Widespread RNA Binding by Chromatin-associated Proteins

Overview

Journal Genome Biol

Specialties Biology
Genetics

Date 2016 Feb 18

PMID 26883116

Citations 133

Authors

David G Hendrickson

David R Kelley

Danielle Tenen

Bradley Bernstein

John L Rinn

Affiliations

Soon will be listed here.

Abstract

Background: Recent evidence suggests that RNA interaction can regulate the activity and localization of chromatin-associated proteins. However, it is unknown if these observations are specialized instances for a few key RNAs and chromatin factors in specific contexts, or a general mechanism underlying the establishment of chromatin state and regulation of gene expression.

Results: Here, we perform formaldehyde RNA immunoprecipitation (fRIP-Seq) to survey the RNA associated with a panel of 24 chromatin regulators and traditional RNA binding proteins. For each protein that reproducibly bound measurable quantities of bulk RNA (90% of the panel), we detect enrichment for hundreds to thousands of both noncoding and mRNA transcripts.

Conclusion: For each protein, we find that the enriched sets of RNAs share distinct biochemical, functional, and chromatin properties. Thus, these data provide evidence for widespread specific and relevant RNA association across diverse classes of chromatin-modifying complexes.

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