A1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä
SoftVoting6mA : An improved ensemble-based method for predicting DNA N6-methyladenine sites in cross-species genomes (2024)

Yin, Z., Lyu, J., Zhang, G., Huang, X., Ma, Q., & Jiang, J. (2024). SoftVoting6mA : An improved ensemble-based method for predicting DNA N6-methyladenine sites in cross-species genomes. Mathematical Biosciences and Engineering, 21(3), 3798-3815. https://doi.org/10.3934/mbe.2024169

JYU-tekijät tai -toimittajat

Julkaisun tiedot

Julkaisun kaikki tekijät tai toimittajat: Yin, Zhaoting; Lyu, Jianyi; Zhang, Guiyang; Huang, Xiaohong; Ma, Qinghua; Jiang, Jinyun

Lehti tai sarja: Mathematical Biosciences and Engineering

ISSN: 1547-1063

eISSN: 1551-0018

Julkaisuvuosi: 2024

Ilmestymispäivä: 19.02.2024

Volyymi: 21

Lehden numero: 3

Artikkelin sivunumerot: 3798-3815

Kustantaja: American Institute of Mathematical Sciences

Julkaisumaa: Yhdysvallat (USA)

Julkaisun kieli: englanti

DOI: https://doi.org/10.3934/mbe.2024169

Linkki tutkimusaineistoon: https://github.com/yinzhaoting/Softvoting-6mA

Julkaisun avoin saatavuus: Avoimesti saatavilla

Julkaisukanavan avoin saatavuus: Kokonaan avoin julkaisukanava

Tiivistelmä

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 http://www.biolscience.cn/SoftVoting6mA/.

YSO-asiasanat: DNA; geeniekspressio; koneoppiminen; neuroverkot; palvelimet; bioinformatiikka

Vapaat asiasanat: DNA N6-methyladenine; convolution neural network; soft voting; cross-species; feature fusion; webserver

Liittyvät organisaatiot

OKM-raportointi: Kyllä

Alustava JUFO-taso: 1