Evolutionary Approaches to DNA Sequencing with Errors |
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Authors: | Jacek Blazewicz Fred Glover Marta Kasprzak |
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Institution: | (1) Institute of Computing Science, Poznań University of Technology, Piotrowo 3A, 60-965, Poznań, Poland;(2) Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12, 61-704, Poznań, Poland;(3) University of Colorado, Boulder, CO 80309-0419, USA |
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Abstract: | In the paper, two evolutionary approaches to the general DNA sequencing problem, assuming both negative and positive errors
in the spectrum, are compared. The older of them is based on the idea of genetic approach and is enhanced by a greedy algorithm.
The newly proposed algorithm combines the tabu search and the scatter search methods. After conducting experiments with random
and coding DNA sequences, our results suggest that the tabu and scatter search algorithm finds solutions of higher quality
and more reliably than the genetic algorithm. |
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Keywords: | DNA sequencing by hybridization genetic algorithm tabu search |
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