A 3D graphical representation of DNA sequence based on numerical coding method

Recently, we introduced a sort of numerical coding method of DNA sequences (Chen et al., MATCH Commun Math Comput Chem, 2008, 60, 291). On the basis of the result of our coding method, we present a 3D graphical representation of DNA sequences. The 3D graphical representation also avoids loss of information accompanying alternative 2D and 3D representation in which the curve standing for DNA overlaps and intersects itself. © 2009 Wiley Periodicals, Inc. Int J Quantum Chem, 2010

[1]  Bo Liao,et al.  New 2D graphical representation of DNA sequences , 2004, J. Comput. Chem..

[2]  Bo Liao,et al.  Graphical approach to analyzing DNA sequences , 2005, J. Comput. Chem..

[3]  Tianming Wang,et al.  3-D graphical representation of DNA sequences and their numerical characterization , 2004 .

[4]  Marjan Vracko,et al.  Compact 2-D graphical representation of DNA , 2003 .

[5]  Kequan Ding,et al.  On 2D graphical representation of DNA sequence of nondegeneracy , 2005 .

[6]  M. A. GATES,et al.  Simpler DNA sequence representations , 1985, Nature.

[7]  EUGENE HAMORI,et al.  Novel DNA sequence representations , 1985, Nature.

[8]  Alan Wee-Chung Liew,et al.  DB-Curve: a novel 2D method of DNA sequence visualization and representation , 2003 .

[9]  Milan Randic,et al.  On 3-D Graphical Representation of DNA Primary Sequences and Their Numerical Characterization , 2000, J. Chem. Inf. Comput. Sci..

[10]  A. Nandy,et al.  A new graphical representation and analysis of DNA sequence structure. I: Methodology and application to globin genes , 1994 .

[11]  Bo Liao,et al.  A 2D graphical representation of DNA sequence , 2005 .

[12]  Dejan Plavšić,et al.  Analysis of similarity/dissimilarity of DNA sequences based on novel 2-D graphical representation , 2003 .

[13]  Xuyu Xiang,et al.  Coronavirus phylogeny based on 2D graphical representation of DNA sequence , 2006, J. Comput. Chem..

[14]  Kequan Ding,et al.  A 4D representation of DNA sequences and its application , 2005 .

[15]  Kequan Ding,et al.  Application of 2-D graphical representation of DNA sequence , 2005 .

[16]  Renfa Li,et al.  Coronavirus phylogeny based on triplets of nucleic acids bases , 2006, Chemical Physics Letters.

[17]  Renfa Li,et al.  A group of 3D graphical representation of DNA sequences based on dual nucleotides , 2008 .

[18]  Bo Liao,et al.  Analysis of similarity/dissimilarity of DNA sequences based on 3-D graphical representation , 2004 .

[19]  E. Hamori,et al.  H curves, a novel method of representation of nucleotide series especially suited for long DNA sequences. , 1983, The Journal of biological chemistry.

[20]  Zhao-Hui Qi,et al.  Novel 2D graphical representation of DNA sequence based on dual nucleotides , 2007 .

[21]  Tianming Wang,et al.  PNN-curve: a new 2D graphical representation of DNA sequences and its application. , 2006, Journal of theoretical biology.

[22]  Dejan Plavšić,et al.  A novel unexpected use of a graphical representation of DNA : Graphical alignment of DNA sequences , 2006 .

[23]  Amir Niknejad,et al.  DNA sequence representation without degeneracy. , 2003, Nucleic acids research.

[24]  Dejan Plavšić,et al.  Novel 2-D graphical representation of DNA sequences and their numerical characterization , 2003 .

[25]  Bo Liao,et al.  A 3D graphical representation of DNA sequences and its application , 2006, Theor. Comput. Sci..

[26]  Milan Randic,et al.  On the Similarity of DNA Primary Sequences , 2000, J. Chem. Inf. Comput. Sci..

[27]  Tianming Wang,et al.  Analysis of similarity/dissimilarity of DNA sequences based on a condensed curve representation , 2005 .

[28]  Bo Liao,et al.  New 3D graphical representation of DNA sequences and their numerical characterization , 2003 .