RNAct: Protein-RNA interaction predictions for model organisms with supporting experimental data

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• dc.contributor.author Lang, Benjamin
• dc.contributor.author Armaos, Alexandros, 1989-
• dc.contributor.author Tartaglia, Gian Gaetano
• dc.date.accessioned 2019-03-12T08:41:01Z
• dc.date.available 2019-03-12T08:41:01Z
• dc.date.issued 2019
• dc.description.abstract Protein-RNA interactions are implicated in a number of physiological roles as well as diseases, with molecular mechanisms ranging from defects in RNA splicing, localization and translation to the formation of aggregates. Currently, ∼1400 human proteins have experimental evidence of RNA-binding activity. However, only ∼250 of these proteins currently have experimental data on their target RNAs from various sequencing-based methods such as eCLIP. To bridge this gap, we used an established, computationally expensive protein-RNA interaction prediction method, catRAPID, to populate a large database, RNAct. RNAct allows easy lookup of known and predicted interactions and enables global views of the human, mouse and yeast protein-RNA interactomes, expanding them in a genome-wide manner far beyond experimental data (http://rnact.crg.eu).
• dc.description.sponsorship European Research Council [RIBOMYLOME_309545]; European Union's Horizon 2020 research and innovation programme [727658, IASIS]; Spanish Ministry of Economy and Competitiveness [BFU2014-55054-P, BFU2017-86970-P]; Spanish Ministry of Economy and Competitiveness; ‘Centro de Excelencia Severo Ochoa 2013-2017’; CERCA Programme of the Generalitat de Catalunya; Marie Sklodowska-Curie Individual Fellowship from the European Union's Horizon 2020 research and innovation programme (793135, ‘DeepRNA’ to B.L.). Funding for open access charge: European Research Council [RIBOMYLOME_309545], European Union [793135].
• dc.format.mimetype application/pdf
• dc.identifier.citation Lang B, Armaos A, Tartaglia GG. RNAct: Protein-RNA interaction predictions for model organisms with supporting experimental data. Nucleic Acids Res. 2019; 47(D1):601-6. DOI: 10.1093/nar/gky967
• dc.identifier.doi http://dx.doi.org/10.1093/nar/gky967
• dc.identifier.issn 0305-1048
• dc.identifier.uri http://hdl.handle.net/10230/36798
• dc.language.iso eng
• dc.publisher Oxford University Press
• dc.relation.ispartof Nucleic Acids Research. 2019; 47(D1):601-6
• dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/BFU2014-55054-P
• dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/309545
• dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/727658
• dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/793135
• dc.rights © The Author(s) 2018. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.title RNAct: Protein-RNA interaction predictions for model organisms with supporting experimental data
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion