A Quasi-MQ EMD method for similarity analysis of DNA sequences |
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| Authors: | Jihong Zhang Renhong Wang Fenglan Bai Junsheng Zheng |
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| Institution: | 1. School of Mathematical Sciences, Dalian University of Technology, Dalian 116024, PR China;2. School of Science, Dalian Jiaotong University, Dalian 116028, PR China;3. Department of Computer Science and Technology, Neusoft Institute of Information, Dalian 116023, PR China |
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| Abstract: | An empirical mode decomposition (EMD) method based on Multi-Quadrics radial basis function (MQ-RBF) quasi-interpolation (the Quasi-MQ EMD method) is presented and applied to similarity analysis of DNA sequences. The MQ-RBF quasi-interpolation is taken to approximate the extrema envelopes during the intrinsic mode function (IMF) sifting process. Our method is simple, easy to implement, and does not require solving any linear system of equations. Then we use the classic EMD method and our method to compare the local similarities among DNA sequences respectively. The work tests our method’s suitability and better performance for local similarity analysis of DNA sequences by using the mitochondria of four different species. |
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