A representation of DNA primary sequences by random walk

Mathematical Biosciences

Volumn 209, Issue 1, 2007, Pages 282-291

  Bai, Feng lan ^a   Liu, Ying zhao ^b   Wang, Tian ming ^b  

^a DALIAN JIAOTONG UNIVERSITY   (China)

^b DALIAN UNIVERSITY OF TECHNOLOGY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

GRAPHIC METHODS; INVARIANCE; MARKOV PROCESSES;

DNA PRIMARY SEQUENCES; RANDOM SEQUENCES;

DNA SEQUENCES;

BETA GLOBIN;

DNA; GENE EXPRESSION; MARKOV CHAIN; NUMERICAL METHOD; PROBABILITY; RANDOM WALK METHOD;

ARTICLE; BETA GLOBIN GENE; DNA SEQUENCE; ENTROPY; EXON; GENE; HUMAN; MATHEMATICAL MODEL; NONHUMAN; PROBABILITY;

ANIMALS; BASE SEQUENCE; DNA; EXONS; GLOBINS; HUMANS; MARKOV CHAINS; MODELS, GENETIC; MOLECULAR SEQUENCE DATA;

EID: 34547731402     PISSN: 00255564     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mbs.2006.06.004     Document Type: Article

References (25)

1. Peng C.K., Buldyrev S.V., and Goldberger A.L. Long-range correlations in nucleotide sequences. Nature 356 (1992) 168
2. Dodin G., Pierre V., and Levoiretal P. Fourier and wavelet transform analysis a tool for visualizing regular patterns in DNA sequences. J. Theor. Biol. 206 (2000) 323
3. Tsonis A.A., Kumar P., and Elsneretal J.B. Navelet analysis of DNA sequences. Phys. Rev. E 53 (1996) 1828
4. Luo L.F., Tsai L., and Zhou Y.M. Information parameters of nucleic acid and molecular evolution. J. Theor. Biol. 130 (1988) 351
5. Luo L.F., and Tsai L. Fractal dimension of nucleic acid and its relation to evolutionary level. Chem. Phys. Lett. 5 (1988) 421
6. Arneodo A., d'Aubenton-Carafa Y., Bacry E., et al. Wavelet based fractal analysis of DNA sequences. Physica D 96 (1996) 291
7. Arneodo A., d'Aubenton-Carafa Y., Bacry E., et al. Nucleotide composition effects on the long-range correlations in human genes. Eur. Phys. J. B 1 (1998) 259
8. Voss R. Evolution of long-range fractal correlations and 1/f noise in DNA base sequences. Phys. Rev. Lett. 68 (1992) 3805
9. Hamori E., and Ruskin J. H curves, a novel method of representation of uncleotide series especially suited for long DNA sequence. J. Biol. Chem. 258 (1983) 1318
10. Zhang R., and Zhang C.T. Z-curve, an intuitive tool for visualizing and analyzing the DNA sequences. J. Biomol. Str. Dyn. 11 (1994) 767
11. Gates M.A. Simple DNA sequence representations. Nature 316 (1985) 219
12. Leong M., and Morgenthalar S. Random walk and gap plots of DNA sequences. Comput. Appl. Biosci. 21 (1995) 503
13. Nandy A. Graphical representation of long DNA sequence. Curr. Sci. 66 (1994) 821
14. Nandy A. Two-dimensional graphical representation of DNA sequences and intron-exon discrimination in intron-rich sequences. Comput. Appl. Biosci. 12 (1996) 55
15. Nandy A. Graphical representation of DNA sequence. Curr. Sci. 40 (2000) 915
16. Nandy A., and Nandy P. On the uniqueness of quantitative DNA difference descriptors in 2D graphical representation models. Chem. Phys. Lett. 368 (2003) 102
17. Nandy A. A new graphical representation and analysis of DNA sequence structure: I. Methodology and application to globin genes. Curr. Sci. 66 (2004) 309
18. Randic M., Vracko M., Nandy A., and Basak S.C. On 3-D graphical representation of DNA primary sequence and their numerical characterization. J. Inf. Comput. 40 (2000) 1235
19. Randic M., and Balaban A.T. On a four-dimensional representation of DNA primary sequences. J. Chem. Inf. Comput. Sci. 43 (2003) 532
20. He P.A., and Wang J. Numerical characterization of DNA primary sequence. Internet Elec. J. Mol. Des. 1 (2002) 668
21. Randic M., Vracko M., Lers N., and Plavsic D. Novel 2-D graphical representation of DNA sequences and their numerical characterization. Chem. Phys. Lett. 368 (2003) 1
22. Randic M., Vracko M., Lers N., and Plavsic D. Analysis of similarity/dissimilarity of DNA sequences based on novel 2-D graphical representation. Chem. Phys. Lett. 371 (2003) 202
23. Yuan C.X., Liao B., and Wang T.M. New 3D graphical representation of DNA sequence and their numerical characterization. Chem. Phys. Lett. 397 (2003) 412
24. Liao B., and Wang T.M. Analysis of similarity of DNA sequences based on triplets. J. Chem. Inf. Comput. Sci. 44 (2004) 1666
25. Liao B., and Wang T.M. Analysis of similarity/dissimilarity of DNA sequences based on 3-D graphical representation. Chem. Phys. Lett. 388 (2004) 195