| dc.contributor.author | Arias-Carrasco, Raúl [Univ Mayor, Fac Ciencias, Ctr Genom & Bioinformat, Santiago, Chile] | es_CL |
| dc.contributor.author | Maracaja-Coutinho, Vinicius [Univ Mayor, Fac Ciencias, Ctr Genom & Bioinformat, Santiago, Chile] | es_CL |
| dc.contributor.author | Amaral, 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 | es_CL |
| dc.date.accessioned | 2020-04-08T14:11:55Z | |
| dc.date.accessioned | 2020-04-13T18:12:33Z | |
| dc.date.available | 2020-04-08T14:11:55Z | |
| dc.date.available | 2020-04-13T18:12:33Z | |
| dc.date.issued | 2018 | es_CL |
| dc.identifier.citation | Amaral, 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. | es_CL |
| dc.identifier.issn | 1474-760X | es_CL |
| dc.identifier.uri | https://doi.org/10.1186/s13059-018-1405-5 | es_CL |
| dc.identifier.uri | http://repositorio.umayor.cl/xmlui/handle/sibum/6090 | |
| dc.description.abstract | Background: 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. | es_CL |
| dc.description.sponsorship | Cancer Research UKCancer Research UK [C6/A18796, C6946/A14492]; European Research Council CRIPTON Grant [268569]; University of CambridgeUniversity of Cambridge; FAPESPFundacao de Amparo a Pesquisa do Estado de Sao Paulo (FAPESP) [2014/50308-4]; Wellcome TrustWellcome Trust [092096]; PAI-CONICYT grant [PAI79170021]; FONDECYT-CONICYT grantComision Nacional de Investigacion Cientifica y Tecnologica (CONICYT)CONICYT FONDECYT [11161020] | es_CL |
| dc.description.sponsorship | This work was funded by programme grants from Cancer Research UK (C6/A18796) and European Research Council CRIPTON Grant (268569), and supported by a University of Cambridge and FAPESP grant (2014/50308-4) and Institutional funding by a Wellcome Trust Core Grant (092096) and Cancer Research UK Grant (C6946/A14492). VMC was supported by a PAI-CONICYT grant (PAI79170021) and a FONDECYT-CONICYT grant (11161020). | es_CL |
| dc.language.iso | en | es_CL |
| dc.publisher | BMC | es_CL |
| dc.rights | Attribution-NonCommercial-NoDerivs 3.0 Chile | |
| dc.source | Genome Biol., MAR 2018. 19 | |
| dc.subject | Biotechnology & Applied Microbiology; Genetics & Heredity | es_CL |
| dc.title | Genomic positional conservation identifies topological anchor point RNAs linked to developmental loci | es_CL |
| dc.type | Artículo | es_CL |
| umayor.facultad | CIENCIAS | es_CL |
| umayor.politicas.sherpa/romeo | DOAJ Gold, Green Published | es_CL |
| umayor.indexado | WOS:000427906500001 | es_CL |
| umayor.indexado | PMID: 29540241 | es_CL |
| dc.identifier.doi | DOI: 10.1186/s13059-018-1405-5 | es_CL] |
| umayor.indicadores.wos-(cuartil) | Q1 | es_CL |
| umayor.indicadores.scopus-(scimago-sjr) | SCIMAGO/ INDICE H: 207 H | es_CL |