2,920 research outputs found
Information visualization for DNA microarray data analysis: A critical review
Graphical representation may provide effective means of making sense of the complexity and sheer volume of data produced by DNA microarray experiments that monitor the expression patterns of thousands of genes simultaneously. The ability to use ldquoabstractrdquo graphical representation to draw attention to areas of interest, and more in-depth visualizations to answer focused questions, would enable biologists to move from a large amount of data to particular records they are interested in, and therefore, gain deeper insights in understanding the microarray experiment results. This paper starts by providing some background knowledge of microarray experiments, and then, explains how graphical representation can be applied in general to this problem domain, followed by exploring the role of visualization in gene expression data analysis. Having set the problem scene, the paper then examines various multivariate data visualization techniques that have been applied to microarray data analysis. These techniques are critically reviewed so that the strengths and weaknesses of each technique can be tabulated. Finally, several key problem areas as well as possible solutions to them are discussed as being a source for future work
A Tabu Search Based Approach for Graph Layout
This paper describes an automated tabu search based method for drawing general graph layouts with straight lines. To our knowledge, this is the first time tabu methods have been applied to graph drawing. We formulated the task as a multi-criteria optimization problem with a number of
metrics which are used in a weighted fitness function to measure the aesthetic
quality of the graph layout. The main goal of this work is to speed up the graph
layout process without sacrificing layout quality. To achieve this, we use a tabu
search based method that goes through a predefined number of iterations to minimize
the value of the fitness function. Tabu search always chooses the best solution in
the neighbourhood. This may lead to cycling, so a tabu list is used to store moves
that are not permitted, meaning that the algorithm does not choose previous
solutions for a set period of time. We evaluate the method according to the time
spent to draw a graph and the quality of the drawn graphs. We give experimental
results applied on random graphs and we provide statistical evidence that our
method outperforms a fast search-based drawing method (hill climbing) in execution
time while it produces comparably good graph layouts.We also demonstrate the method
on real world graph datasets to show that we can reproduce similar results in a
real world setting
Recent Advances in Graph Partitioning
We survey recent trends in practical algorithms for balanced graph
partitioning together with applications and future research directions
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