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Polushina Tatiana (University of Bergen, Norway), Sofronov Georgy (Macquarie University, Sydney, Australia)
Change-Point Detection in Binary Markov DNA Sequences by Cross-Entropy Method
Annals of Computer Science and Information Systems, 2014, vol. 2, s. 471 - 478, rys., tab., bibliogr. 53 poz.
Algorytmy genetyczne, Biochemia, Algorytmy
Genetic algorithms, Biochemistry, Algorithms
A deoxyribonucleic acid (DNA) sequence can be represented as a sequence with 4 characters. If a particular property of the DNA is studied, for example, GC content, then it is possible to consider a binary sequence. In many cases, if the probabilistic properties of a segment differ from the neighbouring ones, this means that the segment can play a structural role. Therefore, DNA segmentation is given a special attention, and it is one of the most significant applications of change-point detection. Problems of this type also arise in a wide variety of areas, for example, seismology, industry (e.g, fault detection), biomedical signal processing, financial mathematics, speech and image processing. In this study, we have developed a Cross-Entropy algorithm for identifying change-points in binary sequences with first-order Markov dependence. We propose a statistical model for this problem and show effectiveness of our algorithm for synthetic and real datasets.(original abstract)
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