Annotation of full-length long noncoding RNAs with capture long-read sequencing (CLS)

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  • dc.contributor.author Carbonell Sala, Silvia
  • dc.contributor.author Uszczynska-Ratajczak, Barbara
  • dc.contributor.author Lagarde, Julien
  • dc.contributor.author Johnson, Rory
  • dc.contributor.author Guigó Serra, Roderic
  • dc.date.accessioned 2022-04-04T09:06:46Z
  • dc.date.issued 2021
  • dc.description.abstract Metazoan genomes produce thousands of long-noncoding RNAs (lncRNAs), of which just a small fraction have been well characterized. Understanding their biological functions requires accurate annotations, or maps of the precise location and structure of genes and transcripts in the genome. Current lncRNA annotations are limited by compromises between quality and size, with many gene models being fragmentary or uncatalogued. To overcome this, the GENCODE consortium has developed RNA capture long-read sequencing (CLS), an approach combining targeted RNA capture with third-generation long-read sequencing. CLS provides accurate annotations at high-throughput rates. It eliminates the need for noisy transcriptome assembly from short reads, and requires minimal manual curation. The full-length transcript models produced are of quality comparable to present-day manually curated annotations. Here we describe a detailed CLS protocol, from probe design through long-read sequencing to creation of final annotations.
  • dc.format.mimetype application/pdf
  • dc.identifier.citation Carbonell Sala S, Uszczyńska-Ratajczak B, Lagarde J, Johnson R, Guigó R. Annotation of full-length long noncoding RNAs with capture long-read sequencing (CLS). Methods Mol Biol. 2021;2254:133-59. DOI: 10.1007/978-1-0716-1158-6_9
  • dc.identifier.doi http://dx.doi.org/10.1007/978-1-0716-1158-6_9
  • dc.identifier.issn 1064-3745
  • dc.identifier.uri http://hdl.handle.net/10230/52824
  • dc.language.iso eng
  • dc.publisher Springer
  • dc.rights © Springer The final publication is available at Springer via http://dx.doi.org/10.1007/978-1-0716-1158-6_9
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.subject.other RNA
  • dc.subject.other Anàlisi de seqüències
  • dc.subject.other Genòmica
  • dc.title Annotation of full-length long noncoding RNAs with capture long-read sequencing (CLS)
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/acceptedVersion

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