Information profiles for DNA pattern discovery

Armando J. Pinho; Diogo Pratas; Paulo J. S. G. Ferreira

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arXiv · 1401.4725

Information profiles for DNA pattern discovery

Armando J. Pinho·Diogo Pratas·Paulo J. S. G. Ferreira

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Abstract

Finite-context modeling is a powerful tool for compressing and hence for representing DNA sequences. We describe an algorithm to detect genomic regularities, within a blind discovery strategy. The algorithm uses information profiles built using suitable combinations of finite-context models. We used the genome of the fission yeast Schizosaccharomyces pombe strain 972 h- for illustration, unveilling locations of low information content, which are usually associated with DNA regions of potential biological interest.

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Armando J. Pinho, Diogo Pratas, Paulo J. S. G. Ferreira. 2014-01-19. Information profiles for DNA pattern discovery. https://arxiv.org/abs/1401.4725

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