Negative differential resistance and multilevel memory effects in organic devices

Negative differential resistance ( NDR) and multilevel memory effects were obtained in organic devices consisting of an anthracene derivative, 9,10-bis-{ 9,9-di-[ 4-(phenyl-p-tolyl-amino)-phenyl]-9H-fluoren-2-yl}-anthracene ( DAFA), sandwiched between Ag and ITO electrodes. The application of a negative bias voltage leads to negative differential resistance in current-voltage characteristics and different negative voltages produce different conductance currents, resulting in the multilevel memory capability of the devices. The NDR property has been attributed to charge trapping at the DAFA/Ag interface. This opens up a wide range of application possibilities of such organic-based NDR devices in memory and logic circuits.

BAYESIAN MODEL SEARCH AND MULTILEVEL INFERENCE FOR SNP ASSOCIATION STUDIES.

Technological advances in genotyping have given rise to hypothesis-based association studies of increasing scope. As a result, the scientific hypotheses addressed by these studies have become more complex and more difficult to address using existing analytic methodologies. Obstacles to analysis include inference in the face of multiple comparisons, complications arising from correlations among the SNPs (single nucleotide polymorphisms), choice of their genetic parametrization and missing data. In this paper we present an efficient Bayesian model search strategy that searches over the space of genetic markers and their genetic parametrization. The resulting method for Multilevel Inference of SNP Associations, MISA, allows computation of multilevel posterior probabilities and Bayes factors at the global, gene and SNP level, with the prior distribution on SNP inclusion in the model providing an intrinsic multiplicity correction. We use simulated data sets to characterize MISA's statistical power, and show that MISA has higher power to detect association than standard procedures. Using data from the North Carolina Ovarian Cancer Study (NCOCS), MISA identifies variants that were not identified by standard methods and have been externally "validated" in independent studies. We examine sensitivity of the NCOCS results to prior choice and method for imputing missing data. MISA is available in an R package on CRAN.

Multilevel mesh partitioning for optimizing domain shape

Multilevel algorithms are a successful class of optimization techniques that address the mesh partitioning problem for mapping meshes onto parallel computers. They usually combine a graph contraction algorithm together with a local optimization method that refines the partition at each graph level. To date, these algorithms have been used almost exclusively to minimize the cut-edge weight in the graph with the aim of minimizing the parallel communication overhead. However, it has been shown that for certain classes of problems, the convergence of the underlying solution algorithm is strongly influenced by the shape or aspect ratio of the subdomains. Therefore, in this paper, the authors modify the multilevel algorithms to optimize a cost function based on the aspect ratio. Several variants of the algorithms are tested and shown to provide excellent results.

Multilevel mesh partitioning for optimising aspect ratio

Multilevel algorithms are a successful class of optimisation techniques which address the mesh partitioning problem. They usually combine a graph contraction algorithm together with a local optimisation method which refines the partition at each graph level. To date these algorithms have been used almost exclusively to minimise the cut-edge weight, however it has been shown that for certain classes of solution algorithm, the convergence of the solver is strongly influenced by the subdomain aspect ratio. In this paper therefore, we modify the multilevel algorithms in order to optimise a cost function based on aspect ratio. Several variants of the algorithms are tested and shown to provide excellent results.

Mesh partitioning: a multilevel balancing and refinement algorithm

Multilevel algorithms are a successful class of optimization techniques which addresses the mesh partitioning problem. They usually combine a graph contraction algorithm together with a local optimization method which refines the partition at each graph level. In this paper we present an enhancement of the technique which uses imbalance to achieve higher quality partitions. We also present a formulation of the Kernighan-Lin partition optimization algorithm which incorporates load-balancing. The resulting algorithm is tested against a different but related state-of-the-art partitioner and shown to provide improved results.

Parallel optimisation algorithms for multilevel mesh partitioning

Three parallel optimisation algorithms, for use in the context of multilevel graph partitioning of unstructured meshes, are described. The first, interface optimisation, reduces the computation to a set of independent optimisation problems in interface regions. The next, alternating optimisation, is a restriction of this technique in which mesh entities are only allowed to migrate between subdomains in one direction. The third treats the gain as a potential field and uses the concept of relative gain for selecting appropriate vertices to migrate. The results are compared and seen to produce very high global quality partitions, very rapidly. The results are also compared with another partitioning tool and shown to be of higher quality although taking longer to compute.

Multilevel mesh partitioning for heterogeneous communication networks

Multilevel algorithms are a successful class of optimisation techniques which address the mesh partitioning problem for distributing unstructured meshes onto parallel computers. They usually combine a graph contraction algorithm together with a local optimisation method which refines the partition at each graph level. To date these algorithms have been used almost exclusively to minimise the cut edge weight in the graph with the aim of minimising the parallel communication overhead, but recently there has been a perceived need to take into account the communications network of the parallel machine. For example the increasing use of SMP clusters (systems of multiprocessor compute nodes with very fast intra-node communications but relatively slow inter-node networks) suggest the use of hierarchical network models. Indeed this requirement is exacerbated in the early experiments with meta-computers (multiple supercomputers combined together, in extreme cases over inter-continental networks). In this paper therefore, we modify a multilevel algorithm in order to minimise a cost function based on a model of the communications network. Several network models and variants of the algorithm are tested and we establish that it is possible to successfully guide the optimisation to reflect the chosen architecture.

A multilevel algorithm for force-directed graph drawing

We describe a heuristic method for drawing graphs which uses a multilevel technique combined with a force-directed placement algorithm. The multilevel process groups vertices to form clusters, uses the clusters to define a new graph and is repeated until the graph size falls below some threshold. The coarsest graph is then given an initial layout and the layout is successively refined on all the graphs starting with the coarsest and ending with the original. In this way the multilevel algorithm both accelerates and gives a more global quality to the force- directed placement. The algorithm can compute both 2 & 3 dimensional layouts and we demonstrate it on a number of examples ranging from 500 to 225,000 vertices. It is also very fast and can compute a 2D layout of a sparse graph in around 30 seconds for a 10,000 vertex graph to around 10 minutes for the largest graph. This is an order of magnitude faster than recent implementations of force-directed placement algorithms.

A multilevel approach to the travelling salesman problem

We motivate, derive, and implement a multilevel approach to the travelling salesman problem.The resulting algorithm progressively coarsens the problem, initialises a tour, and then employs either the Lin-Kernighan (LK) or the Chained Lin-Kernighan (CLK) algorithm to refine the solution on each of the coarsened problems in reverse order.In experiments on a well-established test suite of 80 problem instances we found multilevel configurations that either improved the tour quality by over 25% as compared to the standard CLK algorithm using the same amount of execution time, or that achieved approximately the same tour quality over seven times more rapidly. Moreover, the multilevel variants seem to optimise far better the more clustered instances with which the LK and CLK algorithms have the most difficulties.

A multilevel algorithm for force-directed graph-drawing

We describe a heuristic method for drawing graphs which uses a multilevel framework combined with a force-directed placement algorithm. The multilevel technique matches and coalesces pairs of adjacent vertices to define a new graph and is repeated recursively to create a hierarchy of increasingly coarse graphs, G0, G1, …, GL. The coarsest graph, GL, is then given an initial layout and the layout is refined and extended to all the graphs starting with the coarsest and ending with the original. At each successive change of level, l, the initial layout for Gl is taken from its coarser and smaller child graph, Gl+1, and refined using force-directed placement. In this way the multilevel framework both accelerates and appears to give a more global quality to the drawing. The algorithm can compute both 2 & 3 dimensional layouts and we demonstrate it on examples ranging in size from 10 to 225,000 vertices. It is also very fast and can compute a 2D layout of a sparse graph in around 12 seconds for a 10,000 vertex graph to around 5-7 minutes for the largest graphs. This is an order of magnitude faster than recent implementations of force-directed placement algorithms.

Multilevel refinement for combinatorial optimisation problems

We consider the multilevel paradigm and its potential to aid the solution of combinatorial optimisation problems. The multilevel paradigm is a simple one, which involves recursive coarsening to create a hierarchy of approximations to the original problem. An initial solution is found (sometimes for the original problem, sometimes the coarsest) and then iteratively refined at each level. As a general solution strategy, the multilevel paradigm has been in use for many years and has been applied to many problem areas (most notably in the form of multigrid techniques). However, with the exception of the graph partitioning problem, multilevel techniques have not been widely applied to combinatorial optimisation problems. In this paper we address the issue of multilevel refinement for such problems and, with the aid of examples and results in graph partitioning, graph colouring and the travelling salesman problem, make a case for its use as a metaheuristic. The results provide compelling evidence that, although the multilevel framework cannot be considered as a panacea for combinatorial problems, it can provide an extremely useful addition to the combinatorial optimisation toolkit. We also give a possible explanation for the underlying process and extract some generic guidelines for its future use on other combinatorial problems.