Scaling behavior of nucleotide cluster in DNA sequences

Nucleotide sequences in DNA

Dynamic cluster-scaling in DNA

It is shown that the nucleotide sequences in DNA molecules have clusterscaling properties (discovered for the first time in turbulent processes: Sreenivasan and Bershadskii, 2006, J. Stat. Phys., 125, 1141-1153.). These properties are relevant to both types of nucleotide pair-bases interactions: hydrogen bonds and stacking interactions. It is shown that taking into account the cluster-scaling p...

Determination of nucleotide sequences in DNA.

In spite of the important role played by DNA sequences in living matter, it is only relatively recently that general methods for their determination have been developed. This is mainly because of the very large size of DNA molecules, the smallest being those of the simple bacteriophages such as qXl74 (which contains about 5,000 nucleotides). It was therefore difficult to develop methods with su...

Zipf-Scaling Description in the DNA Sequences

The background of this research is the point of view that the correlations and relationships of bases of nucleotide sequences are recorded of evolutionary history. In fact, the recent research for statistical analysis (called Linguistic test: Shannon’s redundancy) of DNA sequences represent the 1/f fluctuation as power spectra results of Fourier transform at long DNA sequences [1]. Also, Zipf’s...

Impact of Tandem repeats on the Scaling of nucleotide Sequences

Techniques such as detrended fluctuation analysis (DFA) and its extensions have been widely used to determine the nature of scaling in nucleotide sequences. In this brief communication we show that tandem repeats which are ubiquitous in nucleotide sequences can prevent reliable estimation of possible long-range correlations. Therefore, it is important to investigate the presence of tandem repea...