74880
Line digraphs and coreflexive vertex sets
Abstract The concept of coreflexive set is introduced to study the structure of digraphs. New characterizations of line digraphs and n th-order line digraphs are given. Coreflexive sets also lead to another natural way of forming an intersection digraph from a given digraph.
2229369
Recognizing Berge Graphs
A graph is Berge if no induced subgraph of G is an odd cycle of length at least five or the complement of one. In this paper we give an algorithm to test if a graph G is Berge, with running time O(|V (G)|9). This is independent of the recent proof of the strong perfect graph conjecture.
11755901
Interactive mesh deformation with pseudo material effects
This paper presents a novel interactive mesh deformation method that can achieve various dynamic material effects, including elastic membrane and cloth effects. In our framework, a mesh is encoded by some differential quantities based on edge length and dihedral angle; and the deformation is formulated as a least square problem for preserving the edge length and dihedral angle via the differential quantities. In order to obtain anisotropic material effects, we further propose an edge-weighting scheme based on a user-specified vector field. To avoid specifying the local transformations, we set up an iterative scheme for solving the deformation. At last, several examples are presented to show that our approach can interactively generate visually pleasing deformations. Copyright © 2006 John Wiley & Sons, Ltd.
17821282
Clustering with Niching Genetic K-means Algorithm
GA-based clustering algorithms often employ either simple GA, steady state GA or their variants and fail to consistently and efficiently identify high quality solutions (best known optima) of given clustering problems, which involve large data sets with many local optima. To circumvent this problem, we propose Niching Genetic K-means Algorithm (NGKA) that is based on modified deterministic crowding and embeds the computationally attractive k-means. Our experiments show that NGKA can consistently and efficiently identify high quality solutions. Experiments use both simulated and real data with varying size and varying number of local optima. The significance of NGKA is also shown on the experimental data sets by comparing through simulations with Genetically Guided Algorithm (GGA) and Genetic K-means Algorithm (GKA).
38559771
Cycles through Large Degree Vertices in Digraphs: A Generalization of Meyniel's Theorem
LetD=(V, E) be a digraph with vertex setVof sizenand arc setE. Foru?V, letd(u) denote the degree ofu. AMeyniel set Mis a subset ofVsuch thatd(u)+d(v)?2n?1 for every pair of nonadjacent verticesuandvbelonging toM. In this paper we show that ifDis strongly connected, then every Meyniel setMlies in a (directed) cycle, generalizing Meyniel's theorem. Our proof yields anO(|M|n4) algorithm for finding such a cycle. As a corollary it follows that ifDis strongly connected, thenDcontains a cycle through all vertices of degree ?nwhich generalizes a result of Shi for undirected graphs.
34486970
Simulation of miscible binary mixtures based on lattice Boltzmann method
Miscible fluid mixtures, like pouring honey into water, Coca Cola into strong wine, are common phenomena in our daily life. While two miscible fluids are mixed together, their appearances in terms of colors and shapes will change due to their mixing interaction. The interaction between the mixture components could be regarded as a combination of the diffusing process and demixing process. If the former dominates the interaction, it is miscible; otherwise, it is immiscible. The complex microscopic interplay between the mixture components makes the simulation highly challenging. So far, there have been some dedicated research in computer graphics dealing with immiscible mixtures, but few works have been done focusing on miscible mixtures. In this paper, for the first time, we introduce a two-fluid lattice Boltzmann method (LBM), called TFLBM, applied to miscible binary mixtures. Different from other similar methods, the viscous and diffusing properties of the fluid in our work are considered separately, so that the physical insight is exposed more clearly and rationally. In addition, the operation of LBM is mostly a linear local computation, and graphics processing unit (GPU) has been utilized to achieve real-time simulation. Copyright © 2006 John Wiley & Sons, Ltd.
2180147
An experimental evaluation of a loop versus a reference design for two-channel microarrays
MOTIVATION
Despite theoretical arguments that so-called 'loop designs' for two-channel DNA microarray experiments are more efficient, biologists continue to use 'reference designs'. We describe two sets of microarray experiments with RNA from two different biological systems (TPA-stimulated mammalian cells and Streptomyces coelicolor). In each case, both a loop and a reference design were used with the same RNA preparations with the aim of studying their relative efficiency.


RESULTS
The results of these experiments show that (1) the loop design attains a much higher precision than the reference design, (2) multiplicative spot effects are a large source of variability, and if they are not accounted for in the mathematical model, for example, by taking log-ratios or including spot effects, then the model will perform poorly. The first result is reinforced by a simulation study. Practical recommendations are given on how simple loop designs can be extended to more realistic experimental designs and how standard statistical methods allow the experimentalist to use and interpret the results from loop designs in practice.


AVAILABILITY
The data and R code are available at http://exgen.ma.umist.ac.uk


CONTACT
veronica.vinciotti@brunel.ac.uk.