Literature DB >> 17542065

Scaling behavior of nucleotide cluster in DNA sequences.

Jun Cheng1, Zi-shuang Tong, Lin-xi Zhang.   

Abstract

In this paper we study the scaling behavior of nucleotide cluster in 11 chromosomes of Encephalitozoon cuniculi Genome. The statistical distribution of nucleotide clusters for 11 chromosomes is characterized by the scaling behavior of P(S) proportional, variant e(-alphaS), where S represents nucleotide cluster size. The cluster-size distribution P(S(1)+S(2)) with the total size of sequential C-G cluster and A-T cluster S(1)+S(2) were also studied. P(S(1)+S(2)) follows exponential decay. There does not exist the case of large C-G cluster following large A-T cluster or large A-T cluster following large C-G cluster. We also discuss the relatively random walk length function L(n) and the local compositional complexity of nucleotide sequences based on a new model. These investigations may provide some insight into nucleotide cluster of DNA sequence.

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Year:  2007        PMID: 17542065      PMCID: PMC1859877          DOI: 10.1631/jzus.2007.B0359

Source DB:  PubMed          Journal:  J Zhejiang Univ Sci B        ISSN: 1673-1581            Impact factor:   3.066


  12 in total

1.  Implications of the dependence of the elastic properties of DNA on nucleotide sequence.

Authors:  Wilma K Olson; David Swigon; Bernard D Coleman
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2004-07-15       Impact factor: 4.226

2.  Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.

Authors:  M Michael Gromiha; Jörg G Siebers; Samuel Selvaraj; Hidetoshi Kono; Akinori Sarai
Journal:  J Mol Biol       Date:  2004-03-19       Impact factor: 5.469

3.  Elastic behavior of adsorbed polymer chains.

Authors:  Jin Chen; Linxi Zhang; Jun Cheng
Journal:  J Chem Phys       Date:  2004-12-08       Impact factor: 3.488

4.  Statistical properties of nucleotide clusters in DNA sequences.

Authors:  Jun Cheng; Lin-Xi Zhang
Journal:  J Zhejiang Univ Sci B       Date:  2005-05       Impact factor: 3.066

5.  Super paramagnetic clustering of DNA sequences.

Authors:  Sugiarto Radjiman; Lianyi Han; Jian-Sheng Wang; Yu Zong Chen
Journal:  J Biol Phys       Date:  2006-01       Impact factor: 1.365

6.  The role of DNA bending in Cro protein-DNA interactions.

Authors:  M M Gromiha; M G Munteanu; I Simon; S Pongor
Journal:  Biophys Chem       Date:  1997-12-01       Impact factor: 2.352

7.  Importance of DNA stiffness in protein-DNA binding specificity.

Authors:  M E Hogan; R H Austin
Journal:  Nature       Date:  1987 Sep 17-23       Impact factor: 49.962

Review 8.  New concepts in protein-DNA recognition: sequence-directed DNA bending and flexibility.

Authors:  R E Harrington; I Winicov
Journal:  Prog Nucleic Acid Res Mol Biol       Date:  1994

9.  Statistical analysis of DNA sequences. I.

Authors:  M Y Azbel; Y Kantor; L Verkh; A Vilenkin
Journal:  Biopolymers       Date:  1982-08       Impact factor: 2.505

10.  The persistence exponent of DNA.

Authors:  Douglas Poland
Journal:  Biophys Chem       Date:  2004-07-01       Impact factor: 2.352

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