Coding DNA sequences: statistical distributions.

The base distributions in coding DNA sequences (CDS) are investigated. We explore the scaling properties of the 4-dimensional directed random walk and compare them with that for the DNA sequences. Inference from these observation are, however, contradicted by alternate analysis using factorial moments. To resolve this conflict we look directly at the nucleotide base distributions. In all the cases the base distributions change from gaussian to non-gaussian as the scale size is increased. The CDS, therefore, have nucleotide distributions different from the random.

[1]  Skolnick,et al.  Global fractal dimension of human DNA sequences treated as pseudorandom walks. , 1992, Physical review. A, Atomic, molecular, and optical physics.

[2]  D Larhammar,et al.  Biological origins of long-range correlations and compositional variations in DNA. , 1993, Nucleic acids research.

[3]  S. Nee,et al.  Uncorrelated DNA walks , 1992, Nature.

[4]  J. Muzy,et al.  Long-range correlations in genomic DNA: a signature of the nucleosomal structure. , 2001, Physical review letters.

[5]  Alain Arneodo,et al.  Long-Range Correlations in Genomic DNA , 2001 .

[6]  Wentian Li,et al.  The Study of Correlation Structures of DNA Sequences: A Critical Review , 1997, Comput. Chem..

[7]  Wentian Li,et al.  Long-range correlation and partial 1/fα spectrum in a noncoding DNA sequence , 1992 .

[8]  Maria de Sousa Vieira,et al.  Statistics of DNA sequences: a low-frequency analysis. , 1999, cond-mat/9905074.

[9]  Ramón Román-Roldán,et al.  Application of information theory to DNA sequence analysis: A review , 1996, Pattern Recognit..

[10]  Xin Lu,et al.  Characterizing self-similarity in bacteria DNA sequences , 1998 .

[11]  B. Wang,et al.  Correlation property of length sequences based on global structure of the complete genome. , 2000, Physical review. E, Statistical, nonlinear, and soft matter physics.

[12]  Liaofu Luo,et al.  STATISTICAL CORRELATION OF NUCLEOTIDES IN A DNA SEQUENCE , 1998 .

[13]  J. Lobry A nice wrong model for the evolution of DNA base frequencies , 1999 .

[14]  Stefano Longhi Spiral waves in optical parametric oscillators , 2001 .

[15]  J. R. Lobry,et al.  Properties of a general model of DNA evolution under no-strand-bias conditions , 1995, Journal of Molecular Evolution.

[16]  R. Voss,et al.  Evolution of long-range fractal correlations and 1/f noise in DNA base sequences. , 1992, Physical review letters.

[17]  S Karlin,et al.  Patchiness and correlations in DNA sequences , 1993, Science.

[18]  C. Peng,et al.  Long-range correlations in nucleotide sequences , 1992, Nature.

[19]  Alain Arneodo,et al.  Long-range correlations between DNA bending sites: relation to the structure and dynamics of nucleosomes. , 2002, Journal of molecular biology.

[20]  A K Mohanty,et al.  Factorial moments analyses show a characteristic length scale in DNA sequences. , 2000, Physical review letters.

[21]  DNA nucleotides: A case study of evolution , 2002 .

[22]  V. V. Prabhu,et al.  Correlations in intronless DNA , 1992, Nature.

[23]  J. V. Moran,et al.  Initial sequencing and analysis of the human genome. , 2001, Nature.

[24]  E. Bacry,et al.  Characterizing long-range correlations in DNA sequences from wavelet analysis. , 1995, Physical review letters.

[25]  J Chakrabarti,et al.  Codon distributions in DNA. , 2001, Physical review. E, Statistical, nonlinear, and soft matter physics.

[26]  West,et al.  Dynamical approach to Lévy processes. , 1996, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.