catRAPID signature: identification of ribonucleoproteins and RNA-binding regions

Motivation: Recent technological advances revealed that an unexpected large number of proteins interact with transcripts even if they lack annotated RNA-binding domains. We introduce catRAPID signature to identify ribonucleoproteins based on physico-chemical features instead of sequence similarity searchers. 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. Availability and implementation: catRAPID signature can be accessed at http://s.tartaglialab.com/new_submission/signature Supplementary information: Supplementary data are available at Bioinformatics online and at the online Documentation and Tutorial.

• Type: Journal
• Year: 2016
• Where: BIOINFORMATICS
• Authors: Carmen Maria Livi, Petr Klus, Riccardo Delli Ponti, Gian Gaetano Tartaglia
• Keywords: BIOINFORMATICS 2016