nextPARS: parallel probing of RNA structures in Illumina
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- dc.contributor.author Saus Martínez, Ester
- dc.contributor.author Willis, Jesse R.
- dc.contributor.author Pryszcz, Leszek Piotr, 1985-
- dc.contributor.author Hafez Khafaga, Ahmed Ibrahem, 1987-
- dc.contributor.author Llorens, Carlos, 1968-
- dc.contributor.author Himmelbauer, Heinz
- dc.contributor.author Gabaldón Estevan, Juan Antonio, 1973-
- dc.date.accessioned 2019-12-05T08:38:06Z
- dc.date.available 2019-12-05T08:38:06Z
- dc.date.issued 2018
- dc.description.abstract RNA molecules play important roles in virtually every cellular process. These functions are often mediated through the adoption of specific structures that enable RNAs to interact with other molecules. Thus, determining the secondary structures of RNAs is central to understanding their function and evolution. In recent years several sequencing-based approaches have been developed that allow probing structural features of thousands of RNA molecules present in a sample. Here, we describe nextPARS, a novel Illumina-based implementation of in vitro parallel probing of RNA structures. Our approach achieves comparable accuracy to previous implementations, while enabling higher throughput and sample multiplexing.
- dc.description.sponsorship This work was supported by the Spanish Ministry of Economy and Competitiveness grants “Centro de Excelencia Severo Ochoa 2013–2017” (SEV-2012-0208); the European Regional Development Fund (ERDF) from the European Union and European Research Council (ERC) Seventh Framework Programme (FP7/2007–2013) (ERC-2012-StG-310325); and the European Union's Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement (H2020-MSCA-ITN-2014-642095).
- dc.format.mimetype application/pdf
- dc.identifier.citation Saus E, Willis JR, Pryszcz LP, Hafez A, Llorens C, Himmelbauer H et al. nextPARS: parallel probing of RNA structures in Illumina. RNA. 2018;24(4):609-19. DOI: 10.1261/rna.063073.117
- dc.identifier.doi http://dx.doi.org/10.1261/rna.063073.117
- dc.identifier.issn 1355-8382
- dc.identifier.uri http://hdl.handle.net/10230/43102
- dc.language.iso eng
- dc.publisher Cold Spring Harbor Laboratory Press (CSHL Press)
- dc.relation.ispartof RNA. 2018;24(4):609-19
- dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/310325
- dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/642095
- dc.rights © 2018 Saus et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society. This article, published in RNA, is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri http://creativecommons.org/licenses/by-nc/4.0/
- dc.subject.keyword RNA secondary structure
- dc.subject.keyword Genome-wide enzymatic probing
- dc.subject.keyword Multiplex sequencing
- dc.title nextPARS: parallel probing of RNA structures in Illumina
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion