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 Mathematics , 2013, Abstract: We call a topological ordering of a weighted directed acyclic graph non-negative if the sum of weights on the vertices in any pre?x of the ordering is non-negative. We investigate two processes for constructing non-negative topological orderings of weighted directed acyclic graphs. The ?rst process is called a mark sequence and the second is a generalization called a mark-unmark sequence. We answer a question of Erickson by showing that every non-negative topological ordering that can be realized by a mark-unmark sequence can also be realized by a mark sequence. We also investigate the question of whether a given weighted directed acyclic graph has a non-negative topological ordering. We show that even in the simple case when every vertex is a source or a sink the question is NP-complete.
 Physics , 2009, DOI: 10.1140/epjb/e2010-00261-8 Abstract: In this paper, we develop the idea to partition the edges of a weighted graph in order to uncover overlapping communities of its nodes. Our approach is based on the construction of different types of weighted line graphs, i.e. graphs whose nodes are the links of the original graph, that encapsulate differently the relations between the edges. Weighted line graphs are argued to provide an alternative, valuable representation of the system's topology, and are shown to have important applications in community detection, as the usual node partition of a line graph naturally leads to an edge partition of the original graph. This identification allows us to use traditional partitioning methods in order to address the long-standing problem of the detection of overlapping communities. We apply it to the analysis of different social and geographical networks.
 Bin Jiang Physics , 2014, Abstract: As an important practice of map generalization, the aim of line simplification is to reduce the number of points without destroying the essential shape or the salient character of a cartographic curve. This subject has been well-studied in the literature. This entry attempts to introduce how line simplification can be guided by fractal geometry, or the recurring scaling pattern of far more small things than large ones. The line simplification process involves nothing more than removing small things while retaining large ones based on head/tail breaks.
 Quantitative Biology , 2015, Abstract: Persistent homology has been devised as a promising tool for the topological simplification of complex data. However, it is computationally intractable for large data sets. In this work, we introduce multiresolution persistent homology for tackling large data sets. Our basic idea is to match the resolution with the scale of interest so as to create a topological microscopy for the underlying data. We utilize flexibility-rigidity index (FRI) to access the topological connectivity of the data set and define a rigidity density for the filtration analysis. By appropriately tuning the resolution, we are able to focus the topological lens on a desirable scale. The proposed multiresolution topological analysis is validated by a hexagonal fractal image which has three distinct scales. We further demonstrate the proposed method for extracting topological fingerprints from DNA and RNA molecules. In particular, the topological persistence of a virus capsid with 240 protein monomers is successfully analyzed which would otherwise be inaccessible to the normal point cloud method and unreliable by using coarse-grained multiscale persistent homology. The proposed method has also been successfully applied to the protein domain classification, which is the first time that persistent homology is used for practical protein domain analysis, to our knowledge. The proposed multiresolution topological method has potential applications in arbitrary data sets, such as social networks, biological networks and graphs.
 International Journal of Computer Science Issues , 2012, Abstract: The aim of this paper is to present an algorithm which gives all the possible paths that start from a specific node to another of a weighted multi-graph. This algorithm is intended to be applied for the direct topological method.
 Computer Science , 2012, Abstract: The aim of this paper is to present an algorithm which gives all the possible paths that start from a specific node to another of a weighted multi-graph. This algorithm is intended to be applied for the direct topological method.
 Peter Herbrich Mathematics , 2015, Abstract: We study isospectrality for mixed Dirichlet-Neumann boundary conditions, and extend the previously derived graph-theoretic formulation of the transplantation method. Led by the theory of Brownian motion, we introduce vertex-colored and edge-colored line graphs that give rise to block diagonal transplantation matrices. In particular, we rephrase the transplantation method in terms of representations of free semigroups, and provide a method for generating adjacency cospectral weighted directed graphs.
 Mathematics , 2012, DOI: 10.1142/S0219498812502234 Abstract: We study weighted graphs and their "edge ideals" which are ideals in polynomial rings that are defined in terms of the graphs. We provide combinatorial descriptions of m-irreducible decompositions for the edge ideal of a weighted graph in terms of the combinatorics of "weighted vertex covers". We use these, for instance, to say when these ideals are m-unmixed. We explicitly describe which weighted cycles, suspensions, and trees are unmixed and which ones are Cohen-Macaulay, and we prove that all weighted complete graphs are Cohen-Macaulay.
 Physics , 2010, DOI: 10.1016/j.physa.2011.03.009 Abstract: The line graphs are clustered and assortative. They share these topological features with some social networks. We argue that this similarity reveals the cliquey character of the social networks. 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 x 10^6 people. In particular, sharp maxima of the observed data of the degree dependence of the clustering coefficient C(k) are associated with cliques in the social network.
 Mathematics , 2014, Abstract: We introduce and study the weighted $r$-path ideal of a weighted graph $G_\omega$, which is a common generalization of Conca and De Negri's $r$-path ideal for unweighted graphs and Paulsen and Sather-Wagstaff's edge ideal of the weighted graph. Over a field, we explicitly describe primary decompositions of these ideals, and we characterize Cohen-Macaulayness of these ideals for trees (with arbitrary $r$) and complete graphs (for $r=2$).
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