2009 | OriginalPaper | Buchkapitel
Implementation of Binary Particle Swarm Optimization for DNA Sequence Design
verfasst von : Noor Khafifah Khalid, Zuwairie Ibrahim, Tri Basuki Kurniawan, Marzuki Khalid, Andries P. Engelbrecht
Erschienen in: Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living
Verlag: Springer Berlin Heidelberg
Aktivieren Sie unsere intelligente Suche, um passende Fachinhalte oder Patente zu finden.
Wählen Sie Textabschnitte aus um mit Künstlicher Intelligenz passenden Patente zu finden. powered by
Markieren Sie Textabschnitte, um KI-gestützt weitere passende Inhalte zu finden. powered by
In DNA based computation and DNA nanotechnology, the design of good DNA sequences has turned out to be an essential problem and one of the most practical and important research topics. Basically, the DNA sequence design problem is a multi-objective problem, and it can be evaluated using four objective functions, namely,
H
measure
, similarity, continuity,
and
hairpin
. There are several ways to solve a multi-objective problem, such as value function method, weighted sum method, and using evolutionary algorithms. However, in this paper, common method has been used, namely weighted sum method to convert DNA sequence design problem into single objective problem. Binary particle swarm optimization (BinPSO) is proposed to minimize the objective in the problem, subjected to two constraints:
melting temperature
and
GC
content
.
Based on experiments and researches done, 20 particles are used in the implementation of the optimization process, where the average values and the standard deviation for 100 runs are shown along with comparison to other existing methods. The results obtained verified that BinPSO can suitably solve DNA sequence design problem using the proposed method and model, comparatively better than other approaches.