Long-range correlations of RNA polymerase II promoter sequences across organisms

P. Katsaloulis, T. Theoharis, W.M. Zheng, B.L. Hao, A. Bountis, Y. Almirantis and A. Provata

Physica A: Statistical Mechanics and its Applications, 2006, vol. 366, issue C, 308-322

Abstract: The statistical properties of the size distribution of DNA segments separating identical oligonucleotides are studied. For representative eukaryotes (Homo sapiens, Mus musculus, Saccharomyces cereviciae, Oryza sativa, Arabidopsis thaliana) we have demonstrated the existence of long-range correlations for the distances separating oligonucleotides of sizes 4, 5 and 6, which carry a promoter signature. This observation is independent of the consensus sequence used by the organism, as in the case of O. sativa (which mainly uses the CG promoter box) and A. thaliana (which mainly uses the TATA promoter box). If we use two parameters to characterise the size distribution separating oligonucleotides, we observe that oligonucleotides containing promoter signatures cluster together, away from the others.

Keywords: Consensus sequences; Promoters; Oligonucleotide size distribution; Long-range correlations; Critical exponents (search for similar items in EconPapers)
Date: 2006
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Citations: View citations in EconPapers (4)

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Persistent link: https://EconPapers.repec.org/RePEc:eee:phsmap:v:366:y:2006:i:c:p:308-322

DOI: 10.1016/j.physa.2005.10.019

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