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Título:
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DNA Binding Site Characterization by Means of Rényi Entropy Measures on Nucleotide Transitions
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Autor/a:
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Perera, Alexandre; Vallverdú, Montserrat; Clarià Sancho, Francisco; Soria, José Manuel; Caminal Magrans, Pere
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Notas:
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—In this work, parametric information-theory measures
for the characterization of binding sites in DNA are extended
with the use of transitional probabilities on the sequence. We
propose the use of parametric uncertainty measures such as Rényi
entropies obtained from the transition probabilities for the study
of the binding sites, in addition to nucleotide frequency-based
Rényi measures. Results are reported in this work comparing
transition frequencies (i.e., dinucleotides) and base frequencies
for Shannon and parametric Rényi entropies for a number of
binding sites found in E. Coli, , and T7 organisms. We observe
that the information provided by both approaches is not redundant.
Furthermore, under the presence of noise in the binding
site matrix we observe overall improved robustness of nucleotide
transition-based algorithms when compared with nucleotide
frequency-based method.
This work was supported by the Spanish Ministerio de Educación y Ciencia under the Ramón y Cajal Program and TEC2007-63637/TCM. Asterisk indicates corresponding author. |
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Materia(s):
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-Binding site
-Rényi entropy
-Biological cells
-Genetics |
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Derechos:
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(c) IEEE, 2008
info:eu-repo/semantics/restrictedAccess |
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Tipo de documento:
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article
publishedVersion |
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Editor:
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Institute of Electrical and Electronics Engineers
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Compartir:
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