Motivation: 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: identification of ribonucleoproteins and RNA-binding regions / Livi, Carmen Maria; Klus, Petr; Delli Ponti, Riccardo; Tartaglia, Gian Gaetano. - In: BIOINFORMATICS. - ISSN 1367-4803. - 32:5(2016), pp. 773-775. [10.1093/bioinformatics/btv629]

CatRAPID signature: identification of ribonucleoproteins and RNA-binding regions

Tartaglia, Gian Gaetano
2016

Abstract

Motivation: 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.
2016
Algorithms; Humans; RNA; Ribonucleoproteins; Software; Statistics and Probability; Biochemistry; Molecular Biology; Computer Science Applications1707 Computer Vision and Pattern Recognition; Computational Theory and Mathematics; Computational Mathematics
01 Pubblicazione su rivista::01a Articolo in rivista
CatRAPID signature: identification of ribonucleoproteins and RNA-binding regions / Livi, Carmen Maria; Klus, Petr; Delli Ponti, Riccardo; Tartaglia, Gian Gaetano. - In: BIOINFORMATICS. - ISSN 1367-4803. - 32:5(2016), pp. 773-775. [10.1093/bioinformatics/btv629]
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11573/1277781
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