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6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion

MOTIVATION: The biological function of N (6)-methyladenine DNA (6mA) in plants is largely unknown. Rice is one of the most important crops worldwide and is a model species for molecular and genetic studies. There are few methods for 6mA site recognition in the rice genome, and an effective computati...

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Autores principales: Huang, Qianfei, Zhang, Jun, Wei, Leyi, Guo, Fei, Zou, Quan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7006724/
https://www.ncbi.nlm.nih.gov/pubmed/32076430
http://dx.doi.org/10.3389/fpls.2020.00004
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author Huang, Qianfei
Zhang, Jun
Wei, Leyi
Guo, Fei
Zou, Quan
author_facet Huang, Qianfei
Zhang, Jun
Wei, Leyi
Guo, Fei
Zou, Quan
author_sort Huang, Qianfei
collection PubMed
description MOTIVATION: The biological function of N (6)-methyladenine DNA (6mA) in plants is largely unknown. Rice is one of the most important crops worldwide and is a model species for molecular and genetic studies. There are few methods for 6mA site recognition in the rice genome, and an effective computational method is needed. RESULTS: In this paper, we propose a new computational method called 6mA-Pred to identify 6mA sites in the rice genome. 6mA-Pred employs a feature fusion method to combine advantageous features from other methods and thus obtain a new feature to identify 6mA sites. This method achieved an accuracy of 87.27% in the identification of 6mA sites with 10-fold cross-validation and achieved an accuracy of 85.6% in independent test sets.
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spelling pubmed-70067242020-02-19 6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion Huang, Qianfei Zhang, Jun Wei, Leyi Guo, Fei Zou, Quan Front Plant Sci Plant Science MOTIVATION: The biological function of N (6)-methyladenine DNA (6mA) in plants is largely unknown. Rice is one of the most important crops worldwide and is a model species for molecular and genetic studies. There are few methods for 6mA site recognition in the rice genome, and an effective computational method is needed. RESULTS: In this paper, we propose a new computational method called 6mA-Pred to identify 6mA sites in the rice genome. 6mA-Pred employs a feature fusion method to combine advantageous features from other methods and thus obtain a new feature to identify 6mA sites. This method achieved an accuracy of 87.27% in the identification of 6mA sites with 10-fold cross-validation and achieved an accuracy of 85.6% in independent test sets. Frontiers Media S.A. 2020-01-31 /pmc/articles/PMC7006724/ /pubmed/32076430 http://dx.doi.org/10.3389/fpls.2020.00004 Text en Copyright © 2020 Huang, Zhang, Wei, Guo and Zou http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Huang, Qianfei
Zhang, Jun
Wei, Leyi
Guo, Fei
Zou, Quan
6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion
title 6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion
title_full 6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion
title_fullStr 6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion
title_full_unstemmed 6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion
title_short 6mA-RicePred: A Method for Identifying DNA N (6)-Methyladenine Sites in the Rice Genome Based on Feature Fusion
title_sort 6ma-ricepred: a method for identifying dna n (6)-methyladenine sites in the rice genome based on feature fusion
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7006724/
https://www.ncbi.nlm.nih.gov/pubmed/32076430
http://dx.doi.org/10.3389/fpls.2020.00004
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