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Bioinformatics Advance Access originally published online on March 10, 2009
Bioinformatics 2009 25(9):1112-1117; doi:10.1093/bioinformatics/btp130
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© The Author 2009. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

DV-Curve: a novel intuitive tool for visualizing and analyzing DNA sequences

Zhu-Jin Zhang

Key Laboratory of Image Processing and Intelligent Control, Department of Control Science and Engineering, Huazhong University of Science and Technology, Wuhan 430074, China


  Abstract

Motivation: The rapid growth of DNA sequence data creates a need to find graphic tools to study DNA sequence in a perceivable form. A large number of scholars work hard in this field. However, it is difficult to handle the following problems in one graph: (i) degeneracy, (ii) loss of information, (iii) difficulty of observing in multi-dimensional graph, (iv) difficulty of visualization when representing long DNA sequences and (v) need to reflect useful information.

Results: DV-Curve (Dual-Vector Curve) using two vectors to represent one alphabet of DNA sequences not only avoids degeneracy and loss of information, but also has good visualization no matter whether sequences are long, and can reflect the length of DNA sequence. The applications of the DV-Curve on mutation analysis and two types of similarity analysis are presented in detail. DV-Curve is a significative tool by which biologists could find useful biological knowledge.

Availability: The corresponding software of DV-Curve is available at http://bmchust.3322.org/Data/Soft/332-DV-Curve2.0.zip

Contact: zhangzhujin{at}gmail.com

Associate Editor: Limsoon Wong

Received on January 2, 2009; revised on February 8, 2009; accepted on March 2, 2009

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