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         headline:A lncRNA-SWI/SNF complex crosstalk controls transcriptional activation at specific promoter regions
         description:LncRNAs have been shown to be direct players in chromatin regulation, but little is known about their role at active genomic loci. We investigate the role of lncRNAs in gene activation by profiling the RNA interactome of SMARCB1-containing SWI/SNF complexes in proliferating and senescent conditions. The isolation of SMARCB1-associated transcripts, together with chromatin profiling, shows prevalent association to active regions where SMARCB1 differentially binds locally transcribed RNAs. We identify SWINGN, a lncRNA interacting with SMARCB1 exclusively in proliferating conditions, exerting a pro-oncogenic role in some tumor types. SWINGN is transcribed from an enhancer and modulates the activation of GAS6 oncogene as part of a topologically organized region, as well as a larger network of pro-oncogenic genes by favoring SMARCB1 binding. Our results indicate that SWINGN influences the ability of the SWI/SNF complexes to drive epigenetic activation of specific promoters, suggesting a SWI/SNF-RNA cooperation to achieve optimal transcriptional activation. SWI/SNF complexes regulate chromatin architecture and gene expression. Here the authors report the RNA interactome of SMARCB1-containing SWI/SNF complexes, showing the function of SMARCB1-interacting long noncoding RNA SWINGN in transcriptional activation of GAS6 and a set of SWI/SNF target genes.
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      headline:A lncRNA-SWI/SNF complex crosstalk controls transcriptional activation at specific promoter regions
      description:LncRNAs have been shown to be direct players in chromatin regulation, but little is known about their role at active genomic loci. We investigate the role of lncRNAs in gene activation by profiling the RNA interactome of SMARCB1-containing SWI/SNF complexes in proliferating and senescent conditions. The isolation of SMARCB1-associated transcripts, together with chromatin profiling, shows prevalent association to active regions where SMARCB1 differentially binds locally transcribed RNAs. We identify SWINGN, a lncRNA interacting with SMARCB1 exclusively in proliferating conditions, exerting a pro-oncogenic role in some tumor types. SWINGN is transcribed from an enhancer and modulates the activation of GAS6 oncogene as part of a topologically organized region, as well as a larger network of pro-oncogenic genes by favoring SMARCB1 binding. Our results indicate that SWINGN influences the ability of the SWI/SNF complexes to drive epigenetic activation of specific promoters, suggesting a SWI/SNF-RNA cooperation to achieve optimal transcriptional activation. SWI/SNF complexes regulate chromatin architecture and gene expression. Here the authors report the RNA interactome of SMARCB1-containing SWI/SNF complexes, showing the function of SMARCB1-interacting long noncoding RNA SWINGN in transcriptional activation of GAS6 and a set of SWI/SNF target genes.
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            name:University of Navarra
            address:
               name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
               type:PostalAddress
            type:Organization
            name:Institute of Health Research of Navarra (IdiSNA)
            address:
               name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
               type:PostalAddress
            type:Organization
      name:Francesco P. Marchese
      affiliation:
            name:University of Navarra
            address:
               name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
               type:PostalAddress
            type:Organization
            name:Institute of Health Research of Navarra (IdiSNA)
            address:
               name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
               type:PostalAddress
            type:Organization
      name:Vicente Chapaprieta
      url:http://orcid.org/0000-0002-4910-5394
      affiliation:
            name:Universitat de Barcelona
            address:
               name:Departament de Fonaments Clinics, Facultat de Medicina, Universitat de Barcelona, Barcelona, Spain
               type:PostalAddress
            type:Organization
      name:José I. Martín-Subero
      affiliation:
            name:Universitat de Barcelona
            address:
               name:Departament de Fonaments Clinics, Facultat de Medicina, Universitat de Barcelona, Barcelona, Spain
               type:PostalAddress
            type:Organization
            name:Institut d’Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS)
            address:
               name:Institut d’Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain
               type:PostalAddress
            type:Organization
            name:Institució Catalana de Recerca i Estudis Avançats (ICREA)
            address:
               name:Institució Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Spain
               type:PostalAddress
            type:Organization
            name:Centro de Investigación Biomédica en Red de Cáncer (CIBERONC)
            address:
               name:Centro de Investigación Biomédica en Red de Cáncer (CIBERONC), Madrid, Spain
               type:PostalAddress
            type:Organization
      name:Shuling Guo
      affiliation:
            name:Ionis Pharmaceuticals
            address:
               name:Department of Antisense Drug Discovery and Clinical Development, Ionis Pharmaceuticals, Carlsbad, USA
               type:PostalAddress
            type:Organization
      name:Maite Huarte
      url:http://orcid.org/0000-0003-3753-6493
      affiliation:
            name:University of Navarra
            address:
               name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
               type:PostalAddress
            type:Organization
            name:Institute of Health Research of Navarra (IdiSNA)
            address:
               name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
               type:PostalAddress
            type:Organization
      email:[email protected]
PostalAddress:
      name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
      name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
      name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
      name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
      name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
      name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
      name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
      name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
      name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
      name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain
      name:Departament de Fonaments Clinics, Facultat de Medicina, Universitat de Barcelona, Barcelona, Spain
      name:Departament de Fonaments Clinics, Facultat de Medicina, Universitat de Barcelona, Barcelona, Spain
      name:Institut d’Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain
      name:Institució Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Spain
      name:Centro de Investigación Biomédica en Red de Cáncer (CIBERONC), Madrid, Spain
      name:Department of Antisense Drug Discovery and Clinical Development, Ionis Pharmaceuticals, Carlsbad, USA
      name:Department of Gene Therapy and Regulation of Gene Expression, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
      name:Institute of Health Research of Navarra (IdiSNA), Pamplona, Spain

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