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Appl. Sci. 2016, 6(3), 63; doi:10.3390/app6030063

Novel Graphical Representation and Numerical Characterization of DNA Sequences

1
Department of Mathematics, Bohai University, Jinzhou 121013, China
2
Research Institute of Food Science, Bohai University, Jinzhou 121013, China
3
Department of Applied Mathematics, Shanghai Institute of Technology, Shanghai 201418, China
*
Author to whom correspondence should be addressed.
Academic Editor: Yang Kuang
Received: 10 December 2015 / Revised: 5 February 2016 / Accepted: 14 February 2016 / Published: 24 February 2016
(This article belongs to the Special Issue Dynamical Models of Biology and Medicine)
View Full-Text   |   Download PDF [2708 KB, uploaded 24 February 2016]   |  

Abstract

Modern sequencing technique has provided a wealth of data on DNA sequences, which has made the analysis and comparison of sequences a very important but difficult task. In this paper, by regarding the dinucleotide as a 2-combination of the multiset { ∞ · A , ∞ · G , ∞ · C , ∞ · T } , a novel 3-D graphical representation of a DNA sequence is proposed, and its projections on planes (x,y), (y,z) and (x,z) are also discussed. In addition, based on the idea of “piecewise function”, a cell-based descriptor vector is constructed to numerically characterize the DNA sequence. The utility of our approach is illustrated by the examination of phylogenetic analysis on four datasets. View Full-Text
Keywords: 2-combination; graphical representation; cell-based vector; numerical characterization; phylogenetic analysis 2-combination; graphical representation; cell-based vector; numerical characterization; phylogenetic analysis
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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Li, C.; Fei, W.; Zhao, Y.; Yu, X. Novel Graphical Representation and Numerical Characterization of DNA Sequences. Appl. Sci. 2016, 6, 63.

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