Spectral-dynamic representation of DNA sequences

被引：15

作者：

Bielinska-Waz, Dorota ^{[1
]}

Waz, Piotr ^{[2
]}

机构：

[1] Med Univ Gdansk, Dept Radiol Informat & Stat, Tuwima 15, PL-80210 Gdansk, Poland

[2] Med Univ Gdansk, Dept Nucl Med, Tuwima 15, PL-80210 Gdansk, Poland

来源：

JOURNAL OF BIOMEDICAL INFORMATICS | 2017年 / 72卷

关键词：

Alignment-free methods; Moments of inertia; Similarity/dissimilarity analysis of DNA sequences; Descriptors; 2-D GRAPHICAL REPRESENTATION; PROTEIN SEQUENCES; SIMILARITY/DISSIMILARITY ANALYSIS; 3D-DYNAMIC REPRESENTATION; 2D-DYNAMIC REPRESENTATION; NUMERICAL REPRESENTATION; DISTRIBUTION MOMENTS; EFFICIENT SEARCH; DUAL NUCLEOTIDES; QSAR MODEL;

D O I：

10.1016/j.jbi.2017.06.001

中图分类号：

TP39 [计算机的应用];

学科分类号：

081203 ; 0835 ;

摘要：

A graphical representation of DNA sequences in which the distribution of a particular base B = A, C, G, T is represented by a set of discrete lines has been formulated. The methodology of this approach has been borrowed from two areas of physics: spectroscopy and dynamics. Consequently, the set of discrete lines is referred to as the B-spectrum. Next, the B-spectrum is transformed to a rigid body composed of material points. In this way a dynamic representation of the DNA sequence has been obtained. The centers of mass of these rigid bodies, divided by their moments of inertia, have been taken as the descriptors of the spectra and, thus, of the DNA sequences. The performance of this method on a standard set of data commonly applied by authors introducing new approaches to bioinformatics (the first exons of beta-globin genes of different species) proved to be very good. (C) 2017 Elsevier Inc. All rights reserved.

引用

页码：1 / 7

页数：7

共 85 条

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