title: LncRNApred: Classification of Long Non-Coding RNAs and Protein-Coding Transcripts by the Ensemble Algorithm with a New Hybrid Feature.
abstract: As a novel class of noncoding RNAs, long noncoding RNAs (lncRNAs) have been verified to be associated with various diseases. As large scale transcripts are generated every year, it is significant to accurately and quickly identify lncRNAs from thousands of assembled transcripts. To accurately discover new lncRNAs, we develop a classification tool of random forest (RF) named LncRNApred based on a new hybrid feature. This hybrid feature set includes three new proposed features, which are MaxORF, RMaxORF and SNR. LncRNApred is effective for classifying lncRNAs and protein coding transcripts accurately and quickly. Moreover,our RF model only requests the training using data on human coding and non-coding transcripts. Other species can also be predicted by using LncRNApred. The result shows that our method is more effective compared with the Coding Potential Calculate (CPC). The web server of LncRNApred is available for free at http://mm20132014.wicp.net:57203/LncRNApred/home.jsp.
authors.affiliation: Department of Mathematics, College of Science, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
authors.forename: Cong
authors.initials: C
authors.lastname: Pian
authors.affiliation: Department of Mathematics, College of Science, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
authors.forename: Guangle
authors.initials: G
authors.lastname: Zhang
authors.affiliation: Department of Mathematics, College of Science, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
authors.forename: Zhi
authors.initials: Z
authors.lastname: Chen
authors.affiliation: Department of Mathematics, College of Science, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
authors.forename: Yuanyuan
authors.initials: Y
authors.lastname: Chen
authors.affiliation: Department of Mathematics, College of Science, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
authors.forename: Jin
authors.initials: J
authors.lastname: Zhang
authors.affiliation: Department of Mathematics, College of Science, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
authors.forename: Tao
authors.initials: T
authors.lastname: Yang
authors.affiliation: Department of Mathematics, College of Science, Nanjing Agricultural University, Nanjing, Jiangsu, People's Republic of China.
authors.forename: Liangyun
authors.initials: L
authors.lastname: Zhang
mesh_terms: D000465:Algorithms; D062085:RNA, Long Noncoding / Q000145:classification / Q000235:genetics; D012333:RNA, Messenger / Q000145:classification / Q000235:genetics; D017423:Sequence Analysis, RNA / Q000379:methods*; D012984:Software
chemical_list: D062085:RNA, Long Noncoding; D012333:RNA, Messenger