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Identification of Tandem Repeats Using Spectral Analysis

Author: MaoWeiWei
Tutor: NieJunZuo
School: Yanshan University
Course: Computer System Architecture
Keywords: Tandem repeat Parametric Spectral Estimation AR model Electron -ion interaction potential Spectrum analysis
CLC: Q811.4
Type: Master's thesis
Year: 2010
Downloads: 63
Quote: 0
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Abstract


The tandem repeats recognition is an important bioinformatics , challenging subject , has a very important significance for discovery function and genetic characteristics of certain sequences in the gene sequence . With the completion of the genome sequencing work , a large number of biological gene sequence was discovered and stored in the gene database , there is an urgent need for these genetic data analysis . There are a large number of tandem repeat sequence identification methods , can be divided into two categories : one is the identification method based on string matching ; the other is based on digital signal processing methods . The topics that will be studied is the second type of method , such recognition at home and abroad found that such method of computation and recognition accuracy is still not perfect . In this paper, for the calculation of the existing identification methods excessive high recognition accuracy study . First, tandem repeats of related concepts and basic theory of biology , in-depth analysis of the research status quo at home and abroad tandem repeat sequence identification method , elaborated on the advantages and disadvantages of several representative recognition methods . Second , analysis of the advantages and disadvantages of the repeat sequence identification method based on the series of the discrete Fourier transform , and improve its shortcomings . Proposed based the nucleotide the EIIP the gene digitized representation bases EIIP as expressed by the gene sequence of digitized basis , a gene sequence can be uniquely represented as a sequence of numbers , reducing the amount of calculation for calculating a spectrum FIG . Again, PSE recognition method in-depth analysis , the deficiencies in the PSE recognition method , the tandem repeat sequence based on AR model identification method . Solve computationally intensive PSE recognition method , order estimate inaccurate and the spectral splitting problem may occur . Finally, the proposed method of experimental verification and analysis . Marking information to compare the experimental results with existing identification methods and GenBank database to verify the correctness and validity of the method .

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CLC: > Biological Sciences > Bioengineering ( Biotechnology ) > Bionics > Biological information theory
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