title: RAMPred: identifying the N(1)-methyladenosine sites in eukaryotic transcriptomes.
abstract: N(1)-methyladenosine (m(1)A) is a prominent RNA modification involved in many biological processes. Accurate identification of m(1)A site is invaluable for better understanding the biological functions of m(1)A. However, limitations in experimental methods preclude the progress towards the identification of m(1)A site. As an excellent complement of experimental methods, a support vector machine based-method called RAMPred is proposed to identify m(1)A sites in H. sapiens, M. musculus and S. cerevisiae genomes for the first time. In this method, RNA sequences are encoded by using nucleotide chemical property and nucleotide compositions. RAMPred achieves promising performances in jackknife tests, cross cell line tests and cross species tests, indicating that RAMPred holds very high potential to become a useful tool for identifying m(1)A sites. For the convenience of experimental scientists, a web-server based on the proposed model was constructed and could be freely accessible at http://lin.uestc.edu.cn/server/RAMPred.
authors: Department of Physics, School of Sciences, and Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, Tangshan 063000, China.
authors: Wei
authors: W
authors: Chen
authors: School of Public Health, North China University of Science and Technology, Tangshan, 063000, China.
authors: Pengmian
authors: P
authors: Feng
authors: Department of Pathophysiology, Southwest Medical University, Luzhou 646000, China.
authors: Hua
authors: H
authors: Tang
authors: Key Laboratory for Neuro-Information of Ministry of Education, Center of Bioinformatics and Center for Information in Biomedicine, School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China.
authors: Hui
authors: H
authors: Ding
authors: Key Laboratory for Neuro-Information of Ministry of Education, Center of Bioinformatics and Center for Information in Biomedicine, School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China.
authors: Hao
authors: H
authors: Lin
mesh_terms: D000241:Adenosine / Q000031:analogs & derivatives* / Q000032:analysis; D000818:Animals; D006801:Humans; D051379:Mice; D008967:Molecular Biology / Q000379:methods*; D012441:Saccharomyces cerevisiae / Q000235:genetics; D059467:Transcriptome
chemical_list: C002230:1-methyladenosine; D000241:Adenosine