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277,037
Eigenvalues of 2edgecoverings
, 2007
"... A 2edgecovering between G and H is an onto homomorphism from the vertices of G to the vertices of H so that each edge is covered twice and edges in H can be lifted back to edges in G. In this note we show how to compute the spectrum of G by computing the spectrum of two smaller graphs, namely a (m ..."
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A 2edgecovering between G and H is an onto homomorphism from the vertices of G to the vertices of H so that each edge is covered twice and edges in H can be lifted back to edges in G. In this note we show how to compute the spectrum of G by computing the spectrum of two smaller graphs, namely a
Minimal EdgeCoverings of Pairs of Sets
, 1995
"... A new minmax theorem concerning bisupermodular functions on pairs of sets is proved. As a special case, we derive an extension of (A. Lubiw's extension of) E. Györi's theorem on intervals, W. Mader's theorem on splitting off edges in directed graphs, J. Edmonds' theorem on matr ..."
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Cited by 70 (15 self)
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A new minmax theorem concerning bisupermodular functions on pairs of sets is proved. As a special case, we derive an extension of (A. Lubiw's extension of) E. Györi's theorem on intervals, W. Mader's theorem on splitting off edges in directed graphs, J. Edmonds' theorem
Graphical models, exponential families, and variational inference
, 2008
"... The formalism of probabilistic graphical models provides a unifying framework for capturing complex dependencies among random variables, and building largescale multivariate statistical models. Graphical models have become a focus of research in many statistical, computational and mathematical fiel ..."
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Cited by 800 (26 self)
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The formalism of probabilistic graphical models provides a unifying framework for capturing complex dependencies among random variables, and building largescale multivariate statistical models. Graphical models have become a focus of research in many statistical, computational and mathematical fields, including bioinformatics, communication theory, statistical physics, combinatorial optimization, signal and image processing, information retrieval and statistical machine learning. Many problems that arise in specific instances — including the key problems of computing marginals and modes of probability distributions — are best studied in the general setting. Working with exponential family representations, and exploiting the conjugate duality between the cumulant function and the entropy for exponential families, we develop general variational representations of the problems of computing likelihoods, marginal probabilities and most probable configurations. We describe how a wide varietyof algorithms — among them sumproduct, cluster variational methods, expectationpropagation, mean field methods, maxproduct and linear programming relaxation, as well as conic programming relaxations — can all be understood in terms of exact or approximate forms of these variational representations. The variational approach provides a complementary alternative to Markov chain Monte Carlo as a general source of approximation methods for inference in largescale statistical models.
Community detection in graphs
, 2009
"... The modern science of networks has brought significant advances to our understanding of complex systems. One of the most relevant features of graphs representing real systems is community structure, or clustering, i. e. the organization of vertices in clusters, with many edges joining vertices of th ..."
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Cited by 801 (1 self)
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The modern science of networks has brought significant advances to our understanding of complex systems. One of the most relevant features of graphs representing real systems is community structure, or clustering, i. e. the organization of vertices in clusters, with many edges joining vertices
Modeling and simulation of genetic regulatory systems: A literature review
 JOURNAL OF COMPUTATIONAL BIOLOGY
, 2002
"... In order to understand the functioning of organisms on the molecular level, we need to know which genes are expressed, when and where in the organism, and to which extent. The regulation of gene expression is achieved through genetic regulatory systems structured by networks of interactions between ..."
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Cited by 729 (15 self)
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In order to understand the functioning of organisms on the molecular level, we need to know which genes are expressed, when and where in the organism, and to which extent. The regulation of gene expression is achieved through genetic regulatory systems structured by networks of interactions between DNA, RNA, proteins, and small molecules. As most genetic regulatory networks of interest involve many components connected through interlocking positive and negative feedback loops, an intuitive understanding of their dynamics is hard to obtain. As a consequence, formal methods and computer tools for the modeling and simulation of genetic regulatory networks will be indispensable. This paper reviews formalisms that have been employed in mathematical biology and bioinformatics to describe genetic regulatory systems, in particular directed graphs, Bayesian networks, Boolean networks and their generalizations, ordinary and partial differential equations, qualitative differential equations, stochastic equations, and rulebased formalisms. In addition, the paper discusses how these formalisms have been used in the simulation of the behavior of actual regulatory systems.
Primitives for the manipulation of general subdivisions and the computations of Voronoi diagrams
 ACM Tmns. Graph
, 1985
"... The following problem is discussed: Given n points in the plane (the sites) and an arbitrary query point 4, find the site that is closest to q. This problem can be solved by constructing the Voronoi diagram of the given sites and then locating the query point in one of its regions. Two algorithms ar ..."
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Cited by 543 (11 self)
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The following problem is discussed: Given n points in the plane (the sites) and an arbitrary query point 4, find the site that is closest to q. This problem can be solved by constructing the Voronoi diagram of the given sites and then locating the query point in one of its regions. Two algorithms are given, one that constructs the Voronoi diagram in O(n log n) time, and another that inserts a new site in O(n) time. Both are based on the use of the Voronoi dual, or Delaunay triangulation, and are simple enough to be of practical value. The simplicity of both algorithms can be attributed to the separation of the geometrical and topological aspects of the problem and to the use of two simple but powerful primitives, a geometric predicate and an operator for manipulating the topology of the diagram. The topology is represented by a new data structure for generalized diagrams, that is, embeddings of graphs in twodimensional manifolds. This structure represents simultaneously an embedding, its dual, and its mirror image. Furthermore, just two operators are sufficient for building and modifying arbitrary diagrams.
Differential privacy . . .
, 2009
"... We show by means of several examples that robust statistical estimators present an excellent starting point for differentially private estimators. Our algorithms use a new paradigm for differentially private mechanisms, which we call ProposeTestRelease (PTR), and for which we give a formal definit ..."
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Cited by 629 (10 self)
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We show by means of several examples that robust statistical estimators present an excellent starting point for differentially private estimators. Our algorithms use a new paradigm for differentially private mechanisms, which we call ProposeTestRelease (PTR), and for which we give a formal definition and general composition theorems.
Application of Phylogenetic Networks in Evolutionary Studies
 SUBMITTED TO MBE 2005
, 2005
"... The evolutionary history of a set of taxa is usually represented by a phylogenetic tree, and this model has greatly facilitated the discussion and testing of hypotheses. However, it is well known that more complex evolutionary scenarios are poorly described by such models. Further, even when evoluti ..."
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Cited by 867 (15 self)
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reticulate events such as hybridization, horizontal gene transfer, recombination, or gene duplication andloss are believed to be involved, and, even in the absence of such events, phylogenetic networks have a useful role to play. This paper reviews the terminology used for phylogenetic networks and covers
Software pipelining: An effective scheduling technique for VLIW machines
, 1988
"... This paper shows that software pipelining is an effective and viable scheduling technique for VLIW processors. In software pipelining, iterations of a loop in the source program are continuously initiated at constant intervals, before the preceding iterations complete. The advantage of software pipe ..."
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Cited by 579 (3 self)
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This paper shows that software pipelining is an effective and viable scheduling technique for VLIW processors. In software pipelining, iterations of a loop in the source program are continuously initiated at constant intervals, before the preceding iterations complete. The advantage of software
Results 1  10
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277,037