Functional annotation of human long noncoding RNAs via molecular phenotyping
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- dc.contributor.author Ramilowski, Jordan A.
- dc.contributor.author Borsari, Beatrice, 1992-
- dc.contributor.author Garrido Martín, Diego, 1992-
- dc.contributor.author Muñoz-Aguirre, Manuel
- dc.contributor.author Nurtdinov, Ramil
- dc.contributor.author Guigó Serra, Roderic
- dc.contributor.author Carninci, Piero
- dc.date.accessioned 2020-09-30T10:11:26Z
- dc.date.available 2020-09-30T10:11:26Z
- dc.date.issued 2020
- dc.description.abstract Long noncoding RNAs (lncRNAs) constitute the majority of transcripts in the mammalian genomes, and yet, their functions remain largely unknown. As part of the FANTOM6 project, we systematically knocked down the expression of 285 lncRNAs in human dermal fibroblasts and quantified cellular growth, morphological changes, and transcriptomic responses using Capped Analysis of Gene Expression (CAGE). Antisense oligonucleotides targeting the same lncRNAs exhibited global concordance, and the molecular phenotype, measured by CAGE, recapitulated the observed cellular phenotypes while providing additional insights on the affected genes and pathways. Here, we disseminate the largest-to-date lncRNA knockdown data set with molecular phenotyping (over 1000 CAGE deep-sequencing libraries) for further exploration and highlight functional roles for ZNF213-AS1 and lnc-KHDC3L-2.
- dc.format.mimetype application/pdf
- dc.identifier.citation Ramilowski JA, Yip CW, Agrawal S, Chang JC, Ciani Y, Kulakovskiy IV et al. Functional annotation of human long noncoding RNAs via molecular phenotyping. Genome Res. 2020; 30(7):1060-72. DOI: 10.1101/gr.254219.119
- dc.identifier.doi http://dx.doi.org/10.1101/gr.254219.119
- dc.identifier.issn 1088-9051
- dc.identifier.uri http://hdl.handle.net/10230/45355
- dc.language.iso eng
- dc.publisher Cold Spring Harbor Laboratory Press (CSHL Press)
- dc.relation.ispartof Genome Res. 2020; 30(7):1060-72
- dc.rights © 2020 Ramilowski et al.; Published by Cold Spring Harbor Laboratory Press. This article, published in Genome Research, is available under a Creative Commons License (Attribution 4.0 International), as described at http://creativecommons.org/licenses/by/4.0/.
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri http://creativecommons.org/licenses/by/4.0/
- dc.title Functional annotation of human long noncoding RNAs via molecular phenotyping
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion