A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences

Topological entropy is one of the most difficult entropies to be used to analyze the DNA sequences, due to the finite sample and high-dimensionality problems. In order to overcome these problems, a generalized topological entropy is introduced. The relationship between the topological entropy and th...

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Detalles Bibliográficos
Autores principales: Jin, Shuilin, Tan, Renjie, Jiang, Qinghua, Xu, Li, Peng, Jiajie, Wang, Yong, Wang, Yadong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2014
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3922877/
https://www.ncbi.nlm.nih.gov/pubmed/24533097
http://dx.doi.org/10.1371/journal.pone.0088519
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author Jin, Shuilin
Tan, Renjie
Jiang, Qinghua
Xu, Li
Peng, Jiajie
Wang, Yong
Wang, Yadong
author_facet Jin, Shuilin
Tan, Renjie
Jiang, Qinghua
Xu, Li
Peng, Jiajie
Wang, Yong
Wang, Yadong
author_sort Jin, Shuilin
collection PubMed
description Topological entropy is one of the most difficult entropies to be used to analyze the DNA sequences, due to the finite sample and high-dimensionality problems. In order to overcome these problems, a generalized topological entropy is introduced. The relationship between the topological entropy and the generalized topological entropy is compared, which shows the topological entropy is a special case of the generalized entropy. As an application the generalized topological entropy in introns, exons and promoter regions was computed, respectively. The results indicate that the entropy of introns is higher than that of exons, and the entropy of the exons is higher than that of the promoter regions for each chromosome, which suggest that DNA sequence of the promoter regions is more regular than the exons and introns.
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spelling pubmed-39228772014-02-14 A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences Jin, Shuilin Tan, Renjie Jiang, Qinghua Xu, Li Peng, Jiajie Wang, Yong Wang, Yadong PLoS One Research Article Topological entropy is one of the most difficult entropies to be used to analyze the DNA sequences, due to the finite sample and high-dimensionality problems. In order to overcome these problems, a generalized topological entropy is introduced. The relationship between the topological entropy and the generalized topological entropy is compared, which shows the topological entropy is a special case of the generalized entropy. As an application the generalized topological entropy in introns, exons and promoter regions was computed, respectively. The results indicate that the entropy of introns is higher than that of exons, and the entropy of the exons is higher than that of the promoter regions for each chromosome, which suggest that DNA sequence of the promoter regions is more regular than the exons and introns. Public Library of Science 2014-02-12 /pmc/articles/PMC3922877/ /pubmed/24533097 http://dx.doi.org/10.1371/journal.pone.0088519 Text en © 2014 Jin et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Jin, Shuilin
Tan, Renjie
Jiang, Qinghua
Xu, Li
Peng, Jiajie
Wang, Yong
Wang, Yadong
A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences
title A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences
title_full A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences
title_fullStr A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences
title_full_unstemmed A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences
title_short A Generalized Topological Entropy for Analyzing the Complexity of DNA Sequences
title_sort generalized topological entropy for analyzing the complexity of dna sequences
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3922877/
https://www.ncbi.nlm.nih.gov/pubmed/24533097
http://dx.doi.org/10.1371/journal.pone.0088519
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