title: SpliceMachine: predicting splice sites from high-dimensional local context representations.
abstract: BACKGROUND
  In this age of complete genome sequencing, finding the location and structure of genes is crucial for further molecular research. The accurate prediction of intron boundaries largely facilitates the correct prediction of gene structure in nuclear genomes. Many tools for localizing these boundaries on DNA sequences have been developed and are available to researchers through the internet. Nevertheless, these tools still make many false positive predictions.
  
  
  RESULTS
  This manuscript presents a novel publicly available splice site prediction tool named SpliceMachine that (i) shows state-of-the-art prediction performance on Arabidopsis thaliana and human sequences, (ii) performs a computationally fast annotation and (iii) can be trained by the user on its own data.
  
  
  BACKGROUND
  Results, figures and software are available at http://www.bioinformatics.psb.ugent.be/supplementary_data/
  
  
  BACKGROUND
  sven.degroeve@psb.ugent.be; yves.vandepeer@psb.ugent.be.
authors.affiliation: Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology (VIB), Technologiepark 927, Gent 9052, Belgium. sven.degroeve@psb.ugent.be
authors.forename: Sven
authors.initials: S
authors.lastname: Degroeve
authors.forename: Yvan
authors.initials: Y
authors.lastname: Saeys
authors.forename: Bernard
authors.initials: B
authors.lastname: De Baets
authors.forename: Pierre
authors.initials: P
authors.lastname: Rouzé
authors.forename: Yves
authors.initials: Y
authors.lastname: Van de Peer
mesh_terms: D000465:Algorithms; D017360:Arabidopsis / Q000235:genetics*; D001185:Artificial Intelligence; D002874:Chromosome Mapping / Q000379:methods*; D030541:Databases, Genetic; D015894:Genome, Human; D006801:Humans; D008957:Models, Genetic; D015233:Models, Statistical; D022821:RNA Splice Sites / Q000235:genetics*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: D022821:RNA Splice Sites