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HiChIRP reveals RNA-associated chromosome conformation.
Mumbach, Maxwell R; Granja, Jeffrey M; Flynn, Ryan A; Roake, Caitlin M; Satpathy, Ansuman T; Rubin, Adam J; Qi, Yanyan; Jiang, Zhaozhao; Shams, Shadi; Louie, Bryan H; Guo, Jimmy K; Gennert, David G; Corces, M Ryan; Khavari, Paul A; Atianand, Maninjay K; Artandi, Steven E; Fitzgerald, Katherine A; Greenleaf, William J; Chang, Howard Y.
Afiliación
  • Mumbach MR; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Granja JM; Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
  • Flynn RA; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Roake CM; Program in Biophysics, Stanford University School of Medicine, Stanford, CA, USA.
  • Satpathy AT; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Rubin AJ; Department of Medicine, Stanford University School of Medicine, Stanford, CA, USA.
  • Qi Y; Cancer Biology Program, Stanford University School of Medicine, Stanford, CA, USA.
  • Jiang Z; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Shams S; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
  • Louie BH; Program in Epithelial Biology, Stanford University School of Medicine, Stanford, CA, USA.
  • Guo JK; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Gennert DG; Program in Innate Immunity, University of Massachusetts Medical School, Worcester, MA, USA.
  • Corces MR; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Khavari PA; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Atianand MK; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Artandi SE; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Fitzgerald KA; Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
  • Greenleaf WJ; Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, USA.
  • Chang HY; Program in Epithelial Biology, Stanford University School of Medicine, Stanford, CA, USA.
Nat Methods ; 16(6): 489-492, 2019 06.
Article en En | MEDLINE | ID: mdl-31133759
Modular domains of long non-coding RNAs can serve as scaffolds to bring distant regions of the linear genome into spatial proximity. Here, we present HiChIRP, a method leveraging bio-orthogonal chemistry and optimized chromosome conformation capture conditions, which enables interrogation of chromatin architecture focused around a specific RNA of interest down to approximately ten copies per cell. HiChIRP of three nuclear RNAs reveals insights into promoter interactions (7SK), telomere biology (telomerase RNA component) and inflammatory gene regulation (lincRNA-EPS).
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: ARN / Cromatina / Regulación de la Expresión Génica / Telomerasa / Células Madre Embrionarias / ARN Largo no Codificante Tipo de estudio: Risk_factors_studies Límite: Animals Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2019 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: ARN / Cromatina / Regulación de la Expresión Génica / Telomerasa / Células Madre Embrionarias / ARN Largo no Codificante Tipo de estudio: Risk_factors_studies Límite: Animals Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2019 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos