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

Qianfei Huang; Jun Zhang; Leyi Wei; Fei Guo; Quan Zou

doi:10.3389/fpls.2020.00004

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

Front Plant Sci. 2020 Jan 31:11:4. doi: 10.3389/fpls.2020.00004. eCollection 2020.

Authors

Qianfei Huang¹, Jun Zhang², Leyi Wei¹, Fei Guo¹, Quan Zou³

Affiliations

¹ College of Intelligence and Computing, Tianjin University, Tianjin, China.
² Rehabilitation Department, Heilongjiang Province Land Reclamation Headquarters General Hospital, Harbin, China.
³ Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China, Chengdu, China.

Abstract

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.

Keywords: 6mA; DNA; fusion; model; rice.