Similarity/dissimilarity calculation methods of DNA sequences: A survey

DNA sequence similarity/dissimilarity analysis is a fundamental task in computational biology, which is used to analyze the similarity of different DNA sequences for learning their evolutionary relationships. In past decades, a large number of similarity analysis methods for DNA sequence have been proposed due to the ever-growing demands. In order to learn the advances of DNA sequence similarity analysis, we make a survey and try to promote the development of this field. In this paper, we first introduce the related knowledge of DNA similarities analysis, including the data sets, similarities distance and output data. Then, we review recent algorithmic developments for DNA similarity analysis to represent a survey of the art in this field. At last, we summarize the corresponding tendencies and challenges in this research field. This survey concludes that although various DNA similarity analysis methods have been proposed, there still exist several further improvements or potential research directions in this field. (C) 2017 Elsevier Inc. All rights reserved.