SoftVoting6mA: An improved ensemble-based method for predicting DNA N6-methyladenine sites in cross-species genomes-Reference-Cited by-同舟云学术

SoftVoting6mA: An improved ensemble-based method for predicting DNA N6-methyladenine sites in cross-species genomes

Published:2024 Issue:3 Volume:21 Page:3798-3815
ISSN:1551-0018
Container-title:Mathematical Biosciences and Engineering
language:
Short-container-title:MBE

Author:

Yin Zhaoting¹,Lyu Jianyi¹,Zhang Guiyang¹,Huang Xiaohong¹,Ma Qinghua²³,Jiang Jinyun¹

Affiliation:

1. College of Information Science and Engineering, Shaoyang University, Shaoyang 422000, China

2. College of Information Science and Engineering, Hohai University, Nanjing 210000, China

3. Faculty of Information Technology, University of Jyvaskyla, Jyvaskyla, Finland

Abstract

<abstract> <p>The DNA N6-methyladenine (6mA) is an epigenetic modification, which plays a pivotal role in biological processes encompassing gene expression, DNA replication, repair, and recombination. Therefore, the precise identification of 6mA sites is fundamental for better understanding its function, but challenging. We proposed an improved ensemble-based method for predicting DNA N6-methyladenine sites in cross-species genomes called SoftVoting6mA. The SoftVoting6mA selected four (electron–ion-interaction pseudo potential, One-hot encoding, Kmer, and pseudo dinucleotide composition) codes from 15 types of encoding to represent DNA sequences by comparing their performances. Similarly, the SoftVoting6mA combined four learning algorithms using the soft voting strategy. The 5-fold cross-validation and the independent tests showed that SoftVoting6mA reached the state-of-the-art performance. To enhance accessibility, a user-friendly web server is provided at <ext-link ext-link-type="uri" xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="http://www.biolscience.cn/SoftVoting6mA/">http://www.biolscience.cn/SoftVoting6mA/</ext-link>.</p> </abstract>

Publisher

American Institute of Mathematical Sciences (AIMS)

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