The advent of high-throughput sequencing technology has resulted in the ability to measure millions of single-nucleotide polymorphisms (SNPs) from thousands of individuals. Although these high-dimensional data have paved the way for better understanding of the genetic architecture of common diseases, they have also given rise to challenges in developing computational methods for learning epistatic relationships among genetic markers. We propose a new method, named cuckoo search epistasis (CSE) for identifying significant epistatic interactions in population-based association studies with a case-control design. This method combines a computationally efficient Bayesian scoring function with an evolutionary-based heuristic search algorithm, and can be efficiently applied to high-dimensional genome-wide SNP data. The experimental results from synthetic data sets show that CSE outperforms existing methods including multifactorial dimensionality reduction and Bayesian epistasis association mapping. In addition, on a real genome-wide data set related to Alzheimer's disease, CSE identified SNPs that are consistent with previously reported results, and show the utility of CSE for application to genome-wide data.
This paper investigates a new method for improving the learning algorithm of Mixture of Experts (ME) model using a hybrid of Modified Cuckoo Search (MCS) and Conjugate Gradient (CG) as a second order optimization technique. The CG technique is combined with Back-Propagation (BP) algorithm to yield a much more efficient learning algorithm for ME structure. In addition, the experts and gating networks in enhanced model are replaced by CG based Multi-Layer Perceptrons (MLPs) to provide faster and more accurate learning. The CG is considerably depends on initial weights of connections of Artificial Neural Network (ANN), so, a metaheuristic algorithm, the so-called Modified Cuckoo Search is applied in order to select the optimal weights. The performance of proposed method is compared with Gradient Decent Based ME (GDME) and Conjugate Gradient Based ME (CGME) in classification and regression problems. The experimental results show that hybrid MSC and CG based ME (MCS-CGME) has faster convergence and better performance in utilized benchmark data sets.
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