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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...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2020
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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. |
format | Online Article Text |
id | pubmed-7006724 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
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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