Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq)

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• dc.contributor.author Lagarde, Julienca
• dc.contributor.author Uszczynska-Ratajczak, Barbaraca
• dc.contributor.author Santoyo-Lopez, Javierca
• dc.contributor.author Gonzalez, Jose Manuelca
• dc.contributor.author Tapanari, Electraca
• dc.contributor.author Mudge, Jonathan M.ca
• dc.contributor.author Steward, Charles A.ca
• dc.contributor.author Wilming, Laurensca
• dc.contributor.author Tanzer, Andreaca
• dc.contributor.author Howald, Cédricca
• dc.contributor.author Chrast, Jacquelineca
• dc.contributor.author Vela-Boza, Aliciaca
• dc.contributor.author Rueda, Antonioca
• dc.contributor.author Lopez-Domingo, Francisco J.ca
• dc.contributor.author Dopazo, Joaquínca
• dc.contributor.author Reymond, Alexandreca
• dc.contributor.author Guigó Serra, Rodericca
• dc.contributor.author Harrow, Jenniferca
• dc.date.accessioned 2017-01-20T12:11:42Z
• dc.date.available 2017-01-20T12:11:42Z
• dc.date.issued 2016ca
• dc.description.abstract Long non-coding RNAs (lncRNAs) constitute a large, yet mostly uncharacterized fraction of the mammalian transcriptome. Such characterization requires a comprehensive, high-quality annotation of their gene structure and boundaries, which is currently lacking. Here we describe RACE-Seq, an experimental workflow designed to address this based on RACE (rapid amplification of cDNA ends) and long-read RNA sequencing. We apply RACE-Seq to 398 human lncRNA genes in seven tissues, leading to the discovery of 2,556 on-target, novel transcripts. About 60% of the targeted loci are extended in either 5′ or 3′, often reaching genomic hallmarks of gene boundaries. Analysis of the novel transcripts suggests that lncRNAs are as long, have as many exons and undergo as much alternative splicing as protein-coding genes, contrary to current assumptions. Overall, we show that RACE-Seq is an effective tool to annotate an organism’s deep transcriptome, and compares favourably to other targeted sequencing techniques.
• dc.format.mimetype application/pdfca
• dc.identifier.citation Lagarde J, Uszczynska-Ratajczak B, Santoyo-Lopez J, Gonzalez JM, Tapanari E, Mudge JM [et. al.]. Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq). Nature Communications. 2016; 7: 12339. DOI: 10.1038/ncomms12339ca
• dc.identifier.doi http://dx.doi.org/10.1038/ncomms12339
• dc.identifier.issn 2041-1723ca
• dc.identifier.uri http://hdl.handle.net/10230/27947
• dc.language.iso engca
• dc.publisher Nature Publishing Groupca
• dc.relation.ispartof Nature Communications. 2016; 7: 12339
• dc.rights © Nature Publishing Group.This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ca
• dc.rights.accessRights info:eu-repo/semantics/openAccessca
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.keyword Long non-coding RNAs
• dc.subject.keyword RNA splicing
• dc.subject.keyword Sequence annotation
• dc.subject.keyword Transcriptomics
• dc.title Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq)ca
• dc.type info:eu-repo/semantics/articleca
• dc.type.version info:eu-repo/semantics/publishedVersionca