6,874 research outputs found
Stationary probability density of stochastic search processes in global optimization
A method for the construction of approximate analytical expressions for the
stationary marginal densities of general stochastic search processes is
proposed. By the marginal densities, regions of the search space that with high
probability contain the global optima can be readily defined. The density
estimation procedure involves a controlled number of linear operations, with a
computational cost per iteration that grows linearly with problem size
GreMuTRRR: A Novel Genetic Algorithm to Solve Distance Geometry Problem for Protein Structures
Nuclear Magnetic Resonance (NMR) Spectroscopy is a widely used technique to
predict the native structure of proteins. However, NMR machines are only able
to report approximate and partial distances between pair of atoms. To build the
protein structure one has to solve the Euclidean distance geometry problem
given the incomplete interval distance data produced by NMR machines. In this
paper, we propose a new genetic algorithm for solving the Euclidean distance
geometry problem for protein structure prediction given sparse NMR data. Our
genetic algorithm uses a greedy mutation operator to intensify the search, a
twin removal technique for diversification in the population and a random
restart method to recover stagnation. On a standard set of benchmark dataset,
our algorithm significantly outperforms standard genetic algorithms.Comment: Accepted for publication in the 8th International Conference on
Electrical and Computer Engineering (ICECE 2014
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