title: Detecting N6-methyladenosine sites from RNA transcriptomes using ensemble Support Vector Machines.
abstract: As one of the most abundant RNA post-transcriptional modifications, N6-methyladenosine (m6A) involves in a broad spectrum of biological and physiological processes ranging from mRNA splicing and stability to cell differentiation and reprogramming. However, experimental identification of m6A sites is expensive and laborious. Therefore, it is urgent to develop computational methods for reliable prediction of m6A sites from primary RNA sequences. In the current study, a new method called RAM-ESVM was developed for detecting m6A sites from Saccharomyces cerevisiae transcriptome, which employed ensemble support vector machine classifiers and novel sequence features. The jackknife test results show that RAM-ESVM outperforms single support vector machine classifiers and other existing methods, indicating that it would be a useful computational tool for detecting m6A sites in S. cerevisiae. Furthermore, a web server named RAM-ESVM was constructed and could be freely accessible at http://server.malab.cn/RAM-ESVM/.
authors.affiliation: School of Science, Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan 063009, China.
authors.forename: Wei
authors.initials: W
authors.lastname: Chen
authors.affiliation: School of Computer Science and Technology, Tianjin University, Tianjin 300354, China.
authors.forename: Pengwei
authors.initials: P
authors.lastname: Xing
authors.affiliation: School of Computer Science and Technology, Tianjin University, Tianjin 300354, China.|State Key Laboratory of Medicinal Chemical Biology, NanKai University, Tianjin 300074, China.
authors.forename: Quan
authors.initials: Q
authors.lastname: Zou
mesh_terms: D000241:Adenosine / Q000031:analogs & derivatives* / Q000032:analysis / Q000378:metabolism; D019295:Computational Biology; D012313:RNA / Q000032:analysis* / Q000378:metabolism; D012323:RNA Processing, Post-Transcriptional; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000378:metabolism; D060388:Support Vector Machine; D059467:Transcriptome
chemical_list: D012313:RNA; C010223:N-methyladenosine; D000241:Adenosine