Identification and analysis of the N(6)-methyladenosine in the Saccharomyces cerevisiae transcriptome.
Knowledge of the distribution of N(6)-methyladenosine (m(6)A) is invaluable for understanding RNA biological functions. However, limitation in experimental methods impedes the progress towards the identification of m(6)A site. As a complement of experimental methods, a support vector machine based-method is proposed to identify m(6)A sites in Saccharomyces cerevisiae genome. In this model, RNA sequences are encoded by their nucleotide chemical property and accumulated nucleotide frequency information. It is observed in the jackknife test that the accuracy achieved by the proposed model in identifying the m(6)A site was 78.15%. For the convenience of experimental scientists, a web-server for the proposed model is provided at http://lin.uestc.edu.cn/server/m6Apred.php.
Department of Physics, School of Sciences, and Center for Genomics and Computational Biology, Hebei United University, Tangshan 063000, China.|Department of Computer Science, Virginia Tech, Blacksburg, VA 24060, United States of America.
Wei
W
Chen
Department of Computer Science, Virginia Tech, Blacksburg, VA 24060, United States of America.
Hong
H
Tran
Key Laboratory for Neuro-Information of Ministry of Education, Center of Bioinformatics, School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China.
Zhiyong
Z
Liang
Key Laboratory for Neuro-Information of Ministry of Education, Center of Bioinformatics, School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China.
Hao
H
Lin
Department of Computer Science, Virginia Tech, Blacksburg, VA 24060, United States of America.
Liqing
L
Zhang
D000241:Adenosine / Q000031:analogs & derivatives* / Q000378:metabolism; D019295:Computational Biology / Q000379:methods; D020869:Gene Expression Profiling; D008745:Methylation; D059372:Nucleotide Motifs; D009711:Nucleotides / Q000235:genetics / Q000378:metabolism; D056510:Position-Specific Scoring Matrices; D012372:ROC Curve; D012441:Saccharomyces cerevisiae / Q000235:genetics* / Q000378:metabolism*; D059467:Transcriptome; D064878:Web Browser
D009711:Nucleotides; C010223:N-methyladenosine; D000241:Adenosine