Nature Communications (Feb 2020)
RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions
- Alessandro Bonetti,
- Federico Agostini,
- Ana Maria Suzuki,
- Kosuke Hashimoto,
- Giovanni Pascarella,
- Juliette Gimenez,
- Leonie Roos,
- Alex J. Nash,
- Marco Ghilotti,
- Christopher J. F. Cameron,
- Matthew Valentine,
- Yulia A. Medvedeva,
- Shuhei Noguchi,
- Eneritz Agirre,
- Kaori Kashi,
- Samudyata,
- Joachim Luginbühl,
- Riccardo Cazzoli,
- Saumya Agrawal,
- Nicholas M. Luscombe,
- Mathieu Blanchette,
- Takeya Kasukawa,
- Michiel de Hoon,
- Erik Arner,
- Boris Lenhard,
- Charles Plessy,
- Gonçalo Castelo-Branco,
- Valerio Orlando,
- Piero Carninci
Affiliations
- Alessandro Bonetti
- RIKEN Center for Integrative Medical Sciences
- Federico Agostini
- The Francis Crick Institute
- Ana Maria Suzuki
- RIKEN Center for Integrative Medical Sciences
- Kosuke Hashimoto
- RIKEN Center for Integrative Medical Sciences
- Giovanni Pascarella
- RIKEN Center for Integrative Medical Sciences
- Juliette Gimenez
- Epigenetics and Genome Reprogramming Laboratory, IRCCS Fondazione Santa Lucia
- Leonie Roos
- Faculty of Medicine, Imperial College London, Institute of Clinical Sciences
- Alex J. Nash
- Faculty of Medicine, Imperial College London, Institute of Clinical Sciences
- Marco Ghilotti
- RIKEN Center for Integrative Medical Sciences
- Christopher J. F. Cameron
- School of Computer Science, McGill University
- Matthew Valentine
- RIKEN Center for Integrative Medical Sciences
- Yulia A. Medvedeva
- Institute of Bioengineering, Research Centre of Biotechnology, Russian Academy of Science
- Shuhei Noguchi
- RIKEN Center for Integrative Medical Sciences
- Eneritz Agirre
- Laboratory of Molecular Neurobiology, Department Medical Biochemistry and Biophysics, Karolinska Institutet
- Kaori Kashi
- RIKEN Center for Integrative Medical Sciences
- Samudyata
- Laboratory of Molecular Neurobiology, Department Medical Biochemistry and Biophysics, Karolinska Institutet
- Joachim Luginbühl
- RIKEN Center for Integrative Medical Sciences
- Riccardo Cazzoli
- Department of Experimental Oncology, European Institute of Oncology
- Saumya Agrawal
- RIKEN Center for Integrative Medical Sciences
- Nicholas M. Luscombe
- The Francis Crick Institute
- Mathieu Blanchette
- School of Computer Science, McGill University
- Takeya Kasukawa
- RIKEN Center for Integrative Medical Sciences
- Michiel de Hoon
- RIKEN Center for Integrative Medical Sciences
- Erik Arner
- RIKEN Center for Integrative Medical Sciences
- Boris Lenhard
- Faculty of Medicine, Imperial College London, Institute of Clinical Sciences
- Charles Plessy
- RIKEN Center for Integrative Medical Sciences
- Gonçalo Castelo-Branco
- Laboratory of Molecular Neurobiology, Department Medical Biochemistry and Biophysics, Karolinska Institutet
- Valerio Orlando
- Epigenetics and Genome Reprogramming Laboratory, IRCCS Fondazione Santa Lucia
- Piero Carninci
- RIKEN Center for Integrative Medical Sciences
- DOI
- https://doi.org/10.1038/s41467-020-14337-6
- Journal volume & issue
-
Vol. 11,
no. 1
pp. 1 – 14
Abstract
Mammalian genomes encode tens of thousands of ncRNAs that have important roles in regulation of gene expression and chromatin organization. Here, the authors present RADICLseq to map RNA-chromatin interactions in intact nuclei to shed light on these fine-tuned processes.
