Search results for: Vertices
Commenced in January 2007
Frequency: Monthly
Edition: International
Paper Count: 65

Search results for: Vertices

35 On Fractional (k,m)-Deleted Graphs with Constrains Conditions

Authors: Sizhong Zhou, Hongxia Liu

Abstract:

Let G be a graph of order n, and let k  2 and m  0 be two integers. Let h : E(G)  [0, 1] be a function. If e∋x h(e) = k holds for each x  V (G), then we call G[Fh] a fractional k-factor of G with indicator function h where Fh = {e  E(G) : h(e) > 0}. A graph G is called a fractional (k,m)-deleted graph if there exists a fractional k-factor G[Fh] of G with indicator function h such that h(e) = 0 for any e  E(H), where H is any subgraph of G with m edges. In this paper, it is proved that G is a fractional (k,m)-deleted graph if (G)  k + m + m k+1 , n  4k2 + 2k − 6 + (4k 2 +6k−2)m−2 k−1 and max{dG(x), dG(y)}  n 2 for any vertices x and y of G with dG(x, y) = 2. Furthermore, it is shown that the result in this paper is best possible in some sense.

Keywords: Graph, degree condition, fractional k-factor, fractional (k, m)-deleted graph.

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34 A Neighborhood Condition for Fractional k-deleted Graphs

Authors: Sizhong Zhou, Hongxia Liu

Abstract:

Abstract–Let k ≥ 3 be an integer, and let G be a graph of order n with n ≥ 9k +3- 42(k - 1)2 + 2. Then a spanning subgraph F of G is called a k-factor if dF (x) = k for each x ∈ V (G). A fractional k-factor is a way of assigning weights to the edges of a graph G (with all weights between 0 and 1) such that for each vertex the sum of the weights of the edges incident with that vertex is k. A graph G is a fractional k-deleted graph if there exists a fractional k-factor after deleting any edge of G. In this paper, it is proved that G is a fractional k-deleted graph if G satisfies δ(G) ≥ k + 1 and |NG(x) ∪ NG(y)| ≥ 1 2 (n + k - 2) for each pair of nonadjacent vertices x, y of G.

Keywords: Graph, minimum degree, neighborhood union, fractional k-factor, fractional k-deleted graph.

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33 Detecting Community Structure in Amino Acid Interaction Networks

Authors: Omar GACI, Stefan BALEV, Antoine DUTOT

Abstract:

In this paper we introduce the notion of protein interaction network. This is a graph whose vertices are the protein-s amino acids and whose edges are the interactions between them. Using a graph theory approach, we observe that according to their structural roles, the nodes interact differently. By leading a community structure detection, we confirm this specific behavior and describe thecommunities composition to finally propose a new approach to fold a protein interaction network.

Keywords: interaction network, protein structure, community structure detection.

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32 On Detour Spectra of Some Graphs

Authors: S.K.Ayyaswamy, S.Balachandran

Abstract:

The Detour matrix (DD) of a graph has for its ( i , j) entry the length of the longest path between vertices i and j. The DD-eigenvalues of a connected graph G are the eigenvalues for its detour matrix, and they form the DD-spectrum of G. The DD-energy EDD of the graph G is the sum of the absolute values of its DDeigenvalues. Two connected graphs are said to be DD- equienergetic if they have equal DD-energies. In this paper, the DD- spectra of a variety of graphs and their DD-energies are calculated.

Keywords: Detour eigenvalue (of a graph), detour spectrum(of a graph), detour energy(of a graph), detour - equienergetic graphs.

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31 Mutually Independent Hamiltonian Cycles of Cn x Cn

Authors: Kai-Siou Wu, Justie Su-Tzu Juan

Abstract:

In a graph G, a cycle is Hamiltonian cycle if it contain all vertices of G. Two Hamiltonian cycles C_1 = ⟨u_0, u_1, u_2, ..., u_{n−1}, u_0⟩ and C_2 = ⟨v_0, v_1, v_2, ..., v_{n−1}, v_0⟩ in G are independent if u_0 = v_0, u_i = ̸ v_i for all 1 ≤ i ≤ n−1. In G, a set of Hamiltonian cycles C = {C_1, C_2, ..., C_k} is mutually independent if any two Hamiltonian cycles of C are independent. The mutually independent Hamiltonicity IHC(G), = k means there exist a maximum integer k such that there exists k-mutually independent Hamiltonian cycles start from any vertex of G. In this paper, we prove that IHC(C_n × C_n) = 4, for n ≥ 3.

Keywords: Hamiltonian, independent, cycle, Cartesian product, mutually independent Hamiltonicity

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30 Induced Acyclic Graphoidal Covers in a Graph

Authors: K. Ratan Singh, P. K. Das

Abstract:

An induced acyclic graphoidal cover of a graph G is a collection ψ of open paths in G such that every path in ψ has atleast two vertices, every vertex of G is an internal vertex of at most one path in ψ, every edge of G is in exactly one path in ψ and every member of ψ is an induced path. The minimum cardinality of an induced acyclic graphoidal cover of G is called the induced acyclic graphoidal covering number of G and is denoted by ηia(G) or ηia. Here we find induced acyclic graphoidal cover for some classes of graphs.

Keywords: Graphoidal cover, Induced acyclic graphoidal cover, Induced acyclic graphoidal covering number.

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29 Eccentric Connectivity Index, First and Second Zagreb Indices of Corona Graph

Authors: A. Kulandai Therese

Abstract:

The eccentric connectivity index based on degree and eccentricity of the vertices of a graph is a widely used graph invariant in mathematics. In this paper, we present the explicit eccentric connectivity index, first and second Zagreb indices for a Corona graph and sub divisionrelated corona graphs.

Keywords: Corona graph, Degree, Eccentricity, Eccentric Connectivity Index, First Zagreb index, Second Zagreb index and Subdivision graphs.

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28 Efficient Filtering of Graph Based Data Using Graph Partitioning

Authors: Nileshkumar Vaishnav, Aditya Tatu

Abstract:

An algebraic framework for processing graph signals axiomatically designates the graph adjacency matrix as the shift operator. In this setup, we often encounter a problem wherein we know the filtered output and the filter coefficients, and need to find out the input graph signal. Solution to this problem using direct approach requires O(N3) operations, where N is the number of vertices in graph. In this paper, we adapt the spectral graph partitioning method for partitioning of graphs and use it to reduce the computational cost of the filtering problem. We use the example of denoising of the temperature data to illustrate the efficacy of the approach.

Keywords: Graph signal processing, graph partitioning, inverse filtering on graphs, algebraic signal processing.

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27 Graphs with Metric Dimension Two-A Characterization

Authors: Sudhakara G, Hemanth Kumar A.R

Abstract:

In this paper, we define distance partition of vertex set of a graph G with reference to a vertex in it and with the help of the same, a graph with metric dimension two (i.e. β (G) = 2 ) is characterized. In the process, we develop a polynomial time algorithm that verifies if the metric dimension of a given graph G is two. The same algorithm explores all metric bases of graph G whenever β (G) = 2 . We also find a bound for cardinality of any distance partite set with reference to a given vertex, when ever β (G) = 2 . Also, in a graph G with β (G) = 2 , a bound for cardinality of any distance partite set as well as a bound for number of vertices in any sub graph H of G is obtained in terms of diam H .

Keywords: Metric basis, Distance partition, Metric dimension.

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26 Nullity of t-Tupple Graphs

Authors: Khidir R. Sharaf, Didar A. Ali

Abstract:

The nullity η(G) of a graph is the occurrence of zero as an eigenvalue in its spectra. A zero-sum weighting of a graph G is real valued function, say f from vertices of G to the set of real numbers, provided that for each vertex of G the summation of the weights f(w) over all neighborhood w of v is zero for each v in G.A high zero-sum weighting of G is one that uses maximum number of non-zero independent variables. If G is graph with an end vertex, and if H is an induced subgraph of G obtained by deleting this vertex together with the vertex adjacent to it, then, η(G)= η(H). In this paper, a high zero-sum weighting technique and the endvertex procedure are applied to evaluate the nullity of t-tupple and generalized t-tupple graphs are derived  and determined for some special types of graphs,

 Also, we introduce and prove some important results about the t-tupple coalescence, Cartesian and Kronecker products of nut graphs.

Keywords: Graph theory, Graph spectra, Nullity of graphs.

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25 A Deterministic Polynomial-time Algorithm for the Clique Problem and the Equality of P and NP Complexity Classes

Authors: Zohreh O. Akbari

Abstract:

In this paper a deterministic polynomial-time algorithm is presented for the Clique problem. The case is considered as the problem of omitting the minimum number of vertices from the input graph so that none of the zeroes on the graph-s adjacency matrix (except the main diagonal entries) would remain on the adjacency matrix of the resulting subgraph. The existence of a deterministic polynomial-time algorithm for the Clique problem, as an NP-complete problem will prove the equality of P and NP complexity classes.

Keywords: Clique problem, Deterministic Polynomial-time Algorithm, Equality of P and NP Complexity Classes.

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24 Allocation of Mobile Units in an Urban Emergency Service System

Authors: Dimitra Alexiou

Abstract:

In an urban area the location allocation of emergency services mobile units, such as ambulances, police patrol cars must be designed so as to achieve a prompt response to demand locations. In this paper the partition of a given urban network into distinct sub-networks is performed such that the vertices in each component are close and simultaneously the sums of the corresponding population in the sub-networks are almost uniform. The objective here is to position appropriately in each sub-network a mobile emergency unit in order to reduce the response time to the demands. A mathematical model in framework of graph theory is developed. In order to clarify the corresponding method a relevant numerical example is presented on a small network.

Keywords: Distances, Emergency Service, Graph Partition, location.

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23 Approximating Maximum Weighted Independent Set Using Vertex Support

Authors: S. Balaji, V. Swaminathan, K. Kannan

Abstract:

The Maximum Weighted Independent Set (MWIS) problem is a classic graph optimization NP-hard problem. Given an undirected graph G = (V, E) and weighting function defined on the vertex set, the MWIS problem is to find a vertex set S V whose total weight is maximum subject to no two vertices in S are adjacent. This paper presents a novel approach to approximate the MWIS of a graph using minimum weighted vertex cover of the graph. Computational experiments are designed and conducted to study the performance of our proposed algorithm. Extensive simulation results show that the proposed algorithm can yield better solutions than other existing algorithms found in the literature for solving the MWIS.

Keywords: weighted independent set, vertex cover, vertex support, heuristic, NP - hard problem.

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22 Image Segment Matching Using Affine- Invariant Regions

Authors: Ibrahim El rube'

Abstract:

In this paper, a method for matching image segments using triangle-based (geometrical) regions is proposed. Triangular regions are formed from triples of vertex points obtained from a keypoint detector (SIFT). However, triangle regions are subject to noise and distortion around the edges and vertices (especially acute angles). Therefore, these triangles are expanded into parallelogramshaped regions. The extracted image segments inherit an important triangle property; the invariance to affine distortion. Given two images, matching corresponding regions is conducted by computing the relative affine matrix, rectifying one of the regions w.r.t. the other one, then calculating the similarity between the reference and rectified region. The experimental tests show the efficiency and robustness of the proposed algorithm against geometrical distortion.

Keywords: Image matching, key point detection, affine invariant, triangle-shaped segments.

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21 3D Mesh Coarsening via Uniform Clustering

Authors: Shuhua Lai, Kairui Chen

Abstract:

In this paper, we present a fast and efficient mesh coarsening algorithm for 3D triangular meshes. Theis approach can be applied to very complex 3D meshes of arbitrary topology and with millions of vertices. The algorithm is based on the clustering of the input mesh elements, which divides the faces of an input mesh into a given number of clusters for clustering purpose by approximating the Centroidal Voronoi Tessellation of the input mesh. Once a clustering is achieved, it provides us an efficient way to construct uniform tessellations, and therefore leads to good coarsening of polygonal meshes. With proliferation of 3D scanners, this coarsening algorithm is particularly useful for reverse engineering applications of 3D models, which in many cases are dense, non-uniform, irregular and arbitrary topology. Examples demonstrating effectiveness of the new algorithm are also included in the paper.

Keywords: Coarsening, mesh clustering, shape approximation, mesh simplification.

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20 A Genetic Based Algorithm to Generate Random Simple Polygons Using a New Polygon Merge Algorithm

Authors: Ali Nourollah, Mohsen Movahedinejad

Abstract:

In this paper a new algorithm to generate random simple polygons from a given set of points in a two dimensional plane is designed. The proposed algorithm uses a genetic algorithm to generate polygons with few vertices. A new merge algorithm is presented which converts any two polygons into a simple polygon. This algorithm at first changes two polygons into a polygonal chain and then the polygonal chain is converted into a simple polygon. The process of converting a polygonal chain into a simple polygon is based on the removal of intersecting edges. The experiments results show that the proposed algorithm has the ability to generate a great number of different simple polygons and has better performance in comparison to celebrated algorithms such as space partitioning and steady growth.

Keywords: Divide and conquer, genetic algorithm, merge polygons, Random simple polygon generation.

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19 An Efficient Heuristic for the Minimum Connected Dominating Set Problem on Ad Hoc Wireless Networks

Authors: S. Balaji, N. Revathi

Abstract:

Connected dominating set (CDS) problem in unit disk graph has signi£cant impact on an ef£cient design of routing protocols in wireless sensor networks, where the searching space for a route is reduced to nodes in the set. A set is dominating if all the nodes in the system are either in the set or neighbors of nodes in the set. In this paper, a simple and ef£cient heuristic method is proposed for £nding a minimum connected dominating set (MCDS) in ad hoc wireless networks based on the new parameter support of vertices. With this parameter the proposed heuristic approach effectively £nds the MCDS of a graph. Extensive computational experiments show that the proposed approach outperforms the recently proposed heuristics found in the literature for the MCD

Keywords: ad hoc wireless networks, dominating sets, unit disk graphs, heuristic.

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18 Visual Hull with Imprecise Input

Authors: Peng He

Abstract:

Imprecision is a long-standing problem in CAD design and high accuracy image-based reconstruction applications. The visual hull which is the closed silhouette equivalent shape of the objects of interest is an important concept in image-based reconstruction. We extend the domain-theoretic framework, which is a robust and imprecision capturing geometric model, to analyze the imprecision in the output shape when the input vertices are given with imprecision. Under this framework, we show an efficient algorithm to generate the 2D partial visual hull which represents the exact information of the visual hull with only basic imprecision assumptions. We also show how the visual hull from polyhedra problem can be efficiently solved in the context of imprecise input.

Keywords: Geometric Domain, Computer Vision, Computational Geometry, Visual Hull, Image-Based reconstruction, Imprecise Input, CAD object

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17 Computing Maximum Uniquely Restricted Matchings in Restricted Interval Graphs

Authors: Swapnil Gupta, C. Pandu Rangan

Abstract:

A uniquely restricted matching is defined to be a matching M whose matched vertices induces a sub-graph which has only one perfect matching. In this paper, we make progress on the open question of the status of this problem on interval graphs (graphs obtained as the intersection graph of intervals on a line). We give an algorithm to compute maximum cardinality uniquely restricted matchings on certain sub-classes of interval graphs. We consider two sub-classes of interval graphs, the former contained in the latter, and give O(|E|^2) time algorithms for both of them. It is to be noted that both sub-classes are incomparable to proper interval graphs (graphs obtained as the intersection graph of intervals in which no interval completely contains another interval), on which the problem can be solved in polynomial time.

Keywords: Uniquely restricted matching, interval graph, design and analysis of algorithms, matching, induced matching, witness counting.

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16 A New Method for Contour Approximation Using Basic Ramer Idea

Authors: Ali Abdrhman Ukasha

Abstract:

This paper presented two new efficient algorithms for contour approximation. The proposed algorithm is compared with Ramer (good quality), Triangle (faster) and Trapezoid (fastest) in this work; which are briefly described. Cartesian co-ordinates of an input contour are processed in such a manner that finally contours is presented by a set of selected vertices of the edge of the contour. In the paper the main idea of the analyzed procedures for contour compression is performed. For comparison, the mean square error and signal-to-noise ratio criterions are used. Computational time of analyzed methods is estimated depending on a number of numerical operations. Experimental results are obtained both in terms of image quality, compression ratios, and speed. The main advantages of the analyzed algorithm is small numbers of the arithmetic operations compared to the existing algorithms.

Keywords: Polygonal approximation, Ramer, Triangle and Trapezoid methods.

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15 An Improved Method to Compute Sparse Graphs for Traveling Salesman Problem

Authors: Y. Wang

Abstract:

The Traveling salesman problem (TSP) is NP-hard in combinatorial optimization. The research shows the algorithms for TSP on the sparse graphs have the shorter computation time than those for TSP according to the complete graphs. We present an improved iterative algorithm to compute the sparse graphs for TSP by frequency graphs computed with frequency quadrilaterals. The iterative algorithm is enhanced by adjusting two parameters of the algorithm. The computation time of the algorithm is O(CNmaxn2) where C is the iterations, Nmax is the maximum number of frequency quadrilaterals containing each edge and n is the scale of TSP. The experimental results showed the computed sparse graphs generally have less than 5n edges for most of these Euclidean instances. Moreover, the maximum degree and minimum degree of the vertices in the sparse graphs do not have much difference. Thus, the computation time of the methods to resolve the TSP on these sparse graphs will be greatly reduced.

Keywords: Frequency quadrilateral, iterative algorithm, sparse graph, traveling salesman problem.

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14 3D Object Model Reconstruction Based on Polywogs Wavelet Network Parametrization

Authors: Mohamed Othmani, Yassine Khlifi

Abstract:

This paper presents a technique for compact three dimensional (3D) object model reconstruction using wavelet networks. It consists to transform an input surface vertices into signals,and uses wavelet network parameters for signal approximations. To prove this, we use a wavelet network architecture founded on several mother wavelet families. POLYnomials WindOwed with Gaussians (POLYWOG) wavelet families are used to maximize the probability to select the best wavelets which ensure the good generalization of the network. To achieve a better reconstruction, the network is trained several iterations to optimize the wavelet network parameters until the error criterion is small enough. Experimental results will shown that our proposed technique can effectively reconstruct an irregular 3D object models when using the optimized wavelet network parameters. We will prove that an accurateness reconstruction depends on the best choice of the mother wavelets.

Keywords: 3D object, optimization, parametrization, Polywog wavelets, reconstruction, wavelet networks.

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13 Spanning Tree Transformation of Connected Graphs into Single-Row Networks

Authors: S.L. Loh, S. Salleh, N.H. Sarmin

Abstract:

A spanning tree of a connected graph is a tree which consists the set of vertices and some or perhaps all of the edges from the connected graph. In this paper, a model for spanning tree transformation of connected graphs into single-row networks, namely Spanning Tree of Connected Graph Modeling (STCGM) will be introduced. Path-Growing Tree-Forming algorithm applied with Vertex-Prioritized is contained in the model to produce the spanning tree from the connected graph. Paths are produced by Path-Growing and they are combined into a spanning tree by Tree-Forming. The spanning tree that is produced from the connected graph is then transformed into single-row network using Tree Sequence Modeling (TSM). Finally, the single-row routing problem is solved using a method called Enhanced Simulated Annealing for Single-Row Routing (ESSR).

Keywords: Graph theory, simulated annealing, single-rowrouting and spanning tree.

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12 The Vertex and Edge Irregular Total Labeling of an Amalgamation of Two Isomorphic Cycles

Authors: Nurdin

Abstract:

Suppose G(V,E) is a graph, a function f : V \cup E \to \{1, 2, 3, \cdots, k\} is called the total edge(vertex) irregular k-labelling for G such that for each two edges are different having distinct weights. The total edge(vertex) irregularity strength of G, denoted by tes(G)(tvs(G), is the smallest k positive integers such that G has a total edge(vertex) irregular k-labelling. In this paper, we determined the total edge(vertex) irregularity strength of an amalgamation of two isomorphic cycles. The total edge irregularity strength and the total vertex irregularity strength of two isomorphic cycles on n vertices are \lceil (2n+2)/3 \rceil and \lceil 2n/3 \rceil for n \geq 3, respectively.

Keywords: Amalgamation of graphs, irregular labelling, irregularity strength.

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11 Using a Semantic Self-Organising Web Page-Ranking Mechanism for Public Administration and Education

Authors: Marios Poulos, Sozon Papavlasopoulos, V. S. Belesiotis

Abstract:

In the proposed method for Web page-ranking, a novel theoretic model is introduced and tested by examples of order relationships among IP addresses. Ranking is induced using a convexity feature, which is learned according to these examples using a self-organizing procedure. We consider the problem of selforganizing learning from IP data to be represented by a semi-random convex polygon procedure, in which the vertices correspond to IP addresses. Based on recent developments in our regularization theory for convex polygons and corresponding Euclidean distance based methods for classification, we develop an algorithmic framework for learning ranking functions based on a Computational Geometric Theory. We show that our algorithm is generic, and present experimental results explaining the potential of our approach. In addition, we explain the generality of our approach by showing its possible use as a visualization tool for data obtained from diverse domains, such as Public Administration and Education.

Keywords: Computational Geometry, Education, e-Governance, Semantic Web.

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10 A Minimum Spanning Tree-Based Method for Initializing the K-Means Clustering Algorithm

Authors: J. Yang, Y. Ma, X. Zhang, S. Li, Y. Zhang

Abstract:

The traditional k-means algorithm has been widely used as a simple and efficient clustering method. However, the algorithm often converges to local minima for the reason that it is sensitive to the initial cluster centers. In this paper, an algorithm for selecting initial cluster centers on the basis of minimum spanning tree (MST) is presented. The set of vertices in MST with same degree are regarded as a whole which is used to find the skeleton data points. Furthermore, a distance measure between the skeleton data points with consideration of degree and Euclidean distance is presented. Finally, MST-based initialization method for the k-means algorithm is presented, and the corresponding time complexity is analyzed as well. The presented algorithm is tested on five data sets from the UCI Machine Learning Repository. The experimental results illustrate the effectiveness of the presented algorithm compared to three existing initialization methods.

Keywords: Degree, initial cluster center, k-means, minimum spanning tree.

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9 ROI Based Embedded Watermarking of Medical Images for Secured Communication in Telemedicine

Authors: Baisa L. Gunjal, Suresh N. Mali

Abstract:

Medical images require special safety and confidentiality because critical judgment is done on the information provided by medical images. Transmission of medical image via internet or mobile phones demands strong security and copyright protection in telemedicine applications. Here, highly secured and robust watermarking technique is proposed for transmission of image data via internet and mobile phones. The Region of Interest (ROI) and Non Region of Interest (RONI) of medical image are separated. Only RONI is used for watermark embedding. This technique results in exact recovery of watermark with standard medical database images of size 512x512, giving 'correlation factor' equals to 1. The correlation factor for different attacks like noise addition, filtering, rotation and compression ranges from 0.90 to 0.95. The PSNR with weighting factor 0.02 is up to 48.53 dBs. The presented scheme is non blind and embeds hospital logo of 64x64 size.

Keywords: Compression, DWT, ROI, Scrambling, Vertices

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8 Holomorphic Prioritization of Sets within Decagram of Strategic Decision Making of POSM Using Operational Research (OR): Analytic Hierarchy Process (AHP) Analysis

Authors: Elias O. Tembe, Hussain A. Al-Salamin

Abstract:

There is decagram of strategic decisions of operations and production/service management (POSM) within operational research (OR) which must collate, namely: design, inventory, quality, location, process and capacity, layout, scheduling, maintain ace, and supply chain. This paper presents an architectural configuration conceptual framework of a decagram of sets decisions in a form of mathematical complete graph and abelian graph. Mathematically, a complete graph is undirected (UDG), and directed (DG) a relationship where every pair of vertices is connected, collated, confluent, and holomorphic. There has not been any study conducted which, however, prioritizes the holomorphic sets which of POMS within OR field of study. The study utilizes OR structured technique known as The Analytic Hierarchy Process (AHP) analysis for organizing, sorting and prioritizing(ranking) the sets within the decagram of POMS according to their attribution (propensity), and provides an analysis how the prioritization has real-world application within the 21st century.

Keywords: AHP analysis, Decagram, Decagon, Holomorphic.

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7 Combining an Optimized Closed Principal Curve-Based Method and Evolutionary Neural Network for Ultrasound Prostate Segmentation

Authors: Tao Peng, Jing Zhao, Yanqing Xu, Jing Cai

Abstract:

Due to missing/ambiguous boundaries between the prostate and neighboring structures, the presence of shadow artifacts, as well as the large variability in prostate shapes, ultrasound prostate segmentation is challenging. To handle these issues, this paper develops a hybrid method for ultrasound prostate segmentation by combining an optimized closed principal curve-based method and the evolutionary neural network; the former can fit curves with great curvature and generate a contour composed of line segments connected by sorted vertices, and the latter is used to express an appropriate map function (represented by parameters of evolutionary neural network) for generating the smooth prostate contour to match the ground truth contour. Both qualitative and quantitative experimental results showed that our proposed method obtains accurate and robust performances.

Keywords: Ultrasound prostate segmentation, optimized closed polygonal segment method, evolutionary neural network, smooth mathematical model.

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6 Protein Graph Partitioning by Mutually Maximization of cycle-distributions

Authors: Frank Emmert Streib

Abstract:

The classification of the protein structure is commonly not performed for the whole protein but for structural domains, i.e., compact functional units preserved during evolution. Hence, a first step to a protein structure classification is the separation of the protein into its domains. We approach the problem of protein domain identification by proposing a novel graph theoretical algorithm. We represent the protein structure as an undirected, unweighted and unlabeled graph which nodes correspond the secondary structure elements of the protein. This graph is call the protein graph. The domains are then identified as partitions of the graph corresponding to vertices sets obtained by the maximization of an objective function, which mutually maximizes the cycle distributions found in the partitions of the graph. Our algorithm does not utilize any other kind of information besides the cycle-distribution to find the partitions. If a partition is found, the algorithm is iteratively applied to each of the resulting subgraphs. As stop criterion, we calculate numerically a significance level which indicates the stability of the predicted partition against a random rewiring of the protein graph. Hence, our algorithm terminates automatically its iterative application. We present results for one and two domain proteins and compare our results with the manually assigned domains by the SCOP database and differences are discussed.

Keywords: Graph partitioning, unweighted graph, protein domains.

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