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LncATLAS database for subcellular localization of long noncoding RNAs

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dc.contributor.author Mas Ponte, David
dc.contributor.author Carlevaro-Fita, Joana
dc.contributor.author Palumbo, Emilio
dc.contributor.author Hermoso Pulido, Antonio
dc.contributor.author Guigó Serra, Roderic
dc.contributor.author Johnson, Rory
dc.date.accessioned 2018-03-22T08:44:34Z
dc.date.issued 2017
dc.identifier.citation Mas-Ponte D, Carlevaro-Fita J, Palumbo E, Hermoso Pulido T, Guigo R, Johnson R. LncATLAS database for subcellular localization of long noncoding RNAs. RNA. 2017 Jul;23(7):1080-7. DOI: 10.1261/rna.060814.117
dc.identifier.issn 1355-8382
dc.identifier.uri http://hdl.handle.net/10230/34239
dc.description.abstract The subcellular localization of long noncoding RNAs (lncRNAs) holds valuable clues to their molecular function. However, measuring localization of newly discovered lncRNAs involves time-consuming and costly experimental methods. We have created "lncATLAS," a comprehensive resource of lncRNA localization in human cells based on RNA-sequencing data sets. Altogether, 6768 GENCODE-annotated lncRNAs are represented across various compartments of 15 cell lines. We introduce relative concentration index (RCI) as a useful measure of localization derived from ensemble RNA-seq measurements. LncATLAS is accessible through an intuitive and informative webserver, from which lncRNAs of interest are accessed using identifiers or names. Localization is presented across cell types and organelles, and may be compared to the distribution of all other genes. Publication-quality figures and raw data tables are automatically generated with each query, and the entire data set is also available to download. LncATLAS makes lncRNA subcellular localization data available to the widest possible number of researchers. It is available at lncatlas.crg.eu.
dc.format.mimetype application/pdf
dc.language.iso eng
dc.publisher Cold Spring Harbor Laboratory Press (CSHL Press)
dc.relation.ispartof RNA. 2017 Jul;23(7):1080-7
dc.rights Copyright © 2017, RNA by RNA Society. Published version available at http://www.rnajournal.org/cgi/doi/10.1261/rna.060814.117
dc.title LncATLAS database for subcellular localization of long noncoding RNAs
dc.type info:eu-repo/semantics/article
dc.identifier.doi http://dx.doi.org/10.1261/rna.060814.117
dc.subject.keyword Long noncoding RNA
dc.subject.keyword lncRNA
dc.subject.keyword Subcellular localization
dc.subject.keyword Cytoplasm
dc.subject.keyword Chromatin
dc.subject.keyword Nucleus
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion


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