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© Oxford University Press

Latent sequence periodicity of some oncogenes and DNA-binding protein genes

E. V. Korotkov , M.A. Korotkova 1 and J. S. Tulko

Center of Bioengineering of the Russian Academy of Sciences, 60-Oktybrya prospect, 7/1, Moscow, 117312 and Moscow Physical Engineering Institute, Department of Cybernetics, Ministry of Education of Russia 115409, Moscow, Russia

1To whom correspondence should be addressed at: Moscow Physical Engineering Institute, Department of Cybernetics, Ministry of Education of Russia, Kashirskoe shosse, 31, 115409, Moscow, Russia

A method of latent periodicity search is developed. We use mutual information to reveal the latent periodicity of mRNA sequences. The latent periodicity of an mRNA sequence is a periodicity with a low level of similarity between any two periods inside the mRNA sequence. The mutual information between an artificial numerical sequence and an mRNA sequence is calculated. The length of the artificial sequence period is varied from 2 to 150. The high level of the mutual information between artificial and mRNA sequences allows us to find any type of latent periodicity of mRNA sequence. The latent periodicity of many mRNA coding regions has been found. For example, the retinoblastoma gene of HSRBS clone contains a region with a latent period equal to 45 bases. The A-RAF oncogene of HSARAFIR clone contains a region with a latent period equal to 84 bases. Integrated sequences for the regions with latent periodicity are determined. The potential significance of latent periodicity is discussed.

Received on June 5, 1996; accepted on July 25, 1996

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