Optimum DNA Curvature Using a Hybrid Approach Involving an Artificial Neural Network and Genetic Algorithm

Parbhane, Rupali V and Unniraman, Shyam and Tambe, Sanjeev S and Nagaraja, Valkunja and Kulkarni, Bhaskar D (2000) Optimum DNA Curvature Using a Hybrid Approach Involving an Artificial Neural Network and Genetic Algorithm. In: Journal of Biomolecular Structure & Dynamics, 17 (4). pp. 665-672.

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Abstract

In the present paper, a hybrid technique involving artificial neural network (ANN) and genetic algorithm (GA) has been proposed for performing modeling and optimization of complex biological systems. In this approach, first an ANN approximates (models) the non-linear relationship(s) existing between its input and output example data sets. Next, the GA, which is a stochastic optimization technique, searches the input space of the ANN with a view to optimize the ANN output. The efficacy of this formalism has been tested by conducting a case study involving optimization of DNA curvature characterized in terms of the RL value. Using the ANN-GA methodology, a number of sequences possessing high RL values have been obtained and analyzed to verify the existence of features known to be responsible for the occurrence of curvature. A couple of sequences have also been tested experimentally. The experimental results validate qualitatively and also near-quantitatively, the solutions obtained using the hybrid formalism. The ANN-GA technique is a useful tool to obtain, ahead of experimentation, sequences that yield high RL values. The methodology is a general one and can be suitably employed for optimizing any other biological feature.

Item Type:	Journal Article
Publication:	Journal of Biomolecular Structure & Dynamics
Publisher:	Adenine Press
Additional Information:	Copyright for this article belongs to Adenine Press.
Department/Centre:	Division of Biological Sciences > Microbiology & Cell Biology
Date Deposited:	02 Sep 2004
Last Modified:	19 Sep 2010 04:14
URI:	http://eprints.iisc.ac.in/id/eprint/1341

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