dc.creatorArias-Carrasco, Raúl [Univ Mayor, Fac Ciencias, Ctr Genom & Bioinformat, Santiago, Chile]
dc.creatorMaracaja-Coutinho, Vinicius [Univ Mayor, Fac Ciencias, Ctr Genom & Bioinformat, Santiago, Chile]
dc.creatorAmaral, Paulo P.; Leonardi, Tommaso; Han, Namshik; Vire, Emmanuelle; Gascoigne, Dennis K.; Buscher, Magdalena; Pandolfini, Luca; Zhang, Anda; Pluchino, Stefano; Nakaya, Helder, I; Hemberg, Martin; Shiekhattar, Ramin; Enright, Anton J.; Kouzarides, Tony
dc.date.accessioned2020-04-08T14:11:55Z
dc.date.accessioned2020-04-13T18:12:33Z
dc.date.accessioned2022-10-18T18:40:44Z
dc.date.available2020-04-08T14:11:55Z
dc.date.available2020-04-13T18:12:33Z
dc.date.available2022-10-18T18:40:44Z
dc.date.created2020-04-08T14:11:55Z
dc.date.created2020-04-13T18:12:33Z
dc.date.issued2018
dc.identifierAmaral, P. P., Leonardi, T., Han, N., Viré, E., Gascoigne, D. K., Arias-Carrasco, R., ... & Maracaja-Coutinho, V. (2018). Genomic positional conservation identifies topological anchor point RNAs linked to developmental loci. Genome biology, 19(1), 32.
dc.identifier1474-760X
dc.identifierhttps://doi.org/10.1186/s13059-018-1405-5
dc.identifierhttp://repositorio.umayor.cl/xmlui/handle/sibum/6090
dc.identifierDOI: 10.1186/s13059-018-1405-5
dc.identifier.urihttps://repositorioslatinoamericanos.uchile.cl/handle/2250/4453933
dc.description.abstractBackground: The mammalian genome is transcribed into large numbers of long noncoding RNAs (lncRNAs), but the definition of functional lncRNA groups has proven difficult, partly due to their low sequence conservation and lack of identified shared properties. Here we consider promoter conservation and positional conservation as indicators of functional commonality. Results: We identify 665 conserved lncRNA promoters in mouse and human that are preserved in genomic position relative to orthologous coding genes. These positionally conserved lncRNA genes are primarily associated with developmental transcription factor loci with which they are coexpressed in a tissue-specific manner. Over half of positionally conserved RNAs in this set are linked to chromatin organization structures, overlapping binding sites for the CTCF chromatin organiser and located at chromatin loop anchor points and borders of topologically associating domains (TADs). We define these RNAs as topological anchor point RNAs (tapRNAs). Characterization of these noncoding RNAs and their associated coding genes shows that they are functionally connected: they regulate each other's expression and influence the metastatic phenotype of cancer cells in vitro in a similar fashion. Furthermore, we find that tapRNAs contain conserved sequence domains that are enriched in motifs for zinc finger domain-containing RNA-binding proteins and transcription factors, whose binding sites are found mutated in cancers. Conclusions: This work leverages positional conservation to identify lncRNAs with potential importance in genome organization, development and disease. The evidence that many developmental transcription factors are physically and functionally connected to lncRNAs represents an exciting stepping-stone to further our understanding of genome regulation.
dc.languageen
dc.publisherBMC
dc.rightsAttribution-NonCommercial-NoDerivs 3.0 Chile
dc.sourceGenome Biol., MAR 2018. 19
dc.subjectBiotechnology & Applied Microbiology; Genetics & Heredity
dc.titleGenomic positional conservation identifies topological anchor point RNAs linked to developmental loci
dc.typeArtículos de revistas


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