number variations (CNVs) in the genomic DNA. Although there are existing methods to analyze CNVs from individual samples, cancer-causing genes are more frequently discovered in regions where CNVs are common among tumor samples, also known as recurrent CNVs. Integrating multiple samples and locating recurrent CNV regions remain a challenge, both computationally and conceptually. We propose a new graph-based algorithm for identifying recurrent CNVs using the maximal clique detection technique. The algorithm has an optimal solution, which means all maximal cliques can be identified, and guarantees that the identified CNV regions are the most frequent and that the minimal regions have been delineated among tumor samples. The algorithm has successfully been applied to analyze a large cohort of breast cancer samples and identified some breast cancer-associated genes and pathways. PMID:27773988

  13. A Novel Graph-based Algorithm to Infer Recurrent Copy Number Variations in Cancer.

    PubMed

    Chi, Chen; Ajwad, Rasif; Kuang, Qin; Hu, Pingzhao

    2016-01-01

    Many cancers have been linked to copy number variations (CNVs) in the genomic DNA. Although there are existing methods to analyze CNVs from individual samples, cancer-causing genes are more frequently discovered in regions where CNVs are common among tumor samples, also known as recurrent CNVs. Integrating multiple samples and locating recurrent CNV regions remain a challenge, both computationally and conceptually. We propose a new graph-based algorithm for identifying recurrent CNVs using the maximal clique detection technique. The algorithm has an optimal solution, which means all maximal cliques can be identified, and guarantees that the identified CNV regions are the most frequent and that the minimal regions have been delineated among tumor samples. The algorithm has successfully been applied to analyze a large cohort of breast cancer samples and identified some breast cancer-associated genes and pathways.

  14. Synthetic frequency protocol in the Ramsey spectroscopy

    NASA Astrophysics Data System (ADS)

    Yudin, V. I.; Basalaev, M. Yu; Taichenachev, A. V.

    2017-01-01

    We develop an universal method to significantly suppress probe-induced shifts in any types of atomic clocks using the Ramsey spectroscopy. The frequency shifts can be suppressed considerably below a fractional level of 10‑18 practically for any optical atomic clocks.

  15. Ramsey-Bordé interferometer for electrons

    NASA Astrophysics Data System (ADS)

    Marzlin, Karl-Peter

    2013-10-01

    A scheme to realize an electron interferometer using low-intensity, bichromatic laser pulses as beam splitter is proposed. The splitting process is based on a modification of the Kapitza-Dirac effect, which produces a momentum kick for electrons with a specific initial momentum. A full interferometric setup in Ramsey-Bordé configuration is theoretically analyzed.

  16. Bayesian pedigree inference with small numbers of single nucleotide polymorphisms via a factor-graph representation.

    PubMed

    Anderson, Eric C; Ng, Thomas C

    2016-02-01

    We develop a computational framework for addressing pedigree inference problems using small numbers (80-400) of single nucleotide polymorphisms (SNPs). Our approach relaxes the assumptions, which are commonly made, that sampling is complete with respect to the pedigree and that there is no genotyping error. It relies on representing the inferred pedigree as a factor graph and invoking the Sum-Product algorithm to compute and store quantities that allow the joint probability of the data to be rapidly computed under a large class of rearrangements of the pedigree structure. This allows efficient MCMC sampling over the space of pedigrees, and, hence, Bayesian inference of pedigree structure. In this paper we restrict ourselves to inference of pedigrees without loops using SNPs assumed to be unlinked. We present the methodology in general for multigenerational inference, and we illustrate the method by applying it to the inference of full sibling groups in a large sample (n=1157) of Chinook salmon typed at 95 SNPs. The results show that our method provides a better point estimate and estimate of uncertainty than the currently best-available maximum-likelihood sibling reconstruction method. Extensions of this work to more complex scenarios are briefly discussed.

  17. Ramsey interference in a multilevel quantum system

    NASA Astrophysics Data System (ADS)

    Lee, J. P.; Bennett, A. J.; Skiba-Szymanska, J.; Ellis, D. J. P.; Farrer, I.; Ritchie, D. A.; Shields, A. J.

    2016-02-01

    We report Ramsey interference in the excitonic population of a negatively charged quantum dot measured in resonant fluorescence. Our experiments show that the decay time of the Ramsey interference is limited by the spectral width of the transition. Applying a vertical magnetic field induces Zeeman split transitions that can be addressed by changing the laser detuning to reveal two-, three-, and four-level system behavior. We show that under finite field the phase-sensitive control of two optical pulses from a single laser can be used to prepare both population and spin states simultaneously. We also demonstrate the coherent optical manipulation of a trapped spin in a quantum dot in a Faraday geometry magnetic field.

  18. Probing Macroscopic Realism via Ramsey Correlation Measurements

    NASA Astrophysics Data System (ADS)

    Asadian, A.; Brukner, C.; Rabl, P.

    2014-05-01

    We describe a new and experimentally feasible protocol for performing fundamental tests of quantum mechanics with massive objects. In our approach, a single two-level system is used to probe the motion of a nanomechanical resonator via multiple Ramsey interference measurements. This scheme enables the measurement of modular variables of macroscopic continuous-variable systems; we show that correlations thereof violate a Leggett-Garg inequality and can be applied for tests of quantum contextuality. Our method can be implemented with a variety of different solid-state or photonic qubit-resonator systems, and it provides a clear experimental signature to distinguish the predictions of quantum mechanics from those of other alternative theories at a macroscopic scale.

  19. Time-domain Ramsey interferometry with interacting Rydberg atoms

    NASA Astrophysics Data System (ADS)

    Sommer, Christian; Pupillo, Guido; Takei, Nobuyuki; Takeda, Shuntaro; Tanaka, Akira; Ohmori, Kenji; Genes, Claudiu

    2016-11-01

    We theoretically investigate the dynamics of a gas of strongly interacting Rydberg atoms subject to a time-domain Ramsey interferometry protocol. The many-body dynamics is governed by an Ising-type Hamiltonian with long-range interactions of tunable strength. We analyze and model the contrast degradation and phase accumulation of the Ramsey signal and identify scaling laws for varying interrogation times, ensemble densities, and ensemble dimensionalities.

  20. A physical mechanism for the prediction of the sunspot number during solar cycle 21. [graphs (charts)

    NASA Technical Reports Server (NTRS)

    Schatten, K. H.; Scherrer, P. H.; Svalgaard, L.; Wilcox, J. M.

    1978-01-01

    On physical grounds it is suggested that the sun's polar field strength near a solar minimum is closely related to the following cycle's solar activity. Four methods of estimating the sun's polar magnetic field strength near solar minimum are employed to provide an estimate of cycle 21's yearly mean sunspot number at solar maximum of 140 plus or minus 20. This estimate is considered to be a first order attempt to predict the cycle's activity using one parameter of physical importance.

  1. Complexity and approximability for a problem of intersecting of proximity graphs with minimum number of equal disks

    NASA Astrophysics Data System (ADS)

    Kobylkin, Konstantin

    2016-10-01

    Computational complexity and approximability are studied for the problem of intersecting of a set of straight line segments with the smallest cardinality set of disks of fixed radii r > 0 where the set of segments forms straight line embedding of possibly non-planar geometric graph. This problem arises in physical network security analysis for telecommunication, wireless and road networks represented by specific geometric graphs defined by Euclidean distances between their vertices (proximity graphs). It can be formulated in a form of known Hitting Set problem over a set of Euclidean r-neighbourhoods of segments. Being of interest computational complexity and approximability of Hitting Set over so structured sets of geometric objects did not get much focus in the literature. Strong NP-hardness of the problem is reported over special classes of proximity graphs namely of Delaunay triangulations, some of their connected subgraphs, half-θ6 graphs and non-planar unit disk graphs as well as APX-hardness is given for non-planar geometric graphs at different scales of r with respect to the longest graph edge length. Simple constant factor approximation algorithm is presented for the case where r is at the same scale as the longest edge length.

  2. Graphs, matrices, and the GraphBLAS: Seven good reasons

    DOE PAGES

    Kepner, Jeremy; Bader, David; Buluç, Aydın; ...

    2015-01-01

    The analysis of graphs has become increasingly important to a wide range of applications. Graph analysis presents a number of unique challenges in the areas of (1) software complexity, (2) data complexity, (3) security, (4) mathematical complexity, (5) theoretical analysis, (6) serial performance, and (7) parallel performance. Implementing graph algorithms using matrix-based approaches provides a number of promising solutions to these challenges. The GraphBLAS standard (istcbigdata.org/GraphBlas) is being developed to bring the potential of matrix based graph algorithms to the broadest possible audience. The GraphBLAS mathematically defines a core set of matrix-based graph operations that can be used to implementmore » a wide class of graph algorithms in a wide range of programming environments. This paper provides an introduction to the GraphBLAS and describes how the GraphBLAS can be used to address many of the challenges associated with analysis of graphs.« less

  3. Graphs, matrices, and the GraphBLAS: Seven good reasons

    SciTech Connect

    Kepner, Jeremy; Bader, David; Buluç, Aydın; Gilbert, John; Mattson, Timothy; Meyerhenke, Henning

    2015-01-01

    The analysis of graphs has become increasingly important to a wide range of applications. Graph analysis presents a number of unique challenges in the areas of (1) software complexity, (2) data complexity, (3) security, (4) mathematical complexity, (5) theoretical analysis, (6) serial performance, and (7) parallel performance. Implementing graph algorithms using matrix-based approaches provides a number of promising solutions to these challenges. The GraphBLAS standard (istcbigdata.org/GraphBlas) is being developed to bring the potential of matrix based graph algorithms to the broadest possible audience. The GraphBLAS mathematically defines a core set of matrix-based graph operations that can be used to implement a wide class of graph algorithms in a wide range of programming environments. This paper provides an introduction to the GraphBLAS and describes how the GraphBLAS can be used to address many of the challenges associated with analysis of graphs.

  4. Recognition of Probe Ptolemaic Graphs

    NASA Astrophysics Data System (ADS)

    Chang, Maw-Shang; Hung, Ling-Ju

    Let G denote a graph class. An undirected graph G is called a probe G graph if one can make G a graph in G by adding edges between vertices in some independent set of G. By definition graph class G is a subclass of probe G graphs. Ptolemaic graphs are chordal and induced gem free. They form a subclass of both chordal graphs and distance-hereditary graphs. Many problems NP-hard on chordal graphs can be solved in polynomial time on ptolemaic graphs. We proposed an O(nm)-time algorithm to recognize probe ptolemaic graphs where n and m are the numbers of vertices and edges of the input graph respectively.

  5. Ramsey patterns for multiquantum transitions in fountain experiments

    SciTech Connect

    McColm, D. |

    1996-12-01

    Ramsey patterns for radio-frequency multiquantum transitions among Zeeman levels of the ground state of thallium, cesium, and francium have been calculated. The narrowing of these patterns observed earlier by Gould is predicted to occur only when both static electric and magnetic fields are present. {copyright} {ital 1996 The American Physical Society.}

  6. Synthetic frequency protocol for Ramsey spectroscopy of clock transitions

    NASA Astrophysics Data System (ADS)

    Yudin, V. I.; Taichenachev, A. V.; Basalaev, M. Yu.; Zanon-Willette, T.

    2016-11-01

    We develop a universal method to significantly suppress probe-induced shifts in any type of atomic clock using Ramsey spectroscopy. Our approach is based on the adaptation of the synthetic frequency concept [V. I. Yudin et al., Phys. Rev. Lett. 107, 030801 (2011), 10.1103/PhysRevLett.107.030801] (previously developed for blackbody radiation shift suppression) to Ramsey spectroscopy with the use of interrogations with different dark time intervals. The most significant suppression of the shift is obtained in combination with the so-called hyper-Ramsey spectroscopy technique [V. I. Yudin et al., Phys. Rev. A 82, 011804(R) (2010), 10.1103/PhysRevA.82.011804]. In this case, the probe-induced frequency shifts can be suppressed considerably from metrologically significant levels to below a fractional level of 10-18 for practically any optical atomic clocks. The main advantage of our method in comparison with other hyper-Ramsey approaches [R. Hobson et al., Phys. Rev. A 93, 010501(R) (2016), 10.1103/PhysRevA.93.010501; T. Zanon-Willette et al., Phys. Rev. A 93, 042506 (2016), 10.1103/PhysRevA.93.042506] derives from its much greater efficiency and robustness in the presence of decoherence.

  7. Ramsey-comb spectroscopy: Theory and signal analysis

    NASA Astrophysics Data System (ADS)

    Morgenweg, Jonas; Eikema, Kjeld S. E.

    2014-05-01

    We recently demonstrated that the spectroscopic accuracy and resolution of optical frequency combs can be obtained from a series of Ramsey-like measurements using only two amplified frequency comb pulses at variable delays. In this work we present a comprehensive analytical framework of this Ramsey-comb method in both time and frequency domains. It is shown that as opposed to traditional forms of spectroscopy, the signal analysis can be performed purely in the time domain, based on the temporal phases of the individual Ramsey signals. We give a detailed description of the robust fitting algorithm relying solely on this phase information and discuss special features such as an insensitivity to (transition-independent) spectral line-broadening mechanisms and constant phase shifts, e.g., due to the ac Stark effect from the excitation pulses themselves. The precision and resolution of the Ramsey-comb fitting method is assessed via numerical simulations, including cases of transition-dependent broadening mechanisms and phase shifts.

  8. Optimal reimbursement health insurance and the theory of Ramsey taxation.

    PubMed

    Besley, T J

    1988-12-01

    This paper explores the trade-off between risk sharing and the incentives to consume increased medical care inherent in reimbursement insurance. The results for the theory of reimbursement insurance are compared with those on Ramsey taxation. It is shown that there is a close formal analogy and interpretations are given.

  9. A Semantic Graph Query Language

    SciTech Connect

    Kaplan, I L

    2006-10-16

    Semantic graphs can be used to organize large amounts of information from a number of sources into one unified structure. A semantic query language provides a foundation for extracting information from the semantic graph. The graph query language described here provides a simple, powerful method for querying semantic graphs.

  10. Ramsey interferometry with a two-level generalized Tonks-Girardeau gas

    SciTech Connect

    Mousavi, S. V.; Campo, A. del; Lizuain, I.; Muga, J. G.

    2007-09-15

    We propose a solvable generalization of the Tonks-Girardeau model that describes a coherent one-dimensional (1D) gas of cold two-level bosons which interact with two external fields in a Ramsey interferometer. They also interact among themselves by idealized, infinitely strong contact potentials, with interchange of momentum and internal state. We study the corresponding Ramsey fringes and the quantum projection noise which, essentially unaffected by the interactions, remains that for ideal bosons. The dual system of this gas, an ideal gas of two-level fermions coupled by the interaction with the separated fields, produces the same fringes and noise fluctuations. The cases of time-separated and spatially separated fields are studied. For spatially separated fields the fringes may be broadened slightly by increasing the number of particles, but only for large particle numbers far from present experiments with Tonks-Girardeau gases. The uncertainty in the determination of the atomic transition frequency diminishes, essentially with the inverse root of the particle number. The difficulties to implement the model experimentally and possible shortcomings of strongly interacting 1D gases for frequency standards and atomic clocks are discussed.

  11. Hyper-Ramsey spectroscopy of optical clock transitions

    SciTech Connect

    Yudin, V. I.; Taichenachev, A. V.; Oates, C. W.; Barber, Z. W.; Lemke, N. D.; Ludlow, A. D.; Sterr, U.; Lisdat, Ch.; Riehle, F.

    2010-07-15

    We present nonstandard optical Ramsey schemes that use pulses individually tailored in duration, phase, and frequency to cancel spurious frequency shifts related to the excitation itself. In particular, the field shifts and their uncertainties can be radically suppressed (by two to four orders of magnitude) in comparison with the usual Ramsey method (using two equal pulses) as well as with single-pulse Rabi spectroscopy. Atom interferometers and optical clocks based on two-photon transitions, heavily forbidden transitions, or magnetically induced spectroscopy could significantly benefit from this method. In the latter case, these frequency shifts can be suppressed considerably below a fractional level of 10{sup -17}. Moreover, our approach opens the door for high-precision optical clocks based on direct frequency comb spectroscopy.

  12. Beyond the Spin Model Approximation for Ramsey Spectroscopy

    NASA Astrophysics Data System (ADS)

    Koller, A. P.; Beverland, M.; Gorshkov, A. V.; Rey, A. M.

    2014-03-01

    Ramsey spectroscopy has become a powerful technique for probing nonequilibrium dynamics of internal (pseudospin) degrees of freedom of interacting systems. In many theoretical treatments, the key to understanding the dynamics has been to assume the external (motional) degrees of freedom are decoupled from the pseudospin degrees of freedom. Determining the validity of this approximation—known as the spin model approximation—has not been addressed in detail. Here we shed light in this direction by calculating Ramsey dynamics exactly for two interacting spin-1/2 particles in a harmonic trap. We focus on s-wave-interacting fermions in quasi one- and two-dimensional geometries. We find that in one dimension the spin model assumption works well over a wide range of experimentally relevant conditions, but can fail at time scales longer than those set by the mean interaction energy. Surprisingly, in two dimensions a modified version of the spin model is exact to first order in the interaction strength. This analysis is important for a correct interpretation of Ramsey spectroscopy and has broad applications ranging from precision measurements to quantum information and to fundamental probes of many-body systems.

  13. Graph Library

    SciTech Connect

    Schulz, Martin; Arnold, Dorian

    2007-06-12

    GraphLib is a support library used by other tools to create, manipulate, store, and export graphs. It provides a simple interface to specifS’ arbitrary directed and undirected graphs by adding nodes and edges. Each node and edge can be associated with a set of attributes describing size, color, and shape. Once created, graphs can be manipulated using a set of graph analysis algorithms, including merge, prune, and path coloring operations. GraphLib also has the ability to export graphs into various open formats such as DOT and GML.

  14. Beyond the Spin Model Approximation for Ramsey Spectroscopy

    DTIC Science & Technology

    2014-03-26

    Ramsey dynamics exactly for two interacting spin-1/2 particles in a harmonic trap. We focus on s-wave-interacting fermions in quasi one- and two... fermionic systems [15–18], and as a means to probe many-body interactions in atomic, molecular, and trapped ion systems [19–27]. Generally speaking...for fermions with s-wave interactions and an internal pseudospin-1/2 degree of freedom, confined in quasi-1D and quasi-2D harmonic traps. We show

  15. Ramsey pricing and supply-side incentives in physician markets.

    PubMed

    Wedig, G J

    1993-12-01

    In this paper, I develop a theory of optimal prices using a relative value scale where there are fixed costs of medical practice. I consider a regulator constrained to set prices in excess of marginal cost, in markets where physicians can create demand at the margin. Under these conditions, basing prices on physician costs alone is shown to be suboptimal. Instead, prices should anticipate the behavior of physicians by setting profit margins highest for services least susceptible to demand creation. This is equivalent to a form of Ramsey pricing, used in this case to minimize the deadweight loss of oversupply.

  16. Lockheed Solar Observatory and the Discovery of Moreton-Ramsey Waves

    NASA Astrophysics Data System (ADS)

    Tarbell, Theodore D.

    2014-06-01

    Moreton Waves are high-speed disturbances seen traveling away from large solar flares in H-alpha movies of the solar chromosphere. They were discovered by the observer Harry Ramsey in the late 1950s, and then published and publicized by the director Gail Moreton, both of the Lockheed Solar Observatory in the Hollywood Hills of Southern California. These efforts established the scientific reputation and secured continuing funding of the observatory, whose present-day successor is the Lockheed Martin Solar and Astrophysics Lab in Palo Alto. Moreton waves are rare, and there was limited interest in them until the EIT instrument on SOHO began seeing large numbers of similar waves in the corona in the late 1990s. The exact relation between the two observations is still a research topic today. This talk will describe some of the history of the observatory and the discovery and early interpretation of the waves.

  17. Free Nano-Object Ramsey Interferometry for Large Quantum Superpositions

    NASA Astrophysics Data System (ADS)

    Wan, C.; Scala, M.; Morley, G. W.; Rahman, ATM. A.; Ulbricht, H.; Bateman, J.; Barker, P. F.; Bose, S.; Kim, M. S.

    2016-09-01

    We propose an interferometric scheme based on an untrapped nano-object subjected to gravity. The motion of the center of mass (c.m.) of the free object is coupled to its internal spin system magnetically, and a free flight scheme is developed based on coherent spin control. The wave packet of the test object, under a spin-dependent force, may then be delocalized to a macroscopic scale. A gravity induced dynamical phase (accrued solely on the spin state, and measured through a Ramsey scheme) is used to reveal the above spatially delocalized superposition of the spin-nano-object composite system that arises during our scheme. We find a remarkable immunity to the motional noise in the c.m. (initially in a thermal state with moderate cooling), and also a dynamical decoupling nature of the scheme itself. Together they secure a high visibility of the resulting Ramsey fringes. The mass independence of our scheme makes it viable for a nano-object selected from an ensemble with a high mass variability. Given these advantages, a quantum superposition with a 100 nm spatial separation for a massive object of 1 09 amu is achievable experimentally, providing a route to test postulated modifications of quantum theory such as continuous spontaneous localization.

  18. Free Nano-Object Ramsey Interferometry for Large Quantum Superpositions.

    PubMed

    Wan, C; Scala, M; Morley, G W; Rahman, Atm A; Ulbricht, H; Bateman, J; Barker, P F; Bose, S; Kim, M S

    2016-09-30

    We propose an interferometric scheme based on an untrapped nano-object subjected to gravity. The motion of the center of mass (c.m.) of the free object is coupled to its internal spin system magnetically, and a free flight scheme is developed based on coherent spin control. The wave packet of the test object, under a spin-dependent force, may then be delocalized to a macroscopic scale. A gravity induced dynamical phase (accrued solely on the spin state, and measured through a Ramsey scheme) is used to reveal the above spatially delocalized superposition of the spin-nano-object composite system that arises during our scheme. We find a remarkable immunity to the motional noise in the c.m. (initially in a thermal state with moderate cooling), and also a dynamical decoupling nature of the scheme itself. Together they secure a high visibility of the resulting Ramsey fringes. The mass independence of our scheme makes it viable for a nano-object selected from an ensemble with a high mass variability. Given these advantages, a quantum superposition with a 100 nm spatial separation for a massive object of 10^{9}  amu is achievable experimentally, providing a route to test postulated modifications of quantum theory such as continuous spontaneous localization.

  19. Fault-tolerant Hahn-Ramsey interferometry with pulse sequences of alternating detuning

    NASA Astrophysics Data System (ADS)

    Vitanov, Nikolay V.; Gloger, Timm F.; Kaufmann, Peter; Kaufmann, Delia; Collath, Thomas; Tanveer Baig, M.; Johanning, Michael; Wunderlich, Christof

    2015-03-01

    A scheme for efficient correction of driving-field frequency drifts in Ramsey interferometry is proposed. The two off-resonant π /2 pulses of duration T used in the traditional Ramsey setup are supplemented with an additional pulse of duration 2 T (approximate π pulse), which is applied midway between the Ramsey pulses and has a detuning of opposite sign to theirs. This scheme, which resembles a Hahn's spin-echo pulse embedded into the Ramsey setup, corrects small-to-moderate random errors in the detuning of the driving field. This allows the observation of Ramsey fringes of high contrast even with a noisy driving field or in inhomogeneously broadened atomic ensembles. The contrast is further improved by replacing the refocusing 2 T pulse by a composite π pulse. We demonstrate the validity of the concept by comparing experimental results from usual Ramsey measurements with Hahn-Ramsey measurements. These experimental results are obtained from microwave-optical double-resonance spectroscopy on 171Yb+ ions in a segmented linear Paul trap. In the same way, we verify qualitatively the predicted advantage from using a composite π pulse for refocusing.

  20. Graph ensemble boosting for imbalanced noisy graph stream classification.

    PubMed

    Pan, Shirui; Wu, Jia; Zhu, Xingquan; Zhang, Chengqi

    2015-05-01

    Many applications involve stream data with structural dependency, graph representations, and continuously increasing volumes. For these applications, it is very common that their class distributions are imbalanced with minority (or positive) samples being only a small portion of the population, which imposes significant challenges for learning models to accurately identify minority samples. This problem is further complicated with the presence of noise, because they are similar to minority samples and any treatment for the class imbalance may falsely focus on the noise and result in deterioration of accuracy. In this paper, we propose a classification model to tackle imbalanced graph streams with noise. Our method, graph ensemble boosting, employs an ensemble-based framework to partition graph stream into chunks each containing a number of noisy graphs with imbalanced class distributions. For each individual chunk, we propose a boosting algorithm to combine discriminative subgraph pattern selection and model learning as a unified framework for graph classification. To tackle concept drifting in graph streams, an instance level weighting mechanism is used to dynamically adjust the instance weight, through which the boosting framework can emphasize on difficult graph samples. The classifiers built from different graph chunks form an ensemble for graph stream classification. Experiments on real-life imbalanced graph streams demonstrate clear benefits of our boosting design for handling imbalanced noisy graph stream.

  1. RAMSEYS DRAFT WILDERNESS STUDY AREA AND ADDITION, VIRGINIA.

    USGS Publications Warehouse

    Lesure, Frank G.; Mory, Peter C.

    1984-01-01

    Mineral-resource surveys of the Ramseys Draft Wilderness Study Area and adjoining roadless area addition in George Washington National Forest in the western valley and ridge province, Augusta and Highland Counties, Virginia, were done. The surveys outlined three small areas containing anomalous amounts of copper, lead, and zinc related to stratabound red-bed copper mineralization, but these occurrences are not large and are not considered as having mineral-resource potential. The area contains abundant sandstone suitable for construction materials and shale suitable for making brick, tile, and other low-grade ceramic products, but these commodities occur in abundance outside the wilderness study area. Structural conditions are probably favorable for the accumulation of natural gas, but exploratory drilling has not been done sufficiently near the area to evaluate the gas potential.

  2. Generalized Ramsey excitation scheme with suppressed light shift.

    PubMed

    Huntemann, N; Lipphardt, B; Okhapkin, M; Tamm, Chr; Peik, E; Taichenachev, A V; Yudin, V I

    2012-11-21

    We experimentally investigate a recently proposed optical excitation scheme V. I. Yudin et al. [Phys. Rev. A 82, 011804(R) (2010)] that is a generalization of Ramsey's method of separated oscillatory fields and consists of a sequence of three excitation pulses. The pulse sequence is tailored to produce a resonance signal that is immune to the light shift and other shifts of the transition frequency that are correlated with the interaction with the probe field. We investigate the scheme using a single trapped ^{171}Yb^{+} ion and excite the highly forbidden (2)S(1/2) - (2)F(7/2) electric-octupole transition under conditions where the light shift is much larger than the excitation linewidth, which is in the hertz range. The experiments demonstrate a suppression of the light shift by four orders of magnitude and an immunity against its fluctuations.

  3. Ramsey-type phase control of free-electron beams

    NASA Astrophysics Data System (ADS)

    Echternkamp, Katharina E.; Feist, Armin; Schäfer, Sascha; Ropers, Claus

    2016-11-01

    Quantum coherent evolution, interference between multiple distinct paths and phase-controlled sequential interactions are the basis for powerful multi-dimensional optical and nuclear magnetic resonance spectroscopies, including Ramsey's method of separated fields. Recent developments in the quantum state preparation of free electrons suggest a transfer of such concepts to ultrafast electron imaging and spectroscopy. Here, we demonstrate the sequential coherent manipulation of free-electron superposition states in an ultrashort electron pulse, using nanostructures featuring two spatially separated near-fields with polarization anisotropy. The incident light polarization controls the relative phase of these near-fields, yielding constructive and destructive quantum interference of the subsequent interactions. Future implementations of such electron-light interferometers may provide access to optically phase-resolved electronic dynamics and dephasing mechanisms with attosecond precision.

  4. Ultrafast Ramsey interferometry to implement cold atomic qubit gates

    PubMed Central

    Lim, Jongseok; Lee, Han-gyeol; Lee, Sangkyung; Park, Chang-Yong; Ahn, Jaewook

    2014-01-01

    Quantum computing is based on unitary operations in a two-level quantum system, a qubit, as the fundamental building block, and the ability to perform qubit operations in an amount of time that is considerably shorter than the coherence time is an essential requirement for quantum computation. Here, we present an experimental demonstration of arbitrary single-qubit SU(2) quantum gate operations achieved at a terahertz clock speed. Implemented by coherent control methods of tailored ultrafast laser interaction with cold rubidium atomic qubits, Bloch vector manipulation about all three rotational axes was successfully demonstrated. The dynamic evolution of the qubits was successfully measured by devised femtosecond Ramsey interferometry. We anticipate this demonstration to be a starting point to process quantum algorithm in a simplified manner by a programmed sequence of femtosecond laser pulses. PMID:25070166

  5. Graphing Predictions

    ERIC Educational Resources Information Center

    Connery, Keely Flynn

    2007-01-01

    Graphing predictions is especially important in classes where relationships between variables need to be explored and derived. In this article, the author describes how his students sketch the graphs of their predictions before they begin their investigations on two laboratory activities: Distance Versus Time Cart Race Lab and Resistance; and…

  6. Prospect for development of a pulsed CPT Raman Ramsey clock using atomic vapor

    NASA Astrophysics Data System (ADS)

    Pati, Gour S.; Fatemi, Fredrik K.; Bashkansky, Mark; Shahriar, Selim

    2010-02-01

    The phenomenon of all-optical Ramsey interference using pulsed coherent population trapping (CPT) beams provides a new avenue for developing frequency standards using atomic vapor. In this study, we show that frequency narrowed Ramsey fringes can be produced in rubidium vapor without the effect of power broadening. We observed fringes of width as narrow as 1 kHz using a buffer-gas filled rubidium cell. A compact injection-locked laser (ILL) system was used to generate CPT beams. Studies also show that ac Stark effect on Ramsey fringes can be reduced, and higher frequency stability can be achieved in a clock application. The results are encouraging to propose an architecture for development of a pulsed CPT Ramsey clock. In this paper, we also provide related discussions on clock frequency stability, and our plans for future experiments.

  7. Scenario Graphs and Attack Graphs

    DTIC Science & Technology

    2004-04-14

    46 6.1 Vulnerability Analysis of a Network . . . . . . . . . . . . . . . . . . . . . . . . . 53 6.2 Sandia Red Team Attack Graph...asymptotic bound. The test machine was a 1Ghz Pentium III with 1GB of RAM, running Red Hat Linux 7.3. Figure 4.1(a) plots running time of the implemen...host scanning tools network information vulnerability Attack Graph network Red

  8. Color genes in the orchid Oncidium Gower Ramsey: identification, expression, and potential genetic instability in an interspecific cross.

    PubMed

    Hieber, A David; Mudalige-Jayawickrama, Rasika G; Kuehnle, Adelheid R

    2006-02-01

    Orchids are one of the most unique and evolved of flowering plants, with many being valuable floricultural crops. Spatial localization of pigments within the flower of the commercially important bi-color Oncidium Gower Ramsey demonstrated a mixture of carotenoids and anthocyanins concentrated in the adaxial epidermis. Chromatography identified the predominant yellow pigment to be an equal mixture of all-trans and 9-cis isomers of violaxanthin, with esterification specific to the 9-cis isomer. Red ornamentation was comprised of the anthocyanins cyanidin and its methylated derivate, peonidin. Five key pigment biosynthesis genes encoding dihydroflavonol 4-reductase (DFR), phytoene synthase (PSY), phytoene desaturase, carotenoid isomerase, and the downstream 9-cis epoxycarotenoid dioxygenase were isolated and their expression profiles determined. Northern analyses showed both phytoene desaturase and carotenoid isomerase expression to be up-regulated in floral tissue relative to leaves whereas PSY was not. Three closely related DFR genes were isolated, including one with an insertion in the 3' coding region. DFR expression occurred throughout flower development in Oncidium, unlike in Dendrobium and Bromheadia orchids. A number of the isolated anthocyanin and carotenoid genes showed variations due to insertion events. These findings raise questions about the genetic stability in interspecific crosses in orchids, such as the tri-specific Oncidium Gower Ramsey.

  9. Graph Theory

    SciTech Connect

    Sanfilippo, Antonio P.

    2005-12-27

    Graph theory is a branch of discrete combinatorial mathematics that studies the properties of graphs. The theory was pioneered by the Swiss mathematician Leonhard Euler in the 18th century, commenced its formal development during the second half of the 19th century, and has witnessed substantial growth during the last seventy years, with applications in areas as diverse as engineering, computer science, physics, sociology, chemistry and biology. Graph theory has also had a strong impact in computational linguistics by providing the foundations for the theory of features structures that has emerged as one of the most widely used frameworks for the representation of grammar formalisms.

  10. Theory of Ramsey spectroscopy and anomalous segregation in ultracold rubidium

    NASA Astrophysics Data System (ADS)

    Bradley, A. S.; Gardiner, C. W.

    2002-10-01

    The recent anomalous segregation experiment (Lewandowski H J, Harber D M, Whitaker D L and Cornell E A 2002 Phys. Rev. Lett. 88 070403) shows dramatic, rapid internal state segregation for two hyperfine levels of 87Rb. We simulate an effective one-dimensional model of the system for experimental parameters and find reasonable agreement with the data. The Ramsey frequency is found to be insensitive to the decoherence of the superposition, and is only equivalent to the interaction energy shift for a pure superposition. A quantum Boltzmann equation describing collisions is derived using quantum kinetic theory, taking into account the different scattering lengths of the internal states. As spin-wave experiments are likely to be attempted at lower temperatures we examine the effect of degeneracy on decoherence by considering the recent experiment, where degeneracy is around 10%. We also find that the segregation effect is only possible when transport terms are included in the equations of motion, and that the interactions only directly alter the momentum distributions of the states. The segregation or spin-wave effect is thus entirely due to coherent atomic motion as foreseen by Lewandowski et al.

  11. Ultracold metastable helium: Ramsey fringes and atom interferometry

    NASA Astrophysics Data System (ADS)

    Vassen, W.; Notermans, R. P. M. J. W.; Rengelink, R. J.; van der Beek, R. F. H. J.

    2016-12-01

    We report on interference studies in the internal and external degrees of freedom of metastable triplet helium atoms trapped near quantum degeneracy in a 1.5 μm optical dipole trap. Applying a single π /2 rf pulse we demonstrate that 50% of the atoms initially in the m=+1 state can be transferred to the magnetic field insensitive m=0 state. Two π /2 pulses with varying time delay allow a Ramsey-type measurement of the Zeeman shift for a high precision measurement of the 2 ^3S_1-2 ^1S_0 transition frequency. We show that this method also allows strong suppression of mean-field effects on the measurement of the Zeeman shift, which is necessary to reach the accuracy goal of 0.1 kHz on the absolute transition frequencies. Theoretically the feasibility of using metastable triplet helium atoms in the m=0 state for atom interferometry is studied demonstrating favorable conditions, compared to the alkali atoms that are used traditionally, for a non-QED determination of the fine structure constant.

  12. Commuting projections on graphs

    SciTech Connect

    Vassilevski, Panayot S.; Zikatanov, Ludmil T.

    2013-02-19

    For a given (connected) graph, we consider vector spaces of (discrete) functions defined on its vertices and its edges. These two spaces are related by a discrete gradient operator, Grad and its adjoint, ₋Div, referred to as (negative) discrete divergence. We also consider a coarse graph obtained by aggregation of vertices of the original one. Then a coarse vertex space is identified with the subspace of piecewise constant functions over the aggregates. We consider the ℓ2-projection QH onto the space of these piecewise constants. In the present paper, our main result is the construction of a projection π H from the original edge-space onto a properly constructed coarse edge-space associated with the edges of the coarse graph. The projections π H and QH commute with the discrete divergence operator, i.e., we have div π H = QH div. The respective pair of coarse edge-space and coarse vertexspace offer the potential to construct two-level, and by recursion, multilevel methods for the mixed formulation of the graph Laplacian which utilizes the discrete divergence operator. The performance of one two-level method with overlapping Schwarz smoothing and correction based on the constructed coarse spaces for solving such mixed graph Laplacian systems is illustrated on a number of graph examples.

  13. Laser Frequency Stabilization Using a Calcium Ramsey-Bordé Interferometer

    NASA Astrophysics Data System (ADS)

    Olson, Judith; Fox, Richard; de Carlos-Lopez, Eduardo; Oates, Chris; Ludlow, Andrew

    2015-05-01

    Ramsey-Bordé (RB) interferometry is a powerful spectroscopic tool for the interrogation of narrow optical resonances. Even for atomic systems with broad velocity distributions, spectral features free from first-order Doppler and transit-time broadening can be resolved using two counterpropagating pairs of copropagating beams. In our system, a high-flux thermal calcium beam is excited from the 1S0 to 3P1 state using the 657 nm intercombination line. The high spectral resolution afforded by RB interferometry allows exploration of spectral features approaching the transition's natural linewidth, 400 Hz. Together with the large atom number from the continuously fed thermal beam, the optical frequency reference has considerable potential for a compact frequency standard with extremely low instability. We previously observed fractional frequency instability of 5 . 5 ×10-15 at 1s using this technique. With the addition of a laser to access the strong 431 nm cycling transition from the 3P1 to the doubly excited 3P0 state, the potential exists to achieve frequency stability below 10-16 at short times. We explore the implementation of this system and future enhancements to further improve the standard's short- and long-term performance.

  14. Adjusting protein graphs based on graph entropy.

    PubMed

    Peng, Sheng-Lung; Tsay, Yu-Wei

    2014-01-01

    Measuring protein structural similarity attempts to establish a relationship of equivalence between polymer structures based on their conformations. In several recent studies, researchers have explored protein-graph remodeling, instead of looking a minimum superimposition for pairwise proteins. When graphs are used to represent structured objects, the problem of measuring object similarity become one of computing the similarity between graphs. Graph theory provides an alternative perspective as well as efficiency. Once a protein graph has been created, its structural stability must be verified. Therefore, a criterion is needed to determine if a protein graph can be used for structural comparison. In this paper, we propose a measurement for protein graph remodeling based on graph entropy. We extend the concept of graph entropy to determine whether a graph is suitable for representing a protein. The experimental results suggest that when applied, graph entropy helps a conformational on protein graph modeling. Furthermore, it indirectly contributes to protein structural comparison if a protein graph is solid.

  15. Exploring Ramsey-coherent population trapping atomic clock realized with pulsed microwave modulated laser

    SciTech Connect

    Yang, Jing; Yun, Peter; Tian, Yuan; Tan, Bozhong; Gu, Sihong

    2014-03-07

    A scheme for a Ramsey-coherent population trapping (CPT) atomic clock that eliminates the acousto-optic modulator (AOM) is proposed and experimentally studied. Driven by a periodically microwave modulated current, the vertical-cavity surface-emitting laser emits a continuous beam that switches between monochromatic and multichromatic modes. Ramsey-CPT interference has been studied with this mode-switching beam. In eliminating the AOM, which is used to generate pulsed laser in conventional Ramsey-CPT atomic clock, the physics package of the proposed scheme is virtually the same as that of a conventional compact CPT atomic clock, although the resource budget for the electronics will slightly increase as a microwave switch should be added. By evaluating and comparing experimentally recorded signals from the two Ramsey-CPT schemes, the short-term frequency stability of the proposed scheme was found to be 46% better than the scheme with AOM. The experimental results suggest that the implementation of a compact Ramsey-CPT atomic clock promises better frequency stability.

  16. Test of Graphing and Graph Interpretation Skills.

    ERIC Educational Resources Information Center

    Hermann, J.

    This monograph is a test of graphing and graph interpretation skills which assesses performance on all the skills of graphing which are contained in the AAAS program, Science - A Process Approach. The testing includes construction of bar graphs, interpreting information on graphs, the use of the Cartesian coordinate system, making predictions from…

  17. Evaluation of Graph Pattern Matching Workloads in Graph Analysis Systems

    SciTech Connect

    Hong, Seokyong; Lee, Sangkeun; Lim, Seung-Hwan; Sukumar, Sreenivas Rangan; Vatsavai, Raju

    2016-01-01

    Graph analysis has emerged as a powerful method for data scientists to represent, integrate, query, and explore heterogeneous data sources. As a result, graph data management and mining became a popular area of research, and led to the development of plethora of systems in recent years. Unfortunately, the number of emerging graph analysis systems and the wide range of applications, coupled with a lack of apples-to-apples comparisons, make it difficult to understand the trade-offs between different systems and the graph operations for which they are designed. A fair comparison of these systems is a challenging task for the following reasons: multiple data models, non-standardized serialization formats, various query interfaces to users, and diverse environments they operate in. To address these key challenges, in this paper we present a new benchmark suite by extending the Lehigh University Benchmark (LUBM) to cover the most common capabilities of various graph analysis systems. We provide the design process of the benchmark, which generalizes the workflow for data scientists to conduct the desired graph analysis on different graph analysis systems. Equipped with this extended benchmark suite, we present performance comparison for nine subgraph pattern retrieval operations over six graph analysis systems, namely NetworkX, Neo4j, Jena, Titan, GraphX, and uRiKA. Through the proposed benchmark suite, this study reveals both quantitative and qualitative findings in (1) implications in loading data into each system; (2) challenges in describing graph patterns for each query interface; and (3) different sensitivity of each system to query selectivity. We envision that this study will pave the road for: (i) data scientists to select the suitable graph analysis systems, and (ii) data management system designers to advance graph analysis systems.

  18. Graphing Reality

    NASA Astrophysics Data System (ADS)

    Beeken, Paul

    2014-11-01

    Graphing is an essential skill that forms the foundation of any physical science.1 Understanding the relationships between measurements ultimately determines which modeling equations are successful in predicting observations.2 Over the years, science and math teachers have approached teaching this skill with a variety of techniques. For secondary school instruction, the job of graphing skills falls heavily on physics teachers. By virtue of the nature of the topics we cover, it is our mission to develop this skill to the fine art that it is.

  19. Coloring geographical threshold graphs

    SciTech Connect

    Bradonjic, Milan; Percus, Allon; Muller, Tobias

    2008-01-01

    We propose a coloring algorithm for sparse random graphs generated by the geographical threshold graph (GTG) model, a generalization of random geometric graphs (RGG). In a GTG, nodes are distributed in a Euclidean space, and edges are assigned according to a threshold function involving the distance between nodes as well as randomly chosen node weights. The motivation for analyzing this model is that many real networks (e.g., wireless networks, the Internet, etc.) need to be studied by using a 'richer' stochastic model (which in this case includes both a distance between nodes and weights on the nodes). Here, we analyze the GTG coloring algorithm together with the graph's clique number, showing formally that in spite of the differences in structure between GTG and RGG, the asymptotic behavior of the chromatic number is identical: {chi}1n 1n n / 1n n (1 + {omicron}(1)). Finally, we consider the leading corrections to this expression, again using the coloring algorithm and clique number to provide bounds on the chromatic number. We show that the gap between the lower and upper bound is within C 1n n / (1n 1n n){sup 2}, and specify the constant C.

  20. High-accuracy deep-UV Ramsey-comb spectroscopy in krypton

    NASA Astrophysics Data System (ADS)

    Galtier, Sandrine; Altmann, Robert K.; Dreissen, Laura S.; Eikema, Kjeld S. E.

    2017-01-01

    In this paper, we present a detailed account of the first precision Ramsey-comb spectroscopy in the deep UV. We excite krypton in an atomic beam using pairs of frequency-comb laser pulses that have been amplified to the millijoule level and upconverted through frequency doubling in BBO crystals. The resulting phase-coherent deep-UV pulses at 212.55 nm are used in the Ramsey-comb method to excite the two-photon 4p^6 → 4p^5 5p [1/2 ]_0 transition. For the {}^{84}Kr isotope, we find a transition frequency of 2829833101679(103) kHz. The fractional accuracy of 3.7 × 10^{-11} is 34 times better than previous measurements, and also the isotope shifts are measured with improved accuracy. This demonstration shows the potential of Ramsey-comb excitation for precision spectroscopy at short wavelengths.

  1. Threshold Graph Limits and Random Threshold Graphs

    PubMed Central

    Diaconis, Persi; Holmes, Susan; Janson, Svante

    2010-01-01

    We study the limit theory of large threshold graphs and apply this to a variety of models for random threshold graphs. The results give a nice set of examples for the emerging theory of graph limits. PMID:20811581

  2. Graphing Reality

    ERIC Educational Resources Information Center

    Beeken, Paul

    2014-01-01

    Graphing is an essential skill that forms the foundation of any physical science. Understanding the relationships between measurements ultimately determines which modeling equations are successful in predicting observations. Over the years, science and math teachers have approached teaching this skill with a variety of techniques. For secondary…

  3. GraphBench

    SciTech Connect

    Sukumar, Sreenivas R.; Hong, Seokyong; Lee, Sangkeun; Lim, Seung-Hwan

    2016-06-01

    GraphBench is a benchmark suite for graph pattern mining and graph analysis systems. The benchmark suite is a significant addition to conducting apples-apples comparison of graph analysis software (databases, in-memory tools, triple stores, etc.)

  4. Optical Ramsey spectroscopy in a rotating frame: Sagnac effect in a matter-wave interferometer

    SciTech Connect

    Riehle, F.; Kisters, T.; Witte, A.; Helmcke, J. ); Borde, C.J. Laboratoire de Physique des Lasers, Universite Paris, Villetaneuse, France )

    1991-07-08

    A calcium atomic beam excited in an optical Ramsey geometry was rotated about an axis perpendicular to the plane defined by the laser beams and the atomic beam. A frequency shift of the Ramsey fringes of several kHz has been measured which is proportional to the rotation frequency of the apparatus and to the distance between the laser beams. The results can be interpreted in three equivalent ways as the Sagnac effect in a calcium-atomic-beam interferometer: in the rotating frame of the laser beams either along straight paths or along the curved trajectories of the atoms, or in the inertial atomic frame.

  5. Line graphs for fractals

    NASA Astrophysics Data System (ADS)

    Warchalowski, Wiktor; Krawczyk, Malgorzata J.

    2017-03-01

    We found the Lindenmayer systems for line graphs built on selected fractals. We show that the fractal dimension of such obtained graphs in all analysed cases is the same as for their original graphs. Both for the original graphs and for their line graphs we identified classes of nodes which reflect symmetry of the graph.

  6. Semi-Markov Graph Dynamics

    PubMed Central

    Raberto, Marco; Rapallo, Fabio; Scalas, Enrico

    2011-01-01

    In this paper, we outline a model of graph (or network) dynamics based on two ingredients. The first ingredient is a Markov chain on the space of possible graphs. The second ingredient is a semi-Markov counting process of renewal type. The model consists in subordinating the Markov chain to the semi-Markov counting process. In simple words, this means that the chain transitions occur at random time instants called epochs. The model is quite rich and its possible connections with algebraic geometry are briefly discussed. Moreover, for the sake of simplicity, we focus on the space of undirected graphs with a fixed number of nodes. However, in an example, we present an interbank market model where it is meaningful to use directed graphs or even weighted graphs. PMID:21887245

  7. Network reconstruction via graph blending

    NASA Astrophysics Data System (ADS)

    Estrada, Rolando

    2016-05-01

    Graphs estimated from empirical data are often noisy and incomplete due to the difficulty of faithfully observing all the components (nodes and edges) of the true graph. This problem is particularly acute for large networks where the number of components may far exceed available surveillance capabilities. Errors in the observed graph can render subsequent analyses invalid, so it is vital to develop robust methods that can minimize these observational errors. Errors in the observed graph may include missing and spurious components, as well fused (multiple nodes are merged into one) and split (a single node is misinterpreted as many) nodes. Traditional graph reconstruction methods are only able to identify missing or spurious components (primarily edges, and to a lesser degree nodes), so we developed a novel graph blending framework that allows us to cast the full estimation problem as a simple edge addition/deletion problem. Armed with this framework, we systematically investigate the viability of various topological graph features, such as the degree distribution or the clustering coefficients, and existing graph reconstruction methods for tackling the full estimation problem. Our experimental results suggest that incorporating any topological feature as a source of information actually hinders reconstruction accuracy. We provide a theoretical analysis of this phenomenon and suggest several avenues for improving this estimation problem.

  8. Lost Innocent and Sacrificial Delegate: The JonBenet Ramsey Murder.

    ERIC Educational Resources Information Center

    Conrad, Joann

    1999-01-01

    Analyzes murder case of 6-year-old JonBenet Ramsey as emblematic of American cultural fascination with images of the innocence of children and the perfect family, and of a change in cultural self-awareness as these images prove illusionary. Considers the role of mass media in marketing a cultural fascination with sexualized images of children and…

  9. A high-performance Raman-Ramsey Cs vapor cell atomic clock

    NASA Astrophysics Data System (ADS)

    Abdel Hafiz, Moustafa; Coget, Grégoire; Yun, Peter; Guérandel, Stéphane; de Clercq, Emeric; Boudot, Rodolphe

    2017-03-01

    We demonstrate a high-performance coherent-population-trapping (CPT) Cs vapor cell atomic clock using the push-pull optical pumping technique in the pulsed regime, allowing the detection of high-contrast and narrow Ramsey-CPT fringes. The impact of several experimental parameters onto the clock resonance and short-term fractional frequency stability, including the laser power, the cell temperature, and the Ramsey sequence parameters, has been investigated. We observe and explain the existence of a slight dependence on laser power of the central Ramsey-CPT fringe line-width in the pulsed regime. We report also that the central fringe line-width is commonly narrower than the expected Ramsey line-width given by 1 / ( 2 T R ) , with TR the free-evolution time, for short values of TR. The clock demonstrates a short-term fractional frequency stability at the level of 2.3 × 10 - 13 τ - 1 / 2 up to 100 s averaging time, mainly limited by the laser amplitude modulation noise. Comparable performances are obtained in the conventional continuous wave regime, with the use of an additional laser power stabilization setup. The pulsed interaction allows to reduce significantly the clock frequency sensitivity to laser power variations, especially for high values of TR. This pulsed CPT clock, ranking among the best microwave vapor cell atomic frequency standards, could find applications in telecommunication, instrumentation, defense or satellite-based navigation systems.

  10. 76 FR 20034 - Calvin Ramsey, M.D.; Revocation of Registration

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-04-11

    .... Recore, 446 F.3d 324, 330-31 (2d Cir. 2006). Under DEA's longstanding interpretation of the CSA... Enforcement Administration Calvin Ramsey, M.D.; Revocation of Registration On December 18, 2009, the Deputy... the revocation of Respondent's DEA Certificate of Registration, AR7086689, as a practitioner, and...

  11. Ramsey fringes in a Bose-Einstein condensate between atoms and molecules.

    PubMed

    Kokkelmans, S J J M F; Holland, M J

    2002-10-28

    In a recent experiment, a Feshbach scattering resonance was exploited to observe Ramsey fringes in a 85Rb Bose-Einstein condensate. The oscillation frequency corresponded to the binding energy of the molecular state. We show that the observations are remarkably consistent with predictions of a resonance field theory in which the fringes arise from oscillations between atoms and molecules.

  12. Boosting for multi-graph classification.

    PubMed

    Wu, Jia; Pan, Shirui; Zhu, Xingquan; Cai, Zhihua

    2015-03-01

    In this paper, we formulate a novel graph-based learning problem, multi-graph classification (MGC), which aims to learn a classifier from a set of labeled bags each containing a number of graphs inside the bag. A bag is labeled positive, if at least one graph in the bag is positive, and negative otherwise. Such a multi-graph representation can be used for many real-world applications, such as webpage classification, where a webpage can be regarded as a bag with texts and images inside the webpage being represented as graphs. This problem is a generalization of multi-instance learning (MIL) but with vital differences, mainly because instances in MIL share a common feature space whereas no feature is available to represent graphs in a multi-graph bag. To solve the problem, we propose a boosting based multi-graph classification framework (bMGC). Given a set of labeled multi-graph bags, bMGC employs dynamic weight adjustment at both bag- and graph-levels to select one subgraph in each iteration as a weak classifier. In each iteration, bag and graph weights are adjusted such that an incorrectly classified bag will receive a higher weight because its predicted bag label conflicts to the genuine label, whereas an incorrectly classified graph will receive a lower weight value if the graph is in a positive bag (or a higher weight if the graph is in a negative bag). Accordingly, bMGC is able to differentiate graphs in positive and negative bags to derive effective classifiers to form a boosting model for MGC. Experiments and comparisons on real-world multi-graph learning tasks demonstrate the algorithm performance.

  13. Positive and Unlabeled Multi-Graph Learning.

    PubMed

    Wu, Jia; Pan, Shirui; Zhu, Xingquan; Zhang, Chengqi; Wu, Xindong

    2016-03-23

    In this paper, we advance graph classification to handle multi-graph learning for complicated objects, where each object is represented as a bag of graphs and the label is only available to each bag but not individual graphs. In addition, when training classifiers, users are only given a handful of positive bags and many unlabeled bags, and the learning objective is to train models to classify previously unseen graph bags with maximum accuracy. To achieve the goal, we propose a positive and unlabeled multi-graph learning (puMGL) framework to first select informative subgraphs to convert graphs into a feature space. To utilize unlabeled bags for learning, puMGL assigns a confidence weight to each bag and dynamically adjusts its weight value to select "reliable negative bags." A number of representative graphs, selected from positive bags and identified reliable negative graph bags, form a "margin graph pool" which serves as the base for deriving subgraph patterns, training graph classifiers, and further updating the bag weight values. A closed-loop iterative process helps discover optimal subgraphs from positive and unlabeled graph bags for learning. Experimental comparisons demonstrate the performance of puMGL for classifying real-world complicated objects.

  14. A Clustering Graph Generator

    SciTech Connect

    Winlaw, Manda; De Sterck, Hans; Sanders, Geoffrey

    2015-10-26

    In very simple terms a network can be de ned as a collection of points joined together by lines. Thus, networks can be used to represent connections between entities in a wide variety of elds including engi- neering, science, medicine, and sociology. Many large real-world networks share a surprising number of properties, leading to a strong interest in model development research and techniques for building synthetic networks have been developed, that capture these similarities and replicate real-world graphs. Modeling these real-world networks serves two purposes. First, building models that mimic the patterns and prop- erties of real networks helps to understand the implications of these patterns and helps determine which patterns are important. If we develop a generative process to synthesize real networks we can also examine which growth processes are plausible and which are not. Secondly, high-quality, large-scale network data is often not available, because of economic, legal, technological, or other obstacles [7]. Thus, there are many instances where the systems of interest cannot be represented by a single exemplar network. As one example, consider the eld of cybersecurity, where systems require testing across diverse threat scenarios and validation across diverse network structures. In these cases, where there is no single exemplar network, the systems must instead be modeled as a collection of networks in which the variation among them may be just as important as their common features. By developing processes to build synthetic models, so-called graph generators, we can build synthetic networks that capture both the essential features of a system and realistic variability. Then we can use such synthetic graphs to perform tasks such as simulations, analysis, and decision making. We can also use synthetic graphs to performance test graph analysis algorithms, including clustering algorithms and anomaly detection algorithms.

  15. Learning Financial Reports From Mixed Symbolic-Spatial Graphs

    ERIC Educational Resources Information Center

    Tanlamai, Uthai; Soongswang, Oranuj

    2011-01-01

    Mixed visuals of numbers and graphs are available in various financial reports that demonstrate the financial status and risks of a firm. GWN (graphs with numbers) and TWG (table of numbers with graphs) were used as two alternative visuals derived from the actual data of two large public companies, one from food manufacturing industry (food) and…

  16. The Feynman Identity for Planar Graphs

    NASA Astrophysics Data System (ADS)

    da Costa, G. A. T. F.

    2016-08-01

    The Feynman identity (FI) of a planar graph relates the Euler polynomial of the graph to an infinite product over the equivalence classes of closed nonperiodic signed cycles in the graph. The main objectives of this paper are to compute the number of equivalence classes of nonperiodic cycles of given length and sign in a planar graph and to interpret the data encoded by the FI in the context of free Lie superalgebras. This solves in the case of planar graphs a problem first raised by Sherman and sets the FI as the denominator identity of a free Lie superalgebra generated from a graph. Other results are obtained. For instance, in connection with zeta functions of graphs.

  17. Hierarchical structure of the logical Internet graph

    NASA Astrophysics Data System (ADS)

    Ge, Zihui; Figueiredo, Daniel R.; Jaiswal, Sharad; Gao, Lixin

    2001-07-01

    The study of the Internet topology has recently received much attention from the research community. In particular, the observation that the network graph has interesting properties, such as power laws, that might be explored in a myriad of ways. Most of the work in characterizing the Internet graph is based on the physical network graph, i.e., the connectivity graph. In this paper we investigate how logical relationships between nodes of the AS graph can be used to gain insight to its structure. We characterize the logical graph using various metrics and identify the presence of power laws in the number of customers that a provider has. Using these logical relationships we define a structural model of the AS graph. The model highlights the hierarchical nature of logical relationships and the preferential connection to larger providers. We also investigate the consistency of this model over time and observe interesting properties of the hierarchical structure.

  18. 78 FR 43274 - Ramsey County Regional Railroad Authority-Acquisition Exemption-Right to Restore Rail Service...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-07-19

    ... Railway--Aban. Exemption--in Ramsey Cnty., Minn., AB 6 (Sub.-No. 429X) (STB served Aug. 10, 2005). \\2\\ BNSF Railway--Aban. Exemption--in Ramsey Cnty., Minn., AB 6 (Sub.-No. 429X) (STB served Sept. 8, 2005...., AB 6 (Sub.-No. 429X) (filed Oct. 28, 2005). \\4\\ City of Maplewood, Minn.--Aquis. Exemption--Right...

  19. Accessing Rydberg-dressed interactions using many-body Ramsey dynamics

    NASA Astrophysics Data System (ADS)

    Mukherjee, Rick; Killian, Thomas C.; Hazzard, Kaden R. A.

    2016-11-01

    We demonstrate that Ramsey spectroscopy can be used to observe Rydberg-dressed interactions in a many-body system well within experimentally measured lifetimes, in contrast to previous research, which either focused on interactions near Förster resonances or on few-atom systems. We build a spin-1/2 from one level that is Rydberg-dressed and another that is not. These levels may be hyperfine or long-lived electronic states. An Ising spin model governs the Ramsey dynamics, which we demonstrate can be used to characterize the Rydberg-dressed interactions. Furthermore, the dynamics can differ significantly from that observed in other spin systems. As one example, spin echo can increase the rate at which coherence decays. The results also apply to bare (undressed) Rydberg states as a special case, for which we quantitatively reproduce recent ultrafast experiments without fitting.

  20. Composite pulses in Hyper-Ramsey spectroscopy for the next generation of atomic clocks

    NASA Astrophysics Data System (ADS)

    Zanon-Willette, T.; Minissale, M.; Yudin, V. I.; Taichenachev, A. V.

    2016-06-01

    The next generation of atomic frequency standards based on an ensemble of neutral atoms or a single-ion will provide very stringent tests in metrology, applied and fundamental physics requiring a new step in very precise control of external systematic corrections. In the proceedings of the 8th Symposium on Frequency Standards and Metrology, we present a generalization of the recent Hyper-Ramsey spectroscopy with separated oscillating fields using composites pulses in order to suppress field frequency shifts induced by the interrogation laser itself. Sequences of laser pulses including specific selection of phases, frequency detunings and durations are elaborated to generate spectroscopic signals with a strong reduction of the light-shift perturbation by off resonant states. New optical clocks based on weakly allowed or completely forbidden transitions in atoms, ions, molecules and nuclei will benefit from these generalized Ramsey schemes to reach relative accuracies well below the 10-18 level.

  1. Ramsey's method of separated oscillating fields and its application to gravitationally induced quantum phase shifts

    SciTech Connect

    Abele, H.; Jenke, T.; Leeb, H.; Schmiedmayer, J.

    2010-03-15

    We propose to apply Ramsey's method of separated oscillating fields to the spectroscopy of the quantum states in the gravity potential above a horizontal mirror. This method allows a precise measurement of quantum mechanical phaseshifts of a Schroedinger wave packet bouncing off a hard surface in the gravitational field of the Earth. Measurements with ultracold neutrons will offer a sensitivity to Newton's law or hypothetical short-ranged interactions, which is about 21 orders of magnitude below the energy scale of electromagnetism.

  2. Historical overview of Ramsey spectroscopy and its relevance on Time and Frequency Metrology

    NASA Astrophysics Data System (ADS)

    Amaral, M. M.; Tarelho, L. V. G.; de Souza, M. A.; Baratto, A. C.; Garcia, G. A.; Muller, S. T.; De Martin, J., Jr.; Rodriguez, A. S.; Bebeachibuli, A.; Magalhães, D. V.

    2016-07-01

    A brief overview of the historical evolution of the method of successive oscillatory fields developed by Norman Ramsey, and some different implementations of the decurrent methodology are presented. We use time and frequency standards, from Cs atomic beams to optical standards, as examples. The scientific progress and the technological implementation achieved through a partnership between USP-SC and INMETRO are shown on the characterization of each time and frequency standard.

  3. Dephasing in sodium Ramsey interferometry under a weak inhomogeneous magnetic field

    NASA Astrophysics Data System (ADS)

    Nakamura, Keisuke; Murakami, Motoyuki; Morinaga, Atsuo

    2015-04-01

    In Ramsey interference of the clock transition of cold sodium atoms, we observed dephasing of the visibility, which was based on the frequency fluctuation due to the second-order Zeeman effect for inhomogeneity of the magnetic field within the atomic cloud. The frequency fluctuation was enhanced with increased strength of the quantization magnetic field, causing the dephasing of the visibility to become large. The theoretical dephasing function with frequency fluctuation was in good agreement with experimental values.

  4. Ramsey Interferometry Using the Zeeman Sublevels in a Spin-2 Bose Gas

    NASA Astrophysics Data System (ADS)

    Sadgrove, Mark; Eto, Yujiro; Sekine, Sawako; Suzuki, Hirosuke; Hirano, Takuya

    2013-09-01

    We perform atom interferometry using the Zeeman sublevels of a spin-2 Bose--Einstein condensate of 87Rb. The observed fringes are strongly peaked, and fringe repetition rates higher than the fundamental Ramsey frequency are found in agreement with a simple theory based on spin rotations. With a suitable choice of initial states, the interferometer could function as a useful tool for magnetometry and studies of spinor dynamics in general.

  5. How Christian ethics became medical ethics: the case of Paul Ramsey.

    PubMed

    Hauerwas, Stanley

    1995-03-01

    Over the last century Christian ethics has moved from an attempt to Christianize the social order to a quandary over whether being Christian unduly biases how medical ethics is done. This movement can be viewed as the internal development of protestant liberalism to its logical conclusion, and Paul Ramsey can be taken as one of the last great representatives of that tradition. By reducing the Christian message to the 'ethical upshot' of neighbour love, Ramsey did not have the resources to show how Christian practice might make a difference for understanding or forming the practice of medicine. Instead, medicine became the practice that exemplified the moral commitments of Christian civilization, and the goal of the ethicist was to identify the values that were constitutive of medicine. Ramsey thus prepared the way for the Christian ethicist to become a medical ethicist with a difference, and the difference simply involved vague theological presumptions that do no serious intellectual work other than explaining, perhaps, the motivations of the ethicist.

  6. Understanding the role of spin-motion coupling in Ramsey spectroscopy

    NASA Astrophysics Data System (ADS)

    Koller, Andrew; Beverland, Michael; Mundinger, Joshua; Gorshkov, Alexey; Rey, Ana Maria

    2014-05-01

    Ramsey spectroscopy has become a powerful technique for probing non-equilibrium dynamics of internal (pseudospin) degrees of freedom of interacting systems. In many theoretical treatments, the key to understanding the dynamics has been to assume the external (motional) degrees of freedom are decoupled from the pseudospin degrees of freedom. Determining the validity of this approximation - known as the spin model approximation - has not been addressed in detail. We shed light in this direction by calculating Ramsey dynamics exactly for two interacting spin-1/2 particles in a harmonic trap. We find that in 1D the spin model assumption works well over a wide range of experimentally-relevant conditions, but can fail at time scales longer than those set by the mean interaction energy. Surprisingly, in 2D a modified version of the spin model is exact to first order in the interaction strength. This analysis is important for a correct interpretation of Ramsey spectroscopy and has broad applications ranging from precision measurements to quantum information and to fundamental probes of many-body systems. Supported by NSF, ARO-DARPA-OLE, AFOSR, NIST, the Lee A. DuBridge and Gordon and Betty Moore Foundations, and the NDSEG program.

  7. Graphing Polar Curves

    ERIC Educational Resources Information Center

    Lawes, Jonathan F.

    2013-01-01

    Graphing polar curves typically involves a combination of three traditional techniques, all of which can be time-consuming and tedious. However, an alternative method--graphing the polar function on a rectangular plane--simplifies graphing, increases student understanding of the polar coordinate system, and reinforces graphing techniques learned…

  8. GPD: a graph pattern diffusion kernel for accurate graph classification with applications in cheminformatics.

    PubMed

    Smalter, Aaron; Huan, Jun Luke; Jia, Yi; Lushington, Gerald

    2010-01-01

    Graph data mining is an active research area. Graphs are general modeling tools to organize information from heterogeneous sources and have been applied in many scientific, engineering, and business fields. With the fast accumulation of graph data, building highly accurate predictive models for graph data emerges as a new challenge that has not been fully explored in the data mining community. In this paper, we demonstrate a novel technique called graph pattern diffusion (GPD) kernel. Our idea is to leverage existing frequent pattern discovery methods and to explore the application of kernel classifier (e.g., support vector machine) in building highly accurate graph classification. In our method, we first identify all frequent patterns from a graph database. We then map subgraphs to graphs in the graph database and use a process we call "pattern diffusion" to label nodes in the graphs. Finally, we designed a graph alignment algorithm to compute the inner product of two graphs. We have tested our algorithm using a number of chemical structure data. The experimental results demonstrate that our method is significantly better than competing methods such as those kernel functions based on paths, cycles, and subgraphs.

  9. Chromatic polynomials of random graphs

    NASA Astrophysics Data System (ADS)

    Van Bussel, Frank; Ehrlich, Christoph; Fliegner, Denny; Stolzenberg, Sebastian; Timme, Marc

    2010-04-01

    Chromatic polynomials and related graph invariants are central objects in both graph theory and statistical physics. Computational difficulties, however, have so far restricted studies of such polynomials to graphs that were either very small, very sparse or highly structured. Recent algorithmic advances (Timme et al 2009 New J. Phys. 11 023001) now make it possible to compute chromatic polynomials for moderately sized graphs of arbitrary structure and number of edges. Here we present chromatic polynomials of ensembles of random graphs with up to 30 vertices, over the entire range of edge density. We specifically focus on the locations of the zeros of the polynomial in the complex plane. The results indicate that the chromatic zeros of random graphs have a very consistent layout. In particular, the crossing point, the point at which the chromatic zeros with non-zero imaginary part approach the real axis, scales linearly with the average degree over most of the density range. While the scaling laws obtained are purely empirical, if they continue to hold in general there are significant implications: the crossing points of chromatic zeros in the thermodynamic limit separate systems with zero ground state entropy from systems with positive ground state entropy, the latter an exception to the third law of thermodynamics.

  10. Inferring Pedigree Graphs from Genetic Distances

    NASA Astrophysics Data System (ADS)

    Tamura, Takeyuki; Ito, Hiro

    In this paper, we study a problem of inferring blood relationships which satisfy a given matrix of genetic distances between all pairs of n nodes. Blood relationships are represented by our proposed graph class, which is called a pedigree graph. A pedigree graph is a directed acyclic graph in which the maximum indegree is at most two. We show that the number of pedigree graphs which satisfy the condition of given genetic distances may be exponential, but they can be represented by one directed acyclic graph with n nodes. Moreover, an O(n3) time algorithm which solves the problem is also given. Although phylogenetic trees and phylogenetic networks are similar data structures to pedigree graphs, it seems that inferring methods for phylogenetic trees and networks cannot be applied to infer pedigree graphs since nodes of phylogenetic trees and networks represent species whereas nodes of pedigree graphs represent individuals. We also show an O(n2) time algorithm which detects a contradiction between a given pedigreee graph and distance matrix of genetic distances.

  11. A notion of graph likelihood and an infinite monkey theorem

    NASA Astrophysics Data System (ADS)

    Banerji, Christopher R. S.; Mansour, Toufik; Severini, Simone

    2014-01-01

    We play with a graph-theoretic analogue of the folklore infinite monkey theorem. We define a notion of graph likelihood as the probability that a given graph is constructed by a monkey in a number of time steps equal to the number of vertices. We present an algorithm to compute this graph invariant and closed formulas for some infinite classes. We have to leave the computational complexity of the likelihood as an open problem.

  12. Fast generation of sparse random kernel graphs

    SciTech Connect

    Hagberg, Aric; Lemons, Nathan; Du, Wen -Bo

    2015-09-10

    The development of kernel-based inhomogeneous random graphs has provided models that are flexible enough to capture many observed characteristics of real networks, and that are also mathematically tractable. We specify a class of inhomogeneous random graph models, called random kernel graphs, that produces sparse graphs with tunable graph properties, and we develop an efficient generation algorithm to sample random instances from this model. As real-world networks are usually large, it is essential that the run-time of generation algorithms scales better than quadratically in the number of vertices n. We show that for many practical kernels our algorithm runs in time at most ο(n(logn)²). As an example, we show how to generate samples of power-law degree distribution graphs with tunable assortativity.

  13. Fast generation of sparse random kernel graphs

    DOE PAGES

    Hagberg, Aric; Lemons, Nathan; Du, Wen -Bo

    2015-09-10

    The development of kernel-based inhomogeneous random graphs has provided models that are flexible enough to capture many observed characteristics of real networks, and that are also mathematically tractable. We specify a class of inhomogeneous random graph models, called random kernel graphs, that produces sparse graphs with tunable graph properties, and we develop an efficient generation algorithm to sample random instances from this model. As real-world networks are usually large, it is essential that the run-time of generation algorithms scales better than quadratically in the number of vertices n. We show that for many practical kernels our algorithm runs in timemore » at most ο(n(logn)²). As an example, we show how to generate samples of power-law degree distribution graphs with tunable assortativity.« less

  14. The star arboricity of graphs

    NASA Astrophysics Data System (ADS)

    Algor, Ilan

    1988-03-01

    The problem concerns the minimum time in which a number of messages can be transmitted through a communication network in which each node can transmit to many other nodes simultaneously but can receive only one message at a time. In the undirected version of the problem, the graphs, G, representing the messages are finite, undirected and simple; the messages transmitted in unit time form a subgraph which is a star. The star aboricity, st(G) of a graph G is the minimum number of star forests whose union covers all edges of G. A maximum value is derived for the star aboricity of any d-regular graph G, and is proved through probabilistic arguments.

  15. Intrinsic graph structure estimation using graph Laplacian.

    PubMed

    Noda, Atsushi; Hino, Hideitsu; Tatsuno, Masami; Akaho, Shotaro; Murata, Noboru

    2014-07-01

    A graph is a mathematical representation of a set of variables where some pairs of the variables are connected by edges. Common examples of graphs are railroads, the Internet, and neural networks. It is both theoretically and practically important to estimate the intensity of direct connections between variables. In this study, a problem of estimating the intrinsic graph structure from observed data is considered. The observed data in this study are a matrix with elements representing dependency between nodes in the graph. The dependency represents more than direct connections because it includes influences of various paths. For example, each element of the observed matrix represents a co-occurrence of events at two nodes or a correlation of variables corresponding to two nodes. In this setting, spurious correlations make the estimation of direct connection difficult. To alleviate this difficulty, a digraph Laplacian is used for characterizing a graph. A generative model of this observed matrix is proposed, and a parameter estimation algorithm for the model is also introduced. The notable advantage of the proposed method is its ability to deal with directed graphs, while conventional graph structure estimation methods such as covariance selections are applicable only to undirected graphs. The algorithm is experimentally shown to be able to identify the intrinsic graph structure.

  16. Graph mining: procedure, application to drug discovery and recent advances.

    PubMed

    Takigawa, Ichigaku; Mamitsuka, Hiroshi

    2013-01-01

    Combinatorial chemistry has generated chemical libraries and databases with a huge number of chemical compounds, which include prospective drugs. Chemical structures of compounds can be molecular graphs, to which a variety of graph-based techniques in computer science, specifically graph mining, can be applied. The most basic way for analyzing molecular graphs is using structural fragments, so-called subgraphs in graph theory. The mainstream technique in graph mining is frequent subgraph mining, by which we can retrieve essential subgraphs in given molecular graphs. In this article we explain the idea and procedure of mining frequent subgraphs from given molecular graphs, raising some real applications, and we describe the recent advances of graph mining.

  17. Loops in Reeb Graphs of 2-Manifolds

    SciTech Connect

    Cole-McLaughlin, K; Edelsbrunner, H; Harer, J; Natarajan, V; Pascucci, V

    2003-02-11

    Given a Morse function f over a 2-manifold with or without boundary, the Reeb graph is obtained by contracting the connected components of the level sets to points. We prove tight upper and lower bounds on the number of loops in the Reeb graph that depend on the genus, the number of boundary components, and whether or not the 2-manifold is orientable. We also give an algorithm that constructs the Reeb graph in time O(n log n), where n is the number of edges in the triangulation used to represent the 2-manifold and the Morse function.

  18. Loops in Reeb Graphs of 2-Manifolds

    SciTech Connect

    Cole-McLaughlin, K; Edelsbrunner, H; Harer, J; Natarajan, V; Pascucci, V

    2004-12-16

    Given a Morse function f over a 2-manifold with or without boundary, the Reeb graph is obtained by contracting the connected components of the level sets to points. We prove tight upper and lower bounds on the number of loops in the Reeb graph that depend on the genus, the number of boundary components, and whether or not the 2-manifold is orientable. We also give an algorithm that constructs the Reeb graph in time O(n log n), where n is the number of edges in the triangulation used to represent the 2-manifold and the Morse function.

  19. Fibonacci Identities, Matrices, and Graphs

    ERIC Educational Resources Information Center

    Huang, Danrun

    2005-01-01

    General strategies used to help discover, prove, and generalize identities for Fibonacci numbers are described along with some properties about the determinants of square matrices. A matrix proof for identity (2) that has received immense attention from many branches of mathematics, like linear algebra, dynamical systems, graph theory and others…

  20. Raman-Ramsey multizone spectroscopy in a pure rubidium vapor cell

    SciTech Connect

    Failache, H.; Lenci, L.; Lezama, A.

    2010-02-15

    In view of application to a miniaturized spectroscopy system, we consider an optical setup that splits a laser beam into several parallel narrow light sheets allowing an effective beam expansion and consequently longer atom-light interaction times. We analyze the multizone coherent population trapping (MZCPT) spectroscopy of alkali-metal-vapor atoms, without buffer gas, in the presence of a split light beam. We show that the MZCPT signal is largely insensitive to intensity broadening. Experimentally observed spectra are in qualitative agreement with the predictions of a simplified model that describes each spectrum as an integral over the atomic velocity distribution of Ramsey multizone spectra.

  1. Observation of Query Pulse Length Dependent Ramsey Interference in Rubidium Vapor Using Pulsed Raman Excitation

    DTIC Science & Technology

    2011-11-07

    J. S. Boulanger, “Design, construction, and performance of the NRC CsVI primary cesium clocks,” Metrolog. 17(4), 123–145 (1981). 9. C. Audoin...R. H. Picard, and C. R. Willis, “Observation of Ramsey fringes using a stimulated resonance Raman transition in a sodium atomic beam,” Phys. Rev...transition in a sodium beam,” Opt. Lett. 8(8), 440–442 (1983). 12. P. R. Hemmer, M. S. Shahriar, H. Lamela-Rivera, S. P. Smith, B. E. Bernacki, and S

  2. The Ramsey phase-change hypothesis. [for development of earth core

    NASA Technical Reports Server (NTRS)

    Lyttleton, R. A.

    1978-01-01

    Ramsey's (1948, 1949, 1950, 1954) arguments for the phase-change interpretation of the nature of the terrestrial core are summarized. Some of the successes of the phase-change theory in accounting for hitherto unexplained properties of earth's interior are discussed. Evidence in favor of the phase-change theory is reviewed, and calculations are examined which indicate that the liquid-core material is far more compressible at any relevant pressure than is the mantle material. Implications of the phase-change theory for Venus, Mars, Mercury, and the moon are considered.

  3. Rabi-oscillation-induced π phase flip in an unbalanced Ramsey atom interferometer

    NASA Astrophysics Data System (ADS)

    Li, R. B.; Yao, Z. W.; Wang, K.; Lu, S. B.; Cao, L.; Wang, J.; Zhan, M. S.

    2016-09-01

    We present an observation of zero-to-π phase flips induced by Rabi oscillation in an unbalanced Ramsey atom interferometer. The phase shift and visibility are experimentally investigated by modulating either the polarization or duration of Raman lasers, and they are well explained by a theoretical model. In an atom interferometer, the π phase flips are caused not only by the sign of Rabi frequency but also by the Rabi oscillation. Considering the π phase flips, we propose the composite-light-pulse sequences for realizing the large-momentum-transfer beam splitter and mirror, which have the high immunity to the external phase noise in building the cold atom interferometer.

  4. Optical velocity meter based on Ramsey oscillations in a double-grating setup

    NASA Astrophysics Data System (ADS)

    Preclíková, J.; Kozák, M.; Fregenal, D.; Hansen, J. P.

    2014-04-01

    We propose a method for measuring velocities of atoms or molecules in a gas phase based on time-resolved laser experiments. Two intensity gratings of electromagnetic field with variable time delay τ are created by interfering of four laser pulses. Using first-order perturbation theory, we show that such arrangement can be used for measuring particle velocities, which have an optical transition to a long-living excited state. It is shown that the optical Ramsey oscillations obtain a characteristic modulation that reflects the distribution of velocities.

  5. Ramsey-CPT spectrum with the Faraday effect and its application to atomic clocks

    NASA Astrophysics Data System (ADS)

    Tian, Yuan; Tan, Bo-Zhong; Yang, Jing; Zhang, Yi; Gu, Si-Hong

    2015-06-01

    A method that obtains the Ramsey-coherent population trapping (CPT) spectrum with the Faraday effect is investigated. An experiment is implemented to detect the light polarization components generated from the Faraday effect. The experimental results agree with the theoretical calculations based on the Liouville equation. By comparing with the method without using the Faraday effect, the potential of this method for a CPT-based atomic clock is assessed. The results indicate that this method should improve the short-term frequency stability by several times. Project supported by the National Natural Science Foundation of China (Grant Nos. 11304362 and 11204351).

  6. Ramsey spectroscopy of high-contrast CPT resonances with push-pull optical pumping in Cs vapor.

    PubMed

    Liu, X; Mérolla, J-M; Guérandel, S; de Clercq, E; Boudot, R

    2013-05-20

    We report on the detection of high-contrast and narrow Coherent Population Trapping (CPT) Ramsey fringes in a Cs vapor cell using a simple-architecture laser system. The latter allows the combination of push-pull optical pumping (PPOP) and a temporal Ramsey-like pulsed interrogation. An originality of the optics package is the use of a single Mach-Zehnder electro-optic modulator (MZ EOM) both for optical sidebands generation and light switch for pulsed interaction. Typical Ramsey fringes with a linewidth of 166 Hz and a contrast of 33 % are detected in a cm-scale buffer-gas filled Cs vapor cell. This technique could be interesting for the development of high-performance and low power consumption compact vapor cell clocks based on CPT.

  7. Optimal preparation of graph states

    SciTech Connect

    Cabello, Adan; Lopez-Tarrida, Antonio J.; Danielsen, Lars Eirik; Portillo, Jose R.

    2011-04-15

    We show how to prepare any graph state of up to 12 qubits with (a) the minimum number of controlled-Z gates and (b) the minimum preparation depth. We assume only one-qubit and controlled-Z gates. The method exploits the fact that any graph state belongs to an equivalence class under local Clifford operations. We extend up to 12 qubits the classification of graph states according to their entanglement properties, and identify each class using only a reduced set of invariants. For any state, we provide a circuit with both properties (a) and (b), if it does exist, or, if it does not, one circuit with property (a) and one with property (b), including the explicit one-qubit gates needed.

  8. On molecular graph comparison.

    PubMed

    Melo, Jenny A; Daza, Edgar

    2011-06-01

    Since the last half of the nineteenth century, molecular graphs have been present in several branches of chemistry. When used for molecular structure representation, they have been compared after mapping the corresponding graphs into mathematical objects. However, direct molecular comparison of molecular graphs is a research field less explored. The goal of this mini-review is to show some distance and similarity coefficients which were proposed to directly compare molecular graphs or which could be useful to do so.

  9. Graphing Inequalities, Connecting Meaning

    ERIC Educational Resources Information Center

    Switzer, J. Matt

    2014-01-01

    Students often have difficulty with graphing inequalities (see Filloy, Rojano, and Rubio 2002; Drijvers 2002), and J. Matt Switzer's students were no exception. Although students can produce graphs for simple inequalities, they often struggle when the format of the inequality is unfamiliar. Even when producing a correct graph of an…

  10. Graphing Important People

    ERIC Educational Resources Information Center

    Reading Teacher, 2012

    2012-01-01

    The "Toolbox" column features content adapted from ReadWriteThink.org lesson plans and provides practical tools for classroom teachers. This issue's column features a lesson plan adapted from "Graphing Plot and Character in a Novel" by Lisa Storm Fink and "Bio-graph: Graphing Life Events" by Susan Spangler. Students retell biographic events…

  11. Two-Player Graph Pebbling

    NASA Astrophysics Data System (ADS)

    Prudente, Matthew James

    Given a graph G with pebbles on the vertices, we define a pebbling move as removing two pebbles from a vertex u, placing one pebble on a neighbor v, and discarding the other pebble, like a toll. The pebbling number pi( G) is the least number of pebbles needed so that every arrangement of pi(G) pebbles can place a pebble on any vertex through a sequence of pebbling moves. We introduce a new variation on graph pebbling called two-player pebbling. In this, players called the mover and the defender alternate moves, with the stipulation that the defender cannot reverse the previous move. The mover wins only if they can place a pebble on a specified vertex and the defender wins if the mover cannot. We define η(G), analogously, as the minimum number of pebbles such that given every configuration of the η( G) pebbles and every specified vertex r, the mover has a winning strategy. First, we will investigate upper bounds for η( G) on various classes of graphs and find a certain structure for which the defender has a winning strategy, no matter how many pebbles are in a configuration. Then, we characterize winning configurations for both players on a special class of diameter 2 graphs. Finally, we show winning configurations for the mover on paths using a recursive argument.

  12. Methods of visualizing graphs

    DOEpatents

    Wong, Pak C.; Mackey, Patrick S.; Perrine, Kenneth A.; Foote, Harlan P.; Thomas, James J.

    2008-12-23

    Methods for visualizing a graph by automatically drawing elements of the graph as labels are disclosed. In one embodiment, the method comprises receiving node information and edge information from an input device and/or communication interface, constructing a graph layout based at least in part on that information, wherein the edges are automatically drawn as labels, and displaying the graph on a display device according to the graph layout. In some embodiments, the nodes are automatically drawn as labels instead of, or in addition to, the label-edges.

  13. Activities: Relating to Graphs in Introductory Algebra.

    ERIC Educational Resources Information Center

    Van Dyke, Frances

    1994-01-01

    Presents activities designed to help students bridge the gap between the graphical representation of a function and a verbal description. Includes a number of nonstandard graphs and reproducible student worksheets. (MKR)

  14. Enabling Graph Appliance for Genome Assembly

    SciTech Connect

    Singh, Rina; Graves, Jeffrey A; Lee, Sangkeun; Sukumar, Sreenivas R; Shankar, Mallikarjun

    2015-01-01

    In recent years, there has been a huge growth in the amount of genomic data available as reads generated from various genome sequencers. The number of reads generated can be huge, ranging from hundreds to billions of nucleotide, each varying in size. Assembling such large amounts of data is one of the challenging computational problems for both biomedical and data scientists. Most of the genome assemblers developed have used de Bruijn graph techniques. A de Bruijn graph represents a collection of read sequences by billions of vertices and edges, which require large amounts of memory and computational power to store and process. This is the major drawback to de Bruijn graph assembly. Massively parallel, multi-threaded, shared memory systems can be leveraged to overcome some of these issues. The objective of our research is to investigate the feasibility and scalability issues of de Bruijn graph assembly on Cray s Urika-GD system; Urika-GD is a high performance graph appliance with a large shared memory and massively multithreaded custom processor designed for executing SPARQL queries over large-scale RDF data sets. However, to the best of our knowledge, there is no research on representing a de Bruijn graph as an RDF graph or finding Eulerian paths in RDF graphs using SPARQL for potential genome discovery. In this paper, we address the issues involved in representing a de Bruin graphs as RDF graphs and propose an iterative querying approach for finding Eulerian paths in large RDF graphs. We evaluate the performance of our implementation on real world ebola genome datasets and illustrate how genome assembly can be accomplished with Urika-GD using iterative SPARQL queries.

  15. Vortices and superfields on a graph

    NASA Astrophysics Data System (ADS)

    Kan, Nahomi; Kobayashi, Koichiro; Shiraishi, Kiyoshi

    2009-08-01

    We extend the dimensional deconstruction by utilizing the knowledge of graph theory. In the dimensional deconstruction, one uses the moose diagram to exhibit the structure of the “theory space.” We generalize the moose diagram to a general graph with oriented edges. In the present paper, we consider only the U(1) gauge symmetry. We also introduce supersymmetry into our model by use of superfields. We suppose that vector superfields reside at the vertices and chiral superfields at the edges of a given graph. Then we can consider multivector, multi-Higgs models. In our model, [U(1)]p (where p is the number of vertices) is broken to a single U(1). Therefore, for specific graphs, we get vortexlike classical solutions in our model. We show some examples of the graphs admitting the vortex solutions of simple structure as the Bogomolnyi solution.

  16. Vortices and superfields on a graph

    SciTech Connect

    Kan, Nahomi; Kobayashi, Koichiro; Shiraishi, Kiyoshi

    2009-08-15

    We extend the dimensional deconstruction by utilizing the knowledge of graph theory. In the dimensional deconstruction, one uses the moose diagram to exhibit the structure of the 'theory space'. We generalize the moose diagram to a general graph with oriented edges. In the present paper, we consider only the U(1) gauge symmetry. We also introduce supersymmetry into our model by use of superfields. We suppose that vector superfields reside at the vertices and chiral superfields at the edges of a given graph. Then we can consider multivector, multi-Higgs models. In our model, [U(1)]{sup p} (where p is the number of vertices) is broken to a single U(1). Therefore, for specific graphs, we get vortexlike classical solutions in our model. We show some examples of the graphs admitting the vortex solutions of simple structure as the Bogomolnyi solution.

  17. Pattern vectors from algebraic graph theory.

    PubMed

    Wilson, Richard C; Hancock, Edwin R; Luo, Bin

    2005-07-01

    Graph structures have proven computationally cumbersome for pattern analysis. The reason for this is that, before graphs can be converted to pattern vectors, correspondences must be established between the nodes of structures which are potentially of different size. To overcome this problem, in this paper, we turn to the spectral decomposition of the Laplacian matrix. We show how the elements of the spectral matrix for the Laplacian can be used to construct symmetric polynomials that are permutation invariants. The coefficients of these polynomials can be used as graph features which can be encoded in a vectorial manner. We extend this representation to graphs in which there are unary attributes on the nodes and binary attributes on the edges by using the spectral decomposition of a Hermitian property matrix that can be viewed as a complex analogue of the Laplacian. To embed the graphs in a pattern space, we explore whether the vectors of invariants can be embedded in a low-dimensional space using a number of alternative strategies, including principal components analysis (PCA), multidimensional scaling (MDS), and locality preserving projection (LPP). Experimentally, we demonstrate that the embeddings result in well-defined graph clusters. Our experiments with the spectral representation involve both synthetic and real-world data. The experiments with synthetic data demonstrate that the distances between spectral feature vectors can be used to discriminate between graphs on the basis of their structure. The real-world experiments show that the method can be used to locate clusters of graphs.

  18. Actively tunable double-Fano and Ramsey-Fano resonances in photonic molecules and improved sensing performance

    NASA Astrophysics Data System (ADS)

    Li, Jiahua; Yu, Rong; Wu, Ying

    2016-12-01

    Optical Fano resonances are an increasingly important line-shape engineering tool with applications ranging from high-sensitivity sensing and ultrasmall lasers to low-power optical switching or modulating. Here we demonstrate a fully on-chip resonant nanostructure on a photonic crystal molecule platform exhibiting typical double- and Ramsey-Fano resonances, which can be actively controlled by the modification of the blockade transmittance in the waveguide. First, we investigate the transmission spectrum of a coupled double-cavity setting, showing a kind of double-Fano resonance line shape which consists of an asymmetric low-frequency Fano (LF) resonance and a high-frequency Fano (HF) resonance. At the same time, we elucidate the influences of various physical quantities on the generated LF and HF resonances. Second, and more interestingly, we reveal the occurrence of the Ramsey-Fano resonance profile by extending a double-cavity arrangement to a coupled-cavity-array arrangement. This Ramsey-Fano resonance can be attributed to the multiple quantum interference among a variety of light pathways. Finally, as an application, we discuss how to use an asymmetric double-Fano resonance line shape, which features the steep spectral slope, to improve the sensing performance. Our obtained results may stimulate future experimental efforts in controlling the double- and Ramsey-Fano resonance line shapes of this system more accurately.

  19. Graph-Based Object Class Discovery

    NASA Astrophysics Data System (ADS)

    Xia, Shengping; Hancock, Edwin R.

    We are interested in the problem of discovering the set of object classes present in a database of images using a weakly supervised graph-based framework. Rather than making use of the ”Bag-of-Features (BoF)” approach widely used in current work on object recognition, we represent each image by a graph using a group of selected local invariant features. Using local feature matching and iterative Procrustes alignment, we perform graph matching and compute a similarity measure. Borrowing the idea of query expansion , we develop a similarity propagation based graph clustering (SPGC) method. Using this method class specific clusters of the graphs can be obtained. Such a cluster can be generally represented by using a higher level graph model whose vertices are the clustered graphs, and the edge weights are determined by the pairwise similarity measure. Experiments are performed on a dataset, in which the number of images increases from 1 to 50K and the number of objects increases from 1 to over 500. Some objects have been discovered with total recall and a precision 1 in a single cluster.

  20. Topologies on directed graphs

    NASA Technical Reports Server (NTRS)

    Lieberman, R. N.

    1972-01-01

    Given a directed graph, a natural topology is defined and relationships between standard topological properties and graph theoretical concepts are studied. In particular, the properties of connectivity and separatedness are investigated. A metric is introduced which is shown to be related to separatedness. The topological notions of continuity and homeomorphism. A class of maps is studied which preserve both graph and topological properties. Applications involving strong maps and contractions are also presented.

  1. Supporting interactive graph exploration using edge plucking

    NASA Astrophysics Data System (ADS)

    Wong, Nelson; Carpendale, Sheelagh

    2007-01-01

    Excessive edge density in graphs can cause serious readability issues, which in turn can make the graphs difficult to understand or even misleading. Recently, we introduced the idea of providing tools that offer interactive edge bending as a method by which edge congestion can be disambiguated. We extend this direction, presenting a new tool, Edge Plucking, which offers new interactive methods to clarify node-edge relationships. Edge Plucking expands the number of situations in which interactive graph exploration tools can be used to address edge congestion.

  2. Graph Generator Survey

    SciTech Connect

    Lothian, Josh; Powers, Sarah S; Sullivan, Blair D; Baker, Matthew B; Schrock, Jonathan; Poole, Stephen W

    2013-12-01

    The benchmarking effort within the Extreme Scale Systems Center at Oak Ridge National Laboratory seeks to provide High Performance Computing benchmarks and test suites of interest to the DoD sponsor. The work described in this report is a part of the effort focusing on graph generation. A previously developed benchmark, SystemBurn, allowed the emulation of dierent application behavior profiles within a single framework. To complement this effort, similar capabilities are desired for graph-centric problems. This report examines existing synthetic graph generator implementations in preparation for further study on the properties of their generated synthetic graphs.

  3. Online dynamic graph drawing.

    PubMed

    Frishman, Yaniv; Tal, Ayellet

    2008-01-01

    This paper presents an algorithm for drawing a sequence of graphs online. The algorithm strives to maintain the global structure of the graph and thus the user's mental map, while allowing arbitrary modifications between consecutive layouts. The algorithm works online and uses various execution culling methods in order to reduce the layout time and handle large dynamic graphs. Techniques for representing graphs on the GPU allow a speedup by a factor of up to 17 compared to the CPU implementation. The scalability of the algorithm across GPU generations is demonstrated. Applications of the algorithm to the visualization of discussion threads in Internet sites and to the visualization of social networks are provided.

  4. On the length of the drift region in the Ramsey cavity

    NASA Technical Reports Server (NTRS)

    Thomann, Pierre

    1990-01-01

    The interaction of atoms in a beam with the microwave field in a separated field geometry such as a Ramsey cavity is generally described in terms of the three regions traversed successively by the atoms, namely two interaction regions of length (l) separated by a drift, or free precession, region of length L. For a monokinetic beam of velocity v, the linewidth of the central fringe in the Ramsey resonance pattern is usually expressed as delta omega equals pi v/L. A more detailed calculation shows, however, that the linewidth is equal to pi v/L asterisk, where the equivalent drift L asterisk is larger than L by an amount of the order of l/L. The correction depends on the field distribution in the interaction regions. Its origin lies in the fact that atomic precession is not limited to the field-free regions but also occurs in the interaction regions, where atomic coherence builds up or decreases continuously. Although the correction to the equivalent length of the drift region is small, it may be relevant to the evaluation of the second-order Doppler effect bias in primary cesium-beam standards to the extent that the atomic velocity is deduced from the lineshape and from the geometrical parameters of the cavity. It is shown that in current and projected standards with atoms of average thermal velocity, use of corrected dimensions may lead to a change of the calculated bias of the order of 10(exp -14), which is significant at the levels of accuracy considered nowadays.

  5. Topological structure of dictionary graphs

    NASA Astrophysics Data System (ADS)

    Fukś, Henryk; Krzemiński, Mark

    2009-09-01

    We investigate the topological structure of the subgraphs of dictionary graphs constructed from WordNet and Moby thesaurus data. In the process of learning a foreign language, the learner knows only a subset of all words of the language, corresponding to a subgraph of a dictionary graph. When this subgraph grows with time, its topological properties change. We introduce the notion of the pseudocore and argue that the growth of the vocabulary roughly follows decreasing pseudocore numbers—that is, one first learns words with a high pseudocore number followed by smaller pseudocores. We also propose an alternative strategy for vocabulary growth, involving decreasing core numbers as opposed to pseudocore numbers. We find that as the core or pseudocore grows in size, the clustering coefficient first decreases, then reaches a minimum and starts increasing again. The minimum occurs when the vocabulary reaches a size between 103 and 104. A simple model exhibiting similar behavior is proposed. The model is based on a generalized geometric random graph. Possible implications for language learning are discussed.

  6. Empirical Determination of Pattern Match Confidence in Labeled Graphs

    DTIC Science & Technology

    2014-02-07

    valid, and the indicated false positive rates could be misleading . Further study of real-world datasets should reveal if such graphs appear within...labeled graphs Dr. Ben Migliori, Dr. Daniel Grady, and Dr. James Law Prepared by Space and Naval Warfare Systems Center, 53560 Hull Street, San Diego...to 00-00-2014 4. TITLE AND SUBTITLE Empirical determination of pattern match confidence in labeled graphs 5a. CONTRACT NUMBER 5b. GRANT NUMBER

  7. ACTIVITIES: Graphs and Games

    ERIC Educational Resources Information Center

    Hirsch, Christian R.

    1975-01-01

    Using a set of worksheets, students will discover and apply Euler's formula regarding connected planar graphs and play and analyze the game of Sprouts. One sheet leads to the discovery of Euler's formula; another concerns traversability of a graph; another gives an example and a game involving these ideas. (Author/KM)

  8. Real World Graph Connectivity

    ERIC Educational Resources Information Center

    Lind, Joy; Narayan, Darren

    2009-01-01

    We present the topic of graph connectivity along with a famous theorem of Menger in the real-world setting of the national computer network infrastructure of "National LambdaRail". We include a set of exercises where students reinforce their understanding of graph connectivity by analysing the "National LambdaRail" network. Finally, we give…

  9. Learning graph matching.

    PubMed

    Caetano, Tibério S; McAuley, Julian J; Cheng, Li; Le, Quoc V; Smola, Alex J

    2009-06-01

    As a fundamental problem in pattern recognition, graph matching has applications in a variety of fields, from computer vision to computational biology. In graph matching, patterns are modeled as graphs and pattern recognition amounts to finding a correspondence between the nodes of different graphs. Many formulations of this problem can be cast in general as a quadratic assignment problem, where a linear term in the objective function encodes node compatibility and a quadratic term encodes edge compatibility. The main research focus in this theme is about designing efficient algorithms for approximately solving the quadratic assignment problem, since it is NP-hard. In this paper we turn our attention to a different question: how to estimate compatibility functions such that the solution of the resulting graph matching problem best matches the expected solution that a human would manually provide. We present a method for learning graph matching: the training examples are pairs of graphs and the 'labels' are matches between them. Our experimental results reveal that learning can substantially improve the performance of standard graph matching algorithms. In particular, we find that simple linear assignment with such a learning scheme outperforms Graduated Assignment with bistochastic normalisation, a state-of-the-art quadratic assignment relaxation algorithm.

  10. Reflections on "The Graph"

    ERIC Educational Resources Information Center

    Petrosino, Anthony

    2012-01-01

    This article responds to arguments by Skidmore and Thompson (this issue of "Educational Researcher") that a graph published more than 10 years ago was erroneously reproduced and "gratuitously damaged" perceptions of the quality of education research. After describing the purpose of the original graph, the author counters assertions that the graph…

  11. Walking Out Graphs

    ERIC Educational Resources Information Center

    Shen, Ji

    2009-01-01

    In the Walking Out Graphs Lesson described here, students experience several types of representations used to describe motion, including words, sentences, equations, graphs, data tables, and actions. The most important theme of this lesson is that students have to understand the consistency among these representations and form the habit of…

  12. Graphing from Everyday Experience.

    ERIC Educational Resources Information Center

    Carraher, David; Schliemann, Analucia; Nemirousky, Ricardo

    1995-01-01

    Discusses the importance of teaching grounded in the everyday experiences and concerns of the learners. Studies how people with limited school experience can understand graphs and concludes that individuals with limited academic education can clarify the role of everyday experiences in learning about graphs. (ASK)

  13. Exploring Graphs: WYSIWYG.

    ERIC Educational Resources Information Center

    Johnson, Millie

    1997-01-01

    Graphs from media sources and questions developed from them can be used in the middle school mathematics classroom. Graphs depict storage temperature on a milk carton; air pressure measurements on a package of shock absorbers; sleep-wake patterns of an infant; a dog's breathing patterns; and the angle, velocity, and radius of a leaning bicyclist…

  14. Making "Photo" Graphs

    ERIC Educational Resources Information Center

    Doto, Julianne; Golbeck, Susan

    2007-01-01

    Collecting data and analyzing the results of experiments is difficult for children. The authors found a surprising way to help their third graders make graphs and draw conclusions from their data: digital photographs. The pictures bridged the gap between an abstract graph and the plants it represented. With the support of the photos, students…

  15. Object Discovery: Soft Attributed Graph Mining.

    PubMed

    Zhang, Quanshi; Song, Xuan; Shao, Xiaowei; Zhao, Huijing; Shibasaki, Ryosuke

    2016-03-01

    We categorize this research in terms of its contribution to both graph theory and computer vision. From the theoretical perspective, this study can be considered as the first attempt to formulate the idea of mining maximal frequent subgraphs in the challenging domain of messy visual data, and as a conceptual extension to the unsupervised learning of graph matching. We define a soft attributed pattern (SAP) to represent the common subgraph pattern among a set of attributed relational graphs (ARGs), considering both their structure and attributes. Regarding the differences between ARGs with fuzzy attributes and conventional labeled graphs, we propose a new mining strategy that directly extracts the SAP with the maximal graph size without applying node enumeration. Given an initial graph template and a number of ARGs, we develop an unsupervised method to modify the graph template into the maximal-size SAP. From a practical perspective, this research develops a general platform for learning the category model (i.e., the SAP) from cluttered visual data (i.e., the ARGs) without labeling "what is where," thereby opening the possibility for a series of applications in the era of big visual data. Experiments demonstrate the superior performance of the proposed method on RGB/RGB-D images and videos.

  16. Evolutionary stability on graphs

    PubMed Central

    Ohtsuki, Hisashi; Nowak, Martin A.

    2008-01-01

    Evolutionary stability is a fundamental concept in evolutionary game theory. A strategy is called an evolutionarily stable strategy (ESS), if its monomorphic population rejects the invasion of any other mutant strategy. Recent studies have revealed that population structure can considerably affect evolutionary dynamics. Here we derive the conditions of evolutionary stability for games on graphs. We obtain analytical conditions for regular graphs of degree k > 2. Those theoretical predictions are compared with computer simulations for random regular graphs and for lattices. We study three different update rules: birth-death (BD), death-birth (DB), and imitation (IM) updating. Evolutionary stability on sparse graphs does not imply evolutionary stability in a well-mixed population, nor vice versa. We provide a geometrical interpretation of the ESS condition on graphs. PMID:18295801

  17. Constrained Markovian Dynamics of Random Graphs

    NASA Astrophysics Data System (ADS)

    Coolen, A. C. C.; de Martino, A.; Annibale, A.

    2009-09-01

    We introduce a statistical mechanics formalism for the study of constrained graph evolution as a Markovian stochastic process, in analogy with that available for spin systems, deriving its basic properties and highlighting the role of the `mobility' (the number of allowed moves for any given graph). As an application of the general theory we analyze the properties of degree-preserving Markov chains based on elementary edge switchings. We give an exact yet simple formula for the mobility in terms of the graph's adjacency matrix and its spectrum. This formula allows us to define acceptance probabilities for edge switchings, such that the Markov chains become controlled Glauber-type detailed balance processes, designed to evolve to any required invariant measure (representing the asymptotic frequencies with which the allowed graphs are visited during the process). As a corollary we also derive a condition in terms of simple degree statistics, sufficient to guarantee that, in the limit where the number of nodes diverges, even for state-independent acceptance probabilities of proposed moves the invariant measure of the process will be uniform. We test our theory on synthetic graphs and on realistic larger graphs as studied in cellular biology, showing explicitly that, for instances where the simple edge swap dynamics fails to converge to the uniform measure, a suitably modified Markov chain instead generates the correct phase space sampling.

  18. Light effects in the atomic-motion-induced Ramsey narrowing of dark resonances in wall-coated cells

    SciTech Connect

    Breschi, E.; Schori, C.; Di Domenico, G.; Mileti, G.; Kazakov, G.; Litvinov, A.; Matisov, B.

    2010-12-15

    We report on light shift and broadening in the atomic-motion-induced Ramsey narrowing of dark resonances prepared in alkali-metal vapors contained in wall-coated cells without buffer gas. The atomic-motion-induced Ramsey narrowing is due to the free motion of the polarized atomic spins in and out of the optical interaction region before spin relaxation. As a consequence of this effect, we observe a narrowing of the dark resonance linewidth as well as a reduction of the ground states' light shift when the volume of the interaction region decreases at constant optical intensity. The results can be intuitively interpreted as a dilution of the intensity effect similar to a pulsed interrogation due to the atomic motion. Finally the influence of this effect on the performance of compact atomic clocks is discussed.

  19. Kernel-Based Reconstruction of Graph Signals

    NASA Astrophysics Data System (ADS)

    Romero, Daniel; Ma, Meng; Giannakis, Georgios B.

    2017-02-01

    A number of applications in engineering, social sciences, physics, and biology involve inference over networks. In this context, graph signals are widely encountered as descriptors of vertex attributes or features in graph-structured data. Estimating such signals in all vertices given noisy observations of their values on a subset of vertices has been extensively analyzed in the literature of signal processing on graphs (SPoG). This paper advocates kernel regression as a framework generalizing popular SPoG modeling and reconstruction and expanding their capabilities. Formulating signal reconstruction as a regression task on reproducing kernel Hilbert spaces of graph signals permeates benefits from statistical learning, offers fresh insights, and allows for estimators to leverage richer forms of prior information than existing alternatives. A number of SPoG notions such as bandlimitedness, graph filters, and the graph Fourier transform are naturally accommodated in the kernel framework. Additionally, this paper capitalizes on the so-called representer theorem to devise simpler versions of existing Thikhonov regularized estimators, and offers a novel probabilistic interpretation of kernel methods on graphs based on graphical models. Motivated by the challenges of selecting the bandwidth parameter in SPoG estimators or the kernel map in kernel-based methods, the present paper further proposes two multi-kernel approaches with complementary strengths. Whereas the first enables estimation of the unknown bandwidth of bandlimited signals, the second allows for efficient graph filter selection. Numerical tests with synthetic as well as real data demonstrate the merits of the proposed methods relative to state-of-the-art alternatives.

  20. The Effect of Using Graphing Calculators in Complex Function Graphs

    ERIC Educational Resources Information Center

    Ocak, Mehmet Akif

    2008-01-01

    This study investigates the role of graphing calculators in multiple representations for knowledge transfer and the omission of oversimplification in complex function graphs. The main aim is to examine whether graphing calculators were used efficiently to see different cases and multiple perspectives among complex function graphs, or whether…

  1. Asymptote Misconception on Graphing Functions: Does Graphing Software Resolve It?

    ERIC Educational Resources Information Center

    Öçal, Mehmet Fatih

    2017-01-01

    Graphing function is an important issue in mathematics education due to its use in various areas of mathematics and its potential roles for students to enhance learning mathematics. The use of some graphing software assists students' learning during graphing functions. However, the display of graphs of functions that students sketched by hand may…

  2. On c_2 invariants of some 4-regular Feynman graphs

    NASA Astrophysics Data System (ADS)

    Doryn, Dmitry

    2017-03-01

    The obstruction for application of techniques like denominator reduction for the computation of the c_2 invariant of Feynman graphs in general is the absence of a 3-valent vertex. In this paper such a formula for a 4-valent vertex is derived. The formula allows us to compute the c_2 invariant of new graphs, for instance, some 4-regular graphs with small loop number.

  3. Total Flooding Time and Rumor Propagation on Graphs

    NASA Astrophysics Data System (ADS)

    Camargo, Darcy; Popov, Serguei

    2017-03-01

    We study the discrete time version of the flooding time problem as a model of rumor propagation where each site in the graph has initially a distinct piece of information; we are interested in the number of "conversations" before the entire graph knows all pieces of information. For the complete graph we compare the ratio between the expected propagation time for all pieces of information and the corresponding time for a single piece of information, obtaining the asymptotic ratio 3 / 2 between them.

  4. Reaction spreading on graphs.

    PubMed

    Burioni, Raffaella; Chibbaro, Sergio; Vergni, Davide; Vulpiani, Angelo

    2012-11-01

    We study reaction-diffusion processes on graphs through an extension of the standard reaction-diffusion equation starting from first principles. We focus on reaction spreading, i.e., on the time evolution of the reaction product M(t). At variance with pure diffusive processes, characterized by the spectral dimension d{s}, the important quantity for reaction spreading is found to be the connectivity dimension d{l}. Numerical data, in agreement with analytical estimates based on the features of n independent random walkers on the graph, show that M(t)∼t{d{l}}. In the case of Erdös-Renyi random graphs, the reaction product is characterized by an exponential growth M(t)e{αt} with α proportional to ln(k), where (k) is the average degree of the graph.

  5. Assortativity of complementary graphs

    NASA Astrophysics Data System (ADS)

    Wang, H.; Winterbach, W.; van Mieghem, P.

    2011-09-01

    Newman's measure for (dis)assortativity, the linear degree correlationρD, is widely studied although analytic insight into the assortativity of an arbitrary network remains far from well understood. In this paper, we derive the general relation (2), (3) and Theorem 1 between the assortativity ρD(G) of a graph G and the assortativityρD(Gc) of its complement Gc. Both ρD(G) and ρD(Gc) are linearly related by the degree distribution in G. When the graph G(N,p) possesses a binomial degree distribution as in the Erdős-Rényi random graphs Gp(N), its complementary graph Gpc(N) = G1-p(N) follows a binomial degree distribution as in the Erdős-Rényi random graphs G1-p(N). We prove that the maximum and minimum assortativity of a class of graphs with a binomial distribution are asymptotically antisymmetric: ρmax(N,p) = -ρmin(N,p) for N → ∞. The general relation (3) nicely leads to (a) the relation (10) and (16) between the assortativity range ρmax(G)-ρmin(G) of a graph with a given degree distribution and the range ρmax(Gc)-ρmin(Gc) of its complementary graph and (b) new bounds (6) and (15) of the assortativity. These results together with our numerical experiments in over 30 real-world complex networks illustrate that the assortativity range ρmax-ρmin is generally large in sparse networks, which underlines the importance of assortativity as a network characterizer.

  6. On the rainbow coloring for some graph operations

    NASA Astrophysics Data System (ADS)

    Dafik, Agustin, Ika Hesti; Fajariyato, Anang; Alfarisi, Ridho

    2016-02-01

    Let G = (V, E) be a nontrivial, finite, simple and undirected connected graph on which is defined a coloring f : E(G) → {1,2, …, k}, k ∈ N. The adjacent edges may be colored the same colors. A path in an edge colored graph is said to be a rainbow path if no two edges on the path have the same color. An edge colored graph G is rainbow connected if there exists a rainbow u - v path for every two vertices u and v of G. The rainbow connection number of a graph G, denoted by rc(G), is the smallest number of k colors required to edge color the graph such that the graph is rainbow connected. In this paper, we determine the exact values of rainbow connection number of some special graph operations, namely cartesian product, tensor product, composition of two special graphs and also amalgamation of special graphs. The result shows that all exact values of rc(G) attain a lower bound of the rainbow connectivity, namely diam(G).

  7. High-Precision Ramsey-Comb Spectroscopy at Deep Ultraviolet Wavelengths.

    PubMed

    Altmann, R K; Galtier, S; Dreissen, L S; Eikema, K S E

    2016-10-21

    High-precision spectroscopy in systems such as molecular hydrogen and helium ions is very interesting in view of tests of quantum electrodynamics and the proton radius puzzle. However, the required deep ultraviolet and shorter wavelengths pose serious experimental challenges. Here we show Ramsey-comb spectroscopy in the deep ultraviolet for the first time, thereby demonstrating its enabling capabilities for precision spectroscopy at short wavelengths. We excite ^{84}Kr in an atomic beam on the two-photon 4p^{6}→4p^{5}5p[1/2]_{0} transition at 212.55 nm. It is shown that the ac-Stark shift is effectively eliminated, and combined with a counterpropagating excitation geometry to suppress Doppler effects, a transition frequency of 2 820 833 101 679(103) kHz is found. The uncertainty of our measurement is 34 times smaller than the best previous measurement, and only limited by the 27 ns lifetime of the excited state.

  8. Ramsey interferometry for resonant Auger decay through core-excited states

    NASA Astrophysics Data System (ADS)

    Chatterjee, Souvik; Nakajima, Takashi

    2016-08-01

    We theoretically investigate the electron dynamics in Ne atoms involving core-excited states through the Ramsey scheme with a pair of time-delayed x-ray pulses. Irradiation of Ne atoms by the ˜1 femtosecond x-ray pulse simultaneously populates two core-excited states, and an identical but time-delayed x-ray pulse probes the dynamics of the core-excited electron wave packet which is subject to the resonant Auger decay. The energy-integrated total Auger electron yield and energy-resolved Auger electron spectra in the time domain show periodic structures due to the temporal evolution of the wave packet, from which we can obtain the counterpart in the frequency domain through the Fourier transformation. The Auger electron energy spectra in the time as well as frequency domains show the interference patterns between the two Auger electron wave packets released into the continuum from the superposition of two core-excited states at different times. These spectra are important to clarify the individual contribution of the different Auger decay channels upon core excitation by the x-ray pulse.

  9. Clique graphs and overlapping communities

    NASA Astrophysics Data System (ADS)

    Evans, T. S.

    2010-12-01

    It is shown how to construct a clique graph in which properties of cliques of a fixed order in a given graph are represented by vertices in a weighted graph. Various definitions and motivations for these weights are given. The detection of communities or clusters is used to illustrate how a clique graph may be exploited. In particular a benchmark network is shown where clique graphs find the overlapping communities accurately while vertex partition methods fail.

  10. Quasiperiodic graphs at the onset of chaos.

    PubMed

    Luque, B; Cordero-Gracia, M; Gómez, M; Robledo, A

    2013-12-01

    We examine the connectivity fluctuations across networks obtained when the horizontal visibility (HV) algorithm is used on trajectories generated by nonlinear circle maps at the quasiperiodic transition to chaos. The resultant HV graph is highly anomalous as the degrees fluctuate at all scales with amplitude that increases with the size of the network. We determine families of Pesin-like identities between entropy growth rates and generalized graph-theoretical Lyapunov exponents. An irrational winding number with pure periodic continued fraction characterizes each family. We illustrate our results for the so-called golden, silver, and bronze numbers.

  11. Proxy Graph: Visual Quality Metrics of Big Graph Sampling.

    PubMed

    Nguyen, Quan-Hoang; Hong, Seok-Hee; Eades, Peter; Meidiana, Amyra

    2017-02-24

    Data sampling has been extensively studied for large scale graph mining. Many analyses and tasks become more efficient when performed on graph samples of much smaller size. The use of proxy objects is common in software engineering for analysis and interaction with heavy objects or systems. In this paper, we coin the term 'proxy graph' and empirically investigate how well a proxy graph visualization can represent a big graph. Our investigation focuses on proxy graphs obtained by sampling; this is one of the most common proxy approaches. Despite the plethora of data sampling studies, this is the first evaluation of sampling in the context of graph visualization. For an objective evaluation, we propose a new family of quality metrics for visual quality of proxy graphs. Our experiments cover popular sampling techniques. Our experimental results lead to guidelines for using sampling-based proxy graphs in visualization.

  12. Higher-order graph wavelets and sparsity on circulant graphs

    NASA Astrophysics Data System (ADS)

    Kotzagiannidis, Madeleine S.; Dragotti, Pier Luigi

    2015-08-01

    The notion of a graph wavelet gives rise to more advanced processing of data on graphs due to its ability to operate in a localized manner, across newly arising data-dependency structures, with respect to the graph signal and underlying graph structure, thereby taking into consideration the inherent geometry of the data. In this work, we tackle the problem of creating graph wavelet filterbanks on circulant graphs for a sparse representation of certain classes of graph signals. The underlying graph can hereby be data-driven as well as fixed, for applications including image processing and social network theory, whereby clusters can be modelled as circulant graphs, respectively. We present a set of novel graph wavelet filter-bank constructions, which annihilate higher-order polynomial graph signals (up to a border effect) defined on the vertices of undirected, circulant graphs, and are localised in the vertex domain. We give preliminary results on their performance for non-linear graph signal approximation and denoising. Furthermore, we provide extensions to our previously developed segmentation-inspired graph wavelet framework for non-linear image approximation, by incorporating notions of smoothness and vanishing moments, which further improve performance compared to traditional methods.

  13. Key-Node-Separated Graph Clustering and Layouts for Human Relationship Graph Visualization.

    PubMed

    Itoh, Takayuki; Klein, Karsten

    2015-01-01

    Many graph-drawing methods apply node-clustering techniques based on the density of edges to find tightly connected subgraphs and then hierarchically visualize the clustered graphs. However, users may want to focus on important nodes and their connections to groups of other nodes for some applications. For this purpose, it is effective to separately visualize the key nodes detected based on adjacency and attributes of the nodes. This article presents a graph visualization technique for attribute-embedded graphs that applies a graph-clustering algorithm that accounts for the combination of connections and attributes. The graph clustering step divides the nodes according to the commonality of connected nodes and similarity of feature value vectors. It then calculates the distances between arbitrary pairs of clusters according to the number of connecting edges and the similarity of feature value vectors and finally places the clusters based on the distances. Consequently, the technique separates important nodes that have connections to multiple large clusters and improves the visibility of such nodes' connections. To test this technique, this article presents examples with human relationship graph datasets, including a coauthorship and Twitter communication network dataset.

  14. Two linear time, low overhead algorithms for graph layout

    SciTech Connect

    Wylie, Brian; Baumes, Jeff

    2008-01-10

    The software comprises two algorithms designed to perform a 2D layout of a graph structure in time linear with respect to the vertices and edges in the graph, whereas most other layout algorithms have a running time that is quadratic with respect to the number of vertices or greater. Although these layout algorithms run in a fraction of the time as their competitors, they provide competitive results when applied to most real-world graphs. These algorithms also have a low constant running time and small memory footprint, making them useful for small to large graphs.

  15. A Graph Search Heuristic for Shortest Distance Paths

    SciTech Connect

    Chow, E

    2005-03-24

    This paper presents a heuristic for guiding A* search for finding the shortest distance path between two vertices in a connected, undirected, and explicitly stored graph. The heuristic requires a small amount of data to be stored at each vertex. The heuristic has application to quickly detecting relationships between two vertices in a large information or knowledge network. We compare the performance of this heuristic with breadth-first search on graphs with various topological properties. The results show that one or more orders of magnitude improvement in the number of vertices expanded is possible for large graphs, including Poisson random graphs.

  16. A local search for a graph clustering problem

    NASA Astrophysics Data System (ADS)

    Navrotskaya, Anna; Il'ev, Victor

    2016-10-01

    In the clustering problems one has to partition a given set of objects (a data set) into some subsets (called clusters) taking into consideration only similarity of the objects. One of most visual formalizations of clustering is graph clustering, that is grouping the vertices of a graph into clusters taking into consideration the edge structure of the graph whose vertices are objects and edges represent similarities between the objects. In the graph k-clustering problem the number of clusters does not exceed k and the goal is to minimize the number of edges between clusters and the number of missing edges within clusters. This problem is NP-hard for any k ≥ 2. We propose a polynomial time (2k-1)-approximation algorithm for graph k-clustering. Then we apply a local search procedure to the feasible solution found by this algorithm and hold experimental research of obtained heuristics.

  17. K-theory of locally finite graph C∗-algebras

    NASA Astrophysics Data System (ADS)

    Iyudu, Natalia

    2013-09-01

    We calculate the K-theory of the Cuntz-Krieger algebra OE associated with an infinite, locally finite graph, via the Bass-Hashimoto operator. The formulae we get express the Grothendieck group and the Whitehead group in purely graph theoretic terms. We consider the category of finite (black-and-white, bi-directed) subgraphs with certain graph homomorphisms and construct a continuous functor to abelian groups. In this category K0 is an inductive limit of K-groups of finite graphs, which were calculated in Cornelissen et al. (2008) [3]. In the case of an infinite graph with the finite Betti number we obtain the formula for the Grothendieck group K0(OE)=Z, where β(E) is the first Betti number and γ(E) is the valency number of the graph E. We note that in the infinite case the torsion part of K0, which is present in the case of a finite graph, vanishes. The Whitehead group depends only on the first Betti number: K1(OE)=Z. These allow us to provide a counterexample to the fact, which holds for finite graphs, that K1(OE) is the torsion free part of K0(OE).

  18. Optimized Graph Search Using Multi-Level Graph Clustering

    NASA Astrophysics Data System (ADS)

    Kala, Rahul; Shukla, Anupam; Tiwari, Ritu

    Graphs find a variety of use in numerous domains especially because of their capability to model common problems. The social networking graphs that are used for social networking analysis, a feature given by various social networking sites are an example of this. Graphs can also be visualized in the search engines to carry search operations and provide results. Various searching algorithms have been developed for searching in graphs. In this paper we propose that the entire network graph be clustered. The larger graphs are clustered to make smaller graphs. These smaller graphs can again be clustered to further reduce the size of graph. The search is performed on the smallest graph to identify the general path, which may be further build up to actual nodes by working on the individual clusters involved. Since many searches are carried out on the same graph, clustering may be done once and the data may be used for multiple searches over the time. If the graph changes considerably, only then we may re-cluster the graph.

  19. Subdominant pseudoultrametric on graphs

    SciTech Connect

    Dovgoshei, A A; Petrov, E A

    2013-08-31

    Let (G,w) be a weighted graph. We find necessary and sufficient conditions under which the weight w:E(G)→R{sup +} can be extended to a pseudoultrametric on V(G), and establish a criterion for the uniqueness of such an extension. We demonstrate that (G,w) is a complete k-partite graph, for k≥2, if and only if for any weight that can be extended to a pseudoultrametric, among all such extensions one can find the least pseudoultrametric consistent with w. We give a structural characterization of graphs for which the subdominant pseudoultrametric is an ultrametric for any strictly positive weight that can be extended to a pseudoultrametric. Bibliography: 14 titles.

  20. Algebraic distance on graphs.

    SciTech Connect

    Chen, J.; Safro, I.

    2011-01-01

    Measuring the connection strength between a pair of vertices in a graph is one of the most important concerns in many graph applications. Simple measures such as edge weights may not be sufficient for capturing the effects associated with short paths of lengths greater than one. In this paper, we consider an iterative process that smooths an associated value for nearby vertices, and we present a measure of the local connection strength (called the algebraic distance; see [D. Ron, I. Safro, and A. Brandt, Multiscale Model. Simul., 9 (2011), pp. 407-423]) based on this process. The proposed measure is attractive in that the process is simple, linear, and easily parallelized. An analysis of the convergence property of the process reveals that the local neighborhoods play an important role in determining the connectivity between vertices. We demonstrate the practical effectiveness of the proposed measure through several combinatorial optimization problems on graphs and hypergraphs.

  1. Quantitative analysis of electrically detected Ramsey fringes in P-doped Si

    NASA Astrophysics Data System (ADS)

    Greenland, P. T.; Matmon, G.; Villis, B. J.; Bowyer, E. T.; Li, Juerong; Murdin, B. N.; van der Meer, A. F. G.; Redlich, B.; Pidgeon, C. R.; Aeppli, G.

    2015-10-01

    This work describes detection of the laser preparation and subsequent coherent manipulation of the quantum states of orbital levels of donors in doped Si, by measuring the voltage drop across an irradiated Si sample. This electrical signal, which arises from thermal ionization of excited orbital states, and which is detected on a millisecond time scale by a voltmeter, leads to much more sensitive detection than can be had using optical methods, but has not before been quantitatively described from first principles. We present here a unified theory which relates the voltage drop across the sample to the wave function of the excited donors, and compare its predictions to experiments in which pairs of picosecond pulses from the Dutch free-electron laser FELIX are used to resonantly and coherently excite P donors in Si. Although the voltage drop varies on a millisecond time scale we are able to measure Ramsey oscillation of the excitation on a picosecond time scale, thus confirming that the donor wave function, and not just its excited state population, is crucial in determining the electrical signal. We are also able to extract the recombination rate coefficient to the ground state of the donor as well as the photoionization cross section of the excited state and phonon induced thermal ionization rate from the excited state. These quantities, which were previously of limited interest, are here shown to be important in the description of electrical detection, which, in our unoptimized configuration, is sensitive enough to enable us to detect the excitation of ˜107 donors.

  2. Ancestral Graph Markov Models

    DTIC Science & Technology

    2002-04-15

    path from a to (3 together with an edge (3 -+ a is called a (fully) directed cycle . An anterior path from a to f3 together with an edge (3 -+ a is...called a partially directed cycle . A directed acyclic graph (DA G) is a mixed graph in which all edges are directed, and there are no directed cycles . 3...regardless of whether a and "’f are adjacent). There are no directed cycles or pa’ltially directed cycles . 9 to Proof: follows because condition rules

  3. Graph Match Program

    DTIC Science & Technology

    1990-03-01

    returns from a frequency swept microwave signal centred on the ship being measured. Each data set consists of 255 equally spaced points which represent...overlaid one over the other, or split into three windows where the hard black-lined top graph is the back chart and the thinner-lined lower graph is the...Borland’s Turbo Pascal Version 1.0 (Borland 1986) to edit and compile the main source code. Menu details, window specification, dialogue box and item

  4. Graphing Calculator Mini Course

    NASA Technical Reports Server (NTRS)

    Karnawat, Sunil R.

    1996-01-01

    The "Graphing Calculator Mini Course" project provided a mathematically-intensive technologically-based summer enrichment workshop for teachers of American Indian students on the Turtle Mountain Indian Reservation. Eleven such teachers participated in the six-day workshop in summer of 1996 and three Sunday workshops in the academic year. The project aimed to improve science and mathematics education on the reservation by showing teachers effective ways to use high-end graphing calculators as teaching and learning tools in science and mathematics courses at all levels. In particular, the workshop concentrated on applying TI-82's user-friendly features to understand the various mathematical and scientific concepts.

  5. Labeled Graph Kernel for Behavior Analysis.

    PubMed

    Zhao, Ruiqi; Martinez, Aleix M

    2016-08-01

    Automatic behavior analysis from video is a major topic in many areas of research, including computer vision, multimedia, robotics, biology, cognitive science, social psychology, psychiatry, and linguistics. Two major problems are of interest when analyzing behavior. First, we wish to automatically categorize observed behaviors into a discrete set of classes (i.e., classification). For example, to determine word production from video sequences in sign language. Second, we wish to understand the relevance of each behavioral feature in achieving this classification (i.e., decoding). For instance, to know which behavior variables are used to discriminate between the words apple and onion in American Sign Language (ASL). The present paper proposes to model behavior using a labeled graph, where the nodes define behavioral features and the edges are labels specifying their order (e.g., before, overlaps, start). In this approach, classification reduces to a simple labeled graph matching. Unfortunately, the complexity of labeled graph matching grows exponentially with the number of categories we wish to represent. Here, we derive a graph kernel to quickly and accurately compute this graph similarity. This approach is very general and can be plugged into any kernel-based classifier. Specifically, we derive a Labeled Graph Support Vector Machine (LGSVM) and a Labeled Graph Logistic Regressor (LGLR) that can be readily employed to discriminate between many actions (e.g., sign language concepts). The derived approach can be readily used for decoding too, yielding invaluable information for the understanding of a problem (e.g., to know how to teach a sign language). The derived algorithms allow us to achieve higher accuracy results than those of state-of-the-art algorithms in a fraction of the time. We show experimental results on a variety of problems and datasets, including multimodal data.

  6. Labeled Graph Kernel for Behavior Analysis

    PubMed Central

    Zhao, Ruiqi; Martinez, Aleix M.

    2016-01-01

    Automatic behavior analysis from video is a major topic in many areas of research, including computer vision, multimedia, robotics, biology, cognitive science, social psychology, psychiatry, and linguistics. Two major problems are of interest when analyzing behavior. First, we wish to automatically categorize observed behaviors into a discrete set of classes (i.e., classification). For example, to determine word production from video sequences in sign language. Second, we wish to understand the relevance of each behavioral feature in achieving this classification (i.e., decoding). For instance, to know which behavior variables are used to discriminate between the words apple and onion in American Sign Language (ASL). The present paper proposes to model behavior using a labeled graph, where the nodes define behavioral features and the edges are labels specifying their order (e.g., before, overlaps, start). In this approach, classification reduces to a simple labeled graph matching. Unfortunately, the complexity of labeled graph matching grows exponentially with the number of categories we wish to represent. Here, we derive a graph kernel to quickly and accurately compute this graph similarity. This approach is very general and can be plugged into any kernel-based classifier. Specifically, we derive a Labeled Graph Support Vector Machine (LGSVM) and a Labeled Graph Logistic Regressor (LGLR) that can be readily employed to discriminate between many actions (e.g., sign language concepts). The derived approach can be readily used for decoding too, yielding invaluable information for the understanding of a problem (e.g., to know how to teach a sign language). The derived algorithms allow us to achieve higher accuracy results than those of state-of-the-art algorithms in a fraction of the time. We show experimental results on a variety of problems and datasets, including multimodal data. PMID:26415154

  7. Diversity of Graphs with Highly Variable Connectivity

    DTIC Science & Technology

    2016-06-07

    or whether it is a technological or social network as argued in 37. This idea has been made previously in 7,26,29,33,38 and has also been recently...published 3 April 2007 A popular approach for describing the structure of many complex networks focuses on graph theoretic properties that...comparability of graph theoretic descriptions. DOI: 10.1103/PhysRevE.75.046102 PACS numbers: 89.75.Hc, 89.20.Ff INTRODUCTION The recent use of network models to

  8. Graphing techniques for materials laboratory using Excel

    NASA Technical Reports Server (NTRS)

    Kundu, Nikhil K.

    1994-01-01

    Engineering technology curricula stress hands on training and laboratory practices in most of the technical courses. Laboratory reports should include analytical as well as graphical evaluation of experimental data. Experience shows that many students neither have the mathematical background nor the expertise for graphing. This paper briefly describes the procedure and data obtained from a number of experiments such as spring rate, stress concentration, endurance limit, and column buckling for a variety of materials. Then with a brief introduction to Microsoft Excel the author explains the techniques used for linear regression and logarithmic graphing.

  9. Learning a Nonnegative Sparse Graph for Linear Regression.

    PubMed

    Fang, Xiaozhao; Xu, Yong; Li, Xuelong; Lai, Zhihui; Wong, Wai Keung

    2015-09-01

    Previous graph-based semisupervised learning (G-SSL) methods have the following drawbacks: 1) they usually predefine the graph structure and then use it to perform label prediction, which cannot guarantee an overall optimum and 2) they only focus on the label prediction or the graph structure construction but are not competent in handling new samples. To this end, a novel nonnegative sparse graph (NNSG) learning method was first proposed. Then, both the label prediction and projection learning were integrated into linear regression. Finally, the linear regression and graph structure learning were unified within the same framework to overcome these two drawbacks. Therefore, a novel method, named learning a NNSG for linear regression was presented, in which the linear regression and graph learning were simultaneously performed to guarantee an overall optimum. In the learning process, the label information can be accurately propagated via the graph structure so that the linear regression can learn a discriminative projection to better fit sample labels and accurately classify new samples. An effective algorithm was designed to solve the corresponding optimization problem with fast convergence. Furthermore, NNSG provides a unified perceptiveness for a number of graph-based learning methods and linear regression methods. The experimental results showed that NNSG can obtain very high classification accuracy and greatly outperforms conventional G-SSL methods, especially some conventional graph construction methods.

  10. Random graphs with arbitrary degree distributions and their applications

    NASA Astrophysics Data System (ADS)

    Newman, M. E. J.; Strogatz, S. H.; Watts, D. J.

    2001-08-01

    Recent work on the structure of social networks and the internet has focused attention on graphs with distributions of vertex degree that are significantly different from the Poisson degree distributions that have been widely studied in the past. In this paper we develop in detail the theory of random graphs with arbitrary degree distributions. In addition to simple undirected, unipartite graphs, we examine the properties of directed and bipartite graphs. Among other results, we derive exact expressions for the position of the phase transition at which a giant component first forms, the mean component size, the size of the giant component if there is one, the mean number of vertices a certain distance away from a randomly chosen vertex, and the average vertex-vertex distance within a graph. We apply our theory to some real-world graphs, including the world-wide web and collaboration graphs of scientists and Fortune 1000 company directors. We demonstrate that in some cases random graphs with appropriate distributions of vertex degree predict with surprising accuracy the behavior of the real world, while in others there is a measurable discrepancy between theory and reality, perhaps indicating the presence of additional social structure in the network that is not captured by the random graph.

  11. Speed of evolution on graphs

    NASA Astrophysics Data System (ADS)

    Sui, Xiukai; Wu, Bin; Wang, Long

    2015-12-01

    The likelihood that a mutant fixates in the wild population, i.e., fixation probability, has been intensively studied in evolutionary game theory, where individuals' fitness is frequency dependent. However, it is of limited interest when it takes long to take over. Thus the speed of evolution becomes an important issue. In general, it is still unclear how fixation times are affected by the population structure, although the fixation times have already been addressed in the well-mixed populations. Here we theoretically address this issue by pair approximation and diffusion approximation on regular graphs. It is shown (i) that under neutral selection, both unconditional and conditional fixation time are shortened by increasing the number of neighbors; (ii) that under weak selection, for the simplified prisoner's dilemma game, if benefit-to-cost ratio exceeds the degree of the graph, then the unconditional fixation time of a single cooperator is slower than that in the neutral case; and (iii) that under weak selection, for the conditional fixation time, limited neighbor size dilutes the counterintuitive stochastic slowdown which was found in well-mixed populations. Interestingly, we find that all of our results can be interpreted as that in the well-mixed population with a transformed payoff matrix. This interpretation is also valid for both death-birth and birth-death processes on graphs. This interpretation bridges the fixation time in the structured population and that in the well-mixed population. Thus it opens the avenue to investigate the challenging fixation time in structured populations by the known results in well-mixed populations.

  12. Clustering gene expression data using graph separators.

    PubMed

    Kaba, Bangaly; Pinet, Nicolas; Lelandais, Gaëlle; Sigayret, Alain; Berry, Anne

    2007-01-01

    Recent work has used graphs to modelize expression data from microarray experiments, in view of partitioning the genes into clusters. In this paper, we introduce the use of a decomposition by clique separators. Our aim is to improve the classical clustering methods in two ways: first we want to allow an overlap between clusters, as this seems biologically sound, and second we want to be guided by the structure of the graph to define the number of clusters. We test this approach with a well-known yeast database (Saccharomyces cerevisiae). Our results are good, as the expression profiles of the clusters we find are very coherent. Moreover, we are able to organize into another graph the clusters we find, and order them in a fashion which turns out to respect the chronological order defined by the the sporulation process.

  13. Less Is Less: A Systematic Review of Graph Use in Meta-Analyses

    ERIC Educational Resources Information Center

    Schild, Anne H. E.; Voracek, Martin

    2013-01-01

    Graphs are an essential part of scientific communication. Complex datasets, of which meta-analyses are textbook examples, benefit the most from visualization. Although a number of graph options for meta-analyses exist, the extent to which these are used was hitherto unclear. A systematic review on graph use in meta-analyses in three disciplines…

  14. Using Combinatorica/Mathematica for Student Projects in Random Graph Theory

    ERIC Educational Resources Information Center

    Pfaff, Thomas J.; Zaret, Michele

    2006-01-01

    We give an example of a student project that experimentally explores a topic in random graph theory. We use the "Combinatorica" package in "Mathematica" to estimate the minimum number of edges needed in a random graph to have a 50 percent chance that the graph is connected. We provide the "Mathematica" code and compare it to the known theoretical…

  15. Graphs as a Problem-Solving Tool in 1-D Kinematics

    ERIC Educational Resources Information Center

    Desbien, Dwain M.

    2008-01-01

    In this age of the microcomputer-based lab (MBL), students are quite accustomed to looking at graphs of position, velocity, and acceleration versus time. A number of textbooks argue convincingly that the slope of the velocity graph gives the acceleration, the area under the velocity graph yields the displacement, and the area under the…

  16. Introduction to Graphing.

    ERIC Educational Resources Information Center

    Sokol, William

    In this autoinstructional packet, the student is given an experimental situation which introduces him to the process of graphing. The lesson is presented for secondary school students in chemistry. Algebra I and a Del Mod System program (indicated as SE 018 020) are suggested prerequisites for the use of this program. Behavioral objectives are…

  17. Line Graph Learning

    ERIC Educational Resources Information Center

    Pitts Bannister, Vanessa R.; Jamar, Idorenyin; Mutegi, Jomo W.

    2007-01-01

    In this article, the learning progress of one fifth-grade student is examined with regard to the development of her graph interpretation skills as she participated in the Junior Science Institute (JSI), a two-week, science intensive summer camp in which participants engaged in microbiology research and application. By showcasing the student's…

  18. Graph-theoretical exorcism

    SciTech Connect

    Simmons, G.J.

    1985-01-01

    Given a graph G and an ordering phi of the vertices, V(G), we define a parsimonious proper coloring (PPC) of V(G) under phi to be a proper coloring of V(G) in the order phi, where a new color is introduced only when a vertex cannot be properly colored in its order with any of the colors already used.

  19. GraphLib

    SciTech Connect

    2013-02-19

    This library is used in several LLNL projects, including STAT (the Stack Trace Analysis Tool for scalable debugging) and some modules in P^nMPI (a tool MPI tool infrastructure). It can also be used standalone for creating and manipulationg graphs, but its API is primarily tuned to support these other projects

  20. Body Motion and Graphing.

    ERIC Educational Resources Information Center

    Nemirovsky, Ricardo; Tierney, Cornelia; Wright, Tracy

    1998-01-01

    Analyzed two children's use of a computer-based motion detector to make sense of symbolic expressions (Cartesian graphs). Found three themes: (1) tool perspectives, efforts to understand graphical responses to body motion; (2) fusion, emergent ways of talking and behaving that merge symbols and referents; and (3) graphical spaces, when changing…

  1. Hidden Behavior in Graphs.

    ERIC Educational Resources Information Center

    Donley, H. Edward; George, Elizabeth Ann

    1993-01-01

    Demonstrates how to construct rational, exponential, and sinusoidal functions that appear normal on one scale but exhibit interesting hidden behavior when viewed on another scale. By exploring these examples, students learn the importance of scale, window size, and resolution effects in computer and calculator graphing. (MAZ)

  2. Straight Line Graphs

    ERIC Educational Resources Information Center

    Krueger, Tom

    2010-01-01

    In this article, the author shares one effective lesson idea on straight line graphs that he applied in his lower ability Y9 class. The author wanted something interesting for his class to do, something that was fun and engaging with direct feedback, and something that worked because someone else had tried it before. In a word, the author admits…

  3. Temporal Representation in Semantic Graphs

    SciTech Connect

    Levandoski, J J; Abdulla, G M

    2007-08-07

    A wide range of knowledge discovery and analysis applications, ranging from business to biological, make use of semantic graphs when modeling relationships and concepts. Most of the semantic graphs used in these applications are assumed to be static pieces of information, meaning temporal evolution of concepts and relationships are not taken into account. Guided by the need for more advanced semantic graph queries involving temporal concepts, this paper surveys the existing work involving temporal representations in semantic graphs.

  4. Quantum walks on quotient graphs

    SciTech Connect

    Krovi, Hari; Brun, Todd A.

    2007-06-15

    A discrete-time quantum walk on a graph {gamma} is the repeated application of a unitary evolution operator to a Hilbert space corresponding to the graph. If this unitary evolution operator has an associated group of symmetries, then for certain initial states the walk will be confined to a subspace of the original Hilbert space. Symmetries of the original graph, given by its automorphism group, can be inherited by the evolution operator. We show that a quantum walk confined to the subspace corresponding to this symmetry group can be seen as a different quantum walk on a smaller quotient graph. We give an explicit construction of the quotient graph for any subgroup H of the automorphism group and illustrate it with examples. The automorphisms of the quotient graph which are inherited from the original graph are the original automorphism group modulo the subgroup H used to construct it. The quotient graph is constructed by removing the symmetries of the subgroup H from the original graph. We then analyze the behavior of hitting times on quotient graphs. Hitting time is the average time it takes a walk to reach a given final vertex from a given initial vertex. It has been shown in earlier work [Phys. Rev. A 74, 042334 (2006)] that the hitting time for certain initial states of a quantum walks can be infinite, in contrast to classical random walks. We give a condition which determines whether the quotient graph has infinite hitting times given that they exist in the original graph. We apply this condition for the examples discussed and determine which quotient graphs have infinite hitting times. All known examples of quantum walks with hitting times which are short compared to classical random walks correspond to systems with quotient graphs much smaller than the original graph; we conjecture that the existence of a small quotient graph with finite hitting times is necessary for a walk to exhibit a quantum speedup.

  5. Recursive Feature Extraction in Graphs

    SciTech Connect

    2014-08-14

    ReFeX extracts recursive topological features from graph data. The input is a graph as a csv file and the output is a csv file containing feature values for each node in the graph. The features are based on topological counts in the neighborhoods of each nodes, as well as recursive summaries of neighbors' features.

  6. Topic Model for Graph Mining.

    PubMed

    Xuan, Junyu; Lu, Jie; Zhang, Guangquan; Luo, Xiangfeng

    2015-12-01

    Graph mining has been a popular research area because of its numerous application scenarios. Many unstructured and structured data can be represented as graphs, such as, documents, chemical molecular structures, and images. However, an issue in relation to current research on graphs is that they cannot adequately discover the topics hidden in graph-structured data which can be beneficial for both the unsupervised learning and supervised learning of the graphs. Although topic models have proved to be very successful in discovering latent topics, the standard topic models cannot be directly applied to graph-structured data due to the "bag-of-word" assumption. In this paper, an innovative graph topic model (GTM) is proposed to address this issue, which uses Bernoulli distributions to model the edges between nodes in a graph. It can, therefore, make the edges in a graph contribute to latent topic discovery and further improve the accuracy of the supervised and unsupervised learning of graphs. The experimental results on two different types of graph datasets show that the proposed GTM outperforms the latent Dirichlet allocation on classification by using the unveiled topics of these two models to represent graphs.

  7. Mining and Indexing Graph Databases

    ERIC Educational Resources Information Center

    Yuan, Dayu

    2013-01-01

    Graphs are widely used to model structures and relationships of objects in various scientific and commercial fields. Chemical molecules, proteins, malware system-call dependencies and three-dimensional mechanical parts are all modeled as graphs. In this dissertation, we propose to mine and index those graph data to enable fast and scalable search.…

  8. Kevin Bacon and Graph Theory

    ERIC Educational Resources Information Center

    Hopkins, Brian

    2004-01-01

    The interconnected world of actors and movies is a familiar, rich example for graph theory. This paper gives the history of the "Kevin Bacon Game" and makes extensive use of a Web site to analyze the underlying graph. The main content is the classroom development of the weighted average to determine the best choice of "center" for the graph. The…

  9. A Note on Hamiltonian Graphs

    ERIC Educational Resources Information Center

    Skurnick, Ronald; Davi, Charles; Skurnick, Mia

    2005-01-01

    Since 1952, several well-known graph theorists have proven numerous results regarding Hamiltonian graphs. In fact, many elementary graph theory textbooks contain the theorems of Ore, Bondy and Chvatal, Chvatal and Erdos, Posa, and Dirac, to name a few. In this note, the authors state and prove some propositions of their own concerning Hamiltonian…

  10. Ancestral recombinations graph: a reconstructability perspective using random-graphs framework.

    PubMed

    Parida, Laxmi

    2010-10-01

    We present a random graphs framework to study pedigree history in an ideal (Wright Fisher) population. This framework correlates the underlying mathematical objects in, for example, pedigree graph, mtDNA or NRY Chr tree, ARG (Ancestral Recombinations Graph), and HUD used in literature, into a single unified random graph framework. It also gives a natural definition, based solely on the topology, of an ARG, one of the most interesting as well as useful mathematical objects in this area. The random graphs framework gives an alternative parametrization of the ARG that does not use the recombination rate q and instead uses a parameter M based on the (estimate of ) the number of non-mixing segments in the extant units. This seems more natural in a setting that attempts to tease apart the population dynamics from the biology of the units. This framework also gives a purely topological definition of GMRCA, analogous to MRCA on trees (which has a purely topological description i.e., it is a root, graph-theoretically speaking, of a tree). Secondly, with a natural extension of the ideas from random-graphs we present a sampling (simulation) algorithm to construct random instances of ARG/unilinear transmission graph. This is the first (to the best of the author's knowledge) algorithm that guarantees uniform sampling of the space of ARG instances, reflecting the ideal population model. Finally, using a measure of reconstructability of the past historical events given a collection of extant sequences, we conclude for a given set of extant sequences, the joint history of local segments along a chromosome is reconstructible.

  11. Orthocomplemented complete lattices and graphs

    NASA Astrophysics Data System (ADS)

    Ollech, Astrid

    1995-08-01

    The problem I consider originates from Dörfler, who found a construction to assign an Orthocomplemented lattice H(G) to a graph G. By Dörfler it is known that for every finite Orthocomplemented lattice L there exists a graph G such that H(G)=L. Unfortunately, we can find more than one graph G with this property, i.e., orthocomplemented lattices which belong to different graphs can be isomorphic. I show some conditions under which two graphs have the same orthocomplemented lattice.

  12. Spectral fluctuations of quantum graphs

    SciTech Connect

    Pluhař, Z.; Weidenmüller, H. A.

    2014-10-15

    We prove the Bohigas-Giannoni-Schmit conjecture in its most general form for completely connected simple graphs with incommensurate bond lengths. We show that for graphs that are classically mixing (i.e., graphs for which the spectrum of the classical Perron-Frobenius operator possesses a finite gap), the generating functions for all (P,Q) correlation functions for both closed and open graphs coincide (in the limit of infinite graph size) with the corresponding expressions of random-matrix theory, both for orthogonal and for unitary symmetry.

  13. Regular homotopy for immersions of graphs into surfaces

    NASA Astrophysics Data System (ADS)

    Permyakov, D. A.

    2016-06-01

    We study invariants of regular immersions of graphs into surfaces up to regular homotopy. The concept of the winding number is used to introduce a new simple combinatorial invariant of regular homotopy. Bibliography: 20 titles.

  14. Transient development of Zeeman electromagnetically induced transparency during propagation of Raman-Ramsey pulses through Rb buffer gas cell

    NASA Astrophysics Data System (ADS)

    Nikolić, S. N.; Radonjić, M.; Lučić, N. M.; Krmpot, A. J.; Jelenković, B. M.

    2015-02-01

    We investigate, experimentally and theoretically, time development of Zeeman electromagnetically induced transparency (EIT) during propagation of two time separated polarization laser pulses, preparatory and probe, through Rb vapour. The pulses were produced by modifying laser intensity and degree of elliptical polarization. The frequency of the single laser beam is locked to the hyperfine {{F}g}=2\\to {{F}e}=1 transition of the D1 line in 87Rb. Transients in the intensity of {{σ }-} component of the transmitted light are measured or calculated at different values of the external magnetic field, during both preparatory and probe pulse. Zeeman EIT resonances at particular time instants of the pulse propagation are reconstructed by appropriate sampling of the transients. We observe how laser intensity, Ramsey sequence and the Rb cell temperature affect the time dependence of EIT line shapes, amplitudes and linewidths. We show that at early times of the probe pulse propagation, several Ramsey fringes are present in EIT resonances, while at later moments a single narrow peak prevails. Time development of EIT amplitudes are determined by the transmitted intensity of the {{σ }-} component during the pulse propagation.

  15. Entanglement witnesses for graph states: General theory and examples

    SciTech Connect

    Jungnitsch, Bastian; Moroder, Tobias; Guehne, Otfried

    2011-09-15

    We present a general theory for the construction of witnesses that detect genuine multipartite entanglement in graph states. First, we present explicit witnesses for all graph states of up to six qubits which are better than all criteria so far. Therefore, lower fidelities are required in experiments that aim at the preparation of graph states. Building on these results, we develop analytical methods to construct two different types of entanglement witnesses for general graph states. For many classes of states, these operators exhibit white noise tolerances that converge to 1 when increasing the number of particles. We illustrate our approach for states such as the linear and the 2D cluster state. Finally, we study an entanglement monotone motivated by our approach for graph states.

  16. A system for routing arbitrary directed graphs on SIMD architectures

    NASA Technical Reports Server (NTRS)

    Tomboulian, Sherryl

    1987-01-01

    There are many problems which can be described in terms of directed graphs that contain a large number of vertices where simple computations occur using data from connecting vertices. A method is given for parallelizing such problems on an SIMD machine model that is bit-serial and uses only nearest neighbor connections for communication. Each vertex of the graph will be assigned to a processor in the machine. Algorithms are given that will be used to implement movement of data along the arcs of the graph. This architecture and algorithms define a system that is relatively simple to build and can do graph processing. All arcs can be transversed in parallel in time O(T), where T is empirically proportional to the diameter of the interconnection network times the average degree of the graph. Modifying or adding a new arc takes the same time as parallel traversal.

  17. Graph State-Based Quantum Group Authentication Scheme

    NASA Astrophysics Data System (ADS)

    Liao, Longxia; Peng, Xiaoqi; Shi, Jinjing; Guo, Ying

    2017-02-01

    Motivated by the elegant structure of the graph state, we design an ingenious quantum group authentication scheme, which is implemented by operating appropriate operations on the graph state and can solve the problem of multi-user authentication. Three entities, the group authentication server (GAS) as a verifier, multiple users as provers and the trusted third party Trent are included. GAS and Trent assist the multiple users in completing the authentication process, i.e., GAS is responsible for registering all the users while Trent prepares graph states. All the users, who request for authentication, encode their authentication keys on to the graph state by performing Pauli operators. It demonstrates that a novel authentication scheme can be achieved with the flexible use of graph state, which can synchronously authenticate a large number of users, meanwhile the provable security can be guaranteed definitely.

  18. Convex Graph Invariants

    DTIC Science & Technology

    2010-12-02

    evaluating the function ΘP (A) for any fixed A,P is equivalent to solving the so-called Quadratic Assignment Problem ( QAP ), and thus we can employ various...tractable linear programming, spectral, and SDP relaxations of QAP [40, 11, 33]. In particular we discuss recent work [14] on exploiting group...symmetry in SDP relaxations of QAP , which is useful for approximately computing elementary convex graph invariants in many interesting cases. Finally in

  19. An Unusual Exponential Graph

    ERIC Educational Resources Information Center

    Syed, M. Qasim; Lovatt, Ian

    2014-01-01

    This paper is an addition to the series of papers on the exponential function begun by Albert Bartlett. In particular, we ask how the graph of the exponential function y = e[superscript -t/t] would appear if y were plotted versus ln t rather than the normal practice of plotting ln y versus t. In answering this question, we find a new way to…

  20. Factorized Graph Matching.

    PubMed

    Zhou, Feng; de la Torre, Fernando

    2015-11-19

    Graph matching (GM) is a fundamental problem in computer science, and it plays a central role to solve correspondence problems in computer vision. GM problems that incorporate pairwise constraints can be formulated as a quadratic assignment problem (QAP). Although widely used, solving the correspondence problem through GM has two main limitations: (1) the QAP is NP-hard and difficult to approximate; (2) GM algorithms do not incorporate geometric constraints between nodes that are natural in computer vision problems. To address aforementioned problems, this paper proposes factorized graph matching (FGM). FGM factorizes the large pairwise affinity matrix into smaller matrices that encode the local structure of each graph and the pairwise affinity between edges. Four are the benefits that follow from this factorization: (1) There is no need to compute the costly (in space and time) pairwise affinity matrix; (2) The factorization allows the use of a path-following optimization algorithm, that leads to improved optimization strategies and matching performance; (3) Given the factorization, it becomes straight-forward to incorporate geometric transformations (rigid and non-rigid) to the GM problem. (4) Using a matrix formulation for the GM problem and the factorization, it is easy to reveal commonalities and differences between different GM methods. The factorization also provides a clean connection with other matching algorithms such as iterative closest point; Experimental results on synthetic and real databases illustrate how FGM outperforms state-of-the-art algorithms for GM. The code is available at http://humansensing.cs.cmu.edu/fgm.

  1. Continuous-time quantum walks on directed bipartite graphs

    NASA Astrophysics Data System (ADS)

    Tödtli, Beat; Laner, Monika; Semenov, Jouri; Paoli, Beatrice; Blattner, Marcel; Kunegis, Jérôme

    2016-11-01

    This paper investigates continuous-time quantum walks on directed bipartite graphs based on a graph's adjacency matrix. We prove that on bipartite graphs, probability transport between the two node partitions can be completely suppressed by tuning a model parameter α . We provide analytic solutions to the quantum walks for the star and circulant graph classes that are valid for an arbitrary value of the number of nodes N , time t , and the model parameter α . We discuss quantitative and qualitative aspects of quantum walks based on directed graphs and their undirected counterparts. Numerical simulations of quantum walks on circulant graphs show complex interference phenomena and how complete suppression of transport is achieved near α =π /2 . By proving two mirror symmetries around α =0 and π /2 we show that these quantum walks have a period of π in α . We show that undirected edges lose their effect on the quantum walk at α =π /2 and present non-bipartite graphs that exhibit suppression of transport. Finally, we analytically compute the Hamiltonians of quantum walks on the directed ring graph.

  2. Improving Attack Graph Visualization through Data Reduction and Attack Grouping

    SciTech Connect

    John Homer; Ashok Varikuti; Xinming Ou; Miles A. McQueen

    2008-09-01

    Various tools exist to analyze enterprise network systems and to produce attack graphs detailing how attackers might penetrate into the system. These attack graphs, however, are often complex and difficult to comprehend fully, and a human user may find it problematic to reach appropriate configuration decisions. This paper presents methodologies that can 1) automatically identify portions of an attack graph that do not help a user to understand the core security problems and so can be trimmed, and 2) automatically group similar attack steps as virtual nodes in a model of the network topology, to immediately increase the understandability of the data. We believe both methods are important steps toward improving visualization of attack graphs to make them more useful in configuration management for large enterprise networks. We implemented our methods using one of the existing attack-graph toolkits. Initial experimentation shows that the proposed approaches can 1) significantly reduce the complexity of attack graphs by trimming a large portion of the graph that is not needed for a user to understand the security problem, and 2) significantly increase the accessibility and understandability of the data presented in the attack graph by clearly showing, within a generated visualization of the network topology, the number and type of potential attacks to which each host is exposed.

  3. Join-Graph Propagation Algorithms

    PubMed Central

    Mateescu, Robert; Kask, Kalev; Gogate, Vibhav; Dechter, Rina

    2010-01-01

    The paper investigates parameterized approximate message-passing schemes that are based on bounded inference and are inspired by Pearl's belief propagation algorithm (BP). We start with the bounded inference mini-clustering algorithm and then move to the iterative scheme called Iterative Join-Graph Propagation (IJGP), that combines both iteration and bounded inference. Algorithm IJGP belongs to the class of Generalized Belief Propagation algorithms, a framework that allowed connections with approximate algorithms from statistical physics and is shown empirically to surpass the performance of mini-clustering and belief propagation, as well as a number of other state-of-the-art algorithms on several classes of networks. We also provide insight into the accuracy of iterative BP and IJGP by relating these algorithms to well known classes of constraint propagation schemes. PMID:20740057

  4. Lung segmentation with graph cuts: Graph size versus performance

    NASA Astrophysics Data System (ADS)

    Pazokifard, Banafsheh; Sowmya, Arcot

    2013-10-01

    The effect of graph size on segmentation performance and speed is investigated, where segmentation is based on the graph cuts algorithm. The study is performed on lung extraction in 50 complete multi detector computed tomography (MDCT) datasets, and a fully automatic procedure. The experiments were performed on different graph sizes for both 2-D (4 and 8 neighbours) and 3-D (6 and 26 neighbours) graphs. Five slices from each segmented dataset were compared to the reference delineation provided by a radiologist. Our evaluations highlight the fact that when medical image segmentation is performed using graph cuts, increasing graph and neighbourhood connection size does not necessarily improve the segmentation performance, but also increase the running time dramatically.

  5. Automated Program Recognition by Graph Parsing

    DTIC Science & Technology

    1992-07-01

    programs are represented as attributed dataflow graphs and a library of clichis is encoded as an attributed graph grammar . Graph parsing is used to...recognition. Second, we investigate the expressiveness of our graph grammar formalism for capturing pro- gramming cliches. Third, we empirically and...library of cliches is encoded as an attributed graph grammar . Graph parsing is used to recognize clich6s in the code. We demonstrate that this graph

  6. Ensemble nonequivalence in random graphs with modular structure

    NASA Astrophysics Data System (ADS)

    Garlaschelli, Diego; den Hollander, Frank; Roccaverde, Andrea

    2017-01-01

    Breaking of equivalence between the microcanonical ensemble and the canonical ensemble, describing a large system subject to hard and soft constraints, respectively, was recently shown to occur in large random graphs. Hard constraints must be met by every graph, soft constraints must be met only on average, subject to maximal entropy. In Squartini, de Mol, den Hollander and Garlaschelli (2015 New J. Phys. 17 023052) it was shown that ensembles of random graphs are nonequivalent when the degrees of the nodes are constrained, in the sense of a non-zero limiting specific relative entropy as the number of nodes diverges. In that paper, the nodes were placed either on a single layer (uni-partite graphs) or on two layers (bi-partite graphs). In the present paper we consider an arbitrary number of intra-connected and inter-connected layers, thus allowing for modular graphs with a multi-partite, multiplex, time-varying, block-model or community structure. We give a full classification of ensemble equivalence in the sparse regime, proving that breakdown occurs as soon as the number of local constraints (i.e. the number of constrained degrees) is extensive in the number of nodes, irrespective of the layer structure. In addition, we derive an explicit formula for the specific relative entropy and provide an interpretation of this formula in terms of Poissonisation of the degrees.

  7. Graph Coarsening for Path Finding in Cybersecurity Graphs

    SciTech Connect

    Hogan, Emilie A.; Johnson, John R.; Halappanavar, Mahantesh

    2013-01-01

    n the pass-the-hash attack, hackers repeatedly steal password hashes and move through a computer network with the goal of reaching a computer with high level administrative privileges. In this paper we apply graph coarsening in network graphs for the purpose of detecting hackers using this attack or assessing the risk level of the network's current state. We repeatedly take graph minors, which preserve the existence of paths in the graph, and take powers of the adjacency matrix to count the paths. This allows us to detect the existence of paths as well as find paths that have high risk of being used by adversaries.

  8. Horizontal visibility graphs from integer sequences

    NASA Astrophysics Data System (ADS)

    Lacasa, Lucas

    2016-09-01

    The horizontal visibility graph (HVG) is a graph-theoretical representation of a time series and builds a bridge between dynamical systems and graph theory. In recent years this representation has been used to describe and theoretically compare different types of dynamics and has been applied to characterize empirical signals, by extracting topological features from the associated HVGs which have shown to be informative on the class of dynamics. Among some other measures, it has been shown that the degree distribution of these graphs is a very informative feature that encapsulates nontrivial information of the series's generative dynamics. In particular, the HVG associated to a bi-infinite real-valued series of independent and identically distributed random variables is a universal exponential law P(k)=(1/3){(2/3)}k-2, independent of the series marginal distribution. Most of the current applications have however only addressed real-valued time series, as no exact results are known for the topological properties of HVGs associated to integer-valued series. In this paper we explore this latter situation and address univariate time series where each variable can only take a finite number n of consecutive integer values. We are able to construct an explicit formula for the parametric degree distribution {P}n(k), which we prove to converge to the continuous case for large n and deviates otherwise. A few applications are then considered.

  9. Figure-Ground Segmentation Using Factor Graphs.

    PubMed

    Shen, Huiying; Coughlan, James; Ivanchenko, Volodymyr

    2009-06-04

    Foreground-background segmentation has recently been applied [26,12] to the detection and segmentation of specific objects or structures of interest from the background as an efficient alternative to techniques such as deformable templates [27]. We introduce a graphical model (i.e. Markov random field)-based formulation of structure-specific figure-ground segmentation based on simple geometric features extracted from an image, such as local configurations of linear features, that are characteristic of the desired figure structure. Our formulation is novel in that it is based on factor graphs, which are graphical models that encode interactions among arbitrary numbers of random variables. The ability of factor graphs to express interactions higher than pairwise order (the highest order encountered in most graphical models used in computer vision) is useful for modeling a variety of pattern recognition problems. In particular, we show how this property makes factor graphs a natural framework for performing grouping and segmentation, and demonstrate that the factor graph framework emerges naturally from a simple maximum entropy model of figure-ground segmentation.We cast our approach in a learning framework, in which the contributions of multiple grouping cues are learned from training data, and apply our framework to the problem of finding printed text in natural scenes. Experimental results are described, including a performance analysis that demonstrates the feasibility of the approach.

  10. On the spectrum discreteness of the quantum graph Hamiltonian with δ-coupling

    NASA Astrophysics Data System (ADS)

    Smolkina, M. O.; Popov, I. Yu

    2015-11-01

    The condition on the potential ensuring the discreteness of the spectrum of infinite quantum graph Hamiltonian is considered. The corresponding necessary and sufficient condition was obtained by Molchanov 50 years ago. In the present paper, the analogous condition is obtained for a quantum graph. A quantum graph with infinite leads (edges) or/and infinite chains of vertices such that neighbor ones are connected by finite number of edges and with δ-type conditions at the graph vertices is suggested. The Molchanov-type theorem for the quantum graph Hamiltonian spectrum discreteness is proved.

  11. Multipartite entanglement in four-qubit graph states

    NASA Astrophysics Data System (ADS)

    Jafarpour, Mojtaba; Assadi, Leila

    2016-03-01

    We consider a compendium of the non-trivial four-qubit graphs, derive their corresponding quantum states and classify them into equivalent classes. We use Meyer-Wallach measure and its generalizations to study block-partition and global entanglement in these states. We obtain several entanglement quantities for each graph state, which present a comprehensive characterization of the entanglement properties of the latter. As a result, a number of correlations between the graph structure and multipartite entanglement quantities have also been established.

  12. Strongly Regular Graphs,

    DTIC Science & Technology

    1973-10-01

    The theory of strongly regular graphs was introduced by Bose r7 1 in 1963, in connection with partial geometries and 2 class association schemes. One...non adjacent vertices is constant and equal to ~. We shall denote by ~(p) (reap.r(p)) the set of vertices adjacent (resp.non adjacent) to a vertex p...is the complement of .2’ if the set of vertices of ~ is the set of vertices of .2’ and if two vertices in .2’ are adjacent if and only if they were

  13. Eigensolutions of dodecahedron graphs

    NASA Astrophysics Data System (ADS)

    Ghosh, Piyali; Karmakar, Somnath; Mandal, Bholanath

    2014-02-01

    Eigensolutions of 20-vertex cage (i.e. dodecahedron) have been determined with the use of fivefold rotational symmetry. For homo-dodecahedron the eigensolutions become analytical but for the hetero-dodecahedron having two different types of atoms ((C,N),(C,B),(B,N)) the eigensolutions are found to be factored out into five 4-degree polynomials with one corresponding to nondegenerate and other four corresponding to two degenerate eigensolutions. Eigenspectra and total π-electron energies of homo- and hetero-dodecahedron graphs have been calculated.

  14. Contact Graph Routing

    NASA Technical Reports Server (NTRS)

    Burleigh, Scott C.

    2011-01-01

    Contact Graph Routing (CGR) is a dynamic routing system that computes routes through a time-varying topology of scheduled communication contacts in a network based on the DTN (Delay-Tolerant Networking) architecture. It is designed to enable dynamic selection of data transmission routes in a space network based on DTN. This dynamic responsiveness in route computation should be significantly more effective and less expensive than static routing, increasing total data return while at the same time reducing mission operations cost and risk. The basic strategy of CGR is to take advantage of the fact that, since flight mission communication operations are planned in detail, the communication routes between any pair of bundle agents in a population of nodes that have all been informed of one another's plans can be inferred from those plans rather than discovered via dialogue (which is impractical over long one-way-light-time space links). Messages that convey this planning information are used to construct contact graphs (time-varying models of network connectivity) from which CGR automatically computes efficient routes for bundles. Automatic route selection increases the flexibility and resilience of the space network, simplifying cross-support and reducing mission management costs. Note that there are no routing tables in Contact Graph Routing. The best route for a bundle destined for a given node may routinely be different from the best route for a different bundle destined for the same node, depending on bundle priority, bundle expiration time, and changes in the current lengths of transmission queues for neighboring nodes; routes must be computed individually for each bundle, from the Bundle Protocol agent's current network connectivity model for the bundle s destination node (the contact graph). Clearly this places a premium on optimizing the implementation of the route computation algorithm. The scalability of CGR to very large networks remains a research topic

  15. Reproducibility of graph metrics of human brain structural networks.

    PubMed

    Duda, Jeffrey T; Cook, Philip A; Gee, James C

    2014-01-01

    Recent interest in human brain connectivity has led to the application of graph theoretical analysis to human brain structural networks, in particular white matter connectivity inferred from diffusion imaging and fiber tractography. While these methods have been used to study a variety of patient populations, there has been less examination of the reproducibility of these methods. A number of tractography algorithms exist and many of these are known to be sensitive to user-selected parameters. The methods used to derive a connectivity matrix from fiber tractography output may also influence the resulting graph metrics. Here we examine how these algorithm and parameter choices influence the reproducibility of proposed graph metrics on a publicly available test-retest dataset consisting of 21 healthy adults. The dice coefficient is used to examine topological similarity of constant density subgraphs both within and between subjects. Seven graph metrics are examined here: mean clustering coefficient, characteristic path length, largest connected component size, assortativity, global efficiency, local efficiency, and rich club coefficient. The reproducibility of these network summary measures is examined using the intraclass correlation coefficient (ICC). Graph curves are created by treating the graph metrics as functions of a parameter such as graph density. Functional data analysis techniques are used to examine differences in graph measures that result from the choice of fiber tracking algorithm. The graph metrics consistently showed good levels of reproducibility as measured with ICC, with the exception of some instability at low graph density levels. The global and local efficiency measures were the most robust to the choice of fiber tracking algorithm.

  16. Noncommutative Riemannian geometry on graphs

    NASA Astrophysics Data System (ADS)

    Majid, Shahn

    2013-07-01

    We show that arising out of noncommutative geometry is a natural family of edge Laplacians on the edges of a graph. The family includes a canonical edge Laplacian associated to the graph, extending the usual graph Laplacian on vertices, and we find its spectrum. We show that for a connected graph its eigenvalues are strictly positive aside from one mandatory zero mode, and include all the vertex degrees. Our edge Laplacian is not the graph Laplacian on the line graph but rather it arises as the noncommutative Laplace-Beltrami operator on differential 1-forms, where we use the language of differential algebras to functorially interpret a graph as providing a 'finite manifold structure' on the set of vertices. We equip any graph with a canonical 'Euclidean metric' and a canonical bimodule connection, and in the case of a Cayley graph we construct a metric compatible connection for the Euclidean metric. We make use of results on bimodule connections on inner calculi on algebras, which we prove, including a general relation between zero curvature and the braid relations.

  17. Graph Theory of Tower Tasks

    PubMed Central

    Hinz, Andreas M.

    2012-01-01

    The appropriate mathematical model for the problem space of tower transformation tasks is the state graph representing positions of discs or balls and their moves. Graph theoretical quantities like distance, eccentricities or degrees of vertices and symmetries of graphs support the choice of problems, the selection of tasks and the analysis of performance of subjects whose solution paths can be projected onto the graph. The mathematical model is also at the base of a computerized test tool to administer various types of tower tasks. PMID:22207419

  18. Statistics of Gaussian packets on metric and decorated graphs.

    PubMed

    Chernyshev, V L; Shafarevich, A I

    2014-01-28

    We study a semiclassical asymptotics of the Cauchy problem for a time-dependent Schrödinger equation on metric and decorated graphs with a localized initial function. A decorated graph is a topological space obtained from a graph via replacing vertices with smooth Riemannian manifolds. The main term of an asymptotic solution at an arbitrary finite time is a sum of Gaussian packets and generalized Gaussian packets (localized near a certain set of codimension one). We study the number of packets as time tends to infinity. We prove that under certain assumptions this number grows in time as a polynomial and packets fill the graph uniformly. We discuss a simple example of the opposite situation: in this case, a numerical experiment shows a subexponential growth.

  19. Fracture and Fragmentation of Simplicial Finite Elements Meshes using Graphs

    SciTech Connect

    Mota, A; Knap, J; Ortiz, M

    2006-10-18

    An approach for the topological representation of simplicial finite element meshes as graphs is presented. It is shown that by using a graph, the topological changes induced by fracture reduce to a few, local kernel operations. The performance of the graph representation is demonstrated and analyzed, using as reference the 3D fracture algorithm by Pandolfi and Ortiz [22]. It is shown that the graph representation initializes in O(N{sub E}{sup 1.1}) time and fractures in O(N{sub I}{sup 1.0}) time, while the reference implementation requires O(N{sub E}{sup 2.1}) time to initialize and O(N{sub I}{sup 1.9}) time to fracture, where NE is the number of elements in the mesh and N{sub I} is the number of interfaces to fracture.

  20. Voter model on the two-clique graph

    NASA Astrophysics Data System (ADS)

    Masuda, Naoki

    2014-07-01

    I examine the mean consensus time (i.e., exit time) of the voter model in the so-called two-clique graph. The two-clique graph is composed of two cliques interconnected by some links and considered as a toy model of networks with community structure or multilayer networks. I analytically show that, as the number of interclique links per node is varied, the mean consensus time experiences a crossover between a fast consensus regime [i.e., O (N)] and a slow consensus regime [i.e., O (N2)], where N is the number of nodes. The fast regime is consistent with the result for homogeneous well-mixed graphs such as the complete graph. The slow regime appears only when the entire network has O (1) interclique links. The present results suggest that the effect of community structure on the consensus time of the voter model is fairly limited.

  1. Voter model on the two-clique graph.

    PubMed

    Masuda, Naoki

    2014-07-01

    I examine the mean consensus time (i.e., exit time) of the voter model in the so-called two-clique graph. The two-clique graph is composed of two cliques interconnected by some links and considered as a toy model of networks with community structure or multilayer networks. I analytically show that, as the number of interclique links per node is varied, the mean consensus time experiences a crossover between a fast consensus regime [i.e., O(N)] and a slow consensus regime [i.e., O(N(2))], where N is the number of nodes. The fast regime is consistent with the result for homogeneous well-mixed graphs such as the complete graph. The slow regime appears only when the entire network has O(1) interclique links. The present results suggest that the effect of community structure on the consensus time of the voter model is fairly limited.

  2. Statistics of Gaussian packets on metric and decorated graphs

    PubMed Central

    Chernyshev, V. L.; Shafarevich, A. I.

    2014-01-01

    We study a semiclassical asymptotics of the Cauchy problem for a time-dependent Schrödinger equation on metric and decorated graphs with a localized initial function. A decorated graph is a topological space obtained from a graph via replacing vertices with smooth Riemannian manifolds. The main term of an asymptotic solution at an arbitrary finite time is a sum of Gaussian packets and generalized Gaussian packets (localized near a certain set of codimension one). We study the number of packets as time tends to infinity. We prove that under certain assumptions this number grows in time as a polynomial and packets fill the graph uniformly. We discuss a simple example of the opposite situation: in this case, a numerical experiment shows a subexponential growth. PMID:24344346

  3. Graph Visualization for RDF Graphs with SPARQL-EndPoints

    SciTech Connect

    Sukumar, Sreenivas R; Bond, Nathaniel

    2014-07-11

    RDF graphs are hard to visualize as triples. This software module is a web interface that connects to a SPARQL endpoint and retrieves graph data that the user can explore interactively and seamlessly. The software written in python and JavaScript has been tested to work on screens as little as the smart phones to large screens such as EVEREST.

  4. Comparing pedigree graphs.

    PubMed

    Kirkpatrick, Bonnie; Reshef, Yakir; Finucane, Hilary; Jiang, Haitao; Zhu, Binhai; Karp, Richard M

    2012-09-01

    Pedigree graphs, or family trees, are typically constructed by an expensive process of examining genealogical records to determine which pairs of individuals are parent and child. New methods to automate this process take as input genetic data from a set of extant individuals and reconstruct ancestral individuals. There is a great need to evaluate the quality of these methods by comparing the estimated pedigree to the true pedigree. In this article, we consider two main pedigree comparison problems. The first is the pedigree isomorphism problem, for which we present a linear-time algorithm for leaf-labeled pedigrees. The second is the pedigree edit distance problem, for which we present (1) several algorithms that are fast and exact in various special cases, and (2) a general, randomized heuristic algorithm. In the negative direction, we first prove that the pedigree isomorphism problem is as hard as the general graph isomorphism problem, and that the sub-pedigree isomorphism problem is NP-hard. We then show that the pedigree edit distance problem is APX-hard in general and NP-hard on leaf-labeled pedigrees. We use simulated pedigrees to compare our edit-distance algorithms to each other as well as to a branch-and-bound algorithm that always finds an optimal solution.

  5. Quantum Graph Analysis

    SciTech Connect

    Maunz, Peter Lukas Wilhelm; Sterk, Jonathan David; Lobser, Daniel; Parekh, Ojas D.; Ryan-Anderson, Ciaran

    2016-01-01

    In recent years, advanced network analytics have become increasingly important to na- tional security with applications ranging from cyber security to detection and disruption of ter- rorist networks. While classical computing solutions have received considerable investment, the development of quantum algorithms to address problems, such as data mining of attributed relational graphs, is a largely unexplored space. Recent theoretical work has shown that quan- tum algorithms for graph analysis can be more efficient than their classical counterparts. Here, we have implemented a trapped-ion-based two-qubit quantum information proces- sor to address these goals. Building on Sandia's microfabricated silicon surface ion traps, we have designed, realized and characterized a quantum information processor using the hyperfine qubits encoded in two 171 Yb + ions. We have implemented single qubit gates using resonant microwave radiation and have employed Gate set tomography (GST) to characterize the quan- tum process. For the first time, we were able to prove that the quantum process surpasses the fault tolerance thresholds of some quantum codes by demonstrating a diamond norm distance of less than 1 . 9 x 10 [?] 4 . We used Raman transitions in order to manipulate the trapped ions' motion and realize two-qubit gates. We characterized the implemented motion sensitive and insensitive single qubit processes and achieved a maximal process infidelity of 6 . 5 x 10 [?] 5 . We implemented the two-qubit gate proposed by Molmer and Sorensen and achieved a fidelity of more than 97 . 7%.

  6. Graph Theoretical Model of a Sensorimotor Connectome in Zebrafish

    PubMed Central

    Stobb, Michael; Peterson, Joshua M.; Mazzag, Borbala; Gahtan, Ethan

    2012-01-01

    Mapping the detailed connectivity patterns (connectomes) of neural circuits is a central goal of neuroscience. The best quantitative approach to analyzing connectome data is still unclear but graph theory has been used with success. We present a graph theoretical model of the posterior lateral line sensorimotor pathway in zebrafish. The model includes 2,616 neurons and 167,114 synaptic connections. Model neurons represent known cell types in zebrafish larvae, and connections were set stochastically following rules based on biological literature. Thus, our model is a uniquely detailed computational representation of a vertebrate connectome. The connectome has low overall connection density, with 2.45% of all possible connections, a value within the physiological range. We used graph theoretical tools to compare the zebrafish connectome graph to small-world, random and structured random graphs of the same size. For each type of graph, 100 randomly generated instantiations were considered. Degree distribution (the number of connections per neuron) varied more in the zebrafish graph than in same size graphs with less biological detail. There was high local clustering and a short average path length between nodes, implying a small-world structure similar to other neural connectomes and complex networks. The graph was found not to be scale-free, in agreement with some other neural connectomes. An experimental lesion was performed that targeted three model brain neurons, including the Mauthner neuron, known to control fast escape turns. The lesion decreased the number of short paths between sensory and motor neurons analogous to the behavioral effects of the same lesion in zebrafish. This model is expandable and can be used to organize and interpret a growing database of information on the zebrafish connectome. PMID:22624008

  7. Graph theoretical model of a sensorimotor connectome in zebrafish.

    PubMed

    Stobb, Michael; Peterson, Joshua M; Mazzag, Borbala; Gahtan, Ethan

    2012-01-01

    Mapping the detailed connectivity patterns (connectomes) of neural circuits is a central goal of neuroscience. The best quantitative approach to analyzing connectome data is still unclear but graph theory has been used with success. We present a graph theoretical model of the posterior lateral line sensorimotor pathway in zebrafish. The model includes 2,616 neurons and 167,114 synaptic connections. Model neurons represent known cell types in zebrafish larvae, and connections were set stochastically following rules based on biological literature. Thus, our model is a uniquely detailed computational representation of a vertebrate connectome. The connectome has low overall connection density, with 2.45% of all possible connections, a value within the physiological range. We used graph theoretical tools to compare the zebrafish connectome graph to small-world, random and structured random graphs of the same size. For each type of graph, 100 randomly generated instantiations were considered. Degree distribution (the number of connections per neuron) varied more in the zebrafish graph than in same size graphs with less biological detail. There was high local clustering and a short average path length between nodes, implying a small-world structure similar to other neural connectomes and complex networks. The graph was found not to be scale-free, in agreement with some other neural connectomes. An experimental lesion was performed that targeted three model brain neurons, including the Mauthner neuron, known to control fast escape turns. The lesion decreased the number of short paths between sensory and motor neurons analogous to the behavioral effects of the same lesion in zebrafish. This model is expandable and can be used to organize and interpret a growing database of information on the zebrafish connectome.

  8. Quantization of gauge fields, graph polynomials and graph homology

    SciTech Connect

    Kreimer, Dirk; Sars, Matthias; Suijlekom, Walter D. van

    2013-09-15

    We review quantization of gauge fields using algebraic properties of 3-regular graphs. We derive the Feynman integrand at n loops for a non-abelian gauge theory quantized in a covariant gauge from scalar integrands for connected 3-regular graphs, obtained from the two Symanzik polynomials. The transition to the full gauge theory amplitude is obtained by the use of a third, new, graph polynomial, the corolla polynomial. This implies effectively a covariant quantization without ghosts, where all the relevant signs of the ghost sector are incorporated in a double complex furnished by the corolla polynomial–we call it cycle homology–and by graph homology. -- Highlights: •We derive gauge theory Feynman from scalar field theory with 3-valent vertices. •We clarify the role of graph homology and cycle homology. •We use parametric renormalization and the new corolla polynomial.

  9. Graph-Based Dynamic Assignment Of Multiple Processors

    NASA Technical Reports Server (NTRS)

    Hayes, Paul J.; Andrews, Asa M.

    1994-01-01

    Algorithm-to-architecture mapping model (ATAMM) is strategy minimizing time needed to periodically execute graphically described, data-driven application algorithm on multiple data processors. Implemented as operating system managing flow of data and dynamically assigns nodes of graph to processors. Predicts throughput versus number of processors available to execute given application algorithm. Includes rules ensuring application algorithm represented by graph executed periodically without deadlock and in shortest possible repetition time. ATAMM proves useful in maximizing effectiveness of parallel computing systems.

  10. Blind Identification of Graph Filters

    NASA Astrophysics Data System (ADS)

    Segarra, Santiago; Mateos, Gonzalo; Marques, Antonio G.; Ribeiro, Alejandro

    2017-03-01

    Network processes are often represented as signals defined on the vertices of a graph. To untangle the latent structure of such signals, one can view them as outputs of linear graph filters modeling underlying network dynamics. This paper deals with the problem of joint identification of a graph filter and its input signal, thus broadening the scope of classical blind deconvolution of temporal and spatial signals to the less-structured graph domain. Given a graph signal $\\mathbf{y}$ modeled as the output of a graph filter, the goal is to recover the vector of filter coefficients $\\mathbf{h}$, and the input signal $\\mathbf{x}$ which is assumed to be sparse. While $\\mathbf{y}$ is a bilinear function of $\\mathbf{x}$ and $\\mathbf{h}$, the filtered graph signal is also a linear combination of the entries of the lifted rank-one, row-sparse matrix $\\mathbf{x} \\mathbf{h}^T$. The blind graph-filter identification problem can thus be tackled via rank and sparsity minimization subject to linear constraints, an inverse problem amenable to convex relaxations offering provable recovery guarantees under simplifying assumptions. Numerical tests using both synthetic and real-world networks illustrate the merits of the proposed algorithms, as well as the benefits of leveraging multiple signals to aid the blind identification task.

  11. Graphs and Zero-Divisors

    ERIC Educational Resources Information Center

    Axtell, M.; Stickles, J.

    2010-01-01

    The last ten years have seen an explosion of research in the zero-divisor graphs of commutative rings--by professional mathematicians "and" undergraduates. The objective is to find algebraic information within the geometry of these graphs. This topic is approachable by anyone with one or two semesters of abstract algebra. This article gives the…

  12. Graphs as Statements of Belief.

    ERIC Educational Resources Information Center

    Lake, David

    2002-01-01

    Identifies points where beliefs are important when making decisions about how graphs are drawn. Describes a simple case of the reaction between 'bicarb soda' and orange or lemon juice and discusses how drawing a graph becomes a statement of belief. (KHR)

  13. Classification of domain movements in proteins using dynamic contact graphs.

    PubMed

    Taylor, Daniel; Cawley, Gavin; Hayward, Steven

    2013-01-01

    A new method for the classification of domain movements in proteins is described and applied to 1822 pairs of structures from the Protein Data Bank that represent a domain movement in two-domain proteins. The method is based on changes in contacts between residues from the two domains in moving from one conformation to the other. We argue that there are five types of elemental contact changes and that these relate to five model domain movements called: "free", "open-closed", "anchored", "sliding-twist", and "see-saw." A directed graph is introduced called the "Dynamic Contact Graph" which represents the contact changes in a domain movement. In many cases a graph, or part of a graph, provides a clear visual metaphor for the movement it represents and is a motif that can be easily recognised. The Dynamic Contact Graphs are often comprised of disconnected subgraphs indicating independent regions which may play different roles in the domain movement. The Dynamic Contact Graph for each domain movement is decomposed into elemental Dynamic Contact Graphs, those that represent elemental contact changes, allowing us to count the number of instances of each type of elemental contact change in the domain movement. This naturally leads to sixteen classes into which the 1822 domain movements are classified.

  14. A Collection of Features for Semantic Graphs

    SciTech Connect

    Eliassi-Rad, T; Fodor, I K; Gallagher, B

    2007-05-02

    Semantic graphs are commonly used to represent data from one or more data sources. Such graphs extend traditional graphs by imposing types on both nodes and links. This type information defines permissible links among specified nodes and can be represented as a graph commonly referred to as an ontology or schema graph. Figure 1 depicts an ontology graph for data from National Association of Securities Dealers. Each node type and link type may also have a list of attributes. To capture the increased complexity of semantic graphs, concepts derived for standard graphs have to be extended. This document explains briefly features commonly used to characterize graphs, and their extensions to semantic graphs. This document is divided into two sections. Section 2 contains the feature descriptions for static graphs. Section 3 extends the features for semantic graphs that vary over time.

  15. Path similarity skeleton graph matching.

    PubMed

    Bai, Xiang; Latecki, Longin Jan

    2008-07-01

    This paper presents a novel framework to for shape recognition based on object silhouettes. The main idea is to match skeleton graphs by comparing the shortest paths between skeleton endpoints. In contrast to typical tree or graph matching methods, we completely ignore the topological graph structure. Our approach is motivated by the fact that visually similar skeleton graphs may have completely different topological structures. The proposed comparison of shortest paths between endpoints of skeleton graphs yields correct matching results in such cases. The skeletons are pruned by contour partitioning with Discrete Curve Evolution, which implies that the endpoints of skeleton branches correspond to visual parts of the objects. The experimental results demonstrate that our method is able to produce correct results in the presence of articulations, stretching, and occlusion.

  16. Exploring and Making Sense of Large Graphs

    DTIC Science & Technology

    2015-08-01

    our fast algorithmic methodologies, we also contribute graph-theoretical ideas and models, and real-world applications in two main areas ??? Single ...Graph Exploration: We show how to interpretably summarize a single graph by identifying its important graph structures. We complement summarization with...effectively learn information about the unknown entities. ??? Multiple-Graph Exploration: We extend the idea of single -graph summarization to time

  17. On the Extremal Wiener Polarity Index of Hückel Graphs.

    PubMed

    Wang, Hongzhuan

    2016-01-01

    Graphs are used to model chemical compounds and drugs. In the graphs, each vertex represents an atom of molecule and edges between the corresponding vertices are used to represent covalent bounds between atoms. The Wiener polarity index W p (G) of a graph G is the number of unordered pairs of vertices u, v of G such that the distance between u and v is equal to 3. The trees and unicyclic graphs with perfect matching, of which all vertices have degrees not greater than three, are referred to as the Hückel trees and unicyclic Hückel graphs, respectively. In this paper, we first consider the smallest and the largest Wiener polarity index among all Hückel trees on 2n vertices and characterize the corresponding extremal graphs. Then we obtain an upper and lower bound for the Wiener polarity index of unicyclic Hückel graphs on 2n vertices.

  18. Completeness and regularity of generalized fuzzy graphs.

    PubMed

    Samanta, Sovan; Sarkar, Biswajit; Shin, Dongmin; Pal, Madhumangal

    2016-01-01

    Fuzzy graphs are the backbone of many real systems like networks, image, scheduling, etc. But, due to some restriction on edges, fuzzy graphs are limited to represent for some systems. Generalized fuzzy graphs are appropriate to avoid such restrictions. In this study generalized fuzzy graphs are introduced. In this study, matrix representation of generalized fuzzy graphs is described. Completeness and regularity are two important parameters of graph theory. Here, regular and complete generalized fuzzy graphs are introduced. Some properties of them are discussed. After that, effective regular graphs are exemplified.

  19. Comparison and enumeration of chemical graphs.

    PubMed

    Akutsu, Tatsuya; Nagamochi, Hiroshi

    2013-01-01

    Chemical compounds are usually represented as graph structured data in computers. In this review article, we overview several graph classes relevant to chemical compounds and the computational complexities of several fundamental problems for these graph classes. In particular, we consider the following problems: determining whether two chemical graphs are identical, determining whether one input chemical graph is a part of the other input chemical graph, finding a maximum common part of two input graphs, finding a reaction atom mapping, enumerating possible chemical graphs, and enumerating stereoisomers. We also discuss the relationship between the fifth problem and kernel functions for chemical compounds.

  20. Crunching Large Graphs with Commodity Processors

    SciTech Connect

    Nelson, Jacob E; Myers, Brandon D; Hunter, Andrew H; Briggs, Preston; Ceze, Luis; Ebeling, William C; Grossman, Dan; Kahan, Simon H; Oskin, Mark

    2011-05-26

    Crunching large graphs is the basis of many emerging appli- cations, such as social network analysis and bioinformatics. Graph analytics algorithms exhibit little locality and therefore present significant performance challenges. Hardware multi- threading systems (e.g, Cray XMT) show that with enough concurrency, we can tolerate long latencies. Unfortunately, this solution is not available with commodity parts. Our goal is to develop a latency-tolerant system built out of commodity parts and mostly in software. The proposed system includes a runtime that supports a large number of lightweight contexts, full-bit synchronization and a memory manager that provides a high-latency but high-bandwidth global shared memory. This paper lays out the vision for our system, and justifies its feasibility with a performance analysis of the run- time for latency tolerance.

  1. The asymptotics of large constrained graphs

    NASA Astrophysics Data System (ADS)

    Radin, Charles; Ren, Kui; Sadun, Lorenzo

    2014-05-01

    We show, through local estimates and simulation, that if one constrains simple graphs by their densities ɛ of edges and τ of triangles, then asymptotically (in the number of vertices) for over 95% of the possible range of those densities there is a well-defined typical graph, and it has a very simple structure: the vertices are decomposed into two subsets V1 and V2 of fixed relative size c and 1 - c, and there are well-defined probabilities of edges, gjk, between vj ∈ Vj, and vk ∈ Vk. Furthermore the four parameters c, g11, g22 and g12 are smooth functions of (ɛ, τ) except at two smooth ‘phase transition’ curves.

  2. Spectral graph optimization for instance reduction.

    PubMed

    Nikolaidis, Konstantinos; Rodriguez-Martinez, Eduardo; Goulermas, John Yannis; Wu, Q H

    2012-07-01

    The operation of instance-based learning algorithms is based on storing a large set of prototypes in the system's database. However, such systems often experience issues with storage requirements, sensitivity to noise, and computational complexity, which result in high search and response times. In this brief, we introduce a novel framework that employs spectral graph theory to efficiently partition the dataset to border and internal instances. This is achieved by using a diverse set of border-discriminating features that capture the local friend and enemy profiles of the samples. The fused information from these features is then used via graph-cut modeling approach to generate the final dataset partitions of border and nonborder samples. The proposed method is referred to as the spectral instance reduction (SIR) algorithm. Experiments with a large number of datasets show that SIR performs competitively compared to many other reduction algorithms, in terms of both objectives of classification accuracy and data condensation.

  3. GRAPH III: a digitizing and graph plotting program

    SciTech Connect

    Selleck, C.B.

    1986-03-01

    GRAPH is an interactive program that allows the user to perform two functions. The first is to plot two dimensional graphs and the second is to digitize graphs or plots to create data files of points. The program is designed to allow the user to get results quickly and easily. It is written in RATIV (a FORTRAN preprocessor) and is currently in use at Sandia under VMS on a VAX computer and CTSS on a Cray supercomputer. The program provides graphical output through all of the Sandia Virtual Device Interface (VDI) graphics devices. 2 refs., 3 figs., 3 tabs.

  4. Multiple Illuminant Colour Estimation via Statistical Inference on Factor Graphs.

    PubMed

    Mutimbu, Lawrence; Robles-Kelly, Antonio

    2016-08-31

    This paper presents a method to recover a spatially varying illuminant colour estimate from scenes lit by multiple light sources. Starting with the image formation process, we formulate the illuminant recovery problem in a statistically datadriven setting. To do this, we use a factor graph defined across the scale space of the input image. In the graph, we utilise a set of illuminant prototypes computed using a data driven approach. As a result, our method delivers a pixelwise illuminant colour estimate being devoid of libraries or user input. The use of a factor graph also allows for the illuminant estimates to be recovered making use of a maximum a posteriori (MAP) inference process. Moreover, we compute the probability marginals by performing a Delaunay triangulation on our factor graph. We illustrate the utility of our method for pixelwise illuminant colour recovery on widely available datasets and compare against a number of alternatives. We also show sample colour correction results on real-world images.

  5. TopoLayout: multilevel graph layout by topological features.

    PubMed

    Archambault, Daniel; Munzner, Tamara; Auber, David

    2007-01-01

    We describe TopoLayout, a feature-based, multilevel algorithm that draws undirected graphs based on the topological features they contain. Topological features are detected recursively inside the graph, and their subgraphs are collapsed into single nodes, forming a graph hierarchy. Each feature is drawn with an algorithm tuned for its topology. As would be expected from a feature-based approach, the runtime and visual quality of TopoLayout depends on the number and types of topological features present in the graph. We show experimental results comparing speed and visual quality for TopoLayout against four other multilevel algorithms on a variety of data sets with a range of connectivities and sizes. TopoLayout frequently improves the results in terms of speed and visual quality on these data sets.

  6. Open-system dynamics of graph-state entanglement.

    PubMed

    Cavalcanti, Daniel; Chaves, Rafael; Aolita, Leandro; Davidovich, Luiz; Acín, Antonio

    2009-07-17

    We consider graph states of an arbitrary number of particles undergoing generic decoherence. We present methods to obtain lower and upper bounds for the system's entanglement in terms of that of considerably smaller subsystems. For an important class of noisy channels, namely, the Pauli maps, these bounds coincide and thus provide the exact analytical expression for the entanglement evolution. All of the results apply also to (mixed) graph-diagonal states and hold true for any convex entanglement monotone. Since any state can be locally depolarized to some graph-diagonal state, our method provides a lower bound for the entanglement decay of any arbitrary state. Finally, this formalism also allows for the direct identification of the robustness under size scaling of graph states in the presence of decoherence, merely by inspection of their connectivities.

  7. Pathlength scaling in graphs with incomplete navigational information

    NASA Astrophysics Data System (ADS)

    Lee, Sang Hoon; Holme, Petter

    2011-10-01

    The graph-navigability problem concerns how one can find as short paths as possible between a pair of vertices, given an incomplete picture of a graph. We study the navigability of graphs where the vertices are tagged by a number (between 1 and the total number of vertices) in a way to aid navigation. This information is too little to ensure errorfree navigation but enough, as we will show, for the agents to do significantly better than a random walk. In our setup, given a graph, we first assign information to the vertices that agents can utilize for their navigation. To evaluate the navigation, we calculate the average distance traveled over random pairs of source and target and different graph realizations. We show that this type of embedding can be made quite efficiently; the more information is embedded, the more efficient it gets. We also investigate the embedded navigational information in a standard graph layout algorithm and find that although this information does not make algorithms as efficient as the above-mentioned schemes, it is significantly helpful.

  8. Flying through Graphs: An Introduction to Graph Theory.

    ERIC Educational Resources Information Center

    McDuffie, Amy Roth

    2001-01-01

    Presents an activity incorporating basic terminology, concepts, and solution methods of graph theory in the context of solving problems related to air travel. Discusses prerequisite knowledge and resources and includes a teacher's guide with a student worksheet. (KHR)

  9. Multigraph: Reusable Interactive Data Graphs

    NASA Astrophysics Data System (ADS)

    Phillips, M. B.

    2010-12-01

    There are surprisingly few good software tools available for presenting time series data on the internet. The most common practice is to use a desktop program such as Excel or Matlab to save a graph as an image which can be included in a web page like any other image. This disconnects the graph from the data in a way that makes updating a graph with new data a cumbersome manual process, and it limits the user to one particular view of the data. The Multigraph project defines an XML format for describing interactive data graphs, and software tools for creating and rendering those graphs in web pages and other internet connected applications. Viewing a Multigraph graph is extremely simple and intuitive, and requires no instructions; the user can pan and zoom by clicking and dragging, in a familiar "Google Maps" kind of way. Creating a new graph for inclusion in a web page involves writing a simple XML configuration file. Multigraph can read data in a variety of formats, and can display data from a web service, allowing users to "surf" through large data sets, downloading only those the parts of the data that are needed for display. The Multigraph XML format, or "MUGL" for short, provides a concise description of the visual properties of a graph, such as axes, plot styles, data sources, labels, etc, as well as interactivity properties such as how and whether the user can pan or zoom along each axis. Multigraph reads a file in this format, draws the described graph, and allows the user to interact with it. Multigraph software currently includes a Flash application for embedding graphs in web pages, a Flex component for embedding graphs in larger Flex/Flash applications, and a plugin for creating graphs in the WordPress content management system. Plans for the future include a Java version for desktop viewing and editing, a command line version for batch and server side rendering, and possibly Android and iPhone versions. Multigraph is currently in use on several web

  10. DNA Rearrangements through Spatial Graphs

    NASA Astrophysics Data System (ADS)

    Jonoska, Nataša; Saito, Masahico

    The paper is a short overview of a recent model of homologous DNA recombination events guided by RNA templates that have been observed in certain species of ciliates. This model uses spatial graphs to describe DNA rearrangements and show how gene recombination can be modeled as topological braiding of the DNA. We show that a graph structure, which we refer to as an assembly graph, containing only 1- and 4-valent rigid vertices can provide a physical representation of the DNA at the time of recombination. With this representation, 4-valent vertices correspond to the alignment of the recombination sites, and we model the actual recombination event as smoothing of these vertices.

  11. Fast Robust PCA on Graphs

    NASA Astrophysics Data System (ADS)

    Shahid, Nauman; Perraudin, Nathanael; Kalofolias, Vassilis; Puy, Gilles; Vandergheynst, Pierre

    2016-06-01

    Mining useful clusters from high dimensional data has received significant attention of the computer vision and pattern recognition community in the recent years. Linear and non-linear dimensionality reduction has played an important role to overcome the curse of dimensionality. However, often such methods are accompanied with three different problems: high computational complexity (usually associated with the nuclear norm minimization), non-convexity (for matrix factorization methods) and susceptibility to gross corruptions in the data. In this paper we propose a principal component analysis (PCA) based solution that overcomes these three issues and approximates a low-rank recovery method for high dimensional datasets. We target the low-rank recovery by enforcing two types of graph smoothness assumptions, one on the data samples and the other on the features by designing a convex optimization problem. The resulting algorithm is fast, efficient and scalable for huge datasets with O(nlog(n)) computational complexity in the number of data samples. It is also robust to gross corruptions in the dataset as well as to the model parameters. Clustering experiments on 7 benchmark datasets with different types of corruptions and background separation experiments on 3 video datasets show that our proposed model outperforms 10 state-of-the-art dimensionality reduction models. Our theoretical analysis proves that the proposed model is able to recover approximate low-rank representations with a bounded error for clusterable data.

  12. Multibody graph transformations and analysis

    PubMed Central

    2013-01-01

    This two-part paper uses graph transformation methods to develop methods for partitioning, aggregating, and constraint embedding for multibody systems. This first part focuses on tree-topology systems and reviews the key notion of spatial kernel operator (SKO) models for such systems. It develops systematic and rigorous techniques for partitioning SKO models in terms of the SKO models of the component subsystems based on the path-induced property of the component subgraphs. It shows that the sparsity structure of key matrix operators and the mass matrix for the multibody system can be described using partitioning transformations. Subsequently, the notions of node contractions and subgraph aggregation and their role in coarsening graphs are discussed. It is shown that the tree property of a graph is preserved after subgraph aggregation if and only if the subgraph satisfies an aggregation condition. These graph theory ideas are used to develop SKO models for the aggregated tree multibody systems. PMID:24288438

  13. Graph anomalies in cyber communications

    SciTech Connect

    Vander Wiel, Scott A; Storlie, Curtis B; Sandine, Gary; Hagberg, Aric A; Fisk, Michael

    2011-01-11

    Enterprises monitor cyber traffic for viruses, intruders and stolen information. Detection methods look for known signatures of malicious traffic or search for anomalies with respect to a nominal reference model. Traditional anomaly detection focuses on aggregate traffic at central nodes or on user-level monitoring. More recently, however, traffic is being viewed more holistically as a dynamic communication graph. Attention to the graph nature of the traffic has expanded the types of anomalies that are being sought. We give an overview of several cyber data streams collected at Los Alamos National Laboratory and discuss current work in modeling the graph dynamics of traffic over the network. We consider global properties and local properties within the communication graph. A method for monitoring relative entropy on multiple correlated properties is discussed in detail.

  14. Constructing Dense Graphs with Unique Hamiltonian Cycles

    ERIC Educational Resources Information Center

    Lynch, Mark A. M.

    2012-01-01

    It is not difficult to construct dense graphs containing Hamiltonian cycles, but it is difficult to generate dense graphs that are guaranteed to contain a unique Hamiltonian cycle. This article presents an algorithm for generating arbitrarily large simple graphs containing "unique" Hamiltonian cycles. These graphs can be turned into dense graphs…

  15. CUDA Enabled Graph Subset Examiner

    SciTech Connect

    Johnston, Jeremy T.

    2016-12-22

    Finding Godsil-McKay switching sets in graphs is one way to demonstrate that a specific graph is not determined by its spectrum--the eigenvalues of its adjacency matrix. An important area of active research in pure mathematics is determining which graphs are determined by their spectra, i.e. when the spectrum of the adjacency matrix uniquely determines the underlying graph. We are interested in exploring the spectra of graphs in the Johnson scheme and specifically seek to determine which of these graphs are determined by their spectra. Given a graph G, a Godsil-McKay switching set is an induced subgraph H on 2k vertices with the following properties: I) H is regular, ii) every vertex in G/H is adjacent to either 0, k, or 2k vertices of H, and iii) at least one vertex in G/H is adjacent to k vertices in H. The software package examines each subset of a user specified size to determine whether or not it satisfies those 3 conditions. The software makes use of the massive parallel processing power of CUDA enabled GPUs. It also exploits the vertex transitivity of graphs in the Johnson scheme by reasoning that if G has a Godsil-McKay switching set, then it has a switching set which includes vertex 1. While the code (in its current state) is tuned to this specific problem, the method of examining each induced subgraph of G can be easily re-written to check for any user specified conditions on the subgraphs and can therefore be used much more broadly.

  16. Efficient and scalable graph similarity joins in MapReduce.

    PubMed

    Chen, Yifan; Zhao, Xiang; Xiao, Chuan; Zhang, Weiming; Tang, Jiuyang

    2014-01-01

    Along with the emergence of massive graph-modeled data, it is of great importance to investigate graph similarity joins due to their wide applications for multiple purposes, including data cleaning, and near duplicate detection. This paper considers graph similarity joins with edit distance constraints, which return pairs of graphs such that their edit distances are no larger than a given threshold. Leveraging the MapReduce programming model, we propose MGSJoin, a scalable algorithm following the filtering-verification framework for efficient graph similarity joins. It relies on counting overlapping graph signatures for filtering out nonpromising candidates. With the potential issue of too many key-value pairs in the filtering phase, spectral Bloom filters are introduced to reduce the number of key-value pairs. Furthermore, we integrate the multiway join strategy to boost the verification, where a MapReduce-based method is proposed for GED calculation. The superior efficiency and scalability of the proposed algorithms are demonstrated by extensive experimental results.

  17. Digital News Graph Clustering using Chinese Whispers Algorithm

    NASA Astrophysics Data System (ADS)

    Pratama, M. F. E.; Kemas, R. S. W.; Anisa, H.

    2017-01-01

    As the exponential growth of news creation on the internet, the amount of digital news has reached out billion numbers. Digital news is naturally linked each other but it needs to be grouped so that user can easily classify the news that they read. Graph is the most suitable data model to represent digital news since its can describing relation in easy and flexible manner. Thus, to overcome grouping problems, in this paper we using Chinese Whispers Algorithm as the graph clustering approach. We choose Chinese Whisper Algorithm based on consideration that the algorithm is able to make clusters from a big graph data with a relatively fast process [8], that appropriate with the characteristics of digital news. In this research, we examine the graph quality by comparing intra and inter-cluster weights of every node. This scenario gives us a quite high result that 95% of nodes have intra-cluster weight higher than its inter-cluster weight. We also investigate the graph accuracy by comparing the cluster results with expert judgement. As the result, the average accuracy of digital news graph clustering using Chinese Whisper algorithm is 80%.

  18. The average distances in random graphs with given expected degrees

    NASA Astrophysics Data System (ADS)

    Chung, Fan; Lu, Linyuan

    2002-12-01

    Random graph theory is used to examine the "small-world phenomenon"; any two strangers are connected through a short chain of mutual acquaintances. We will show that for certain families of random graphs with given expected degrees the average distance is almost surely of order log n/log , where is the weighted average of the sum of squares of the expected degrees. Of particular interest are power law random graphs in which the number of vertices of degree k is proportional to 1/k for some fixed exponent . For the case of > 3, we prove that the average distance of the power law graphs is almost surely of order log n/log β < 3 for which the power law random graphs have average distance almost surely of order log log n, but have diameter of order log n (provided having some mild constraints for the average distance and maximum degree). In particular, these graphs contain a dense subgraph, which we call the core, having nc/log log n vertices. Almost all vertices are within distance log log n of the core although there are vertices at distance log n from the core.


  19. The peculiar phase structure of random graph bisection

    SciTech Connect

    Percus, Allon G; Istrate, Gabriel; Goncalves, Bruno T; Sumi, Robert Z

    2008-01-01

    The mincut graph bisection problem involves partitioning the n vertices of a graph into disjoint subsets, each containing exactly n/2 vertices, while minimizing the number of 'cut' edges with an endpoint in each subset. When considered over sparse random graphs, the phase structure of the graph bisection problem displays certain familiar properties, but also some surprises. It is known that when the mean degree is below the critical value of 2 log 2, the cutsize is zero with high probability. We study how the minimum cutsize increases with mean degree above this critical threshold, finding a new analytical upper bound that improves considerably upon previous bounds. Combined with recent results on expander graphs, our bound suggests the unusual scenario that random graph bisection is replica symmetric up to and beyond the critical threshold, with a replica symmetry breaking transition possibly taking place above the threshold. An intriguing algorithmic consequence is that although the problem is NP-hard, we can find near-optimal cutsizes (whose ratio to the optimal value approaches 1 asymptotically) in polynomial time for typical instances near the phase transition.

  20. A Graph Decomposition Technique Based on a High-Density Clustering Model on Graphs.

    DTIC Science & Technology

    1980-07-01

    ADAO90 3A8 ALFRED P SLOAN SCHOOL OF MANAGEMNT CAMBRIDGE MA CEN-ETC FIG 12 GRAPH DECOMPOSITION TECHNIQUE BASEO ON A HIGH-DENSITY CLUSTER-ETC(U) JUL 0...ELEMENT.’ PROJECT, TASK Center for Information Systems Research AREAO G ORK UNIT NUMBERS Sloan School of Management, M.I.T. V Cambridge,_MA__02139...See Kernighan and Lin (1970), Lukes (1974, 1975), anc Christofides and Brooker (1976) for methods that operate under some size constraints on the

  1. Chemical Applications of Graph Theory: Part I. Fundamentals and Topological Indices.

    ERIC Educational Resources Information Center

    Hansen, Peter J.; Jurs, Peter C.

    1988-01-01

    Explores graph theory and use of topological indices to predict boiling points. Lists three indices: Wiener Number, Randic Branching Index and Molecular Connectivity, and Molecular Identification numbers. Warns of inadequacies with stereochemistry. (ML)

  2. Khovanov homology of graph-links

    SciTech Connect

    Nikonov, Igor M

    2012-08-31

    Graph-links arise as the intersection graphs of turning chord diagrams of links. Speaking informally, graph-links provide a combinatorial description of links up to mutations. Many link invariants can be reformulated in the language of graph-links. Khovanov homology, a well-known and useful knot invariant, is defined for graph-links in this paper (in the case of the ground field of characteristic two). Bibliography: 14 titles.

  3. Manipulation of Zeeman coherence in solids at room temperature: Ramsey interference in the coherent-population-trapping spectrum of ruby

    NASA Astrophysics Data System (ADS)

    Kolesov, Roman; Scully, Marlan O.; Kocharovskaya, Olga

    2006-11-01

    Coherent population trapping (CPT) in a three-level atomic medium pumped by two subsequent short optical pulses is considered under the condition of negligible population decay from the excited optical state. It is shown that the amount of atomic population transferred to the excited state by the combined action of the pulses strongly depends on the phase of the ground-state coherence excited by the first pulse at the arrival time of the second pulse. Oscillatory behavior of optical excitation efficiency on the time delay between the pulses is predicted. It is also shown that saturating optical pulses can produce population inversion in a resonantly pumped quasi-two-level system. A class of solid materials in which the predicted phenomena can be observed at room temperature is found. It includes some rare-earth and transition-metal doped dielectric crystals where Orbach relaxation between ground-state Zeeman states is suppressed: ruby, alexandrite, and several others. On the basis of the theoretical predictions, experimental observation of Ramsey fringes in CPT spectrum of ruby is reported.

  4. Manipulation of Zeeman coherence in solids at room temperature: Ramsey interference in the coherent-population-trapping spectrum of ruby

    SciTech Connect

    Kolesov, Roman; Scully, Marlan O.; Kocharovskaya, Olga

    2006-11-15

    Coherent population trapping (CPT) in a three-level atomic medium pumped by two subsequent short optical pulses is considered under the condition of negligible population decay from the excited optical state. It is shown that the amount of atomic population transferred to the excited state by the combined action of the pulses strongly depends on the phase of the ground-state coherence excited by the first pulse at the arrival time of the second pulse. Oscillatory behavior of optical excitation efficiency on the time delay between the pulses is predicted. It is also shown that saturating optical pulses can produce population inversion in a resonantly pumped quasi-two-level system. A class of solid materials in which the predicted phenomena can be observed at room temperature is found. It includes some rare-earth and transition-metal doped dielectric crystals where Orbach relaxation between ground-state Zeeman states is suppressed: ruby, alexandrite, and several others. On the basis of the theoretical predictions, experimental observation of Ramsey fringes in CPT spectrum of ruby is reported.

  5. Principal Graph and Structure Learning Based on Reversed Graph Embedding.

    PubMed

    Mao, Qi; Wang, Li; Tsang, Ivor; Sun, Yijun

    2016-12-05

    Many scientific datasets are of high dimension, and the analysis usually requires retaining the most important structures of data. Principal curve is a widely used approach for this purpose. However, many existing methods work only for data with structures that are mathematically formulated by curves, which is quite restrictive for real applications. A few methods can overcome the above problem, but they either require complicated human-made rules for a specific task with lack of adaption flexibility to different tasks, or cannot obtain explicit structures of data. To address these issues, we develop a novel principal graph and structure learning framework that captures the local information of the underlying graph structure based on reversed graph embedding. As showcases, models that can learn a spanning tree or a weighted undirected `1 graph are proposed, and a new learning algorithm is developed that learns a set of principal points and a graph structure from data, simultaneously. The new algorithm is simple with guaranteed convergence. We then extend the proposed framework to deal with large-scale data. Experimental results on various synthetic and six real world datasets show that the proposed method compares favorably with baselines and can uncover the underlying structure correctly.

  6. GraphMeta: Managing HPC Rich Metadata in Graphs

    SciTech Connect

    Dai, Dong; Chen, Yong; Carns, Philip; Jenkins, John; Zhang, Wei; Ross, Robert

    2016-01-01

    High-performance computing (HPC) systems face increasingly critical metadata management challenges, especially in the approaching exascale era. These challenges arise not only from exploding metadata volumes, but also from increasingly diverse metadata, which contains data provenance and arbitrary user-defined attributes in addition to traditional POSIX metadata. This ‘rich’ metadata is becoming critical to supporting advanced data management functionality such as data auditing and validation. In our prior work, we identified a graph-based model as a promising solution to uniformly manage HPC rich metadata due to its flexibility and generality. However, at the same time, graph-based HPC rich metadata anagement also introduces significant challenges to the underlying infrastructure. In this study, we first identify the challenges on the underlying infrastructure to support scalable, high-performance rich metadata management. Based on that, we introduce GraphMeta, a graphbased engine designed for this use case. It achieves performance scalability by introducing a new graph partitioning algorithm and a write-optimal storage engine. We evaluate GraphMeta under both synthetic and real HPC metadata workloads, compare it with other approaches, and demonstrate its advantages in terms of efficiency and usability for rich metadata management in HPC systems.

  7. Private Graphs - Access Rights on Graphs for Seamless Navigation

    NASA Astrophysics Data System (ADS)

    Dorner, W.; Hau, F.; Pagany, R.

    2016-06-01

    After the success of GNSS (Global Navigational Satellite Systems) and navigation services for public streets, indoor seems to be the next big development in navigational services, relying on RTLS - Real Time Locating Services (e.g. WIFI) and allowing seamless navigation. In contrast to navigation and routing services on public streets, seamless navigation will cause an additional challenge: how to make routing data accessible to defined users or restrict access rights for defined areas or only to parts of the graph to a defined user group? The paper will present case studies and data from literature, where seamless and especially indoor navigation solutions are presented (hospitals, industrial complexes, building sites), but the problem of restricted access rights was only touched from a real world, but not a technical perspective. The analysis of case studies will show, that the objective of navigation and the different target groups for navigation solutions will demand well defined access rights and require solutions, how to make only parts of a graph to a user or application available to solve a navigational task. The paper will therefore introduce the concept of private graphs, which is defined as a graph for navigational purposes covering the street, road or floor network of an area behind a public street and suggest different approaches how to make graph data for navigational purposes available considering access rights and data protection, privacy and security issues as well.

  8. Bonabeau model on a fully connected graph

    NASA Astrophysics Data System (ADS)

    Malarz, K.; Stauffer, D.; Kułakowski, K.

    2006-03-01

    Numerical simulations are reported on the Bonabeau model on a fully connected graph, where spatial degrees of freedom are absent. The control parameter is the memory factor f. The phase transition is observed at the dispersion of the agents power hi. The critical value fC shows a hysteretic behavior with respect to the initial distribution of hi. fC decreases with the system size; this decrease can be compensated by a greater number of fights between a global reduction of the distribution width of hi. The latter step is equivalent to a partial forgetting.

  9. Sharing Teaching Ideas: Graphing Families of Curves Using Transformations of Reference Graphs

    ERIC Educational Resources Information Center

    Kukla, David

    2007-01-01

    This article provides for a fast extremely accurate approach to graphing functions that is based on learning function reference graphs and then applying algebraic transformations to these reference graphs.

  10. Time-varying Reeb Graphs for Continuous Space-Time Data

    SciTech Connect

    Edelsbrunner, H; Harer, J; Mascarenhas, A; Pascucci, V; Snoeyink, J

    2008-04-22

    The Reeb graph is a useful tool in visualizing real-valued data obtained from computational simulations of physical processes. We characterize the evolution of the Reeb graph of a time-varying continuous function defined in three-dimensional space. We show how to maintain the Reeb graph over time and compress the entire sequence of Reeb graphs into a single, partially persistent data structure, and augment this data structure with Betti numbers to describe the topology of level sets and with path seeds to assist in the fast extraction of level sets for visualization.

  11. A conjecture on the maximum cut and bisection width in random regular graphs

    NASA Astrophysics Data System (ADS)

    Zdeborová, Lenka; Boettcher, Stefan

    2010-02-01

    The asymptotic properties of random regular graphs are objects of extensive study in mathematics and physics. In this paper we argue, using the theory of spin glasses in physics, that in random regular graphs the maximum cut size asymptotically equals the number of edges in the graph minus the minimum bisection size. Maximum cut and minimal bisection are two famous NP-complete problems with no known general relation between them; hence our conjecture is a surprising property for random regular graphs. We further support the conjecture with numerical simulations. A rigorous proof of this relation is an obvious challenge.

  12. Decision net, directed graph, and neural net processing of imaging spectrometer data

    NASA Technical Reports Server (NTRS)

    Casasent, David; Liu, Shiaw-Dong; Yoneyama, Hideyuki; Barnard, Etienne

    1989-01-01

    A decision-net solution involving a novel hierarchical classifier and a set of multiple directed graphs, as well as a neural-net solution, are respectively presented for large-class problem and mixture problem treatments of imaging spectrometer data. The clustering method for hierarchical classifier design, when used with multiple directed graphs, yields an efficient decision net. New directed-graph rules for reducing local maxima as well as the number of perturbations required, and the new starting-node rules for extending the reachability and reducing the search time of the graphs, are noted to yield superior results, as indicated by an illustrative 500-class imaging spectrometer problem.

  13. On Molchanov's Condition for the Spectrum Discreteness of a Quantum Graph Hamiltonian with δ-Coupling

    NASA Astrophysics Data System (ADS)

    Kovaleva, Maria O.; Popov, Igor Yu.

    2015-10-01

    The spectrum discreteness Molchanov's condition for a potential on the real axis (or half-axis) is well known. The goal of this work is to obtain an analogous condition for a quantum graph. We deal with δ-type conditions at the graph vertices. The Schrödinger operator with a potential is considered at each edge. It is assumed that the graph has infinite leads (edges) or/and infinite chains of vertices such that the neighbouring vertices are connected by finite number of edges. Molchanov-type theorem for the quantum graph Hamiltonian spectrum discreteness is proved.

  14. Solving Graph Laplacian Systems Through Recursive Bisections and Two-Grid Preconditioning

    SciTech Connect

    Ponce, Colin; Vassilevski, Panayot S.

    2016-02-18

    We present a parallelizable direct method for computing the solution to graph Laplacian-based linear systems derived from graphs that can be hierarchically bipartitioned with small edge cuts. For a graph of size n with constant-size edge cuts, our method decomposes a graph Laplacian in time O(n log n), and then uses that decomposition to perform a linear solve in time O(n log n). We then use the developed technique to design a preconditioner for graph Laplacians that do not have this property. Finally, we augment this preconditioner with a two-grid method that accounts for much of the preconditioner's weaknesses. We present an analysis of this method, as well as a general theorem for the condition number of a general class of two-grid support graph-based preconditioners. Numerical experiments illustrate the performance of the studied methods.

  15. Effects of Self-Graphing on Written Expression of Fourth Grade Students with High-Incidence Disabilities

    ERIC Educational Resources Information Center

    Stotz, Kate E.; Itoi, Madoka; Konrad, Moira; Alber-Morgan, Sheila R.

    2008-01-01

    The purpose of this study was to determine the effects of self-graphing on the writing of 3 fourth grade students with high-incidence disabilities. Measures of written expression included total number of words written and number of correct word sequences. During intervention, students self-graphed their total number of words written in response to…

  16. Graph classification by means of Lipschitz embedding.

    PubMed

    Riesen, Kaspar; Bunke, Horst

    2009-12-01

    In pattern recognition and related fields, graph-based representations offer a versatile alternative to the widely used feature vectors. Therefore, an emerging trend of representing objects by graphs can be observed. This trend is intensified by the development of novel approaches in graph-based machine learning, such as graph kernels or graph-embedding techniques. These procedures overcome a major drawback of graphs, which consists of a serious lack of algorithms for classification. This paper is inspired by the idea of representing graphs through dissimilarities and extends our previous work to the more general setting of Lipschitz embeddings. In an experimental evaluation, we empirically confirm that classifiers that rely on the original graph distances can be outperformed by a classification system using the Lipschitz embedded graphs.

  17. Exact Algorithms for Coloring Graphs While Avoiding Monochromatic Cycles

    NASA Astrophysics Data System (ADS)

    Talla Nobibon, Fabrice; Hurkens, Cor; Leus, Roel; Spieksma, Frits C. R.

    We consider the problem of deciding whether a given directed graph can be vertex partitioned into two acyclic subgraphs. Applications of this problem include testing rationality of collective consumption behavior, a subject in micro-economics. We identify classes of directed graphs for which the problem is easy and prove that the existence of a constant factor approximation algorithm is unlikely for an optimization version which maximizes the number of vertices that can be colored using two colors while avoiding monochromatic cycles. We present three exact algorithms, namely an integer-programming algorithm based on cycle identification, a backtracking algorithm, and a branch-and-check algorithm. We compare these three algorithms both on real-life instances and on randomly generated graphs. We find that for the latter set of graphs, every algorithm solves instances of considerable size within few seconds; however, the CPU time of the integer-programming algorithm increases with the number of vertices in the graph while that of the two other procedures does not. For every algorithm, we also study empirically the transition from a high to a low probability of YES answer as function of a parameter of the problem. For real-life instances, the integer-programming algorithm fails to solve the largest instance after one hour while the other two algorithms solve it in about ten minutes.

  18. The Use of Graphs in Specific Situations of the Initial Conditions of Linear Differential Equations

    ERIC Educational Resources Information Center

    Buendía, Gabriela; Cordero, Francisco

    2013-01-01

    In this article, we present a discussion on the role of graphs and its significance in the relation between the number of initial conditions and the order of a linear differential equation, which is known as the initial value problem. We propose to make a functional framework for the use of graphs that intends to broaden the explanations of the…

  19. Hierarchical sequencing of online social graphs

    NASA Astrophysics Data System (ADS)

    Andjelković, Miroslav; Tadić, Bosiljka; Maletić, Slobodan; Rajković, Milan

    2015-10-01

    In online communications, patterns of conduct of individual actors and use of emotions in the process can lead to a complex social graph exhibiting multilayered structure and mesoscopic communities. Using simplicial complexes representation of graphs, we investigate in-depth topology of the online social network constructed from MySpace dialogs which exhibits original community structure. A simulation of emotion spreading in this network leads to the identification of two emotion-propagating layers. Three topological measures are introduced, referred to as the structure vectors, which quantify graph's architecture at different dimension levels. Notably, structures emerging through shared links, triangles and tetrahedral faces, frequently occur and range from tree-like to maximal 5-cliques and their respective complexes. On the other hand, the structures which spread only negative or only positive emotion messages appear to have much simpler topology consisting of links and triangles. The node's structure vector represents the number of simplices at each topology level in which the node resides and the total number of such simplices determines what we define as the node's topological dimension. The presented results suggest that the node's topological dimension provides a suitable measure of the social capital which measures the actor's ability to act as a broker in compact communities, the so called Simmelian brokerage. We also generalize the results to a wider class of computer-generated networks. Investigating components of the node's vector over network layers reveals that same nodes develop different socio-emotional relations and that the influential nodes build social capital by combining their connections in different layers.

  20. Algebraic connectivity and graph robustness.

    SciTech Connect

    Feddema, John Todd; Byrne, Raymond Harry; Abdallah, Chaouki T.

    2009-07-01

    Recent papers have used Fiedler's definition of algebraic connectivity to show that network robustness, as measured by node-connectivity and edge-connectivity, can be increased by increasing the algebraic connectivity of the network. By the definition of algebraic connectivity, the second smallest eigenvalue of the graph Laplacian is a lower bound on the node-connectivity. In this paper we show that for circular random lattice graphs and mesh graphs algebraic connectivity is a conservative lower bound, and that increases in algebraic connectivity actually correspond to a decrease in node-connectivity. This means that the networks are actually less robust with respect to node-connectivity as the algebraic connectivity increases. However, an increase in algebraic connectivity seems to correlate well with a decrease in the characteristic path length of these networks - which would result in quicker communication through the network. Applications of these results are then discussed for perimeter security.

  1. Graph Analytics for Signature Discovery

    SciTech Connect

    Hogan, Emilie A.; Johnson, John R.; Halappanavar, Mahantesh; Lo, Chaomei

    2013-06-01

    Within large amounts of seemingly unstructured data it can be diffcult to find signatures of events. In our work we transform unstructured data into a graph representation. By doing this we expose underlying structure in the data and can take advantage of existing graph analytics capabilities, as well as develop new capabilities. Currently we focus on applications in cybersecurity and communication domains. Within cybersecurity we aim to find signatures for perpetrators using the pass-the-hash attack, and in communications we look for emails or phone calls going up or down a chain of command. In both of these areas, and in many others, the signature we look for is a path with certain temporal properties. In this paper we discuss our methodology for finding these temporal paths within large graphs.

  2. Graph modeling systems and methods

    DOEpatents

    Neergaard, Mike

    2015-10-13

    An apparatus and a method for vulnerability and reliability modeling are provided. The method generally includes constructing a graph model of a physical network using a computer, the graph model including a plurality of terminating vertices to represent nodes in the physical network, a plurality of edges to represent transmission paths in the physical network, and a non-terminating vertex to represent a non-nodal vulnerability along a transmission path in the physical network. The method additionally includes evaluating the vulnerability and reliability of the physical network using the constructed graph model, wherein the vulnerability and reliability evaluation includes a determination of whether each terminating and non-terminating vertex represents a critical point of failure. The method can be utilized to evaluate wide variety of networks, including power grid infrastructures, communication network topologies, and fluid distribution systems.

  3. Sequential visibility-graph motifs

    NASA Astrophysics Data System (ADS)

    Iacovacci, Jacopo; Lacasa, Lucas

    2016-04-01

    Visibility algorithms transform time series into graphs and encode dynamical information in their topology, paving the way for graph-theoretical time series analysis as well as building a bridge between nonlinear dynamics and network science. In this work we introduce and study the concept of sequential visibility-graph motifs, smaller substructures of n consecutive nodes that appear with characteristic frequencies. We develop a theory to compute in an exact way the motif profiles associated with general classes of deterministic and stochastic dynamics. We find that this simple property is indeed a highly informative and computationally efficient feature capable of distinguishing among different dynamics and robust against noise contamination. We finally confirm that it can be used in practice to perform unsupervised learning, by extracting motif profiles from experimental heart-rate series and being able, accordingly, to disentangle meditative from other relaxation states. Applications of this general theory include the automatic classification and description of physical, biological, and financial time series.

  4. Quantum snake walk on graphs

    SciTech Connect

    Rosmanis, Ansis

    2011-02-15

    I introduce a continuous-time quantum walk on graphs called the quantum snake walk, the basis states of which are fixed-length paths (snakes) in the underlying graph. First, I analyze the quantum snake walk on the line, and I show that, even though most states stay localized throughout the evolution, there are specific states that most likely move on the line as wave packets with momentum inversely proportional to the length of the snake. Next, I discuss how an algorithm based on the quantum snake walk might potentially be able to solve an extended version of the glued trees problem, which asks to find a path connecting both roots of the glued trees graph. To the best of my knowledge, no efficient quantum algorithm solving this problem is known yet.

  5. Interacting particle systems on graphs

    NASA Astrophysics Data System (ADS)

    Sood, Vishal

    In this dissertation, the dynamics of socially or biologically interacting populations are investigated. The individual members of the population are treated as particles that interact via links on a social or biological network represented as a graph. The effect of the structure of the graph on the properties of the interacting particle system is studied using statistical physics techniques. In the first chapter, the central concepts of graph theory and social and biological networks are presented. Next, interacting particle systems that are drawn from physics, mathematics and biology are discussed in the second chapter. In the third chapter, the random walk on a graph is studied. The mean time for a random walk to traverse between two arbitrary sites of a random graph is evaluated. Using an effective medium approximation it is found that the mean first-passage time between pairs of sites, as well as all moments of this first-passage time, are insensitive to the density of links in the graph. The inverse of the mean-first passage time varies non-monotonically with the density of links near the percolation transition of the random graph. Much of the behavior can be understood by simple heuristic arguments. Evolutionary dynamics, by which mutants overspread an otherwise uniform population on heterogeneous graphs, are studied in the fourth chapter. Such a process underlies' epidemic propagation, emergence of fads, social cooperation or invasion of an ecological niche by a new species. The first part of this chapter is devoted to neutral dynamics, in which the mutant genotype does not have a selective advantage over the resident genotype. The time to extinction of one of the two genotypes is derived. In the second part of this chapter, selective advantage or fitness is introduced such that the mutant genotype has a higher birth rate or a lower death rate. This selective advantage leads to a dynamical competition in which selection dominates for large populations

  6. Synchronizability of random rectangular graphs

    SciTech Connect

    Estrada, Ernesto Chen, Guanrong

    2015-08-15

    Random rectangular graphs (RRGs) represent a generalization of the random geometric graphs in which the nodes are embedded into hyperrectangles instead of on hypercubes. The synchronizability of RRG model is studied. Both upper and lower bounds of the eigenratio of the network Laplacian matrix are determined analytically. It is proven that as the rectangular network is more elongated, the network becomes harder to synchronize. The synchronization processing behavior of a RRG network of chaotic Lorenz system nodes is numerically investigated, showing complete consistence with the theoretical results.

  7. Approximate Graph Edit Distance in Quadratic Time.

    PubMed

    Riesen, Kaspar; Ferrer, Miquel; Bunke, Horst

    2015-09-14

    Graph edit distance is one of the most flexible and general graph matching models available. The major drawback of graph edit distance, however, is its computational complexity that restricts its applicability to graphs of rather small size. Recently the authors of the present paper introduced a general approximation framework for the graph edit distance problem. The basic idea of this specific algorithm is to first compute an optimal assignment of independent local graph structures (including substitutions, deletions, and insertions of nodes and edges). This optimal assignment is complete and consistent with respect to the involved nodes of both graphs and can thus be used to instantly derive an admissible (yet suboptimal) solution for the original graph edit distance problem in O(n3) time. For large scale graphs or graph sets, however, the cubic time complexity may still be too high. Therefore, we propose to use suboptimal algorithms with quadratic rather than cubic time for solving the basic assignment problem. In particular, the present paper introduces five different greedy assignment algorithms in the context of graph edit distance approximation. In an experimental evaluation we show that these methods have great potential for further speeding up the computation of graph edit distance while the approximated distances remain sufficiently accurate for graph based pattern classification.

  8. SNAP: A General Purpose Network Analysis and Graph Mining Library.

    PubMed

    Leskovec, Jure; Sosič, Rok

    2016-10-01

    Large networks are becoming a widely used abstraction for studying complex systems in a broad set of disciplines, ranging from social network analysis to molecular biology and neuroscience. Despite an increasing need to analyze and manipulate large networks, only a limited number of tools are available for this task. Here, we describe Stanford Network Analysis Platform (SNAP), a general-purpose, high-performance system that provides easy to use, high-level operations for analysis and manipulation of large networks. We present SNAP functionality, describe its implementational details, and give performance benchmarks. SNAP has been developed for single big-memory machines and it balances the trade-off between maximum performance, compact in-memory graph representation, and the ability to handle dynamic graphs where nodes and edges are being added or removed over time. SNAP can process massive networks with hundreds of millions of nodes and billions of edges. SNAP offers over 140 different graph algorithms that can efficiently manipulate large graphs, calculate structural properties, generate regular and random graphs, and handle attributes and meta-data on nodes and edges. Besides being able to handle large graphs, an additional strength of SNAP is that networks and their attributes are fully dynamic, they can be modified during the computation at low cost. SNAP is provided as an open source library in C++ as well as a module in Python. We also describe the Stanford Large Network Dataset, a set of social and information real-world networks and datasets, which we make publicly available. The collection is a complementary resource to our SNAP software and is widely used for development and benchmarking of graph analytics algorithms.

  9. SNAP: A General Purpose Network Analysis and Graph Mining Library

    PubMed Central

    Leskovec, Jure; Sosič, Rok

    2016-01-01

    Large networks are becoming a widely used abstraction for studying complex systems in a broad set of disciplines, ranging from social network analysis to molecular biology and neuroscience. Despite an increasing need to analyze and manipulate large networks, only a limited number of tools are available for this task. Here, we describe Stanford Network Analysis Platform (SNAP), a general-purpose, high-performance system that provides easy to use, high-level operations for analysis and manipulation of large networks. We present SNAP functionality, describe its implementational details, and give performance benchmarks. SNAP has been developed for single big-memory machines and it balances the trade-off between maximum performance, compact in-memory graph representation, and the ability to handle dynamic graphs where nodes and edges are being added or removed over time. SNAP can process massive networks with hundreds of millions of nodes and billions of edges. SNAP offers over 140 different graph algorithms that can efficiently manipulate large graphs, calculate structural properties, generate regular and random graphs, and handle attributes and meta-data on nodes and edges. Besides being able to handle large graphs, an additional strength of SNAP is that networks and their attributes are fully dynamic, they can be modified during the computation at low cost. SNAP is provided as an open source library in C++ as well as a module in Python. We also describe the Stanford Large Network Dataset, a set of social and information real-world networks and datasets, which we make publicly available. The collection is a complementary resource to our SNAP software and is widely used for development and benchmarking of graph analytics algorithms. PMID:28344853

  10. Component evolution in general random intersection graphs

    SciTech Connect

    Bradonjic, Milan; Hagberg, Aric; Hengartner, Nick; Percus, Allon G

    2010-01-01

    We analyze component evolution in general random intersection graphs (RIGs) and give conditions on existence and uniqueness of the giant component. Our techniques generalize the existing methods for analysis on component evolution in RIGs. That is, we analyze survival and extinction properties of a dependent, inhomogeneous Galton-Watson branching process on general RIGs. Our analysis relies on bounding the branching processes and inherits the fundamental concepts from the study on component evolution in Erdos-Renyi graphs. The main challenge becomes from the underlying structure of RIGs, when the number of offsprings follows a binomial distribution with a different number of nodes and different rate at each step during the evolution. RIGs can be interpreted as a model for large randomly formed non-metric data sets. Besides the mathematical analysis on component evolution, which we provide in this work, we perceive RIGs as an important random structure which has already found applications in social networks, epidemic networks, blog readership, or wireless sensor networks.

  11. Adiabatic graph-state quantum computation

    NASA Astrophysics Data System (ADS)

    Antonio, B.; Markham, D.; Anders, J.

    2014-11-01

    Measurement-based quantum computation (MBQC) and holonomic quantum computation (HQC) are two very different computational methods. The computation in MBQC is driven by adaptive measurements executed in a particular order on a large entangled state. In contrast in HQC the system starts in the ground subspace of a Hamiltonian which is slowly changed such that a transformation occurs within the subspace. Following the approach of Bacon and Flammia, we show that any MBQC on a graph state with generalized flow (gflow) can be converted into an adiabatically driven holonomic computation, which we call adiabatic graph-state quantum computation (AGQC). We then investigate how properties of AGQC relate to the properties of MBQC, such as computational depth. We identify a trade-off that can be made between the number of adiabatic steps in AGQC and the norm of \\dot{H} as well as the degree of H, in analogy to the trade-off between the number of measurements and classical post-processing seen in MBQC. Finally the effects of performing AGQC with orderings that differ from standard MBQC are investigated.

  12. Thermodynamic characterization of networks using graph polynomials

    NASA Astrophysics Data System (ADS)

    Ye, Cheng; Comin, César H.; Peron, Thomas K. DM.; Silva, Filipi N.; Rodrigues, Francisco A.; Costa, Luciano da F.; Torsello, Andrea; Hancock, Edwin R.

    2015-09-01

    In this paper, we present a method for characterizing the evolution of time-varying complex networks by adopting a thermodynamic representation of network structure computed from a polynomial (or algebraic) characterization of graph structure. Commencing from a representation of graph structure based on a characteristic polynomial computed from the normalized Laplacian matrix, we show how the polynomial is linked to the Boltzmann partition function of a network. This allows us to compute a number of thermodynamic quantities for the network, including the average energy and entropy. Assuming that the system does not change volume, we can also compute the temperature, defined as the rate of change of entropy with energy. All three thermodynamic variables can be approximated using low-order Taylor series that can be computed using the traces of powers of the Laplacian matrix, avoiding explicit computation of the normalized Laplacian spectrum. These polynomial approximations allow a smoothed representation of the evolution of networks to be constructed in the thermodynamic space spanned by entropy, energy, and temperature. We show how these thermodynamic variables can be computed in terms of simple network characteristics, e.g., the total number of nodes and node degree statistics for nodes connected by edges. We apply the resulting thermodynamic characterization to real-world time-varying networks representing complex systems in the financial and biological domains. The study demonstrates that the method provides an efficient tool for detecting abrupt changes and characterizing different stages in network evolution.

  13. Multiple directed graph large-class multi-spectral processor

    NASA Technical Reports Server (NTRS)

    Casasent, David; Liu, Shiaw-Dong; Yoneyama, Hideyuki

    1988-01-01

    Numerical analysis techniques for the interpretation of high-resolution imaging-spectrometer data are described and demonstrated. The method proposed involves the use of (1) a hierarchical classifier with a tree structure generated automatically by a Fisher linear-discriminant-function algorithm and (2) a novel multiple-directed-graph scheme which reduces the local maxima and the number of perturbations required. Results for a 500-class test problem involving simulated imaging-spectrometer data are presented in tables and graphs; 100-percent-correct classification is achieved with an improvement factor of 5.

  14. Label-based routing for a family of small-world Farey graphs.

    PubMed

    Zhai, Yinhu; Wang, Yinhe

    2016-05-11

    We introduce an informative labelling method for vertices in a family of Farey graphs, and deduce a routing algorithm on all the shortest paths between any two vertices in Farey graphs. The label of a vertex is composed of the precise locating position in graphs and the exact time linking to graphs. All the shortest paths routing between any pair of vertices, which number is exactly the product of two Fibonacci numbers, are determined only by their labels, and the time complexity of the algorithm is O(n). It is the first algorithm to figure out all the shortest paths between any pair of vertices in a kind of deterministic graphs. For Farey networks, the existence of an efficient routing protocol is of interest to design practical communication algorithms in relation to dynamical processes (including synchronization and structural controllability) and also to understand the underlying mechanisms that have shaped their particular structure.

  15. Label-based routing for a family of small-world Farey graphs

    NASA Astrophysics Data System (ADS)

    Zhai, Yinhu; Wang, Yinhe

    2016-05-01

    We introduce an informative labelling method for vertices in a family of Farey graphs, and deduce a routing algorithm on all the shortest paths between any two vertices in Farey graphs. The label of a vertex is composed of the precise locating position in graphs and the exact time linking to graphs. All the shortest paths routing between any pair of vertices, which number is exactly the product of two Fibonacci numbers, are determined only by their labels, and the time complexity of the algorithm is O(n). It is the first algorithm to figure out all the shortest paths between any pair of vertices in a kind of deterministic graphs. For Farey networks, the existence of an efficient routing protocol is of interest to design practical communication algorithms in relation to dynamical processes (including synchronization and structural controllability) and also to understand the underlying mechanisms that have shaped their particular structure.

  16. Label-based routing for a family of small-world Farey graphs

    PubMed Central

    Zhai, Yinhu; Wang, Yinhe

    2016-01-01

    We introduce an informative labelling method for vertices in a family of Farey graphs, and deduce a routing algorithm on all the shortest paths between any two vertices in Farey graphs. The label of a vertex is composed of the precise locating position in graphs and the exact time linking to graphs. All the shortest paths routing between any pair of vertices, which number is exactly the product of two Fibonacci numbers, are determined only by their labels, and the time complexity of the algorithm is O(n). It is the first algorithm to figure out all the shortest paths between any pair of vertices in a kind of deterministic graphs. For Farey networks, the existence of an efficient routing protocol is of interest to design practical communication algorithms in relation to dynamical processes (including synchronization and structural controllability) and also to understand the underlying mechanisms that have shaped their particular structure. PMID:27167605

  17. Comparison Graph of Sea Ice Minimum - 2010

    NASA Video Gallery

    This animated graph tracks the retreat of sea ice, measured in millions of square kilometers, averaged from the start of the satellite record in 1979 through 2000 (white). Next, the graph follows t...

  18. Mathematical Minute: Rotating a Function Graph

    ERIC Educational Resources Information Center

    Bravo, Daniel; Fera, Joseph

    2013-01-01

    Using calculus only, we find the angles you can rotate the graph of a differentiable function about the origin and still obtain a function graph. We then apply the solution to odd and even degree polynomials.

  19. Standard Distributions: One Graph Fits All

    ERIC Educational Resources Information Center

    Wagner, Clifford H.

    2007-01-01

    Standard distributions are ubiquitous but not unique. With suitable scaling, the graph of a standard distribution serves as the graph for every distribution in the family. The standard exponential can easily be taught in elementary statistics courses.

  20. Graphing and Social Studies: An Interdisciplinary Activity.

    ERIC Educational Resources Information Center

    Brehm, Julia L.

    1996-01-01

    Describes a graphing activity that promotes mathematical connections with social studies lessons. Students should be familiar with graphing on the Cartesian coordinate system to play this variation of the game Battleship on maps of various regions of the world. (AIM)

  1. Torsional rigidity, isospectrality and quantum graphs

    NASA Astrophysics Data System (ADS)

    Colladay, Don; Kaganovskiy, Leon; McDonald, Patrick

    2017-01-01

    We study torsional rigidity for graph and quantum graph analogs of well-known pairs of isospectral non-isometric planar domains. We prove that such isospectral pairs are distinguished by torsional rigidity.

  2. Chemical graphs, molecular matrices and topological indices in chemoinformatics and quantitative structure-activity relationships.

    PubMed

    Ivanciuc, Ovidiu

    2013-06-01

    Chemical and molecular graphs have fundamental applications in chemoinformatics, quantitative structureproperty relationships (QSPR), quantitative structure-activity relationships (QSAR), virtual screening of chemical libraries, and computational drug design. Chemoinformatics applications of graphs include chemical structure representation and coding, database search and retrieval, and physicochemical property prediction. QSPR, QSAR and virtual screening are based on the structure-property principle, which states that the physicochemical and biological properties of chemical compounds can be predicted from their chemical structure. Such structure-property correlations are usually developed from topological indices and fingerprints computed from the molecular graph and from molecular descriptors computed from the three-dimensional chemical structure. We present here a selection of the most important graph descriptors and topological indices, including molecular matrices, graph spectra, spectral moments, graph polynomials, and vertex topological indices. These graph descriptors are used to define several topological indices based on molecular connectivity, graph distance, reciprocal distance, distance-degree, distance-valency, spectra, polynomials, and information theory concepts. The molecular descriptors and topological indices can be developed with a more general approach, based on molecular graph operators, which define a family of graph indices related by a common formula. Graph descriptors and topological indices for molecules containing heteroatoms and multiple bonds are computed with weighting schemes based on atomic properties, such as the atomic number, covalent radius, or electronegativity. The correlation in QSPR and QSAR models can be improved by optimizing some parameters in the formula of topological indices, as demonstrated for structural descriptors based on atomic connectivity and graph distance.

  3. Algorithms and architectures for high performance analysis of semantic graphs.

    SciTech Connect

    Hendrickson, Bruce Alan

    2005-09-01

    Semantic graphs offer one promising avenue for intelligence analysis in homeland security. They provide a mechanism for describing a wide variety of relationships between entities of potential interest. The vertices are nouns of various types, e.g. people, organizations, events, etc. Edges in the graph represent different types of relationships between entities, e.g. 'is friends with', 'belongs-to', etc. Semantic graphs offer a number of potential advantages as a knowledge representation system. They allow information of different kinds, and collected in differing ways, to be combined in a seamless manner. A semantic graph is a very compressed representation of some of relationship information. It has been reported that the semantic graph can be two orders of magnitude smaller than the processed intelligence data. This allows for much larger portions of the data universe to be resident in computer memory. Many intelligence queries that are relevant to the terrorist threat are naturally expressed in the language of semantic graphs. One example is the search for 'interesting' relationships between two individuals or between an individual and an event, which can be phrased as a search for short paths in the graph. Another example is the search for an analyst-specified threat pattern, which can be cast as an instance of subgraph isomorphism. It is important to note than many kinds of analysis are not relationship based, so these are not good candidates for semantic graphs. Thus, a semantic graph should always be used in conjunction with traditional knowledge representation and interface methods. Operations that involve looking for chains of relationships (e.g. friend of a friend) are not efficiently executable in a traditional relational database. However, the semantic graph can be thought of as a pre-join of the database, and it is ideally suited for these kinds of operations. Researchers at Sandia National Laboratories are working to facilitate semantic graph

  4. A maxent-stress model for graph layout.

    PubMed

    Gansner, Emden R; Hu, Yifan; North, Stephen

    2013-06-01

    In some applications of graph visualization, input edges have associated target lengths. Dealing with these lengths is a challenge, especially for large graphs. Stress models are often employed in this situation. However, the traditional full stress model is not scalable due to its reliance on an initial all-pairs shortest path calculation. A number of fast approximation algorithms have been proposed. While they work well for some graphs, the results are less satisfactory on graphs of intrinsically high dimension, because some nodes may be placed too close together, or even share the same position. We propose a solution, called the maxent-stress model, which applies the principle of maximum entropy to cope with the extra degrees of freedom. We describe a force-augmented stress majorization algorithm that solves the maxent-stress model. Numerical results show that the algorithm scales well, and provides acceptable layouts for large, nonrigid graphs. This also has potential applications to scalable algorithms for statistical multidimensional scaling (MDS) with variable distances.

  5. Dynamic modeling of electrochemical systems using linear graph theory

    NASA Astrophysics Data System (ADS)

    Dao, Thanh-Son; McPhee, John

    An electrochemical cell is a multidisciplinary system which involves complex chemical, electrical, and thermodynamical processes. The primary objective of this paper is to develop a linear graph-theoretical modeling for the dynamic description of electrochemical systems through the representation of the system topologies. After a brief introduction to the topic and a review of linear graphs, an approach to develop linear graphs for electrochemical systems using a circuitry representation is discussed, followed in turn by the use of the branch and chord transformation techniques to generate final dynamic equations governing the system. As an example, the application of linear graph theory to modeling a nickel metal hydride (NiMH) battery will be presented. Results show that not only the number of equations are reduced significantly, but also the linear graph model simulates faster compared to the original lumped parameter model. The approach presented in this paper can be extended to modeling complex systems such as an electric or hybrid electric vehicle where a battery pack is interconnected with other components in many different domains.

  6. Comparing Unlabeled Pedigree Graphs via Covering with Bipartite and Path.

    PubMed

    Amar, Lamiaa A; Belal, Nahla A; Rashwan, Shaheera

    2016-11-01

    Family trees, also called pedigrees, have important information about an individual's past and future life. It can be used as a diagnostic tool and help guide decisions about genetic testing for the patient and at-risk family members. There are 2% to 10% of parent-child relationships missing, and this can cause large differences in the pedigree graphs created. Hence, the evaluation of pedigrees is an essential task. In this article, we focus on the problem of isomorphism of unlabeled subpedigrees with a large number of individuals and hundreds of families, given that the two pedigrees being evaluated are generational and mating is between external parents. We address two restricted versions of the unlabeled subpedigree graph problem, Cover Unlabeled subPedigree with a Bipartite graph (CUPB), and Cover Unlabeled subPedigree with a Path (CUPP) problems. Fixed parameter algorithms are presented to solve the two problems, CUPB and CUPP.

  7. Browsing schematics: Query-filtered graphs with context nodes

    NASA Technical Reports Server (NTRS)

    Ciccarelli, Eugene C.; Nardi, Bonnie A.

    1988-01-01

    The early results of a research project to create tools for building interfaces to intelligent systems on the NASA Space Station are reported. One such tool is the Schematic Browser which helps users engaged in engineering problem solving find and select schematics from among a large set. Users query for schematics with certain components, and the Schematic Browser presents a graph whose nodes represent the schematics with those components. The query greatly reduces the number of choices presented to the user, filtering the graph to a manageable size. Users can reformulate and refine the query serially until they locate the schematics of interest. To help users maintain orientation as they navigate a large body of data, the graph also includes nodes that are not matches but provide global and local context for the matching nodes. Context nodes include landmarks, ancestors, siblings, children and previous matches.

  8. Clifford Algebras, Random Graphs, and Quantum Random Variables

    NASA Astrophysics Data System (ADS)

    Schott, René; Staples, G. Stacey

    2008-08-01

    For fixed n > 0, the space of finite graphs on n vertices is canonically associated with an abelian, nilpotent-generated subalgebra of the Clifford algebra {C}l2n,2n which is canonically isomorphic to the 2n-particle fermion algebra. Using the generators of the subalgebra, an algebraic probability space of "Clifford adjacency matrices" associated with finite graphs is defined. Each Clifford adjacency matrix is a quantum random variable whose mth moment corresponds to the number of m-cycles in the graph G. Each matrix admits a canonical "quantum decomposition" into a sum of three algebraic random variables: a = aΔ + aΥ + aΛ, where aΔ is classical while aΥ and aΛ are quantum. Moreover, within the Clifford algebra context the NP problem of cycle enumeration is reduced to matrix multiplication, requiring no more than n4 Clifford (geo-metric) multiplications within the algebra.

  9. L(d,2,1)-labeling of sun graphs

    NASA Astrophysics Data System (ADS)

    Indriati, Diari; Martini, Titin S.; Herlinawati, Novita

    2014-03-01

    For positive integer d, L(d,2,1)-labeling of a graph G is a function f from V(G) to the positive integers, f:V(G)→{1,2,...} such that |f(u)-f(v)|≥d if the distance between any 2 vertices u and v is 1 (D(u,v) = 1), |f(u)-f(v)|≥2 if D(u,v) = 2, and |f(u)-f(v)|≥1 if D(u,v) = 3. The L(d,2,1)-labeling number kd(G) of a graph G is the smallest positive integer kd such that G has an L(d,2,1)-labeling with kd as the maximum label. This paper presents a general kd-value of sun graphs Sn for any d ≥ 3 and n ≥ 3.

  10. Humidity Graphs for All Seasons.

    ERIC Educational Resources Information Center

    Esmael, F.

    1982-01-01

    In a previous article in this journal (Vol. 17, p358, 1979), a wet-bulb depression table was recommended for two simple experiments to determine relative humidity. However, the use of a graph is suggested because it gives the relative humidity directly from the wet and dry bulb readings. (JN)

  11. Graphs and Enhancing Maple Multiplication.

    ERIC Educational Resources Information Center

    Cecil, David R.; Wang, Rongdong

    2002-01-01

    Description of a technique in Maple programming language that automatically prints all paths of any desired length along with the name of each vertex, proceeding in order from the beginning vertex to the ending vertex for a given graph. (Author/MM)

  12. Ancestral Genres of Mathematical Graphs

    ERIC Educational Resources Information Center

    Gerofsky, Susan

    2011-01-01

    Drawing from sources in gesture studies, cognitive science, the anthropology of religion and art/architecture history, this article explores cultural, bodily and cosmological resonances carried (unintentionally) by mathematical graphs on Cartesian coordinates. Concepts of asymmetric bodily spaces, grids, orthogonality, mapping and sacred spaces…

  13. Situating Graphs as Workplace Knowledge

    ERIC Educational Resources Information Center

    Noss, Richard; Bakker, Arthur; Hoyles, Celia; Kent, Phillip

    2007-01-01

    We investigate the use and knowledge of graphs in the context of a large industrial factory. We are particularly interested in the question of "transparency", a question that has been extensively considered in the general literature on tool use and, more recently, by Michael Roth and his colleagues in the context of scientific work. Roth uses the…

  14. Conceptual graphs for semantics and knowledge processing

    SciTech Connect

    Fargues, J.; Landau, M.C.; Dugourd, A.; Catach, L.

    1986-01-01

    This paper discusses the representational and algorithmic power of the conceptual graph model for natural language semantics and knowledge processing. Also described is a Prolog-like resolution method for conceptual graphs, which allows to perform deduction on very large semantic domains. The interpreter developed is similar to a Prolog interpreter in which the terms are any conceptual graphs and in which the unification algorithm is replaced by a specialized algorithm for conceptual graphs.

  15. Claw-Free Maximal Planar Graphs

    DTIC Science & Technology

    1989-01-01

    0, 1,2 and 3 points of degree 6 respectively.) Now suppose G,. has no claws for 3 < r < i and consider graph G ,+,. Graph G,+ 1 is obtained from Gr by...adjacent to a point v by N(v) and call the induced subgraph GiN(v)] the neighborhood graph of v in G . Graph G is said to be locally n-connected if for all

  16. Chemical Applications of Graph Theory: Part II. Isomer Enumeration.

    ERIC Educational Resources Information Center

    Hansen, Peter J.; Jurs, Peter C.

    1988-01-01

    Discusses the use of graph theory to aid in the depiction of organic molecular structures. Gives a historical perspective of graph theory and explains graph theory terminology with organic examples. Lists applications of graph theory to current research projects. (ML)

  17. Exact epidemic models on graphs using graph-automorphism driven lumping.

    PubMed

    Simon, Péter L; Taylor, Michael; Kiss, Istvan Z

    2011-04-01

    The dynamics of disease transmission strongly depends on the properties of the population contact network. Pair-approximation models and individual-based network simulation have been used extensively to model contact networks with non-trivial properties. In this paper, using a continuous time Markov chain, we start from the exact formulation of a simple epidemic model on an arbitrary contact network and rigorously derive and prove some known results that were previously mainly justified based on some biological hypotheses. The main result of the paper is the illustration of the link between graph automorphisms and the process of lumping whereby the number of equations in a system of linear differential equations can be significantly reduced. The main advantage of lumping is that the simplified lumped system is not an approximation of the original system but rather an exact version of this. For a special class of graphs, we show how the lumped system can be obtained by using graph automorphisms. Finally, we discuss the advantages and possible applications of exact epidemic models and lumping.

  18. Comment on ``Ramsey spectroscopy, matter-wave interferometry, and the microwave-lensing frequency shift''

    NASA Astrophysics Data System (ADS)

    Jefferts, S. R.; Heavner, T. P.; Barlow, S. E.; Ashby, N.

    2015-06-01

    The theory of a frequency shift in primary frequency standards due to microwave lensing in Gibble [Phys. Rev. A 90, 015601 (2014), 10.1103/PhysRevA.90.015601] contains a number of problems that undermine its validity. Furthermore, because the exposition of the theory has multiple errors and because the shift has never been experimentally observed, we believe this possible shift should not be included as a correction to primary frequency standards contributing to international atomic time. Although the theory may describe the basic mechanisms of a possible frequency shift, we argue it is not possible to use this theory to make reliable corrections to a primary frequency standard at the δ f /f ˜10-16 level.

  19. Expert and Novice Approaches to Using Graphs: Evidence from Eye-Track Experiments

    NASA Astrophysics Data System (ADS)

    Wirth, K. R.; Lindgren, J. M.

    2015-12-01

    Professionals and students in geology use an array of graphs to study the earth, but relatively little detail is known about how users interact with these graphs. Comprehension of graphical information in the earth sciences is further complicated by the common use of non-traditional formats (e.g., inverted axes, logarithmic scales, normalized plots, ternary diagrams). Many educators consider graph-reading skills an important outcome of general education science curricula, so it is critical that we understand both the development of graph-reading skills and the instructional practices that are most efficacious. Eye-tracking instruments provide quantitative information about eye movements and offer important insights into the development of expertise in graph use. We measured the graph reading skills and eye movements of novices (students with a variety of majors and educational attainment) and experts (faculty and staff from a variety of disciplines) while observing traditional and non-traditional graph formats. Individuals in the expert group consistently demonstrated significantly greater accuracy in responding to questions (e.g., retrieval, interpretation, prediction) about graphs. Among novices, only the number of college math and science courses correlated with response accuracy. Interestingly, novices and experts exhibited similar eye-tracks when they first encountered a new graph; they typically scanned through the title, x and y-axes, and data regions in the first 5-15 seconds. However, experts are readily distinguished from novices by a greater number of eye movements (20-35%) between the data and other graph elements (e.g., title, x-axis, y-axis) both during and after the initial orientation phase. We attribute the greater eye movements between the different graph elements an outcome of the generally better-developed self-regulation skills (goal-setting, monitoring, self-evaluation) that likely characterize individuals in our expert group.

  20. Collaborative Robotic Instruction: A Graph Teaching Experience

    ERIC Educational Resources Information Center

    Mitnik, Ruben; Recabarren, Matias; Nussbaum, Miguel; Soto, Alvaro

    2009-01-01

    Graphing is a key skill in the study of Physics. Drawing and interpreting graphs play a key role in the understanding of science, while the lack of these has proved to be a handicap and a limiting factor in the learning of scientific concepts. It has been observed that despite the amount of previous graph-working experience, students of all ages…

  1. 47 CFR 80.761 - Conversion graphs.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 47 Telecommunication 5 2012-10-01 2012-10-01 false Conversion graphs. 80.761 Section 80.761... MARITIME SERVICES Standards for Computing Public Coast Station VHF Coverage § 80.761 Conversion graphs. The following graphs must be employed where conversion from one to the other of the indicated types of units...

  2. 47 CFR 80.761 - Conversion graphs.

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 47 Telecommunication 5 2013-10-01 2013-10-01 false Conversion graphs. 80.761 Section 80.761... MARITIME SERVICES Standards for Computing Public Coast Station VHF Coverage § 80.761 Conversion graphs. The following graphs must be employed where conversion from one to the other of the indicated types of units...

  3. 47 CFR 80.761 - Conversion graphs.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 47 Telecommunication 5 2010-10-01 2010-10-01 false Conversion graphs. 80.761 Section 80.761... MARITIME SERVICES Standards for Computing Public Coast Station VHF Coverage § 80.761 Conversion graphs. The following graphs must be employed where conversion from one to the other of the indicated types of units...

  4. My Bar Graph Tells a Story

    ERIC Educational Resources Information Center

    McMillen, Sue; McMillen, Beth

    2010-01-01

    Connecting stories to qualitative coordinate graphs has been suggested as an effective instructional strategy. Even students who are able to "create" bar graphs may struggle to correctly "interpret" them. Giving children opportunities to work with qualitative graphs can help them develop the skills to interpret, describe, and compare information…

  5. So Many Graphs, So Little Time

    ERIC Educational Resources Information Center

    Wall, Jennifer J.; Benson, Christine C.

    2009-01-01

    Interpreting graphs found in various content areas is an important skill for students, especially in light of high-stakes testing. In addition, reading and understanding graphs is an important part of numeracy, or numeric literacy, a skill necessary for informed citizenry. This article explores the different categories of graphs, provides…

  6. 47 CFR 80.761 - Conversion graphs.

    Code of Federal Regulations, 2011 CFR

    2011-10-01

    ... 47 Telecommunication 5 2011-10-01 2011-10-01 false Conversion graphs. 80.761 Section 80.761... MARITIME SERVICES Standards for Computing Public Coast Station VHF Coverage § 80.761 Conversion graphs. The following graphs must be employed where conversion from one to the other of the indicated types of units...

  7. 47 CFR 80.761 - Conversion graphs.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 47 Telecommunication 5 2014-10-01 2014-10-01 false Conversion graphs. 80.761 Section 80.761... MARITIME SERVICES Standards for Computing Public Coast Station VHF Coverage § 80.761 Conversion graphs. The following graphs must be employed where conversion from one to the other of the indicated types of units...

  8. Teaching and Assessing Graphing Using Active Learning

    ERIC Educational Resources Information Center

    McFarland, Jenny

    2010-01-01

    As a college biology instructor, I often see graphs in lab reports that do not meet my expectations. I also observe that many college students do not always adequately differentiate between good and poor (or misleading) graphs. The activity described in this paper is the result of my work with students to improve their graphing literacy. The…

  9. Some Applications of Graph Theory to Clustering

    ERIC Educational Resources Information Center

    Hubert, Lawrence J.

    1974-01-01

    The connection between graph theory and clustering is reviewed and extended. Major emphasis is on restating, in a graph-theoretic context, selected past work in clustering, and conversely, developing alternative strategies from several standard concepts used in graph theory per se. (Author/RC)

  10. Graph Partitioning Models for Parallel Computing

    SciTech Connect

    Hendrickson, B.; Kolda, T.G.

    1999-03-02

    Calculations can naturally be described as graphs in which vertices represent computation and edges reflect data dependencies. By partitioning the vertices of a graph, the calculation can be divided among processors of a parallel computer. However, the standard methodology for graph partitioning minimizes the wrong metric and lacks expressibility. We survey several recently proposed alternatives and discuss their relative merits.

  11. Sorting: Groups and Graphs. Used Numbers. Grades 2-3.

    ERIC Educational Resources Information Center

    Russell, Susan Jo; Corwin, Rebecca B.

    A unit of study that introduces sorting and classification as a way of organizing data is presented. Suitable for students in grades 2 and 3, it provides a foundation for further work in statistics and data analysis. The investigations may extend from one to five class sessions and are grouped into three parts: "Introduction to Sorting"; "Sorting…

  12. Comparing Algorithms for Graph Isomorphism Using Discrete- and Continuous-Time Quantum Random Walks

    DOE PAGES

    Rudinger, Kenneth; Gamble, John King; Bach, Eric; ...

    2013-07-01

    Berry and Wang [Phys. Rev. A 83, 042317 (2011)] show numerically that a discrete-time quan- tum random walk of two noninteracting particles is able to distinguish some non-isomorphic strongly regular graphs from the same family. Here we analytically demonstrate how it is possible for these walks to distinguish such graphs, while continuous-time quantum walks of two noninteracting parti- cles cannot. We show analytically and numerically that even single-particle discrete-time quantum random walks can distinguish some strongly regular graphs, though not as many as two-particle noninteracting discrete-time walks. Additionally, we demonstrate how, given the same quantum random walk, subtle di erencesmore » in the graph certi cate construction algorithm can nontrivially im- pact the walk's distinguishing power. We also show that no continuous-time walk of a xed number of particles can distinguish all strongly regular graphs when used in conjunction with any of the graph certi cates we consider. We extend this constraint to discrete-time walks of xed numbers of noninteracting particles for one kind of graph certi cate; it remains an open question as to whether or not this constraint applies to the other graph certi cates we consider.« less

  13. Comparing Algorithms for Graph Isomorphism Using Discrete- and Continuous-Time Quantum Random Walks

    SciTech Connect

    Rudinger, Kenneth; Gamble, John King; Bach, Eric; Friesen, Mark; Joynt, Robert; Coppersmith, S. N.

    2013-07-01

    Berry and Wang [Phys. Rev. A 83, 042317 (2011)] show numerically that a discrete-time quan- tum random walk of two noninteracting particles is able to distinguish some non-isomorphic strongly regular graphs from the same family. Here we analytically demonstrate how it is possible for these walks to distinguish such graphs, while continuous-time quantum walks of two noninteracting parti- cles cannot. We show analytically and numerically that even single-particle discrete-time quantum random walks can distinguish some strongly regular graphs, though not as many as two-particle noninteracting discrete-time walks. Additionally, we demonstrate how, given the same quantum random walk, subtle di erences in the graph certi cate construction algorithm can nontrivially im- pact the walk's distinguishing power. We also show that no continuous-time walk of a xed number of particles can distinguish all strongly regular graphs when used in conjunction with any of the graph certi cates we consider. We extend this constraint to discrete-time walks of xed numbers of noninteracting particles for one kind of graph certi cate; it remains an open question as to whether or not this constraint applies to the other graph certi cates we consider.

  14. Indexing molecules with chemical graph identifiers.

    PubMed

    Gregori-Puigjané, Elisabet; Garriga-Sust, Rut; Mestres, Jordi

    2011-09-01

    Fast and robust algorithms for indexing molecules have been historically considered strategic tools for the management and storage of large chemical libraries. This work introduces a modified and further extended version of the molecular equivalence number naming adaptation of the Morgan algorithm (J Chem Inf Comput Sci 2001, 41, 181-185) for the generation of a chemical graph identifier (CGI). This new version corrects for the collisions recognized in the original adaptation and includes the ability to deal with graph canonicalization, ensembles (salts), and isomerism (tautomerism, regioisomerism, optical isomerism, and geometrical isomerism) in a flexible manner. Validation of the current CGI implementation was performed on the open NCI database and the drug-like subset of the ZINC database containing 260,071 and 5,348,089 structures, respectively. The results were compared with those obtained with some of the most widely used indexing codes, such as the CACTVS hash code and the new InChIKey. The analyses emphasize the fact that compound management activities, like duplicate analysis of chemical libraries, are sensitive to the exact definition of compound uniqueness and thus still depend, to a minor extent, on the type and flexibility of the molecular index being used.

  15. Discovering genetic ancestry using spectral graph theory.

    PubMed

    Lee, Ann B; Luca, Diana; Klei, Lambertus; Devlin, Bernie; Roeder, Kathryn

    2010-01-01

    As one approach to uncovering the genetic underpinnings of complex disease, individuals are measured at a large number of genetic variants (usually SNPs) across the genome and these SNP genotypes are assessed for association with disease status. We propose a new statistical method called Spectral-GEM for the analysis of genome-wide association studies; the goal of Spectral-GEM is to quantify the ancestry of the sample from such genotypic data. Ignoring structure due to differential ancestry can lead to an excess of spurious findings and reduce power. Ancestry is commonly estimated using the eigenvectors derived from principal component analysis (PCA). To develop an alternative to PCA we draw on connections between multidimensional scaling and spectral graph theory. Our approach, based on a spectral embedding derived from the normalized Laplacian of a graph, can produce more meaningful delineation of ancestry than by using PCA. Often the results from Spectral-GEM are straightforward to interpret and therefore useful in association analysis. We illustrate the new algorithm with an analysis of the POPRES data [Nelson et al., 2008].

  16. Graph mining for SAR transfer series.

    PubMed

    Gupta-Ostermann, Disha; Wawer, Mathias; Wassermann, Anne Mai; Bajorath, Jürgen

    2012-04-23

    The transfer of SAR information from one analog series to another is a difficult, yet highly attractive task in medicinal chemistry. At present, the evaluation of SAR transfer potential from a data mining perspective is still in its infancy. Only recently, a first computational approach has been introduced to evaluate SAR transfer events. Here, a substructure relationship-based molecular network representation has been used as a starting point to systematically identify SAR transfer series in large compound data sets. For this purpose, a methodology is introduced that consists of two stages. For graph mining, an algorithm has been designed that extracts all parallel series from compound data sets. A parallel series is formed by two series of analogs with different core structures but pairwise corresponding substitution patterns. The SAR transfer potential of identified parallel series is then evaluated using a scoring function that emphasizes corresponding potency progression over many analog pairs and large potency ranges. The substructure relationship-based molecular network in combination with the graph mining algorithm currently represents the only generally applicable approach to systematically detect SAR transfer events in large compound data sets. The combined approach has been evaluated on a large number of compound data sets and shown to systematically identify SAR transfer series.

  17. A graph edit dictionary for correcting errors in roof topology graphs reconstructed from point clouds

    NASA Astrophysics Data System (ADS)

    Xiong, B.; Oude Elberink, S.; Vosselman, G.

    2014-07-01

    In the task of 3D building model reconstruction from point clouds we face the problem of recovering a roof topology graph in the presence of noise, small roof faces and low point densities. Errors in roof topology graphs will seriously affect the final modelling results. The aim of this research is to automatically correct these errors. We define the graph correction as a graph-to-graph problem, similar to the spelling correction problem (also called the string-to-string problem). The graph correction is more complex than string correction, as the graphs are 2D while strings are only 1D. We design a strategy based on a dictionary of graph edit operations to automatically identify and correct the errors in the input graph. For each type of error the graph edit dictionary stores a representative erroneous subgraph as well as the corrected version. As an erroneous roof topology graph may contain several errors, a heuristic search is applied to find the optimum sequence of graph edits to correct the errors one by one. The graph edit dictionary can be expanded to include entries needed to cope with errors that were previously not encountered. Experiments show that the dictionary with only fifteen entries already properly corrects one quarter of erroneous graphs in about 4500 buildings, and even half of the erroneous graphs in one test area, achieving as high as a 95% acceptance rate of the reconstructed models.

  18. Dense Trivalent Graphs for Processor Interconnection,

    DTIC Science & Technology

    1981-01-01

    this paper is organized as follows: Sec- tion 2 introduces notation and defines the new family of graphs, which we call Moebius graphs. Section 3...the shuffle exchange [9].) Let Id denote the identity function on 2 The Moebius graph of order n (so named because the function f introduces a loop...We will write vk = p(v ). 3. DIAMETER OF THE MOEBIUS GRAPH In this section we will show that the diameter of the Moe- bius graph is bounded by L3/2 nj

  19. Stability Properties of Inclusive Connectivity for Graphs

    DTIC Science & Technology

    1993-12-01

    of G . Graphs illustrating the two possible relationships between the three inclusive connectivity parameters for edges are shown in Figures 2.12 and...For simplicity in this section, we will call this graph G the "internal G graph " due to its location in the figures, and the "K4 with one edge doubly...to one copy of the subdivided K4 producing the graph in Figure 5.25. 117 1(4 with one edge Internal G graph K4 with one edge Figure 5.24 The

  20. Proving relations between modular graph functions

    NASA Astrophysics Data System (ADS)

    Basu, Anirban

    2016-12-01

    We consider modular graph functions that arise in the low energy expansion of the four graviton amplitude in type II string theory. The vertices of these graphs are the positions of insertions of vertex operators on the toroidal worldsheet, while the links are the scalar Green functions connecting the vertices. Graphs with four and five links satisfy several non-trivial relations, which have been proved recently. We prove these relations by using elementary properties of Green functions and the details of the graphs. We also prove a relation between modular graph functions with six links.

  1. The Role of Graph-Theoretical Invariants in Chemistry.

    DTIC Science & Technology

    1987-03-06

    graphs) form members of the Fibonacci series while corresponding values for monocycles form members of the Lucas series. Broadly speaking, polynomial...date in terms of its number of applications is the molecular connectivity index of Randi6. The index was put forward in 1975 and was originally intended...INSTRUCTIONSI1 REPOIRT DOCUMENTATION PAGE BEOECMLEIGFR 1. REPORT 4UME ~2. GGVT ACCESSION6 NO. 3. RECIPIENT’S CATALOG NUMBER Technical Report No. 43

  2. The Effective Resistance of the -Cycle Graph with Four Nearest Neighbors

    NASA Astrophysics Data System (ADS)

    Chair, Noureddine

    2014-02-01

    The exact expression for the effective resistance between any two vertices of the -cycle graph with four nearest neighbors , is given. It turns out that this expression is written in terms of the effective resistance of the -cycle graph , the square of the Fibonacci numbers, and the bisected Fibonacci numbers. As a consequence closed form formulas for the total effective resistance, the first passage time, and the mean first passage time for the simple random walk on the the -cycle graph with four nearest neighbors are obtained. Finally, a closed form formula for the effective resistance of with all first neighbors removed is obtained.

  3. Generalized graph states based on Hadamard matrices

    SciTech Connect

    Cui, Shawn X.; Yu, Nengkun; Zeng, Bei

    2015-07-15

    Graph states are widely used in quantum information theory, including entanglement theory, quantum error correction, and one-way quantum computing. Graph states have a nice structure related to a certain graph, which is given by either a stabilizer group or an encoding circuit, both can be directly given by the graph. To generalize graph states, whose stabilizer groups are abelian subgroups of the Pauli group, one approach taken is to study non-abelian stabilizers. In this work, we propose to generalize graph states based on the encoding circuit, which is completely determined by the graph and a Hadamard matrix. We study the entanglement structures of these generalized graph states and show that they are all maximally mixed locally. We also explore the relationship between the equivalence of Hadamard matrices and local equivalence of the corresponding generalized graph states. This leads to a natural generalization of the Pauli (X, Z) pairs, which characterizes the local symmetries of these generalized graph states. Our approach is also naturally generalized to construct graph quantum codes which are beyond stabilizer codes.

  4. Constrained Graph Optimization: Interdiction and Preservation Problems

    SciTech Connect

    Schild, Aaron V

    2012-07-30

    The maximum flow, shortest path, and maximum matching problems are a set of basic graph problems that are critical in theoretical computer science and applications. Constrained graph optimization, a variation of these basic graph problems involving modification of the underlying graph, is equally important but sometimes significantly harder. In particular, one can explore these optimization problems with additional cost constraints. In the preservation case, the optimizer has a budget to preserve vertices or edges of a graph, preventing them from being deleted. The optimizer wants to find the best set of preserved edges/vertices in which the cost constraints are satisfied and the basic graph problems are optimized. For example, in shortest path preservation, the optimizer wants to find a set of edges/vertices within which the shortest path between two predetermined points is smallest. In interdiction problems, one deletes vertices or edges from the graph with a particular cost in order to impede the basic graph problems as much as possible (for example, delete edges/vertices to maximize the shortest path between two predetermined vertices). Applications of preservation problems include optimal road maintenance, power grid maintenance, and job scheduling, while interdiction problems are related to drug trafficking prevention, network stability assessment, and counterterrorism. Computational hardness results are presented, along with heuristic methods for approximating solutions to the matching interdiction problem. Also, efficient algorithms are presented for special cases of graphs, including on planar graphs. The graphs in many of the listed applications are planar, so these algorithms have important practical implications.

  5. On a programming language for graph algorithms

    NASA Technical Reports Server (NTRS)

    Rheinboldt, W. C.; Basili, V. R.; Mesztenyi, C. K.

    1971-01-01

    An algorithmic language, GRAAL, is presented for describing and implementing graph algorithms of the type primarily arising in applications. The language is based on a set algebraic model of graph theory which defines the graph structure in terms of morphisms between certain set algebraic structures over the node set and arc set. GRAAL is modular in the sense that the user specifies which of these mappings are available with any graph. This allows flexibility in the selection of the storage representation for different graph structures. In line with its set theoretic foundation, the language introduces sets as a basic data type and provides for the efficient execution of all set and graph operators. At present, GRAAL is defined as an extension of ALGOL 60 (revised) and its formal description is given as a supplement to the syntactic and semantic definition of ALGOL. Several typical graph algorithms are written in GRAAL to illustrate various features of the language and to show its applicability.

  6. Efficient Graph Sequence Mining Using Reverse Search

    NASA Astrophysics Data System (ADS)

    Inokuchi, Akihiro; Ikuta, Hiroaki; Washio, Takashi

    The mining of frequent subgraphs from labeled graph data has been studied extensively. Furthermore, much attention has recently been paid to frequent pattern mining from graph sequences. A method, called GTRACE, has been proposed to mine frequent patterns from graph sequences under the assumption that changes in graphs are gradual. Although GTRACE mines the frequent patterns efficiently, it still needs substantial computation time to mine the patterns from graph sequences containing large graphs and long sequences. In this paper, we propose a new version of GTRACE that permits efficient mining of frequent patterns based on the principle of a reverse search. The underlying concept of the reverse search is a general scheme for designing efficient algorithms for hard enumeration problems. Our performance study shows that the proposed method is efficient and scalable for mining both long and large graph sequence patterns and is several orders of magnitude faster than the original GTRACE.

  7. Fast Approximate Quadratic Programming for Graph Matching

    PubMed Central

    Vogelstein, Joshua T.; Conroy, John M.; Lyzinski, Vince; Podrazik, Louis J.; Kratzer, Steven G.; Harley, Eric T.; Fishkind, Donniell E.; Vogelstein, R. Jacob; Priebe, Carey E.

    2015-01-01

    Quadratic assignment problems arise in a wide variety of domains, spanning operations research, graph theory, computer vision, and neuroscience, to name a few. The graph matching problem is a special case of the quadratic assignment problem, and graph matching is increasingly important as graph-valued data is becoming more prominent. With the aim of efficiently and accurately matching the large graphs common in big data, we present our graph matching algorithm, the Fast Approximate Quadratic assignment algorithm. We empirically demonstrate that our algorithm is faster and achieves a lower objective value on over 80% of the QAPLIB benchmark library, compared with the previous state-of-the-art. Applying our algorithm to our motivating example, matching C. elegans connectomes (brain-graphs), we find that it efficiently achieves performance. PMID:25886624

  8. Molecular graph convolutions: moving beyond fingerprints.

    PubMed

    Kearnes, Steven; McCloskey, Kevin; Berndl, Marc; Pande, Vijay; Riley, Patrick

    2016-08-01

    Molecular "fingerprints" encoding structural information are the workhorse of cheminformatics and machine learning in drug discovery applications. However, fingerprint representations necessarily emphasize particular aspects of the molecular structure while ignoring others, rather than allowing the model to make data-driven decisions. We describe molecular graph convolutions, a machine learning architecture for learning from undirected graphs, specifically small molecules. Graph convolutions use a simple encoding of the molecular graph-atoms, bonds, distances, etc.-which allows the model to take greater advantage of information in the graph structure. Although graph convolutions do not outperform all fingerprint-based methods, they (along with other graph-based methods) represent a new paradigm in ligand-based virtual screening with exciting opportunities for future improvement.

  9. Fast approximate quadratic programming for graph matching.

    PubMed

    Vogelstein, Joshua T; Conroy, John M; Lyzinski, Vince; Podrazik, Louis J; Kratzer, Steven G; Harley, Eric T; Fishkind, Donniell E; Vogelstein, R Jacob; Priebe, Carey E

    2015-01-01

    Quadratic assignment problems arise in a wide variety of domains, spanning operations research, graph theory, computer vision, and neuroscience, to name a few. The graph matching problem is a special case of the quadratic assignment problem, and graph matching is increasingly important as graph-valued data is becoming more prominent. With the aim of efficiently and accurately matching the large graphs common in big data, we present our graph matching algorithm, the Fast Approximate Quadratic assignment algorithm. We empirically demonstrate that our algorithm is faster and achieves a lower objective value on over 80% of the QAPLIB benchmark library, compared with the previous state-of-the-art. Applying our algorithm to our motivating example, matching C. elegans connectomes (brain-graphs), we find that it efficiently achieves performance.

  10. Graph distance for complex networks

    NASA Astrophysics Data System (ADS)

    Shimada, Yutaka; Hirata, Yoshito; Ikeguchi, Tohru; Aihara, Kazuyuki

    2016-10-01

    Networks are widely used as a tool for describing diverse real complex systems and have been successfully applied to many fields. The distance between networks is one of the most fundamental concepts for properly classifying real networks, detecting temporal changes in network structures, and effectively predicting their temporal evolution. However, this distance has rarely been discussed in the theory of complex networks. Here, we propose a graph distance between networks based on a Laplacian matrix that reflects the structural and dynamical properties of networked dynamical systems. Our results indicate that the Laplacian-based graph distance effectively quantifies the structural difference between complex networks. We further show that our approach successfully elucidates the temporal properties underlying temporal networks observed in the context of face-to-face human interactions.

  11. Graph distance for complex networks

    PubMed Central

    Shimada, Yutaka; Hirata, Yoshito; Ikeguchi, Tohru; Aihara, Kazuyuki

    2016-01-01

    Networks are widely used as a tool for describing diverse real complex systems and have been successfully applied to many fields. The distance between networks is one of the most fundamental concepts for properly classifying real networks, detecting temporal changes in network structures, and effectively predicting their temporal evolution. However, this distance has rarely been discussed in the theory of complex networks. Here, we propose a graph distance between networks based on a Laplacian matrix that reflects the structural and dynamical properties of networked dynamical systems. Our results indicate that the Laplacian-based graph distance effectively quantifies the structural difference between complex networks. We further show that our approach successfully elucidates the temporal properties underlying temporal networks observed in the context of face-to-face human interactions. PMID:27725690

  12. Graph Embedded Extreme Learning Machine.

    PubMed

    Iosifidis, Alexandros; Tefas, Anastasios; Pitas, Ioannis

    2016-01-01

    In this paper, we propose a novel extension of the extreme learning machine (ELM) algorithm for single-hidden layer feedforward neural network training that is able to incorporate subspace learning (SL) criteria on the optimization process followed for the calculation of the network's output weights. The proposed graph embedded ELM (GEELM) algorithm is able to naturally exploit both intrinsic and penalty SL criteria that have been (or will be) designed under the graph embedding framework. In addition, we extend the proposed GEELM algorithm in order to be able to exploit SL criteria in arbitrary (even infinite) dimensional ELM spaces. We evaluate the proposed approach on eight standard classification problems and nine publicly available datasets designed for three problems related to human behavior analysis, i.e., the recognition of human face, facial expression, and activity. Experimental results denote the effectiveness of the proposed approach, since it outperforms other ELM-based classification schemes in all the cases.

  13. Line graphs as social networks

    NASA Astrophysics Data System (ADS)

    Krawczyk, M. J.; Muchnik, L.; Mańka-Krasoń, A.; Kułakowski, K.

    2011-07-01

    It was demonstrated recently that the line graphs are clustered and assortative. These topological features are known to characterize some social networks [M.E.J. Newman, Y. Park, Why social networks are different from other types of networks, Phys. Rev. E 68 (2003) 036122]; it was argued that this similarity reveals their cliquey character. In the model proposed here, a social network is the line graph of an initial network of families, communities, interest groups, school classes and small companies. These groups play the role of nodes, and individuals are represented by links between these nodes. The picture is supported by the data on the LiveJournal network of about 8×10 6 people.

  14. Many-core graph analytics using accelerated sparse linear algebra routines

    NASA Astrophysics Data System (ADS)

    Kozacik, Stephen; Paolini, Aaron L.; Fox, Paul; Kelmelis, Eric

    2016-05-01

    Graph analytics is a key component in identifying emerging trends and threats in many real-world applications. Largescale graph analytics frameworks provide a convenient and highly-scalable platform for developing algorithms to analyze large datasets. Although conceptually scalable, these techniques exhibit poor performance on modern computational hardware. Another model of graph computation has emerged that promises improved performance and scalability by using abstract linear algebra operations as the basis for graph analysis as laid out by the GraphBLAS standard. By using sparse linear algebra as the basis, existing highly efficient algorithms can be adapted to perform computations on the graph. This approach, however, is often less intuitive to graph analytics experts, who are accustomed to vertex-centric APIs such as Giraph, GraphX, and Tinkerpop. We are developing an implementation of the high-level operations supported by these APIs in terms of linear algebra operations. This implementation is be backed by many-core implementations of the fundamental GraphBLAS operations required, and offers the advantages of both the intuitive programming model of a vertex-centric API and the performance of a sparse linear algebra implementation. This technology can reduce the number of nodes required, as well as the run-time for a graph analysis problem, enabling customers to perform more complex analysis with less hardware at lower cost. All of this can be accomplished without the requirement for the customer to make any changes to their analytics code, thanks to the compatibility with existing graph APIs.

  15. Scale-free Graphs for General Aviation Flight Schedules

    NASA Technical Reports Server (NTRS)

    Alexandov, Natalia M. (Technical Monitor); Kincaid, Rex K.

    2003-01-01

    In the late 1990s a number of researchers noticed that networks in biology, sociology, and telecommunications exhibited similar characteristics unlike standard random networks. In particular, they found that the cummulative degree distributions of these graphs followed a power law rather than a binomial distribution and that their clustering coefficients tended to a nonzero constant as the number of nodes, n, became large rather than O(1/n). Moreover, these networks shared an important property with traditional random graphs as n becomes large the average shortest path length scales with log n. This latter property has been coined the small-world property. When taken together these three properties small-world, power law, and constant clustering coefficient describe what are now most commonly referred to as scale-free networks. Since 1997 at least six books and over 400 articles have been written about scale-free networks. In this manuscript an overview of the salient characteristics of scale-free networks. Computational experience will be provided for two mechanisms that grow (dynamic) scale-free graphs. Additional computational experience will be given for constructing (static) scale-free graphs via a tabu search optimization approach. Finally, a discussion of potential applications to general aviation networks is given.

  16. A Weakly Robust PTAS for Minimum Clique Partition in Unit Disk Graphs

    NASA Astrophysics Data System (ADS)

    Pirwani, Imran A.; Salavatipour, Mohammad R.

    We consider the problem of partitioning the set of vertices of a given unit disk graph (UDG) into a minimum number of cliques. The problem is NP-hard and various constant factor approximations are known, with the best known ratio of 3. Our main result is a weakly robust polynomial time approximation scheme (PTAS) for UDGs expressed with edge-lengths and ɛ> 0 that either (i) computes a clique partition, or (ii) produces a certificate proving that the graph is not a UDG; if the graph is a UDG, then our partition is guaranteed to be within (1 + ɛ) ratio of the optimum; however, if the graph is not a UDG, it either computes a clique partition, or detects that the graph is not a UDG. Noting that recognition of UDG's is NP-hard even with edge lengths, this is a significant weakening of the input model.

  17. Fast Dynamic Meshing Method Based on Delaunay Graph and Inverse Distance Weighting Interpolation

    NASA Astrophysics Data System (ADS)

    Wang, Yibin; Qin, Ning; Zhao, Ning

    2016-06-01

    A novel mesh deformation technique is developed based on the Delaunay graph mapping method and the inverse distance weighting (IDW) interpolation. The algorithm maintains the advantages of the efficiency of Delaunay-graph-mapping mesh deformation while possess the ability for better controlling the near surface mesh quality. The Delaunay graph is used to divide the mesh domain into a number of sub-domains. On each of the sub-domains, the inverse distance weighting interpolation is applied to build a much smaller sized translation matrix between the original mesh and the deformed mesh, resulting a similar efficiency for the mesh deformation as compared to the fast Delaunay graph mapping method. The paper will show how the near-wall mesh quality is controlled and improved by the new method while the computational time is compared with the original Delaunay graph mapping method.

  18. Relativity on Rotated Graph Paper

    NASA Astrophysics Data System (ADS)

    Salgado, Roberto

    2011-11-01

    We present visual calculations in special relativity using spacetime diagrams drawn on graph paper that has been rotated by 45 degrees. The rotated lines represent lightlike directions in Minkowski spacetime, and the boxes in the grid (called light-clock diamonds) represent ticks of an inertial observer's lightclock. We show that many quantitative results can be read off a spacetime diagram by counting boxes, using a minimal amount of algebra.

  19. Dynamic molecular graphs: "hopping" structures.

    PubMed

    Cortés-Guzmán, Fernando; Rocha-Rinza, Tomas; Guevara-Vela, José Manuel; Cuevas, Gabriel; Gómez, Rosa María

    2014-05-05

    This work aims to contribute to the discussion about the suitability of bond paths and bond-critical points as indicators of chemical bonding defined within the theoretical framework of the quantum theory of atoms in molecules. For this purpose, we consider the temporal evolution of the molecular structure of [Fe{C(CH2 )3 }(CO)3 ] throughout Born-Oppenheimer molecular dynamics (BOMD), which illustrates the changing behaviour of the molecular graph (MG) of an electronic system. Several MGs with significant lifespans are observed across the BOMD simulations. The bond paths between the trimethylenemethane and the metallic core are uninterruptedly formed and broken. This situation is reminiscent of a "hopping" ligand over the iron atom. The molecular graph wherein the bonding between trimethylenemethane and the iron atom takes place only by means of the tertiary carbon atom has the longest lifespan of all the considered structures, which is consistent with the MG found by X-ray diffraction experiments and quantum chemical calculations. In contrast, the η(4) complex predicted by molecular-orbital theory has an extremely brief lifetime. The lifespan of different molecular structures is related to bond descriptors on the basis of the topology of the electron density such as the ellipticities at the FeCH2 bond-critical points and electron delocalisation indices. This work also proposes the concept of a dynamic molecular graph composed of the different structures found throughout the BOMD trajectories in analogy to a resonance hybrid of Lewis structures. It is our hope that the notion of dynamic molecular graphs will prove useful in the discussion of electronic systems, in particular for those in which analysis on the basis of static structures leads to controversial conclusions.

  20. Metabolic networks: beyond the graph.

    PubMed

    Bernal, Andrés; Daza, Edgar

    2011-06-01

    Drugs are devised to enter into the metabolism of an organism in order to produce a desired effect. From the chemical point of view, cellular metabolism is constituted by a complex network of reactions transforming metabolites one in each other. Knowledge on the structure of this network could help to develop novel methods for drug design, and to comprehend the root of known unexpected side effects. Many large-scale studies on the structure of metabolic networks have been developed following models based on different kinds of graphs as the fundamental image of the reaction network. Graphs models, however, comport wrong assumptions regarding the structure of reaction networks that may lead into wrong conclusions if they are not taken into account. In this article we critically review some graph-theoretical approaches to the analysis of centrality, vulnerability and modularity of metabolic networks, analyzing their limitations in estimating these key network properties, consider some proposals explicit or implicitly based on directed hypergraphs regarding their ability to overcome these issues, and review some recent implementation improvements that make the application of these models in increasingly large networks a viable option.

  1. What is the difference between the breakpoint graph and the de Bruijn graph?

    PubMed

    Lin, Yu; Nurk, Sergey; Pevzner, Pavel A

    2014-01-01

    The breakpoint graph and the de Bruijn graph are two key data structures in the studies of genome rearrangements and genome assembly. However, the classical breakpoint graphs are defined on two genomes (represented as sequences of synteny blocks), while the classical de Bruijn graphs are defined on a single genome (represented as DNA strings). Thus, the connection between these two graph models is not explicit. We generalize the notions of both the breakpoint graph and the de Bruijn graph, and make it transparent that the breakpoint graph and the de Bruijn graph are mathematically equivalent. The explicit description of the connection between these important data structures provides a bridge between two previously separated bioinformatics communities studying genome rearrangements and genome assembly.

  2. Helping Students Make Sense of Graphs: An Experimental Trial of SmartGraphs Software

    NASA Astrophysics Data System (ADS)

    Zucker, Andrew; Kay, Rachel; Staudt, Carolyn

    2014-06-01

    Graphs are commonly used in science, mathematics, and social sciences to convey important concepts; yet students at all ages demonstrate difficulties interpreting graphs. This paper reports on an experimental study of free, Web-based software called SmartGraphs that is specifically designed to help students overcome their misconceptions regarding graphs. SmartGraphs allows students to interact with graphs and provides hints and scaffolding to help students, if they need help. SmartGraphs activities can be authored to be useful in teaching and learning a variety of topics that use graphs (such as slope, velocity, half-life, and global warming). A 2-year experimental study in physical science classrooms was conducted with dozens of teachers and thousands of students. In the first year, teachers were randomly assigned to experimental or control conditions. Data show that students of teachers who use SmartGraphs as a supplement to normal instruction make greater gains understanding graphs than control students studying the same content using the same textbooks, but without SmartGraphs. Additionally, teachers believe that the SmartGraphs activities help students meet learning goals in the physical science course, and a great majority reported they would use the activities with students again. In the second year of the study, several specific variations of SmartGraphs were researched to help determine what makes SmartGraphs effective.

  3. Massive Scale Cyber Traffic Analysis: A Driver for Graph Database Research

    SciTech Connect

    Joslyn, Cliff A.; Choudhury, S.; Haglin, David J.; Howe, Bill; Nickless, William K.; Olsen, Bryan K.

    2013-06-19

    We describe the significance and prominence of network traffic analysis (TA) as a graph- and network-theoretical domain for advancing research in graph database systems. TA involves observing and analyzing the connections between clients, servers, hosts, and actors within IP networks, both at particular times and as extended over times. Towards that end, NetFlow (or more generically, IPFLOW) data are available from routers and servers which summarize coherent groups of IP packets flowing through the network. IPFLOW databases are routinely interrogated statistically and visualized for suspicious patterns. But the ability to cast IPFLOW data as a massive graph and query it interactively, in order to e.g.\\ identify connectivity patterns, is less well advanced, due to a number of factors including scaling, and their hybrid nature combining graph connectivity and quantitative attributes. In this paper, we outline requirements and opportunities for graph-structured IPFLOW analytics based on our experience with real IPFLOW databases. Specifically, we describe real use cases from the security domain, cast them as graph patterns, show how to express them in two graph-oriented query languages SPARQL and Datalog, and use these examples to motivate a new class of "hybrid" graph-relational systems.

  4. Fragmentation properties of two-dimensional proximity graphs considering random failures and targeted attacks

    NASA Astrophysics Data System (ADS)

    Norrenbrock, C.; Melchert, O.; Hartmann, A. K.

    2016-12-01

    The pivotal quality of proximity graphs is connectivity, i.e., all nodes in the graph are connected to one another either directly or via intermediate nodes. These types of graphs are often robust, i.e., they are able to function well even if they are subject to limited removal of elementary building blocks, as may occur for random failures or targeted attacks. Here, we study how the structure of these graphs is affected when nodes get removed successively until an extensive fraction is removed such that the graphs fragment. We study different types of proximity graphs for various node-removal strategies. We use different types of observables to monitor the fragmentation process, simple ones like the number and sizes of connected components and more complex ones like the hop diameter and the backup capacity, which is needed to make a network N -1 resilient. The actual fragmentation turns out to be described by a second-order phase transition. Using finite-size scaling analyses we numerically assess the threshold fraction of removed nodes, which is characteristic for the particular graph type and node deletion scheme; this suffices to decompose the underlying graphs.

  5. Computing Information Value from RDF Graph Properties

    SciTech Connect

    al-Saffar, Sinan; Heileman, Gregory

    2010-11-08

    Information value has been implicitly utilized and mostly non-subjectively computed in information retrieval (IR) systems. We explicitly define and compute the value of an information piece as a function of two parameters, the first is the potential semantic impact the target information can subjectively have on its recipient's world-knowledge, and the second parameter is trust in the information source. We model these two parameters as properties of RDF graphs. Two graphs are constructed, a target graph representing the semantics of the target body of information and a context graph representing the context of the consumer of that information. We compute information value subjectively as a function of both potential change to the context graph (impact) and the overlap between the two graphs (trust). Graph change is computed as a graph edit distance measuring the dissimilarity between the context graph before and after the learning of the target graph. A particular application of this subjective information valuation is in the construction of a personalized ranking component in Web search engines. Based on our method, we construct a Web re-ranking system that personalizes the information experience for the information-consumer.

  6. JavaGenes: Evolving Graphs with Crossover

    NASA Technical Reports Server (NTRS)

    Globus, Al; Atsatt, Sean; Lawton, John; Wipke, Todd

    2000-01-01

    Genetic algorithms usually use string or tree representations. We have developed a novel crossover operator for a directed and undirected graph representation, and used this operator to evolve molecules and circuits. Unlike strings or trees, a single point in the representation cannot divide every possible graph into two parts, because graphs may contain cycles. Thus, the crossover operator is non-trivial. A steady-state, tournament selection genetic algorithm code (JavaGenes) was written to implement and test the graph crossover operator. All runs were executed by cycle-scavagging on networked workstations using the Condor batch processing system. The JavaGenes code has evolved pharmaceutical drug molecules and simple digital circuits. Results to date suggest that JavaGenes can evolve moderate sized drug molecules and very small circuits in reasonable time. The algorithm has greater difficulty with somewhat larger circuits, suggesting that directed graphs (circuits) are more difficult to evolve than undirected graphs (molecules), although necessary differences in the crossover operator may also explain the results. In principle, JavaGenes should be able to evolve other graph-representable systems, such as transportation networks, metabolic pathways, and computer networks. However, large graphs evolve significantly slower than smaller graphs, presumably because the space-of-all-graphs explodes combinatorially with graph size. Since the representation strongly affects genetic algorithm performance, adding graphs to the evolutionary programmer's bag-of-tricks should be beneficial. Also, since graph evolution operates directly on the phenotype, the genotype-phenotype translation step, common in genetic algorithm work, is eliminated.

  7. API Requirements for Dynamic Graph Prediction

    SciTech Connect

    Gallagher, B; Eliassi-Rad, T

    2006-10-13

    Given a large-scale time-evolving multi-modal and multi-relational complex network (a.k.a., a large-scale dynamic semantic graph), we want to implement algorithms that discover patterns of activities on the graph and learn predictive models of those discovered patterns. This document outlines the application programming interface (API) requirements for fast prototyping of feature extraction, learning, and prediction algorithms on large dynamic semantic graphs. Since our algorithms must operate on large-scale dynamic semantic graphs, we have chosen to use the graph API developed in the CASC Complex Networks Project. This API is supported on the back end by a semantic graph database (developed by Scott Kohn and his team). The advantages of using this API are (i) we have full-control of its development and (ii) the current API meets almost all of the requirements outlined in this document.

  8. Molecular graph convolutions: moving beyond fingerprints

    NASA Astrophysics Data System (ADS)

    Kearnes, Steven; McCloskey, Kevin; Berndl, Marc; Pande, Vijay; Riley, Patrick

    2016-08-01

    Molecular "fingerprints" encoding structural information are the workhorse of cheminformatics and machine learning in drug discovery applications. However, fingerprint representations necessarily emphasize particular aspects of the molecular structure while ignoring others, rather than allowing the model to make data-driven decisions. We describe molecular graph convolutions, a machine learning architecture for learning from undirected graphs, specifically small molecules. Graph convolutions use a simple encoding of the molecular graph—atoms, bonds, distances, etc.—which allows the model to take greater advantage of information in the graph structure. Although graph convolutions do not outperform all fingerprint-based methods, they (along with other graph-based methods) represent a new paradigm in ligand-based virtual screening with exciting opportunities for future improvement.

  9. Replica methods for loopy sparse random graphs

    NASA Astrophysics Data System (ADS)

    Coolen, ACC

    2016-03-01

    I report on the development of a novel statistical mechanical formalism for the analysis of random graphs with many short loops, and processes on such graphs. The graphs are defined via maximum entropy ensembles, in which both the degrees (via hard constraints) and the adjacency matrix spectrum (via a soft constraint) are prescribed. The sum over graphs can be done analytically, using a replica formalism with complex replica dimensions. All known results for tree-like graphs are recovered in a suitable limit. For loopy graphs, the emerging theory has an appealing and intuitive structure, suggests how message passing algorithms should be adapted, and what is the structure of theories describing spin systems on loopy architectures. However, the formalism is still largely untested, and may require further adjustment and refinement. This paper is dedicated to the memory of our colleague and friend Jun-Ichi Inoue, with whom the author has had the great pleasure and privilege of collaborating.

  10. Fast Apriori-based Graph Mining Algorithm and application to 3-dimensional Structure Analysis

    NASA Astrophysics Data System (ADS)

    Nishimura, Yoshio; Washio, Takashi; Yoshida, Tetsuya; Motoda, Hiroshi; Inokuchi, Akihiro; Okada, Takashi

    Apriori-based Graph Mining (AGM) algorithm efficiently extracts all the subgraph patterns which frequently appear in graph structured data. The algorithm can deal with general graph structured data with multiple labels of vartices and edges, and is capable of analyzing the topological structure of graphs. In this paper, we propose a new method to analyze graph structured data for a 3-dimensional coordinate by AGM. In this method the distance between each vertex of a graph is calculated and added to the edge label so that AGM can handle 3-dimensional graph structured data. One problem in our approach is that the number of edge labels increases, which results in the increase of computational time to extract subgraph patterns. To alleviate this problem, we also propose a faster algorithm of AGM by adding an extra constraint to reduce the number of generated candidates for seeking frequent subgraphs. Chemical compounds with dopamine antagonist in MDDR database were analyzed by AGM to characterize their 3-dimensional chemical structure and correlation with physiological activity.

  11. Refactorable Numbers - A Machine Invention

    NASA Astrophysics Data System (ADS)

    Colton, Simon

    1999-02-01

    The HR (or Hardy-Ramanujan) program invents and analyses definitions in areas of pure mathematics, including finite algebras, graph theory and number theory. While working in number theory, HR recently invented a new integer sequence, the refactorable numbers, which are defined and developed here. A discussion of how HR works, along with details of well known sequences reinvented by HR and other new sequences invented by HR is also given.

  12. Graph run-length matrices for histopathological image segmentation.

    PubMed

    Tosun, Akif Burak; Gunduz-Demir, Cigdem

    2011-03-01

    The histopathological examination of tissue specimens is essential for cancer diagnosis and grading. However, this examination is subject to a considerable amount of observer variability as it mainly relies on visual interpretation of pathologists. To alleviate this problem, it is very important to develop computational quantitative tools, for which image segmentation constitutes the core step. In this paper, we introduce an effective and robust algorithm for the segmentation of histopathological tissue images. This algorithm incorporates the background knowledge of the tissue organization into segmentation. For this purpose, it quantifies spatial relations of cytological tissue components by constructing a graph and uses this graph to define new texture features for image segmentation. This new texture definition makes use of the idea of gray-level run-length matrices. However, it considers the runs of cytological components on a graph to form a matrix, instead of considering the runs of pixel intensities. Working with colon tissue images, our experiments demonstrate that the texture features extracted from "graph run-length matrices" lead to high segmentation accuracies, also providing a reasonable number of segmented regions. Compared with four other segmentation algorithms, the results show that the proposed algorithm is more effective in histopathological image segmentation.

  13. AmbiguityVis: Visualization of Ambiguity in Graph Layouts.

    PubMed

    Wang, Yong; Shen, Qiaomu; Archambault, Daniel; Zhou, Zhiguang; Zhu, Min; Yang, Sixiao; Qu, Huamin

    2016-01-01

    Node-link diagrams provide an intuitive way to explore networks and have inspired a large number of automated graph layout strategies that optimize aesthetic criteria. However, any particular drawing approach cannot fully satisfy all these criteria simultaneously, producing drawings with visual ambiguities that can impede the understanding of network structure. To bring attention to these potentially problematic areas present in the drawing, this paper presents a technique that highlights common types of visual ambiguities: ambiguous spatial relationships between nodes and edges, visual overlap between community structures, and ambiguity in edge bundling and metanodes. Metrics, including newly proposed metrics for abnormal edge lengths, visual overlap in community structures and node/edge aggregation, are proposed to quantify areas of ambiguity in the drawing. These metrics and others are then displayed using a heatmap-based visualization that provides visual feedback to developers of graph drawing and visualization approaches, allowing them to quickly identify misleading areas. The novel metrics and the heatmap-based visualization allow a user to explore ambiguities in graph layouts from multiple perspectives in order to make reasonable graph layout choices. The effectiveness of the technique is demonstrated through case studies and expert reviews.

  14. Experimental quantum annealing: case study involving the graph isomorphism problem

    PubMed Central

    Zick, Kenneth M.; Shehab, Omar; French, Matthew

    2015-01-01

    Quantum annealing is a proposed combinatorial optimization technique meant to exploit quantum mechanical effects such as tunneling and entanglement. Real-world quantum annealing-based solvers require a combination of annealing and classical pre- and post-processing; at this early stage, little is known about how to partition and optimize the processing. This article presents an experimental case study of quantum annealing and some of the factors involved in real-world solvers, using a 504-qubit D-Wave Two machine and the graph isomorphism problem. To illustrate the role of classical pre-processing, a compact Hamiltonian is presented that enables a reduced Ising model for each problem instance. On random N-vertex graphs, the median number of variables is reduced from N2 to fewer than N log2 N and solvable graph sizes increase from N = 5 to N = 13. Additionally, error correction via classical post-processing majority voting is evaluated. While the solution times are not competitive with classical approaches to graph isomorphism, the enhanced solver ultimately classified correctly every problem that was mapped to the processor and demonstrated clear advantages over the baseline approach. The results shed some light on the nature of real-world quantum annealing and the associated hybrid classical-quantum solvers. PMID:26053973

  15. Robust Classification of Information Networks by Consistent Graph Learning.

    PubMed

    Zhi, Shi; Han, Jiawei; Gu, Quanquan

    2015-09-01

    Graph regularization-based methods have achieved great success for network classification by making the label-link consistency assumption, i.e., if two nodes are linked together, they are likely to belong to the same class. However, in a real-world network, there exist links that connect nodes of different classes. These inconsistent links raise a big challenge for graph regularization and deteriorate the classification performance significantly. To address this problem, we propose a novel algorithm, namely Consistent Graph Learning, which is robust to the inconsistent links of a network. In particular, given a network and a small number of labeled nodes, we aim at learning a consistent network with more consistent and fewer inconsistent links than the original network. Since the link information of a network is naturally represented by a set of relation matrices, the learning of a consistent network is reduced to learning consistent relation matrices under some constraints. More specifically, we achieve it by joint graph regularization on the nuclear norm minimization of consistent relation matrices together with ℓ1-norm minimization on the difference matrices between the original relation matrices and the learned consistent ones subject to certain constraints. Experiments on both homogeneous and heterogeneous network datasets show that the proposed method outperforms the state-of-the-art methods.

  16. Spectral correlations of individual quantum graphs

    SciTech Connect

    Gnutzmann, Sven; Altland, Alexander

    2005-11-01

    We investigate the spectral properties of chaotic quantum graphs. We demonstrate that the energy-average over the spectrum of individual graphs can be traded for the functional average over a supersymmetric nonlinear {sigma}-model action. This proves that spectral correlations of individual quantum graphs behave according to the predictions of Wigner-Dyson random matrix theory. We explore the stability of the universal random matrix behavior with regard to perturbations, and discuss the crossover between different types of symmetries.

  17. Stationary waves on nonlinear quantum graphs. II. Application of canonical perturbation theory in basic graph structures.

    PubMed

    Gnutzmann, Sven; Waltner, Daniel

    2016-12-01

    We consider exact and asymptotic solutions of the stationary cubic nonlinear Schrödinger equation on metric graphs. We focus on some basic example graphs. The asymptotic solutions are obtained using the canonical perturbation formalism developed in our earlier paper [S. Gnutzmann and D. Waltner, Phys. Rev. E 93, 032204 (2016)2470-004510.1103/PhysRevE.93.032204]. For closed example graphs (interval, ring, star graph, tadpole graph), we calculate spectral curves and show how the description of spectra reduces to known characteristic functions of linear quantum graphs in the low-intensity limit. Analogously for open examples, we show how nonlinear scattering of stationary waves arises and how it reduces to known linear scattering amplitudes at low intensities. In the short-wavelength asymptotics we discuss how genuine nonlinear effects may be described using the leading order of canonical perturbation theory: bifurcation of spectral curves (and the corresponding solutions) in closed graphs and multistability in open graphs.

  18. Stationary waves on nonlinear quantum graphs. II. Application of canonical perturbation theory in basic graph structures

    NASA Astrophysics Data System (ADS)

    Gnutzmann, Sven; Waltner, Daniel

    2016-12-01

    We consider exact and asymptotic solutions of the stationary cubic nonlinear Schrödinger equation on metric graphs. We focus on some basic example graphs. The asymptotic solutions are obtained using the canonical perturbation formalism developed in our earlier paper [S. Gnutzmann and D. Waltner, Phys. Rev. E 93, 032204 (2016), 10.1103/PhysRevE.93.032204]. For closed example graphs (interval, ring, star graph, tadpole graph), we calculate spectral curves and show how the description of spectra reduces to known characteristic functions of linear quantum graphs in the low-intensity limit. Analogously for open examples, we show how nonlinear scattering of stationary waves arises and how it reduces to known linear scattering amplitudes at low intensities. In the short-wavelength asymptotics we discuss how genuine nonlinear effects may be described using the leading order of canonical perturbation theory: bifurcation of spectral curves (and the corresponding solutions) in closed graphs and multistability in open graphs.

  19. Methodologies and Metrics for Assessing the Strength of Relationships between Entities within Semantic Graphs

    SciTech Connect

    Hickling, T L; Hanley, W G

    2005-09-29

    Semantic graphs are becoming a valuable tool for organizing and discovering information in an increasingly complex analysis environment. This paper investigates the use of graph topology to measure the strength of relationships in a semantic graph. These relationships are comprised of some number of distinct paths, whose length and configuration jointly characterize the strength of association. We explore these characteristics through the use of three distinct algorithms respectively based upon an electrical conductance model, Newman and Girvan's measure of betweenness [5], and cutsets. Algorithmic performance is assessed based upon a collection of partially ordered subgraphs which were constructed according to our subjective beliefs regarding strength of association.

  20. Synchronization Patterns and Related Problems in Combinatorial Analysis and Graph Theory

    DTIC Science & Technology

    1981-06-01

    APPENDIX 86 REFERENCES 90 Li ~1 ivF LIST OF FIGURES Figure Page 1-1 The Leech Tree 6 2-1 The Graph L and the Graph R 9 2-2 The Dodecahedron and Two...forest F with 4 nodes, but in this case Ithe direct count to find the number takes more work. D Figure 2-2. The Dodecahedron and Two Copies of the...with n - 2m nodes, girth > 4, and d - 3, then G m - 2 Om-4) T -(Zm 3 24m + 100m 147). The dodecahedron , D, and one graph, P, consisting of two copies

  1. Multiparticle entanglement in graph-diagonal states: Necessary and sufficient conditions for four qubits

    SciTech Connect

    Guehne, Otfried; Jungnitsch, Bastian; Moroder, Tobias; Weinstein, Yaakov S.

    2011-11-15

    The characterization of genuine multiparticle entanglement is important for entanglement theory as well as experimental studies related to quantum-information theory. Here, we completely characterize genuine multiparticle entanglement for four-qubit states diagonal in the cluster-state basis. In addition, we give a complete characterization of multiparticle entanglement for all five-qubit graph states mixed with white noise, for states diagonal in the basis corresponding to the five-qubit Y-shaped graph, and for a family of graph states with an arbitrary number of qubits.

  2. The alignment-distribution graph

    NASA Technical Reports Server (NTRS)

    Chatterjee, Siddhartha; Gilbert, John R.; Schreiber, Robert

    1993-01-01

    Implementing a data-parallel language such as Fortran 90 on a distributed-memory parallel computer requires distributing aggregate data objects (such as arrays) among the memory modules attached to the processors. The mapping of objects to the machine determines the amount of residual communication needed to bring operands of parallel operations into alignment with each other. We present a program representation called the alignment-distribution graph that makes these communication requirements explicit. We describe the details of the representation, show how to model communication cost in this framework, and outline several algorithms for determining object mappings that approximately minimize residual communication.

  3. The alignment-distribution graph

    NASA Technical Reports Server (NTRS)

    Chatterjee, Siddhartha; Gilbert, John R.; Schreiber, Robert

    1993-01-01

    Implementing a data-parallel language such as Fortran 90 on a distributed-memory parallel computer requires distributing aggregate data objects (such as arrays) among the memory modules attached to the processors. The mapping of objects to the machine determines the amount of residual communication needed to bring operands of parallel operations into alignment with each other. We present a program representation called the alignment distribution graph that makes these communication requirements explicit. We describe the details of the representation, show how to model communication cost in this framework, and outline several algorithms for determining object mappings that approximately minimize residual communication.

  4. Naming on a Directed Graph

    NASA Astrophysics Data System (ADS)

    Gosti, Giorgio; Batchelder, William H.

    We address how the structure of a social communication system affects language coordination. The naming game is an abstraction of lexical acquisition dynamics, in which N agents try to find an agreement on the names to give to objects. Most results on naming games are specific to certain communication network topologies. We present two important results that are general to any graph topology: the first proves that under certain topologies the system always converges to a name-object agreement; the second proves that if these conditions are not met the system may end up in a state in which sub-networks with different competing object-name associations coexist.

  5. Simple scale interpolator facilitates reading of graphs

    NASA Technical Reports Server (NTRS)

    Fetterman, D. E., Jr.

    1965-01-01

    Simple transparent overlay with interpolation scale facilitates accurate, rapid reading of graph coordinate points. This device can be used for enlarging drawings and locating points on perspective drawings.

  6. Evolutionary Games of Multiplayer Cooperation on Graphs

    PubMed Central

    Arranz, Jordi; Traulsen, Arne

    2016-01-01

    There has been much interest in studying evolutionary games in structured populations, often modeled as graphs. However, most analytical results so far have only been obtained for two-player or linear games, while the study of more complex multiplayer games has been usually tackled by computer simulations. Here we investigate evolutionary multiplayer games on graphs updated with a Moran death-Birth process. For cycles, we obtain an exact analytical condition for cooperation to be favored by natural selection, given in terms of the payoffs of the game and a set of structure coefficients. For regular graphs of degree three and larger, we estimate this condition using a combination of pair approximation and diffusion approximation. For a large class of cooperation games, our approximations suggest that graph-structured populations are stronger promoters of cooperation than populations lacking spatial structure. Computer simulations validate our analytical approximations for random regular graphs and cycles, but show systematic differences for graphs with many loops such as lattices. In particular, our simulation results show that these kinds of graphs can even lead to more stringent conditions for the evolution of cooperation than well-mixed populations. Overall, we provide evidence suggesting that the complexity arising from many-player interactions and spatial structure can be captured by pair approximation in the case of random graphs, but that it need to be handled with care for graphs with high clustering. PMID:27513946

  7. Graph algorithms in the titan toolkit.

    SciTech Connect

    McLendon, William Clarence, III; Wylie, Brian Neil

    2009-10-01

    Graph algorithms are a key component in a wide variety of intelligence analysis activities. The Graph-Based Informatics for Non-Proliferation and Counter-Terrorism project addresses the critical need of making these graph algorithms accessible to Sandia analysts in a manner that is both intuitive and effective. Specifically we describe the design and implementation of an open source toolkit for doing graph analysis, informatics, and visualization that provides Sandia with novel analysis capability for non-proliferation and counter-terrorism.

  8. Some Recent Results on Graph Matching,

    DTIC Science & Technology

    1987-06-01

    extendable graphs In Section 2 of this paper we saw how the brick decomposition procedure can be carried out on an arbitrary 1-extendable graph and that...in fact, the procedure is "canonical" in the sense that the final list of bricks so obtained is an invariant of the graph. Furthermore, we saw how...JACKSON, P. KATERINIS and A. SAITO, Toughness and the existence of k-factors, J. Graph Theory 9, 1985, 87-95. [G1] T. GALLAI, Kritische Graphen II

  9. Bandlimited graph signal reconstruction by diffusion operator

    NASA Astrophysics Data System (ADS)

    Yang, Lishan; You, Kangyong; Guo, Wenbin

    2016-12-01

    Signal processing on graphs extends signal processing concepts and methodologies from the classical signal processing theory to data indexed by general graphs. For a bandlimited graph signal, the unknown data associated with unsampled vertices can be reconstructed from the sampled data by exploiting the spatial relationship of graph signal. In this paper, we propose a generalized analytical framework of unsampled graph signal and introduce a concept of diffusion operator which consists of local-mean and global-bias diffusion operator. Then, a diffusion operator-based iterative algorithm is proposed to reconstruct bandlimited graph signal from sampled data. In each iteration, the reconstructed residuals associated with the sampled vertices are diffused to all the unsampled vertices for accelerating the convergence. We then prove that the proposed reconstruction strategy converges to the original graph signal. The simulation results demonstrate the effectiveness of the proposed reconstruction strategy with various downsampling patterns, fluctuation of graph cut-off frequency, robustness on the classic graph structures, and noisy scenarios.

  10. Generation of graph-state streams

    SciTech Connect

    Ballester, Daniel; Cho, Jaeyoon; Kim, M. S.

    2011-01-15

    We propose a protocol to generate a stream of mobile qubits in a graph state through a single stationary parent qubit and discuss two types of its physical implementation, namely, the generation of photonic graph states through an atomlike qubit and the generation of flying atoms through a cavity-mode photonic qubit. The generated graph states fall into an important class that can hugely reduce the resource requirement of fault-tolerant linear optics quantum computation, which was previously known to be far from realistic. In regard to the flying atoms, we also propose a heralded generation scheme, which allows for high-fidelity graph states even under the photon loss.

  11. Solar System Number-Crunching.

    ERIC Educational Resources Information Center

    Albrecht, Bob; Firedrake, George

    1997-01-01

    Defines terrestrial and Jovian planets and provides directions to obtain planetary data from the National Space Science Data Center Web sites. Provides "number-crunching" activities for the terrestrial planets using Texas Instruments TI-83 graphing calculators: computing volumetric mean radius and volume, density, ellipticity, speed,…

  12. Acyclic and star colorings of joins of graphs and an algorithm for cographs.

    SciTech Connect

    Lyons, A.; Mathematics and Computer Science; Univ. of Chicago

    2009-01-01

    An acyclic coloring of a graph is a proper vertex coloring such that the subgraph induced by the union of any two color classes is a disjoint collection of trees. The more restricted notion of star coloring requires that the union of any two color classes induces a disjoint collection of stars. The acyclic and star chromatic numbers of a graph G are defined analogously to the chromatic number {chi}(G) and are denoted by {chi}{sub a}(G) and {chi}{sub s}(G), respectively. In this paper, we consider acyclic and star colorings of graphs that are decomposable with respect to the join operation, which builds a new graph from a collection of two or more disjoint graphs by adding all possible edges between them. In particular, we present a recursive formula for the acyclic chromatic number of joins of graphs and show that a similar formula holds for the star chromatic number. We also demonstrate the algorithmic implications of our results for the cographs, which have the unique property that they are recursively decomposable with respect to the join and disjoint union operations.

  13. Graph states of prime-power dimension from generalized CNOT quantum circuit

    PubMed Central

    Chen, Lin; Zhou, D. L.

    2016-01-01

    We construct multipartite graph states whose dimension is the power of a prime number. This is realized by the finite field, as well as the generalized controlled-NOT quantum circuit acting on two qudits. We propose the standard form of graph states up to local unitary transformations and particle permutations. The form greatly simplifies the classification of graph states as we illustrate up to five qudits. We also show that some graph states are multipartite maximally entangled states in the sense that any bipartition of the system produces a bipartite maximally entangled state. We further prove that 4-partite maximally entangled states exist when the dimension is an odd number at least three or a multiple of four. PMID:27272401

  14. Graph states of prime-power dimension from generalized CNOT quantum circuit.

    PubMed

    Chen, Lin; Zhou, D L

    2016-06-07

    We construct multipartite graph states whose dimension is the power of a prime number. This is realized by the finite field, as well as the generalized controlled-NOT quantum circuit acting on two qudits. We propose the standard form of graph states up to local unitary transformations and particle permutations. The form greatly simplifies the classification of graph states as we illustrate up to five qudits. We also show that some graph states are multipartite maximally entangled states in the sense that any bipartition of the system produces a bipartite maximally entangled state. We further prove that 4-partite maximally entangled states exist when the dimension is an odd number at least three or a multiple of four.

  15. Graph Estimation From Multi-Attribute Data

    PubMed Central

    Kolar, Mladen; Liu, Han; Xing, Eric P.

    2014-01-01

    Undirected graphical models are important in a number of modern applications that involve exploring or exploiting dependency structures underlying the data. For example, they are often used to explore complex systems where connections between entities are not well understood, such as in functional brain networks or genetic networks. Existing methods for estimating structure of undirected graphical models focus on scenarios where each node represents a scalar random variable, such as a binary neural activation state or a continuous mRNA abundance measurement, even though in many real world problems, nodes can represent multivariate variables with much richer meanings, such as whole images, text documents, or multi-view feature vectors. In this paper, we propose a new principled framework for estimating the structure of undirected graphical models from such multivariate (or multi-attribute) nodal data. The structure of a graph is inferred through estimation of non-zero partial canonical correlation between nodes. Under a Gaussian model, this strategy is equivalent to estimating conditional independencies between random vectors represented by the nodes and it generalizes the classical problem of covariance selection (Dempster, 1972). We relate the problem of estimating non-zero partial canonical correlations to maximizing a penalized Gaussian likelihood objective and develop a method that efficiently maximizes this objective. Extensive simulation studies demonstrate the effectiveness of the method under various conditions. We provide illustrative applications to uncovering gene regulatory networks from gene and protein profiles, and uncovering brain connectivity graph from positron emission tomography data. Finally, we provide sufficient conditions under which the true graphical structure can be recovered correctly. PMID:25620892

  16. Structural pursuit over multiple undirected graphs*

    PubMed Central

    Zhu, Yunzhang; Shen, Xiaotong; Pan, Wei

    2014-01-01

    Summary Gaussian graphical models are useful to analyze and visualize conditional dependence relationships between interacting units. Motivated from network analysis under di erent experimental conditions, such as gene networks for disparate cancer subtypes, we model structural changes over multiple networks with possible heterogeneities. In particular, we estimate multiple precision matrices describing dependencies among interacting units through maximum penalized likelihood. Of particular interest are homogeneous groups of similar entries across and zero-entries of these matrices, referred to as clustering and sparseness structures, respectively. A non-convex method is proposed to seek a sparse representation for each matrix and identify clusters of the entries across the matrices. Computationally, we develop an e cient method on the basis of di erence convex programming, the augmented Lagrangian method and the block-wise coordinate descent method, which is scalable to hundreds of graphs of thousands nodes through a simple necessary and sufficient partition rule, which divides nodes into smaller disjoint subproblems excluding zero-coe cients nodes for arbitrary graphs with convex relaxation. Theoretically, a finite-sample error bound is derived for the proposed method to reconstruct the clustering and sparseness structures. This leads to consistent reconstruction of these two structures simultaneously, permitting the number of unknown parameters to be exponential in the sample size, and yielding the optimal performance of the oracle estimator as if the true structures were given a priori. Simulation studies suggest that the method enjoys the benefit of pursuing these two disparate kinds of structures, and compares favorably against its convex counterpart in the accuracy of structure pursuit and parameter estimation. PMID:25642006

  17. Aspects of Performance on Line Graph Description Tasks: Influenced by Graph Familiarity and Different Task Features

    ERIC Educational Resources Information Center

    Xi, Xiaoming

    2010-01-01

    Motivated by cognitive theories of graph comprehension, this study systematically manipulated characteristics of a line graph description task in a speaking test in ways to mitigate the influence of graph familiarity, a potential source of construct-irrelevant variance. It extends Xi (2005), which found that the differences in holistic scores on…

  18. Helping Students Make Sense of Graphs: An Experimental Trial of SmartGraphs Software

    ERIC Educational Resources Information Center

    Zucker, Andrew; Kay, Rachel; Staudt, Carolyn

    2014-01-01

    Graphs are commonly used in science, mathematics, and social sciences to convey important concepts; yet students at all ages demonstrate difficulties interpreting graphs. This paper reports on an experimental study of free, Web-based software called SmartGraphs that is specifically designed to help students overcome their misconceptions regarding…

  19. Clique percolation in random graphs

    NASA Astrophysics Data System (ADS)

    Li, Ming; Deng, Youjin; Wang, Bing-Hong

    2015-10-01

    As a generation of the classical percolation, clique percolation focuses on the connection of cliques in a graph, where the connection of two k cliques means that they share at least l graphs, which gives not only the exact solutions of the critical point, but also the corresponding order parameter. Based on this, we prove theoretically that the fraction ψ of cliques in the giant clique cluster always makes a continuous phase transition as the classical percolation. However, the fraction ϕ of vertices in the giant clique cluster for l >1 makes a step-function-like discontinuous phase transition in the thermodynamic limit and a continuous phase transition for l =1 . More interesting, our analysis shows that at the critical point, the order parameter ϕc for l >1 is neither 0 nor 1, but a constant depending on k and l . All these theoretical findings are in agreement with the simulation results, which give theoretical support and clarification for previous simulation studies of clique percolation.

  20. Clique percolation in random graphs.

    PubMed

    Li, Ming; Deng, Youjin; Wang, Bing-Hong

    2015-10-01

    As a generation of the classical percolation, clique percolation focuses on the connection of cliques in a graph, where the connection of two k cliques means that they share at least lgraphs, which gives not only the exact solutions of the critical point, but also the corresponding order parameter. Based on this, we prove theoretically that the fraction ψ of cliques in the giant clique cluster always makes a continuous phase transition as the classical percolation. However, the fraction ϕ of vertices in the giant clique cluster for l>1 makes a step-function-like discontinuous phase transition in the thermodynamic limit and a continuous phase transition for l=1. More interesting, our analysis shows that at the critical point, the order parameter ϕ(c) for l>1 is neither 0 nor 1, but a constant depending on k and l. All these theoretical findings are in agreement with the simulation results, which give theoretical support and clarification for previous simulation studies of clique percolation.

  1. Feature Tracking Using Reeb Graphs

    SciTech Connect

    Weber, Gunther H.; Bremer, Peer-Timo; Day, Marcus S.; Bell, John B.; Pascucci, Valerio

    2010-08-02

    Tracking features and exploring their temporal dynamics can aid scientists in identifying interesting time intervals in a simulation and serve as basis for performing quantitative analyses of temporal phenomena. In this paper, we develop a novel approach for tracking subsets of isosurfaces, such as burning regions in simulated flames, which are defined as areas of high fuel consumption on a temperature isosurface. Tracking such regions as they merge and split over time can provide important insights into the impact of turbulence on the combustion process. However, the convoluted nature of the temperature isosurface and its rapid movement make this analysis particularly challenging. Our approach tracks burning regions by extracting a temperature isovolume from the four-dimensional space-time temperature field. It then obtains isosurfaces for the original simulation time steps and labels individual connected 'burning' regions based on the local fuel consumption value. Based on this information, a boundary surface between burning and non-burning regions is constructed. The Reeb graph of this boundary surface is the tracking graph for burning regions.

  2. A framework for graph-based synthesis, analysis, and visualization of HPC cluster job data.

    SciTech Connect

    Mayo, Jackson R.; Kegelmeyer, W. Philip, Jr.; Wong, Matthew H.; Pebay, Philippe Pierre; Gentile, Ann C.; Thompson, David C.; Roe, Diana C.; De Sapio, Vincent; Brandt, James M.

    2010-08-01

    The monitoring and system analysis of high performance computing (HPC) clusters is of increasing importance to the HPC community. Analysis of HPC job data can be used to characterize system usage and diagnose and examine failure modes and their effects. This analysis is not straightforward, however, due to the complex relationships that exist between jobs. These relationships are based on a number of factors, including shared compute nodes between jobs, proximity of jobs in time, etc. Graph-based techniques represent an approach that is particularly well suited to this problem, and provide an effective technique for discovering important relationships in job queuing and execution data. The efficacy of these techniques is rooted in the use of a semantic graph as a knowledge representation tool. In a semantic graph job data, represented in a combination of numerical and textual forms, can be flexibly processed into edges, with corresponding weights, expressing relationships between jobs, nodes, users, and other relevant entities. This graph-based representation permits formal manipulation by a number of analysis algorithms. This report presents a methodology and software implementation that leverages semantic graph-based techniques for the system-level monitoring and analysis of HPC clusters based on job queuing and execution data. Ontology development and graph synthesis is discussed with respect to the domain of HPC job data. The framework developed automates the synthesis of graphs from a database of job information. It also provides a front end, enabling visualization of the synthesized graphs. Additionally, an analysis engine is incorporated that provides performance analysis, graph-based clustering, and failure prediction capabilities for HPC systems.

  3. Cyber Graph Queries for Geographically Distributed Data Centers

    SciTech Connect

    Berry, Jonathan W.; Collins, Michael; Kearns, Aaron; Phillips, Cynthia A.; Saia, Jared

    2015-05-01

    We present new algorithms for a distributed model for graph computations motivated by limited information sharing we first discussed in [20]. Two or more independent entities have collected large social graphs. They wish to compute the result of running graph algorithms on the entire set of relationships. Because the information is sensitive or economically valuable, they do not wish to simply combine the information in a single location. We consider two models for computing the solution to graph algorithms in this setting: 1) limited-sharing: the two entities can share only a polylogarithmic size subgraph; 2) low-trust: the entities must not reveal any information beyond the query answer, assuming they are all honest but curious. We believe this model captures realistic constraints on cooperating autonomous data centers. We have algorithms in both setting for s - t connectivity in both models. We also give an algorithm in the low-communication model for finding a planted clique. This is an anomaly- detection problem, finding a subgraph that is larger and denser than expected. For both the low- communication algorithms, we exploit structural properties of social networks to prove perfor- mance bounds better than what is possible for general graphs. For s - t connectivity, we use known properties. For planted clique, we propose a new property: bounded number of triangles per node. This property is based upon evidence from the social science literature. We found that classic examples of social networks do not have the bounded-triangles property. This is because many social networks contain elements that are non-human, such as accounts for a business, or other automated accounts. We describe some initial attempts to distinguish human nodes from automated nodes in social networks based only on topological properties.

  4. Feynman graph generation and calculations in the Hopf algebra of Feynman graphs

    NASA Astrophysics Data System (ADS)

    Borinsky, Michael

    2014-12-01

    Two programs for the computation of perturbative expansions of quantum field theory amplitudes are provided. feyngen can be used to generate Feynman graphs for Yang-Mills, QED and φk theories. Using dedicated graph theoretic tools feyngen can generate graphs of comparatively high loop orders. feyncop implements the Hopf algebra of those Feynman graphs which incorporates the renormalization procedure necessary to calculate finite results in perturbation theory of the underlying quantum field theory. feyngen is validated by comparison to explicit calculations of zero dimensional quantum field theories and feyncop is validated using a combinatorial identity on the Hopf algebra of graphs.

  5. Generative Graph Prototypes from Information Theory.

    PubMed

    Han, Lin; Wilson, Richard C; Hancock, Edwin R

    2015-10-01

    In this paper we present a method for constructing a generative prototype for a set of graphs by adopting a minimum description length approach. The method is posed in terms of learning a generative supergraph model from which the new samples can be obtained by an appropriate sampling mechanism. We commence by constructing a probability distribution for the occurrence of nodes and edges over the supergraph. We encode the complexity of the supergraph using an approximate Von Neumann entropy. A variant of the EM algorithm is developed to minimize the description length criterion in which the structure of the supergraph and the node correspondences between the sample graphs and the supergraph are treated as missing data. To generate new graphs, we assume that the nodes and edges of graphs arise under independent Bernoulli distributions and sample new graphs according to their node and edge occurrence probabilities. Empirical evaluations on real-world databases demonstrate the practical utility of the proposed algorithm and show the effectiveness of the generative model for the tasks of graph classification, graph clustering and generating new sample graphs.

  6. Graphing as a Problem-Solving Strategy.

    ERIC Educational Resources Information Center

    Cohen, Donald

    1984-01-01

    The focus is on how line graphs can be used to approximate solutions to rate problems and to suggest equations that offer exact algebraic solutions to the problem. Four problems requiring progressively greater graphing sophistication are presented plus four exercises. (MNS)

  7. Qualitative Graphing: A Construction in Mathematics.

    ERIC Educational Resources Information Center

    Narode, Ronald

    This document argues that qualitative graphing is an effective introduction to mathematics as a construction for communication of ideas involving quantitative relationships. It is suggested that with little or no prior knowledge of Cartesian coordinates or analytic descriptions of graphs using equations students can successfully grasp concepts of…

  8. Developing Data Graph Comprehension. Third Edition

    ERIC Educational Resources Information Center

    Curcio, Frances

    2010-01-01

    Since the dawn of civilization, pictorial representations and symbols have been used to communicate simple statistics. Efficient and effective, they are still used today in the form of pictures and graphs to record and present data. Who can tie their shoes? How many calories are in your favorite food? Make data and graphs relevant and interesting…

  9. A Ring Construction Using Finite Directed Graphs

    ERIC Educational Resources Information Center

    Bardzell, Michael

    2012-01-01

    In this paper we discuss an interesting class of noncommutative rings which can be constructed using finite directed graphs. This construction also creates a vector space. These structures provide undergraduate students connections between ring theory and graph theory and, among other things, allow them to see a ring unity element that looks quite…

  10. Student Reasoning about Graphs in Different Contexts

    ERIC Educational Resources Information Center

    Ivanjek, Lana; Susac, Ana; Planinic, Maja; Andrasevic, Aneta; Milin-Sipus, Zeljka

    2016-01-01

    This study investigates university students' graph interpretation strategies and difficulties in mathematics, physics (kinematics), and contexts other than physics. Eight sets of parallel (isomorphic) mathematics, physics, and other context questions about graphs, which were developed by us, were administered to 385 first-year students at the…

  11. Pattern Perception and the Comprehension of Graphs.

    ERIC Educational Resources Information Center

    Pinker, Steven

    Three experiments tested the hypothesis that graphs convey information effectively because they can display global trends as geometric patterns that visual systems encode easily. A novel type of graph was invented in which angles/lengths of line segments joined end-to-end represented variables of rainfall and temperature of a set of months. It was…

  12. Body Motion and Graphing. Working Paper.

    ERIC Educational Resources Information Center

    Nemirovsky, Ricardo; Tierney, Cornelia; Wright, Tracey

    This paper explores children's efforts to make sense of graphs by analyzing two students' use of a computer-based motion detector. The analysis focuses on the students' growing understanding of the motion detector which enables them to plan their movements in order to create graphs and interpret them in terms of kinesthetic actions. Students…

  13. ON CLUSTERING TECHNIQUES OF CITATION GRAPHS.

    ERIC Educational Resources Information Center

    CHIEN, R.T.; PREPARATA, F.P.

    ONE OF THE PROBLEMS ENCOUNTERED IN CLUSTERING TECHNIQUES AS APPLIED TO DOCUMENT RETRIEVAL SYSTEMS USING BIBLIOGRAPHIC COUPLING DEVICES IS THAT THE COMPUTATIONAL EFFORT REQUIRED GROWS ROUGHLY AS THE SQUARE OF THE COLLECTION SIZE. IN THIS STUDY GRAPH THEORY IS APPLIED TO THIS PROBLEM BY FIRST MAPPING THE CITATION GRAPH OF THE DOCUMENT COLLECTION…

  14. Using a Microcomputer for Graphing Practice.

    ERIC Educational Resources Information Center

    Beichner, Robert J.

    1986-01-01

    Describes a laboratory exercise that introduces physics students to graphing. Presents the program format and sample output of a computer simulation of an experiment which tests the effects of sound intensity on the crawling speed of a snail. Provides students with practice in making exponential or logarithmic graphs. (ML)

  15. Teaching Discrete Mathematics with Graphing Calculators.

    ERIC Educational Resources Information Center

    Masat, Francis E.

    Graphing calculator use is often thought of in terms of pre-calculus or continuous topics in mathematics. This paper contains examples and activities that demonstrate useful, interesting, and easy ways to use a graphing calculator with discrete topics. Examples are given for each of the following topics: functions, mathematical induction and…

  16. Cognitive Aids for Guiding Graph Comprehension

    ERIC Educational Resources Information Center

    Mautone, Patricia D.; Mayer, Richard E.

    2007-01-01

    This study sought to improve students' comprehension of scientific graphs by adapting scaffolding techniques used to aid text comprehension. In 3 experiments involving 121 female and 88 male college students, some students were shown cognitive aids prior to viewing 4 geography graphs whereas others were not; all students were then asked to write a…

  17. Universal spectral statistics in quantum graphs.

    PubMed

    Gnutzmann, Sven; Altland, Alexander

    2004-11-05

    We prove that the spectrum of an individual chaotic quantum graph shows universal spectral correlations, as predicted by random-matrix theory. The stability of these correlations with regard to nonuniversal corrections is analyzed in terms of the linear operator governing the classical dynamics on the graph.

  18. Review on Graph Clustering and Subgraph Similarity Based Analysis of Neurological Disorders.

    PubMed

    Thomas, Jaya; Seo, Dongmin; Sael, Lee

    2016-06-01

    How can complex relationships among molecular or clinico-pathological entities of neurological disorders be represented and analyzed? Graphs seem to be the current answer to the question no matter the type of information: molecular data, brain images or neural signals. We review a wide spectrum of graph representation and graph analysis methods and their application in the study of both the genomic level and the phenotypic level of the neurological disorder. We find numerous research works that create, process and analyze graphs formed from one or a few data types to gain an understanding of specific aspects of the neurological disorders. Furthermore, with the increasing number of data of various types becoming available for neurological disorders, we find that integrative analysis approaches that combine several types of data are being recognized as a way to gain a global understanding of the diseases. Although there are still not many integrative analyses of graphs due to the complexity in analysis, multi-layer graph analysis is a promising framework that can incorporate various data types. We describe and discuss the benefits of the multi-layer graph framework for studies of neurological disease.

  19. Super (a, d) - Fn - antimagic total labeling for a connected and disconnected amalgamation of fan graphs

    NASA Astrophysics Data System (ADS)

    Dafik, Agustin, Ika Hesti; Khuri Faridatun, N.

    2016-02-01

    All graph in this paper are finite, simple and undirected. Let G = (V (G), E(G)) be a graph of order p and size q. Graph G admits a H-covering, if every edge in E(G) belongs to at least one subgraph of G isomorphic to a given graph H. A graph G is said to be an (a, d)-H-antimagic total labeling if there exist a bijective function f : V (G) ∪ E(G) → {1, 2,…, |V(G)| + |E(G)|} such that for all subgraphs H' isomorphic to H, the total H-weights w(H) = ∑v∈V (H') f (v) + ∑e∈E(H') f (e) form an arithmetic sequence {a, a + d, a + 2d, …, a + (t - 1)d}, where a and d are positive integers and t is the number of all subgraphs H' isomorphic to H. Such a labeling is called a super if the smallest labels appear in the vertices. This paper studies the super (a, d)-Fn-antimagic total labeling for a connected and disconnected amalgamation of fan graphs. We can prove that, for some feasible d, a connected and disconnected amalgamation of fan graphs admit a super (a, d) - Fn-antimagic total labeling.

  20. Review on Graph Clustering and Subgraph Similarity Based Analysis of Neurological Disorders

    PubMed Central

    Thomas, Jaya; Seo, Dongmin; Sael, Lee

    2016-01-01

    How can complex relationships among molecular or clinico-pathological entities of neurological disorders be represented and analyzed? Graphs seem to be the current answer to the question no matter the type of information: molecular data, brain images or neural signals. We review a wide spectrum of graph representation and graph analysis methods and their application in the study of both the genomic level and the phenotypic level of the neurological disorder. We find numerous research works that create, process and analyze graphs formed from one or a few data types to gain an understanding of specific aspects of the neurological disorders. Furthermore, with the increasing number of data of various types becoming available for neurological disorders, we find that integrative analysis approaches that combine several types of data are being recognized as a way to gain a global understanding of the diseases. Although there are still not many integrative analyses of graphs due to the complexity in analysis, multi-layer graph analysis is a promising framework that can incorporate various data types. We describe and discuss the benefits of the multi-layer graph framework for studies of neurological disease. PMID:27258269

  1. A brief historical introduction to Euler's formula for polyhedra, topology, graph theory and networks

    NASA Astrophysics Data System (ADS)

    Debnath, Lokenath

    2010-09-01

    This article is essentially devoted to a brief historical introduction to Euler's formula for polyhedra, topology, theory of graphs and networks with many examples from the real-world. Celebrated Königsberg seven-bridge problem and some of the basic properties of graphs and networks for some understanding of the macroscopic behaviour of real physical systems are included. We also mention some important and modern applications of graph theory or network problems from transportation to telecommunications. Graphs or networks are effectively used as powerful tools in industrial, electrical and civil engineering, communication networks in the planning of business and industry. Graph theory and combinatorics can be used to understand the changes that occur in many large and complex scientific, technical and medical systems. With the advent of fast large computers and the ubiquitous Internet consisting of a very large network of computers, large-scale complex optimization problems can be modelled in terms of graphs or networks and then solved by algorithms available in graph theory. Many large and more complex combinatorial problems dealing with the possible arrangements of situations of various kinds, and computing the number and properties of such arrangements can be formulated in terms of networks. The Knight's tour problem, Hamilton's tour problem, problem of magic squares, the Euler Graeco-Latin squares problem and their modern developments in the twentieth century are also included.

  2. Sequential motif profile of natural visibility graphs

    NASA Astrophysics Data System (ADS)

    Iacovacci, Jacopo; Lacasa, Lucas

    2016-11-01

    The concept of sequential visibility graph motifs—subgraphs appearing with characteristic frequencies in the visibility graphs associated to time series—has been advanced recently along with a theoretical framework to compute analytically the motif profiles associated to horizontal visibility graphs (HVGs). Here we develop a theory to compute the profile of sequential visibility graph motifs in the context of natural visibility graphs (VGs). This theory gives exact results for deterministic aperiodic processes with a smooth invariant density or stochastic processes that fulfill the Markov property and have a continuous marginal distribution. The framework also allows for a linear time numerical estimation in the case of empirical time series. A comparison between the HVG and the VG case (including evaluation of their robustness for short series polluted with measurement noise) is also presented.

  3. Graph Mining Meets the Semantic Web

    SciTech Connect

    Lee, Sangkeun; Sukumar, Sreenivas R; Lim, Seung-Hwan

    2015-01-01

    The Resource Description Framework (RDF) and SPARQL Protocol and RDF Query Language (SPARQL) were introduced about a decade ago to enable flexible schema-free data interchange on the Semantic Web. Today, data scientists use the framework as a scalable graph representation for integrating, querying, exploring and analyzing data sets hosted at different sources. With increasing adoption, the need for graph mining capabilities for the Semantic Web has emerged. We address that need through implementation of three popular iterative Graph Mining algorithms (Triangle count, Connected component analysis, and PageRank). We implement these algorithms as SPARQL queries, wrapped within Python scripts. We evaluate the performance of our implementation on 6 real world data sets and show graph mining algorithms (that have a linear-algebra formulation) can indeed be unleashed on data represented as RDF graphs using the SPARQL query interface.

  4. Quantum graphs and random-matrix theory

    NASA Astrophysics Data System (ADS)

    Pluhař, Z.; Weidenmüller, H. A.

    2015-07-01

    For simple connected graphs with incommensurate bond lengths and with unitary symmetry we prove the Bohigas-Giannoni-Schmit (BGS) conjecture in its most general form. Using supersymmetry and taking the limit of infinite graph size, we show that the generating function for every (P,Q) correlation function for both closed and open graphs coincides with the corresponding expression of random-matrix theory. We show that the classical Perron-Frobenius operator is bistochastic and possesses a single eigenvalue +1. In the quantum case that implies the existence of a zero (or massless) mode of the effective action. That mode causes universal fluctuation properties. Avoiding the saddle-point approximation we show that for graphs that are classically mixing (i.e. for which the spectrum of the classical Perron-Frobenius operator possesses a finite gap) and that do not carry a special class of bound states, the zero mode dominates in the limit of infinite graph size.

  5. GraphReduce: Processing Large-Scale Graphs on Accelerator-Based Systems

    SciTech Connect

    Sengupta, Dipanjan; Song, Shuaiwen; Agarwal, Kapil; Schwan, Karsten

    2015-11-15

    Recent work on real-world graph analytics has sought to leverage the massive amount of parallelism offered by GPU devices, but challenges remain due to the inherent irregularity of graph algorithms and limitations in GPU-resident memory for storing large graphs. We present GraphReduce, a highly efficient and scalable GPU-based framework that operates on graphs that exceed the device’s internal memory capacity. GraphReduce adopts a combination of edge- and vertex-centric implementations of the Gather-Apply-Scatter programming model and operates on multiple asynchronous GPU streams to fully exploit the high degrees of parallelism in GPUs with efficient graph data movement between the host and device.

  6. GraphReduce: Large-Scale Graph Analytics on Accelerator-Based HPC Systems

    SciTech Connect

    Sengupta, Dipanjan; Agarwal, Kapil; Song, Shuaiwen; Schwan, Karsten

    2015-09-30

    Recent work on real-world graph analytics has sought to leverage the massive amount of parallelism offered by GPU devices, but challenges remain due to the inherent irregularity of graph algorithms and limitations in GPU-resident memory for storing large graphs. We present GraphReduce, a highly efficient and scalable GPU-based framework that operates on graphs that exceed the device’s internal memory capacity. GraphReduce adopts a combination of both edge- and vertex-centric implementations of the Gather-Apply-Scatter programming model and operates on multiple asynchronous GPU streams to fully exploit the high degrees of parallelism in GPUs with efficient graph data movement between the host and the device.

  7. Graph Theoretical Analysis Reveals: Women's Brains Are Better Connected than Men's.

    PubMed

    Szalkai, Balázs; Varga, Bálint; Grolmusz, Vince

    2015-01-01

    Deep graph-theoretic ideas in the context with the graph of the World Wide Web led to the definition of Google's PageRank and the subsequent rise of the most popular search engine to date. Brain graphs, or connectomes, are being widely explored today. We believe that non-trivial graph theoretic concepts, similarly as it happened in the case of the World Wide Web, will lead to discoveries enlightening the structural and also the functional details of the animal and human brains. When scientists examine large networks of tens or hundreds of millions of vertices, only fast algorithms can be applied because of the size constraints. In the case of diffusion MRI-based structural human brain imaging, the effective vertex number of the connectomes, or brain graphs derived from the data is on the scale of several hundred today. That size facilitates applying strict mathematical graph algorithms even for some hard-to-compute (or NP-hard) quantities like vertex cover or balanced minimum cut. In the present work we have examined brain graphs, computed from the data of the Human Connectome Project, recorded from male and female subjects between ages 22 and 35. Significant differences were found between the male and female structural brain graphs: we show that the average female connectome has more edges, is a better expander graph, has larger minimal bisection width, and has more spanning trees than the average male connectome. Since the average female brain weighs less than the brain of males, these properties show that the female brain has better graph theoretical properties, in a sense, than the brain of males. It is known that the female brain has a smaller gray matter/white matter ratio than males, that is, a larger white matter/gray matter ratio than the brain of males; this observation is in line with our findings concerning the number of edges, since the white matter consists of myelinated axons, which, in turn, roughly correspond to the connections in the brain graph

  8. Survival time of the susceptible-infected-susceptible infection process on a graph.

    PubMed

    van de Bovenkamp, Ruud; Van Mieghem, Piet

    2015-09-01

    The survival time T is the longest time that a virus, a meme, or a failure can propagate in a network. Using the hitting time of the absorbing state in an uniformized embedded Markov chain of the continuous-time susceptible-infected-susceptible (SIS) Markov process, we derive an exact expression for the average survival time E[T] of a virus in the complete graph K_{N} and the star graph K_{1,N-1}. By using the survival time, instead of the average fraction of infected nodes, we propose a new method to approximate the SIS epidemic threshold τ_{c} that, at least for K_{N} and K_{1,N-1}, correctly scales with the number of nodes N and that is superior to the epidemic threshold τ_{c}^{(1)}=1/λ_{1} of the N-intertwined mean-field approximation, where λ_{1} is the spectral radius of the adjacency matrix of the graph G. Although this new approximation of the epidemic threshold offers a more intuitive understanding of the SIS process, it remains difficult to compare outbreaks in different graph types. For example, the survival in an arbitrary graph seems upper bounded by the complete graph and lower bounded by the star graph as a function of the normalized effective infection rate τ/τ_{c}^{(1)}. However, when the average fraction of infected nodes is used as a basis for comparison, the virus will survive in the star graph longer than in any other graph, making the star graph the worst-case graph instead of the complete graph. Finally, in non-Markovian SIS, the distribution of the spreading attempts over the infectious period of a node influences the survival time, even if the expected number of spreading attempts during an infectious period (the non-Markovian equivalent of the effective infection rate) is kept constant. Both early and late infection attempts lead to shorter survival times. Interestingly, just as in Markovian SIS, the survival times appear to be exponentially distributed, regardless of the infection and curing time distributions.

  9. Relativity on rotated graph paper

    NASA Astrophysics Data System (ADS)

    Salgado, Roberto B.

    2016-05-01

    We demonstrate a method for constructing spacetime diagrams for special relativity on graph paper that has been rotated by 45°. The diagonal grid lines represent light-flash worldlines in Minkowski spacetime, and the boxes in the grid (called "clock diamonds") represent units of measurement corresponding to the ticks of an inertial observer's light clock. We show that many quantitative results can be read off a spacetime diagram simply by counting boxes, with very little algebra. In particular, we show that the squared interval between two events is equal to the signed area of the parallelogram on the grid (called the "causal diamond") with opposite vertices corresponding to those events. We use the Doppler effect—without explicit use of the Doppler formula—to motivate the method.

  10. Degree distribution and assortativity in line graphs of complex networks

    NASA Astrophysics Data System (ADS)

    Wang, Xiangrong; Trajanovski, Stojan; Kooij, Robert E.; Van Mieghem, Piet

    2016-03-01

    Topological characteristics of links of complex networks influence the dynamical processes executed on networks triggered by links, such as cascading failures triggered by links in power grids and epidemic spread due to link infection. The line graph transforms links in the original graph into nodes. In this paper, we investigate how graph metrics in the original graph are mapped into those for its line graph. In particular, we study the degree distribution and the assortativity of a graph and its line graph. Specifically, we show, both analytically and numerically, the degree distribution of the line graph of an Erdős-Rényi graph follows the same distribution as its original graph. We derive a formula for the assortativity of line graphs and indicate that the assortativity of a line graph is not linearly related to its original graph. Additionally, line graphs of various graphs, e.g. Erdős-Rényi graphs, scale-free graphs, show positive assortativity. In contrast, we find certain types of trees and non-trees whose line graphs have negative assortativity.

  11. Protein localization prediction using random walks on graphs

    PubMed Central

    2013-01-01

    Background Understanding the localization of proteins in cells is vital to characterizing their functions and possible interactions. As a result, identifying the (sub)cellular compartment within which a protein is located becomes an important problem in protein classification. This classification issue thus involves predicting labels in a dataset with a limited number of labeled data points available. By utilizing a graph representation of protein data, random walk techniques have performed well in sequence classification and functional prediction; however, this method has not yet been applied to protein localization. Accordingly, we propose a novel classifier in the site prediction of proteins based on random walks on a graph. Results We propose a graph theory model for predicting protein localization using data generated in yeast and gram-negative (Gneg) bacteria. We tested the performance of our classifier on the two datasets, optimizing the model training parameters by varying the laziness values and the number of steps taken during the random walk. Using 10-fold cross-validation, we achieved an accuracy of above 61% for yeast data and about 93% for gram-negative bacteria. Conclusions This study presents a new classifier derived from the random walk technique and applies this classifier to investigate the cellular localization of proteins. The prediction accuracy and additional validation demonstrate an improvement over previous methods, such as support vector machine (SVM)-based classifiers. PMID:23815126

  12. Measuring geographic segregation: a graph-based approach

    NASA Astrophysics Data System (ADS)

    Hong, Seong-Yun; Sadahiro, Yukio

    2014-04-01

    Residential segregation is a multidimensional phenomenon that encompasses several conceptually distinct aspects of geographical separation between populations. While various indices have been developed as a response to different definitions of segregation, the reliance on such single-figure indices could oversimplify the complex, multidimensional phenomena. In this regard, this paper suggests an alternative graph-based approach that provides more detailed information than simple indices: The concentration profile graphically conveys information about how evenly a population group is distributed over the study region, and the spatial proximity profile depicts the degree of clustering across different threshold levels. These graphs can also be summarized into single numbers for comparative purposes, but the interpretation can be more accurate by inspecting the additional information. To demonstrate the use of these methods, the residential patterns of three major ethnic groups in Auckland, namely Māori, Pacific peoples, and Asians, are examined using the 2006 census data.

  13. Identifying Vulnerabilities and Hardening Attack Graphs for Networked Systems

    SciTech Connect

    Saha, Sudip; Vullinati, Anil K.; Halappanavar, Mahantesh; Chatterjee, Samrat

    2016-09-15

    We investigate efficient security control methods for protecting against vulnerabilities in networked systems. A large number of interdependent vulnerabilities typically exist in the computing nodes of a cyber-system; as vulnerabilities get exploited, starting from low level ones, they open up the doors to more critical vulnerabilities. These cannot be understood just by a topological analysis of the network, and we use the attack graph abstraction of Dewri et al. to study these problems. In contrast to earlier approaches based on heuristics and evolutionary algorithms, we study rigorous methods for quantifying the inherent vulnerability and hardening cost for the system. We develop algorithms with provable approximation guarantees, and evaluate them for real and synthetic attack graphs.

  14. Rapidly Mixing Gibbs Sampling for a Class of Factor Graphs Using Hierarchy Width.

    PubMed

    De Sa, Christopher; Zhang, Ce; Olukotun, Kunle; Ré, Christopher

    2015-12-01

    Gibbs sampling on factor graphs is a widely used inference technique, which often produces good empirical results. Theoretical guarantees for its performance are weak: even for tree structured graphs, the mixing time of Gibbs may be exponential in the number of variables. To help understand the behavior of Gibbs sampling, we introduce a new (hyper)graph property, called hierarchy width. We show that under suitable conditions on the weights, bounded hierarchy width ensures polynomial mixing time. Our study of hierarchy width is in part motivated by a class of factor graph templates, hierarchical templates, which have bounded hierarchy width-regardless of the data used to instantiate them. We demonstrate a rich application from natural language processing in which Gibbs sampling provably mixes rapidly and achieves accuracy that exceeds human volunteers.

  15. Graph-theoretic independence as a predictor of fullerene stability

    NASA Astrophysics Data System (ADS)

    Fajtlowicz, S.; Larson, C. E.

    2003-08-01

    The independence number of the graph of a fullerene, the size of the largest set of vertices such that no two are adjacent (corresponding to the largest set of atoms of the molecule, no pair of which are bonded), appears to be a useful selector in identifying stable fullerene isomers. The experimentally characterized isomers with 60, 70 and 76 atoms uniquely minimize this number among the classes of possible structures with, respectively, 60, 70 and 76 atoms. Other experimentally characterized isomers also rank extremely low with respect to this invariant. These findings were initiated by a conjecture of the computer program Graffiti.

  16. Lamplighter groups, de Brujin graphs, spider-web graphs and their spectra

    NASA Astrophysics Data System (ADS)

    Grigorchuk, R.; Leemann, P.-H.; Nagnibeda, T.

    2016-05-01

    We study the infinite family of spider-web graphs \\{{{ S }}k,N,M\\}, k≥slant 2, N≥slant 0 and M≥slant 1, initiated in the 50s in the context of network theory. It was later shown in physical literature that these graphs have remarkable percolation and spectral properties. We provide a mathematical explanation of these properties by putting the spider-web graphs in the context of group theory and algebraic graph theory. Namely, we realize them as tensor products of the well-known de Bruijn graphs \\{{{ B }}k,N\\} with cyclic graphs \\{{C}M\\} and show that these graphs are described by the action of the lamplighter group {{ L }}k={Z}/k{Z}\\wr {Z} on the infinite binary tree. Our main result is the identification of the infinite limit of \\{{{ S }}k,N,M\\}, as N,M\\to ∞ , with the Cayley graph of the lamplighter group {{ L }}k which, in turn, is one of the famous Diestel-Leader graphs {{DL}}k,k. As an application we compute the spectra of all spider-web graphs and show their convergence to the discrete spectral distribution associated with the Laplacian on the lamplighter group.

  17. A Graph Syntax for Processes and Services

    NASA Astrophysics Data System (ADS)

    Bruni, Roberto; Gadducci, Fabio; Lafuente, Alberto Lluch

    We propose a class of hierarchical graphs equipped with a simple algebraic syntax as a convenient way to describe configurations in languages with inherently hierarchical features such as sessions, fault- handling scopes or transactions. The graph syntax can be seen as an intermediate representation language, that facilitates the encoding of structured specifications and, in particular, of process calculi, since it provides primitives for nesting, name restriction and parallel composition. The syntax is based on an algebraic presentation that faithfully characterises families of hierarchical graphs, meaning that each term of the language uniquely identifies an equivalence class of graphs (modulo graph isomorphism). Proving soundness and completeness of an encoding (i.e. proving that structurally equivalent processes are mapped to isomorphic graphs) is then facilitated and can be done by structural induction. Summing up, the graph syntax facilitates the definition of faithful encodings, yet allowing a precise visual representation. We illustrate our work with an application to a workflow language and a service-oriented calculus.

  18. Pathfinder: Visual Analysis of Paths in Graphs

    PubMed Central

    Partl, C.; Gratzl, S.; Streit, M.; Wassermann, A. M.; Pfister, H.; Schmalstieg, D.; Lex, A.

    2016-01-01

    The analysis of paths in graphs is highly relevant in many domains. Typically, path-related tasks are performed in node-link layouts. Unfortunately, graph layouts often do not scale to the size of many real world networks. Also, many networks are multivariate, i.e., contain rich attribute sets associated with the nodes and edges. These attributes are often critical in judging paths, but directly visualizing attributes in a graph layout exacerbates the scalability problem. In this paper, we present visual analysis solutions dedicated to path-related tasks in large and highly multivariate graphs. We show that by focusing on paths, we can address the scalability problem of multivariate graph visualization, equipping analysts with a powerful tool to explore large graphs. We introduce Pathfinder (Figure 1), a technique that provides visual methods to query paths, while considering various constraints. The resulting set of paths is visualized in both a ranked list and as a node-link diagram. For the paths in the list, we display rich attribute data associated with nodes and edges, and the node-link diagram provides topological context. The paths can be ranked based on topological properties, such as path length or average node degree, and scores derived from attribute data. Pathfinder is designed to scale to graphs with tens of thousands of nodes and edges by employing strategies such as incremental query results. We demonstrate Pathfinder's fitness for use in scenarios with data from a coauthor network and biological pathways. PMID:27942090

  19. Sketch Matching on Topology Product Graph.

    PubMed

    Liang, Shuang; Luo, Jun; Liu, Wenyin; Wei, Yichen

    2015-08-01

    Sketch matching is the fundamental problem in sketch based interfaces. After years of study, it remains challenging when there exists large irregularity and variations in the hand drawn sketch shapes. While most existing works exploit topology relations and graph representations for this problem, they are usually limited by the coarse topology exploration and heuristic (thus suboptimal) similarity metrics between graphs. We present a new sketch matching method with two novel contributions. We introduce a comprehensive definition of topology relations, which results in a rich and informative graph representation of sketches. For graph matching, we propose topology product graph that retains the full correspondence for matching two graphs. Based on it, we derive an intuitive sketch similarity metric whose exact solution is easy to compute. In addition, the graph representation and new metric naturally support partial matching, an important practical problem that received less attention in the literature. Extensive experimental results on a real challenging dataset and the superior performance of our method show that it outperforms the state-of-the-art.

  20. A Review of Big Graph Mining Research

    NASA Astrophysics Data System (ADS)

    Atastina, I.; Sitohang, B.; Saptawati, G. A. P.; Moertini, V. S.

    2017-03-01

    Big Graph Mining” is a continuously developing research that was started in 2009 until now. After 7 years, there are many researches that put this topic as the main concern. However, there is no mapping or summary concerning the important issues and solutions to explain this topic. This paper contains a summary of researches that have been conducted since 2009. The result is grouped based on the algorithms, built system and also preprocess techniques that have been developed. Based on survey, there are 11 algorithms and 6 distributed systems to analyse the Big Graph have been improved. While improved pre-process algorithm only covers: sampling and compression technique. These improving algorithms are usually aimed to frequent sub graphs discovery, whereas slightly those of is aimed to cluster Big Graph, and there is no algorithm to classify Big Graph. As a conclusion of this survey, there is a need for more researches to be conducted to improve a comprehensive Graph Mining System, especially for very big Graph.

  1. Partitioning sparse matrices with eigenvectors of graphs

    NASA Technical Reports Server (NTRS)

    Pothen, Alex; Simon, Horst D.; Liou, Kang-Pu

    1990-01-01

    The problem of computing a small vertex separator in a graph arises in the context of computing a good ordering for the parallel factorization of sparse, symmetric matrices. An algebraic approach for computing vertex separators is considered in this paper. It is shown that lower bounds on separator sizes can be obtained in terms of the eigenvalues of the Laplacian matrix associated with a graph. The Laplacian eigenvectors of grid graphs can be computed from Kronecker products involving the eigenvectors of path graphs, and these eigenvectors can be used to compute good separators in grid graphs. A heuristic algorithm is designed to compute a vertex separator in a general graph by first computing an edge separator in the graph from an eigenvector of the Laplacian matrix, and then using a maximum matching in a subgraph to compute the vertex separator. Results on the quality of the separators computed by the spectral algorithm are presented, and these are compared with separators obtained from other algorithms for computing separators. Finally, the time required to compute the Laplacian eigenvector is reported, and the accuracy with which the eigenvector must be computed to obtain good separators is considered. The spectral algorithm has the advantage that it can be implemented on a medium-size multiprocessor in a straightforward manner.

  2. Approximate von Neumann entropy for directed graphs.

    PubMed

    Ye, Cheng; Wilson, Richard C; Comin, César H; Costa, Luciano da F; Hancock, Edwin R

    2014-05-01

    In this paper, we develop an entropy measure for assessing the structural complexity of directed graphs. Although there are many existing alternative measures for quantifying the structural properties of undirected graphs, there are relatively few corresponding measures for directed graphs. To fill this gap in the literature, we explore an alternative technique that is applicable to directed graphs. We commence by using Chung's generalization of the Laplacian of a directed graph to extend the computation of von Neumann entropy from undirected to directed graphs. We provide a simplified form of the entropy which can be expressed in terms of simple node in-degree and out-degree statistics. Moreover, we find approximate forms of the von Neumann entropy that apply to both weakly and strongly directed graphs, and that can be used to characterize network structure. We illustrate the usefulness of these simplified entropy forms defined in this paper on both artificial and real-world data sets, including structures from protein databases and high energy physics theory citation networks.

  3. Massive graph visualization : LDRD final report.

    SciTech Connect

    Wylie, Brian Neil; Moreland, Kenneth D.

    2007-10-01

    Graphs are a vital way of organizing data with complex correlations. A good visualization of a graph can fundamentally change human understanding of the data. Consequently, there is a rich body of work on graph visualization. Although there are many techniques that are effective on small to medium sized graphs (tens of thousands of nodes), there is a void in the research for visualizing massive graphs containing millions of nodes. Sandia is one of the few entities in the world that has the means and motivation to handle data on such a massive scale. For example, homeland security generates graphs from prolific media sources such as television, telephone, and the Internet. The purpose of this project is to provide the groundwork for visualizing such massive graphs. The research provides for two major feature gaps: a parallel, interactive visualization framework and scalable algorithms to make the framework usable to a practical application. Both the frameworks and algorithms are designed to run on distributed parallel computers, which are already available at Sandia. Some features are integrated into the ThreatView{trademark} application and future work will integrate further parallel algorithms.

  4. Enabling Graph Mining in RDF Triplestores using SPARQL for Holistic In-situ Graph Analysis

    SciTech Connect

    Lee, Sangkeun; Sukumar, Sreenivas R; Hong, Seokyong; Lim, Seung-Hwan

    2016-01-01

    The graph analysis is now considered as a promising technique to discover useful knowledge in data with a new perspective. We envi- sion that there are two dimensions of graph analysis: OnLine Graph Analytic Processing (OLGAP) and Graph Mining (GM) where each respectively focuses on subgraph pattern matching and automatic knowledge discovery in graph. Moreover, as these two dimensions aim to complementarily solve complex problems, holistic in-situ graph analysis which covers both OLGAP and GM in a single system is critical for minimizing the burdens of operating multiple graph systems and transferring intermediate result-sets between those systems. Nevertheless, most existing graph analysis systems are only capable of one dimension of graph analysis. In this work, we take an approach to enabling GM capabilities (e.g., PageRank, connected-component analysis, node eccentricity, etc.) in RDF triplestores, which are originally developed to store RDF datasets and provide OLGAP capability. More specifically, to achieve our goal, we implemented six representative graph mining algorithms using SPARQL. The approach allows a wide range of available RDF data sets directly applicable for holistic graph analysis within a system. For validation of our approach, we evaluate performance of our implementations with nine real-world datasets and three different computing environments - a laptop computer, an Amazon EC2 instance, and a shared-memory Cray XMT2 URIKA-GD graph-processing appliance. The experimen- tal results show that our implementation can provide promising and scalable performance for real world graph analysis in all tested environments. The developed software is publicly available in an open-source project that we initiated.

  5. Enabling Graph Mining in RDF Triplestores using SPARQL for Holistic In-situ Graph Analysis

    DOE PAGES

    Lee, Sangkeun; Sukumar, Sreenivas R; Hong, Seokyong; ...

    2016-01-01

    The graph analysis is now considered as a promising technique to discover useful knowledge in data with a new perspective. We envi- sion that there are two dimensions of graph analysis: OnLine Graph Analytic Processing (OLGAP) and Graph Mining (GM) where each respectively focuses on subgraph pattern matching and automatic knowledge discovery in graph. Moreover, as these two dimensions aim to complementarily solve complex problems, holistic in-situ graph analysis which covers both OLGAP and GM in a single system is critical for minimizing the burdens of operating multiple graph systems and transferring intermediate result-sets between those systems. Nevertheless, most existingmore » graph analysis systems are only capable of one dimension of graph analysis. In this work, we take an approach to enabling GM capabilities (e.g., PageRank, connected-component analysis, node eccentricity, etc.) in RDF triplestores, which are originally developed to store RDF datasets and provide OLGAP capability. More specifically, to achieve our goal, we implemented six representative graph mining algorithms using SPARQL. The approach allows a wide range of available RDF data sets directly applicable for holistic graph analysis within a system. For validation of our approach, we evaluate performance of our implementations with nine real-world datasets and three different computing environments - a laptop computer, an Amazon EC2 instance, and a shared-memory Cray XMT2 URIKA-GD graph-processing appliance. The experimen- tal results show that our implementation can provide promising and scalable performance for real world graph analysis in all tested environments. The developed software is publicly available in an open-source project that we initiated.« less

  6. Linear game non-contextuality and Bell inequalities—a graph-theoretic approach

    NASA Astrophysics Data System (ADS)

    Rosicka, M.; Ramanathan, R.; Gnaciński, P.; Horodecki, K.; Horodecki, M.; Horodecki, P.; Severini, S.

    2016-04-01

    We study the classical and quantum values of a class of one- and two-party unique games, that generalizes the well-known XOR games to the case of non-binary outcomes. In the bipartite case the generalized XOR (XOR-d) games we study are a subclass of the well-known linear games. We introduce a ‘constraint graph’ associated to such a game, with the constraints defining the game represented by an edge-coloring of the graph. We use the graph-theoretic characterization to relate the task of finding equivalent games to the notion of signed graphs and switching equivalence from graph theory. We relate the problem of computing the classical value of single-party anti-correlation XOR games to finding the edge bipartization number of a graph, which is known to be MaxSNP hard, and connect the computation of the classical value of XOR-d games to the identification of specific cycles in the graph. We construct an orthogonality graph of the game from the constraint graph and study its Lovász theta number as a general upper bound on the quantum value even in the case of single-party contextual XOR-d games. XOR-d games possess appealing properties for use in device-independent applications such as randomness of the local correlated outcomes in the optimal quantum strategy. We study the possibility of obtaining quantum algebraic violation of these games, and show that no finite XOR-d game possesses the property of pseudo-telepathy leaving the frequently used chained Bell inequalities as the natural candidates for such applications. We also show this lack of pseudo-telepathy for multi-party XOR-type inequalities involving two-body correlation functions.

  7. Comparing brain networks of different size and connectivity density using graph theory.

    PubMed

    van Wijk, Bernadette C M; Stam, Cornelis J; Daffertshofer, Andreas

    2010-10-28

    Graph theory is a valuable framework to study the organization of functional and anatomical connections in the brain. Its use for comparing network topologies, however, is not without difficulties. Graph measures may be influenced by the number of nodes (N) and the average degree (k) of the network. The explicit form of that influence depends on the type of network topology, which is usually unknown for experimental data. Direct comparisons of graph measures between empirical networks with different N and/or k can therefore yield spurious results. We list benefits and pitfalls of various approaches that intend to overcome these difficulties. We discuss the initial graph definition of unweighted graphs via fixed thresholds, average degrees or edge densities, and the use of weighted graphs. For instance, choosing a threshold to fix N and k does eliminate size and density effects but may lead to modifications of the network by enforcing (ignoring) non-significant (significant) connections. Opposed to fixing N and k, graph measures are often normalized via random surrogates but, in fact, this may even increase the sensitivity to differences in N and k for the commonly used clustering coefficient and small-world index. To avoid such a bias we tried to estimate the N,k-dependence for empirical networks, which can serve to correct for size effects, if successful. We also add a number of methods used in social sciences that build on statistics of local network structures including exponential random graph models and motif counting. We show that none of the here-investigated methods allows for a reliable and fully unbiased comparison, but some perform better than others.

  8. The MultiThreaded Graph Library (MTGL)

    SciTech Connect

    Berry, Jonathan; Leung, Vitus; McLendon, III, William; & Madduri, Kamesh

    2008-07-17

    The MultiThreaded Graph Library (MTGL) is a set of header files that implement graph algorithm in such a way that they can run on massively multithreaded architectures. It is based upon the Boost Graph Library, but doesn’t use Boost since the latter doesn’t run well on these architectures.

  9. Identifying Codes on Directed De Bruijn Graphs

    DTIC Science & Technology

    2014-12-19

    ar X iv :1 41 2. 58 42 v1 [ m at h. C O ] 1 8 D ec 2 01 4 Identifying Codes on Directed De Bruijn Graphs Debra Boutin ∗ Department of...Mathematics Hamilton College Victoria Horan † Air Force Research Laboratory Information Directorate December 19, 2014 Abstract For a directed graph G, a t...length at most t is both non-empty and unique. A graph is called t-identifiable if there exists a t-identifying code. This paper shows that the de

  10. A heterogeneous graph-based recommendation simulator

    SciTech Connect

    Yeonchan, Ahn; Sungchan, Park; Lee, Matt Sangkeun; Sang-goo, Lee

    2013-01-01

    Heterogeneous graph-based recommendation frameworks have flexibility in that they can incorporate various recommendation algorithms and various kinds of information to produce better results. In this demonstration, we present a heterogeneous graph-based recommendation simulator which enables participants to experience the flexibility of a heterogeneous graph-based recommendation method. With our system, participants can simulate various recommendation semantics by expressing the semantics via meaningful paths like User Movie User Movie. The simulator then returns the recommendation results on the fly based on the user-customized semantics using a fast Monte Carlo algorithm.

  11. Identifying Codes on Directed De Bruijn Graphs

    DTIC Science & Technology

    2015-08-27

    JOURNAL ARTICLE (POST PRINT) 3. DATES COVERED (From - To) JUN 2013 – AUG 2015 4. TITLE AND SUBTITLE IDENTIFYING CODES ON DIRECTED DE BRUIJN GRAPHS 5a...owner. 14. ABSTRACT For a directed graph G, a t-identifying code is a subset S ⊆ V (G) with the property that for each vertex v ∈ V (G) the set of...t-identifying code . This paper shows that the directed de Bruijn graph B(d, n) is t- identifiable for n ≥ 2t−1, and is not t-identifiable for n ≤ 2t

  12. The Total Interval of a Graph.

    DTIC Science & Technology

    1988-01-01

    definitions for all of these clases . A Husimi tree is a graph for which every block is a clique. A cactus is a graph for which every edge is in at most one...proportion of graphs with n vertices that we can represent with q(n) intervals is at most n-2 and this approaches zero as n gets large . Hence the...representations will have relatively few intervals of small depth and relatively many intervals of large depth. It is nevertheless often useful to restrict

  13. Prime Graph Components of Finite Simple Groups

    NASA Astrophysics Data System (ADS)

    Kondrat'ev, A. S.

    1990-02-01

    Let G be a finite group and π(G) the set of prime factors of its order. The prime graph of G is the graph with vertex-set π(G), two vertices p and q being joined by an edge whenever G contains an element of order pq. This article contains an explicit description of the primes in each of the connected components of the prime graphs of the finite simple groups of Lie type of even characteristic. This solves question 9.16 of the Kourovka Notebook. Bibliography: 15 titles.

  14. Finite Frames and Graph Theoretic Uncertainty Principles

    NASA Astrophysics Data System (ADS)

    Koprowski, Paul J.

    The subject of analytical uncertainty principles is an important field within harmonic analysis, quantum physics, and electrical engineering. We explore uncertainty principles in the context of the graph Fourier transform, and we prove additive results analogous to the multiplicative version of the classical uncertainty principle. We establish additive uncertainty principles for finite Parseval frames. Lastly, we examine the feasibility region of simultaneous values of the norms of a graph differential operator acting on a function f ∈ l2(G) and its graph Fourier transform.

  15. Implementation aspects of Graph Neural Networks

    NASA Astrophysics Data System (ADS)

    Barcz, A.; Szymański, Z.; Jankowski, S.

    2013-10-01

    This article summarises the results of implementation of a Graph Neural Network classi er. The Graph Neural Network model is a connectionist model, capable of processing various types of structured data, including non- positional and cyclic graphs. In order to operate correctly, the GNN model must implement a transition function being a contraction map, which is assured by imposing a penalty on model weights. This article presents research results concerning the impact of the penalty parameter on the model training process and the practical decisions that were made during the GNN implementation process.

  16. Line graphs for a multiplex network.

    PubMed

    Criado, Regino; Flores, Julio; García Del Amo, Alejandro; Romance, Miguel; Barrena, Eva; Mesa, Juan A

    2016-06-01

    It is well known that line graphs offer a good summary of the graphs properties, which make them easier to analyze and highlight the desired properties. We extend the concept of line graph to multiplex networks in order to analyze multi-plexed and multi-layered networked systems. As these structures are very rich, different approaches to this notion are required to capture a variety of situations. Some relationships between these approaches are established. Finally, by means of some simulations, the potential utility of this concept is illustrated.

  17. Rapid graph layout using space filling curves.

    PubMed

    Muelder, Chris; Ma, Kwan-Liu

    2008-01-01

    Network data frequently arises in a wide variety of fields, and node-link diagrams are a very natural and intuitive representation of such data. In order for a node-link diagram to be effective, the nodes must be arranged well on the screen. While many graph layout algorithms exist for this purpose, they often have limitations such as high computational complexity or node colocation. This paper proposes a new approach to graph layout through the use of space filling curves which is very fast and guarantees that there will be no nodes that are colocated. The resulting layout is also aesthetic and satisfies several criteria for graph layout effectiveness.

  18. Intelligent Graph Layout Using Many Users' Input.

    PubMed

    Yuan, Xiaoru; Che, Limei; Hu, Yifan; Zhang, Xin

    2012-12-01

    In this paper, we propose a new strategy for graph drawing utilizing layouts of many sub-graphs supplied by a large group of people in a crowd sourcing manner. We developed an algorithm based on Laplacian constrained distance embedding to merge subgraphs submitted by different users, while attempting to maintain the topological information of the individual input layouts. To facilitate collection of layouts from many people, a light-weight interactive system has been designed to enable convenient dynamic viewing, modification and traversing between layouts. Compared with other existing graph layout algorithms, our approach can achieve more aesthetic and meaningful layouts with high user preference.

  19. Integer sequence discovery from small graphs

    PubMed Central

    Hoppe, Travis; Petrone, Anna

    2015-01-01

    We have exhaustively enumerated all simple, connected graphs of a finite order and have computed a selection of invariants over this set. Integer sequences were constructed from these invariants and checked against the Online Encyclopedia of Integer Sequences (OEIS). 141 new sequences were added and six sequences were extended. From the graph database, we were able to programmatically suggest relationships among the invariants. It will be shown that we can readily visualize any sequence of graphs with a given criteria. The code has been released as an open-source framework for further analysis and the database was constructed to be extensible to invariants not considered in this work. PMID:27034526

  20. Motif-based embedding for graph clustering

    NASA Astrophysics Data System (ADS)

    Lim, Sungsu; Lee, Jae-Gil

    2016-12-01

    Community detection in complex networks is a fundamental problem that has been extensively studied owing to its wide range of applications. However, because community detection methods typically rely on the relations between vertices in networks, they may fail to discover higher-order graph substructures, called the network motifs. In this paper, we propose a novel embedding method for graph clustering that considers higher-order relationships involving multiple vertices. We show that our embedding method, which we call motif-based embedding, is more effective in detecting communities than existing graph embedding methods, spectral embedding and force-directed embedding, both theoretically and experimentally.

  1. A bipartite graph of Neuroendocrine System

    NASA Astrophysics Data System (ADS)

    Guo, Zhong-Wei; Zou, Sheng-Rong; Peng, Yu-Jing; Zhou, Ta; Gu, Chang-Gui; He, Da-Ren

    2008-03-01

    We present an empirical investigation on the neuroendocrine system and suggest describe it by a bipartite graph. In the net the cells can be regarded as collaboration acts and the mediators can be regarded as collaboration actors. The act degree stands for the number of the cells that secrete a single mediator. Among them bFGF (the basic fibroblast growth factor) has the largest node act degree. It is the most important mitogenic cytokine, followed by TGF-beta, IL-6, IL1-beta, VEGF, IGF-1and so on. They are critical in neuroendocrine system to maintain bodily healthiness, emotional stabilization and endocrine harmony. The act degree distribution shows a shifted power law (SPL) function forms [1]. The average act degree of neuroendocrine network is h=3.01, It means that each mediator is secreted by three cells on average. The similarity, which stands for the average probability of secreting the same mediators by all neuroendocrine cells, is observed as s=0.14. Our results may be used in the research of the medical treatment of neuroendocrine diseases. [1] Assortativity and act degree distribution of some collaboration networks, Hui Chang, Bei-Bei Su, Yue-Ping Zhou, Daren He, Physica A, 383 (2007) 687-702

  2. Optimizing spread dynamics on graphs by message passing

    NASA Astrophysics Data System (ADS)

    Altarelli, F.; Braunstein, A.; Dall'Asta, L.; Zecchina, R.

    2013-09-01

    Cascade processes are responsible for many important phenomena in natural and social sciences. Simple models of irreversible dynamics on graphs, in which nodes activate depending on the state of their neighbors, have been successfully applied to describe cascades in a large variety of contexts. Over the past decades, much effort has been devoted to understanding the typical behavior of the cascades arising from initial conditions extracted at random from some given ensemble. However, the problem of optimizing the trajectory of the system, i.e. of identifying appropriate initial conditions to maximize (or minimize) the final number of active nodes, is still considered to be practically intractable, with the only exception being models that satisfy a sort of diminishing returns property called submodularity. Submodular models can be approximately solved by means of greedy strategies, but by definition they lack cooperative characteristics which are fundamental in many real systems. Here we introduce an efficient algorithm based on statistical physics for the optimization of trajectories in cascade processes on graphs. We show that for a wide class of irreversible dynamics, even in the absence of submodularity, the spread optimization problem can be solved efficiently on large networks. Analytic and algorithmic results on random graphs are complemented by the solution of the spread maximization problem on a real-world network (the Epinions consumer reviews network).

  3. Bipartite Graphs for Visualization Analysis of Microbiome Data

    PubMed Central

    Sedlar, Karel; Videnska, Petra; Skutkova, Helena; Rychlik, Ivan; Provaznik, Ivo

    2016-01-01

    Visualization analysis plays an important role in metagenomics research. Proper and clear visualization can help researchers get their first insights into data and by selecting different features, also revealing and highlighting hidden relationships and drawing conclusions. To prevent the resulting presentations from becoming chaotic, visualization techniques have to properly tackle the high dimensionality of microbiome data. Although a number of different methods based on dimensionality reduction, correlations, Venn diagrams, and network representations have already been published, there is still room for further improvement, especially in the techniques that allow visual comparison of several environments or developmental stages in one environment. In this article, we represent microbiome data by bipartite graphs, where one partition stands for taxa and the other stands for samples. We demonstrated that community detection is independent of taxonomical level. Moreover, focusing on higher taxonomical levels and the appropriate merging of samples greatly helps improving graph organization and makes our presentations clearer than other graph and network visualizations. Capturing labels in the vertices also brings the possibility of clearly comparing two or more microbial communities by showing their common and unique parts. PMID:27279729

  4. The Vertex Version of Weighted Wiener Number for Bicyclic Molecular Structures

    PubMed Central

    Gao, Wei; Wang, Weifan

    2015-01-01

    Graphs are used to model chemical compounds and drugs. In the graphs, each vertex represents an atom of molecule and edges between the corresponding vertices are used to represent covalent bounds between atoms. We call such a graph, which is derived from a chemical compound, a molecular graph. Evidence shows that the vertex-weighted Wiener number, which is defined over this molecular graph, is strongly correlated to both the melting point and boiling point of the compounds. In this paper, we report the extremal vertex-weighted Wiener number of bicyclic molecular graph in terms of molecular structural analysis and graph transformations. The promising prospects of the application for the chemical and pharmacy engineering are illustrated by theoretical results achieved in this paper. PMID:26640513

  5. Graph500 in OpenSHMEM

    SciTech Connect

    D'Azevedo, Ed F; Imam, Neena

    2015-01-01

    This document describes the effort to implement the Graph 500 benchmark using OpenSHMEM based on the MPI-2 one-side version. The Graph 500 benchmark performs a breadth-first search in parallel on a large randomly generated undirected graph and can be implemented using basic MPI-1 and MPI-2 one-sided communication. Graph 500 requires atomic bit-wise operations on unsigned long integers but neither atomic bit-wise operations nor OpenSHMEM for unsigned long are available in OpenSHEM. Such needed bit-wise atomic operations and support for unsigned long are implemented using atomic condition swap (CSWAP) on signed long integers. Preliminary results on comparing the OpenSHMEM and MPI-2 one-sided implementations on a Silicon Graphics Incorporated (SGI) cluster and the Cray XK7 are presented.

  6. Logical reasoning necessary to make line graphs

    NASA Astrophysics Data System (ADS)

    Wavering, Michael J.

    A study was conducted to determine the logical reasoning necessary to construct line graphs. Three types of line graphs were used: a straight line with a positive slope, a straight line with a negative slope, and an exponentially increasing curve. The subjects were students in grades six through twelve enrolled in a laboratory school. The responses were classified into one of nine categories. The categories ranged from no attempt to make a graph to a complete graph with a statement of a relationship between the variables. Subjects in grades six through eight exhibited behaviors mainly in the first four categories, ninth- and tenth-grade subjects scored in the middle categories, and eleventh and twelfth graders scored mainly in the upper categories. These response categories also showed a close fit with Piagetian concrete operational structures for single and double seriation and formal operational structures for proportional reasoning and correlational reasoning.

  7. Strong sum distance in fuzzy graphs.

    PubMed

    Tom, Mini; Sunitha, Muraleedharan Shetty

    2015-01-01

    In this paper the idea of strong sum distance which is a metric, in a fuzzy graph is introduced. Based on this metric the concepts of eccentricity, radius, diameter, center and self centered fuzzy graphs are studied. Some properties of eccentric nodes, peripheral nodes and central nodes are obtained. A characterisation of self centered complete fuzzy graph is obtained and conditions under which a fuzzy cycle is self centered are established. We have proved that based on this metric, an eccentric node of a fuzzy tree G is a fuzzy end node of G and a node is an eccentric node of a fuzzy tree if and only if it is a peripheral node of G and the center of a fuzzy tree consists of either one or two neighboring nodes. The concepts of boundary nodes and interior nodes in a fuzzy graph based on strong sum distance are introduced. Some properties of boundary nodes, interior nodes and complete nodes are studied.

  8. Bipartite Graphs of Large Clique-Width

    NASA Astrophysics Data System (ADS)

    Korpelainen, Nicholas; Lozin, Vadim V.

    Recently, several constructions of bipartite graphs of large clique-width have been discovered in the literature. In the present paper, we propose a general framework for developing such constructions and use it to obtain new results on this topic.

  9. Fault-tolerant dynamic task graph scheduling

    SciTech Connect

    Kurt, Mehmet C.; Krishnamoorthy, Sriram; Agrawal, Kunal; Agrawal, Gagan

    2014-11-16

    In this paper, we present an approach to fault tolerant execution of dynamic task graphs scheduled using work stealing. In particular, we focus on selective and localized recovery of tasks in the presence of soft faults. We elicit from the user the basic task graph structure in terms of successor and predecessor relationships. The work stealing-based algorithm to schedule such a task graph is augmented to enable recovery when the data and meta-data associated with a task get corrupted. We use this redundancy, and the knowledge of the task graph structure, to selectively recover from faults with low space and time overheads. We show that the fault tolerant design retains the essential properties of the underlying work stealing-based task scheduling algorithm, and that the fault tolerant execution is asymptotically optimal when task re-execution is taken into account. Experimental evaluation demonstrates the low cost of recovery under various fault scenarios.

  10. Efficient multiple-way graph partitioning algorithms

    SciTech Connect

    Dasdan, A.; Aykanat, C.

    1995-12-01

    Graph partitioning deals with evenly dividing a graph into two or more parts such that the total weight of edges interconnecting these parts, i.e., cutsize, is minimized. Graph partitioning has important applications in VLSI layout, mapping, and sparse Gaussian elimination. Since graph partitioning problem is NP-hard, we should resort to polynomial-time algorithms to obtain a good solution, or hopefully a near-optimal solution. Kernighan-Lin (KL) propsoed a 2-way partitioning algorithms. Fiduccia-Mattheyses (FM) introduced a faster version of KL algorithm. Sanchis (FMS) generalized FM algorithm to a multiple-way partitioning algorithm. Simulated Annealing (SA) is one of the most successful approaches that are not KL-based.

  11. Exploring Hill Ciphers with Graphing Calculators.

    ERIC Educational Resources Information Center

    St. John, Dennis

    1998-01-01

    Explains how to code and decode messages using Hill ciphers which combine matrix multiplication and modular arithmetic. Discusses how a graphing calculator can facilitate the matrix and modular arithmetic used in the coding and decoding procedures. (ASK)

  12. Graph Theory and the High School Student.

    ERIC Educational Resources Information Center

    Chartrand, Gary; Wall, Curtiss E.

    1980-01-01

    Graph theory is presented as a tool to instruct high school mathematics students. A variety of real world problems can be modeled which help students recognize the importance and difficulty of applying mathematics. (MP)

  13. Bipartite graph partitioning and data clustering

    SciTech Connect

    Zha, Hongyuan; He, Xiaofeng; Ding, Chris; Gu, Ming; Simon, Horst D.

    2001-05-07

    Many data types arising from data mining applications can be modeled as bipartite graphs, examples include terms and documents in a text corpus, customers and purchasing items in market basket analysis and reviewers and movies in a movie recommender system. In this paper, the authors propose a new data clustering method based on partitioning the underlying biopartite graph. The partition is constructed by minimizing a normalized sum of edge weights between unmatched pairs of vertices of the bipartite graph. They show that an approximate solution to the minimization problem can be obtained by computing a partial singular value decomposition (SVD) of the associated edge weight matrix of the bipartite graph. They point out the connection of their clustering algorithm to correspondence analysis used in multivariate analysis. They also briefly discuss the issue of assigning data objects to multiple clusters. In the experimental results, they apply their clustering algorithm to the problem of document clustering to illustrate its effectiveness and efficiency.

  14. Pre-Service Elementary Teachers' Understandings of Graphs

    ERIC Educational Resources Information Center

    Alacaci, Cengiz; Lewis, Scott; O'Brien, George E.; Jiang, Zhonghong

    2011-01-01

    Choosing graphs to display quantitative information is a component of "graph sense". An important aspect of pre-service elementary teachers' content knowledge; ability to choose appropriate graphs in applied contexts is investigated in this study. They were given three scenarios followed by four graphs representing the same quantitative data. They…

  15. 47 CFR 73.184 - Groundwave field strength graphs.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 47 Telecommunication 4 2014-10-01 2014-10-01 false Groundwave field strength graphs. 73.184... RADIO BROADCAST SERVICES AM Broadcast Stations § 73.184 Groundwave field strength graphs. (a) Graphs 1... graph paper and each is to be used for the range of frequencies shown thereon. Computations are based...

  16. 47 CFR 73.184 - Groundwave field strength graphs.

    Code of Federal Regulations, 2010 CFR

    2010-10-01

    ... 47 Telecommunication 4 2010-10-01 2010-10-01 false Groundwave field strength graphs. 73.184... RADIO BROADCAST SERVICES AM Broadcast Stations § 73.184 Groundwave field strength graphs. (a) Graphs 1... graph paper and each is to be used for the range of frequencies shown thereon. Computations are based...

  17. 47 CFR 73.184 - Groundwave field strength graphs.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 47 Telecommunication 4 2012-10-01 2012-10-01 false Groundwave field strength graphs. 73.184... RADIO BROADCAST SERVICES AM Broadcast Stations § 73.184 Groundwave field strength graphs. (a) Graphs 1... graph paper and each is to be used for the range of frequencies shown thereon. Computations are based...

  18. 47 CFR 73.184 - Groundwave field strength graphs.

    Code of Federal Regulations, 2013 CFR

    2013-10-01

    ... 47 Telecommunication 4 2013-10-01 2013-10-01 false Groundwave field strength graphs. 73.184... RADIO BROADCAST SERVICES AM Broadcast Stations § 73.184 Groundwave field strength graphs. (a) Graphs 1... graph paper and each is to be used for the range of frequencies shown thereon. Computations are based...

  19. Continuous Time Group Discovery in Dynamic Graphs

    SciTech Connect

    Miller, K; Eliassi-Rad, T

    2010-11-04

    With the rise in availability and importance of graphs and networks, it has become increasingly important to have good models to describe their behavior. While much work has focused on modeling static graphs, we focus on group discovery in dynamic graphs. We adapt a dynamic extension of Latent Dirichlet Allocation to this task and demonstrate good performance on two datasets. Modeling relational data has become increasingly important in recent years. Much work has focused on static graphs - that is fixed graphs at a single point in time. Here we focus on the problem of modeling dynamic (i.e. time-evolving) graphs. We propose a scalable Bayesian approach for community discovery in dynamic graphs. Our approach is based on extensions of Latent Dirichlet Allocation (LDA). LDA is a latent variable model for topic modeling in text corpora. It was extended to deal with topic changes in discrete time and later in continuous time. These models were referred to as the discrete Dynamic Topic Model (dDTM) and the continuous Dynamic Topic Model (cDTM), respectively. When adapting these models to graphs, we take our inspiration from LDA-G and SSN-LDA, applications of LDA to static graphs that have been shown to effectively factor out community structure to explain link patterns in graphs. In this paper, we demonstrate how to adapt and apply the cDTM to the task of finding communities in dynamic networks. We use link prediction to measure the quality of the discovered community structure and apply it to two different relational datasets - DBLP author-keyword and CAIDA autonomous systems relationships. We also discuss a parallel implementation of this approach using Hadoop. In Section 2, we review LDA and LDA-G. In Section 3, we review the cDTM and introduce cDTMG, its adaptation to modeling dynamic graphs. We discuss inference for the cDTM-G and details of our parallel implementation in Section 4 and present its performance on two datasets in Section 5 before concluding in

  20. Understanding graphs with two independent variables

    NASA Astrophysics Data System (ADS)

    Cooper, Jennifer L.

    Adults are not necessarily competent users of graphs with two independent variables, despite the frequency of this representational format. The three tasks in this thesis address the impact of interpretation statements and graph patterns. Interpretation statements were based on the statistical effects -- simple effects, main effects, and interactions. Graph patterns were systematically varied based on a novel classification scheme of graphs with two IVs. I suggest that the complexity of a graph's data pattern depends on the consistency of the simple effects' directions and magnitudes. In the first study, undergraduates constructed graphs based on statements about data patterns. Errors reflected a misunderstanding of how two IVs could be combined and represented graphically. When the experimental group had graph-relevant information added (variable labels spatially located on axes), the ability to represent the relationships among the IVs significantly increased. The ability to satisfy the constraints imposed by the statements was not affected. Adding labels specifically targeted skills relevant to graphical literacy. Transfer to a third trial was stronger for those of higher math abilities. The second study focused on the effect of an introductory statistics course. Overall, undergraduates performed well on statements describing the simple effects of the IVs. However, even though they improved from Time 1 to Time 2 for interaction statements, performance on statements about main effects and interactions still showed considerable room for improvement. In the third study, repeated trials of the 20 patterns proposed by the simple effects consistency model established that the proposed classification scheme addresses additional sources of variability in reasoning with graphs (i.e., sources not captured by traditional classification schemes). As the complexity level of the data pattern increased, performance (based on accuracy and RT) decreased, with parallel impacts on