The paper introduces particle swarm optimization as a viable strategy to find numerical solution of Diophantine equation, for which there exists no general method of finding solutions. The proposed methodology uses a population of integer particles. The candidate solutions in the feasible space are optimised to have better positions through particle best and global best positions. The methodology, which follows fully connected neighbourhood topology, can offer many solutions of such equations.
Abstract:We propose an optimized parameter set for protein secondary structure prediction using three layer feed forward back propagation neural network. The methodology uses four parameters viz. encoding scheme, window size, number of neurons in the hidden layer and type of learning algorithm. The input layer of the network consists of neurons changing from 3 to 19, corresponding to different window sizes. The hidden layer chooses a natural number from 1 to 20 as the number of neurons. The output layer consists of three neurons, each corresponding to known secondary structural classes viz. α -helix, β-strands and coil/turns respectively. It also uses eight different learning algorithms and nine encoding schemes. Exhaustive experiments were performed using non-homologues dataset. The experimental results were compared using performance measures like Q 3 , sensitivity, specificity, Mathew correlation coefficient and accuracy. The paper also discusses the process of obtaining a stabilized cluster of 2530 records from a collection of 11340 records. The graphs of these stabilized clusters of records with respect to accuracy are concave, convergence is monotonic increasing and rate of convergence is uniform. The paper gives BLOSUM62 as the encoding scheme, 19 as the window size, 19 as the number of neurons in the hidden layer and One-Step Secant as the learning algorithm with the highest accuracy of 78%. These parameter values are proposed as the optimized parameter set for the three layer feed forward back propagation neural network for the protein secondary structure prediction.
scite is a Brooklyn-based organization that helps researchers better discover and understand research articles through Smart Citations–citations that display the context of the citation and describe whether the article provides supporting or contrasting evidence. scite is used by students and researchers from around the world and is funded in part by the National Science Foundation and the National Institute on Drug Abuse of the National Institutes of Health.