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Methods Mol Biol. 2016;1358:29-39. doi: 10.1007/978-1-4939-3067-8_2.

A Computational Approach for the Discovery of Protein-RNA Networks.

Author information

1
Centre for Genomic Regulation (CRG), Dr Aiguader 88, 08003, Barcelona, Spain.
2
Universitat Pompeu Fabra (UPF), 08003, Barcelona, Spain.
3
Centre for Genomic Regulation (CRG), Dr Aiguader 88, 08003, Barcelona, Spain. gian@tartaglialab.com.
4
Universitat Pompeu Fabra (UPF), 08003, Barcelona, Spain. gian@tartaglialab.com.
5
Institució Catalana de Recerca i Estudis Avançats (ICREA), 23 Passeig de Lluís Companys, 08010, Barcelona, Spain. gian@tartaglialab.com.

Abstract

Protein-RNA interactions play important roles in a wide variety of cellular processes, ranging from transcriptional and posttranscriptional regulation of genes to host defense against pathogens. In this chapter we present the computational approach catRAPID to predict protein-RNA interactions and discuss how it could be used to find trends in ribonucleoprotein networks. We envisage that the combination of computational and experimental approaches will be crucial to unravel the role of coding and noncoding RNAs in protein networks.

KEYWORDS:

Interaction prediction; Messenger RNA; Noncoding RNA; Protein–RNA interactions; Ribonucleoprotein networks; catRAPID

PMID:
26463375
DOI:
10.1007/978-1-4939-3067-8_2
[Indexed for MEDLINE]

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