The interaction between RNA and RNA-binding proteins (RBPs) has a key role in the regulation of gene expression, in RNA stability, and in many other biological processes. RBPs accomplish these functions by binding target RNA molecules through specific sequence and structure motifs. The identification of these binding motifs is therefore fundamental to improve our knowledge of the cellular processes and how they are regulated. Here, we present BRIO (BEAM RNA Interaction mOtifs), a new web server designed for the identification of sequence and structure RNA-binding motifs in one or more RNA molecules of interest. BRIO enables the user to scan over 2508 sequence motifs and 2296 secondary structure motifs identified in Homo sapiens and Mus musculus, in three different types of experiments (PAR-CLIP, eCLIP, HITS). The motifs are associated with the binding of 186 RBPs and 69 protein domains. The web server is freely available at http://brio.bio.uniroma2.it.

Guarracino, A., Pepe, G., Ballesio, F., Adinolfi, M., Pietrosanto, M., Sangiovanni, E., et al. (2021). BRIO: a web server for RNA sequence and structure motif scan. NUCLEIC ACIDS RESEARCH, 49(W1), W67-W71 [10.1093/nar/gkab400].

BRIO: a web server for RNA sequence and structure motif scan

Pepe, Gerardo;Adinolfi, Marta;Pietrosanto, Marco;Vitale, Ilio;Ausiello, Gabriele;Helmer-Citterich, Manuela
2021-01-01

Abstract

The interaction between RNA and RNA-binding proteins (RBPs) has a key role in the regulation of gene expression, in RNA stability, and in many other biological processes. RBPs accomplish these functions by binding target RNA molecules through specific sequence and structure motifs. The identification of these binding motifs is therefore fundamental to improve our knowledge of the cellular processes and how they are regulated. Here, we present BRIO (BEAM RNA Interaction mOtifs), a new web server designed for the identification of sequence and structure RNA-binding motifs in one or more RNA molecules of interest. BRIO enables the user to scan over 2508 sequence motifs and 2296 secondary structure motifs identified in Homo sapiens and Mus musculus, in three different types of experiments (PAR-CLIP, eCLIP, HITS). The motifs are associated with the binding of 186 RBPs and 69 protein domains. The web server is freely available at http://brio.bio.uniroma2.it.
2021
Pubblicato
Rilevanza internazionale
Articolo
Esperti anonimi
Settore BIO/11 - BIOLOGIA MOLECOLARE
English
Con Impact Factor ISI
Animals
Base Sequence
Cell Line
Humans
Internet
Mice
Nucleotide Motifs
RNA
RNA, Small Nuclear
RNA, Viral
RNA-Binding Proteins
Sequence Analysis, RNA
Software
Guarracino, A., Pepe, G., Ballesio, F., Adinolfi, M., Pietrosanto, M., Sangiovanni, E., et al. (2021). BRIO: a web server for RNA sequence and structure motif scan. NUCLEIC ACIDS RESEARCH, 49(W1), W67-W71 [10.1093/nar/gkab400].
Guarracino, A; Pepe, G; Ballesio, F; Adinolfi, M; Pietrosanto, M; Sangiovanni, E; Vitale, I; Ausiello, G; Helmer-Citterich, M
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/2108/292033
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