title: catRAPID signature: identification of ribonucleoproteins and RNA-binding regions.
abstract: Recent technological advances revealed that an unexpected large number of proteins interact with transcripts even if the RNA-binding domains are not annotated. We introduce catRAPID signature to identify ribonucleoproteins based on physico-chemical features instead of sequence similarity searches. The algorithm, trained on human proteins and tested on model organisms, calculates the overall RNA-binding propensity followed by the prediction of RNA-binding regions. catRAPID signature outperforms other algorithms in the identification of RNA-binding proteins and detection of non-classical RNA-binding regions. Results are visualized on a webpage and can be downloaded or forwarded to catRAPID omics for predictions of RNA targets.
  
  
  
  catRAPID signature can be accessed at http://s.tartaglialab.com/new_submission/signature
  
  
  
  gian.tartaglia@crg.es or gian@tartaglialab.com
  
  
  
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Spain, Universitat Pompeu Fabra (UPF), 08003 Barcelona, Spain and.
authors.forename: Carmen Maria
authors.initials: CM
authors.lastname: Livi
authors.affiliation: Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Spain, Universitat Pompeu Fabra (UPF), 08003 Barcelona, Spain and.
authors.forename: Petr
authors.initials: P
authors.lastname: Klus
authors.affiliation: Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Spain, Universitat Pompeu Fabra (UPF), 08003 Barcelona, Spain and.
authors.forename: Riccardo
authors.initials: R
authors.lastname: Delli Ponti
authors.affiliation: Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Spain, Universitat Pompeu Fabra (UPF), 08003 Barcelona, Spain and Institució Catalana de Recerca i Estudis Avançats (ICREA), 08010 Barcelona, Spain.
authors.forename: Gian Gaetano
authors.initials: GG
authors.lastname: Tartaglia
mesh_terms: D000465:Algorithms; D006801:Humans; D012313:RNA; D012261:Ribonucleoproteins; D012984:Software
chemical_list: D012261:Ribonucleoproteins; D012313:RNA