Structure and function of long noncoding RNAs in epigenetic regulation - PubMed (original) (raw)

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Structure and function of long noncoding RNAs in epigenetic regulation

Tim R Mercer et al. Nat Struct Mol Biol. 2013 Mar.

Abstract

Genomes of complex organisms encode an abundance and diversity of long noncoding RNAs (lncRNAs) that are expressed throughout the cell and fulfill a wide variety of regulatory roles at almost every stage of gene expression. These roles, which encompass sensory, guiding, scaffolding and allosteric capacities, derive from folded modular domains in lncRNAs. In this diverse functional repertoire, we focus on the well-characterized ability for lncRNAs to function as epigenetic modulators. Many lncRNAs bind to chromatin-modifying proteins and recruit their catalytic activity to specific sites in the genome, thereby modulating chromatin states and impacting gene expression. Considering this regulatory potential in combination with the abundance of lncRNAs suggests that lncRNAs may be part of a broad epigenetic regulatory network.

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• The dynamic epigenome.
  [No authors listed] [No authors listed] Nat Struct Mol Biol. 2013 Mar;20(3):258. doi: 10.1038/nsmb.2534. Nat Struct Mol Biol. 2013. PMID: 23463309 No abstract available.

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References

1. 1. Development. 2008 Jan;135(2):227-35 - PubMed
2. 1. Nat Rev Mol Cell Biol. 2007 Jun;8(6):479-90 - PubMed
3. 1. Nucleic Acids Res. 2012 Jun;40(11):5034-51 - PubMed
4. 1. Mol Cell. 2010 Jun 11;38(5):662-74 - PubMed
5. 1. Science. 2008 Dec 12;322(5908):1717-20 - PubMed

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