Mathematical properties of DNA sequences from coding and noncoding regions

J.A. García^a,b,* and M.V. José^b

^aLaboratory of Theoretic Biology, Research Department, La Salle University, Benjamín Franklin 47, Col. Condesa, México, D.F. 06140, México,

^bInstituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, Apartado Postal 70228, Ciudad Universitaria, 04510 México D.F. México

Abstract

Several nonlinear techniques have been applied to analyze DNA sequences. As a result, some mathematical properties that distinguish both coding and noncoding regions have emerged. We review and apply some of these techniques selecting some examples and comparing our results with previously published data. We also discuss the main controversies that have been raised in terms of the different taken approaches, particularly the presence or absence of long-range correlations in coding regions.

Keywords: Long-range correlations; DNA mathematical analysis; fractal dynamics.

Resumen

Se han aplicado diversas técnicas no lineales para analizar secuencias de ADN. Como consecuencia, han surgido ciertas propiedades matemáticas que permiten distinguir a las secuencias codificantes de las no codificantes. En este artículo se revisan y aplican algunas de estas técnicas, seleccionando algunos ejemplos y comparando nuestros resultados con datos previamente publicados. Asimismo, se discuten las principales controversias que han surgido en términos de las diferentes estrategias metodológicas consideradas, en particular, se discute la presencia o ausencia de correlaciones a largo alcance en regiones codificantes.

Descriptores: Correlaciones a largo alcance; análisis matemáticos; DNA; dinámica fractal.

PACS: 87.10.+e; 05.40.+j

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Acknowledgments

We are very grearful to Julio Collado and Imelda Lopez for their valuable feed back and for reading the manuscript. M.VJ. was financially supported by PAPIIT-IN205702, UNAM, México.

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