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. 2015:1262:183-97.
doi: 10.1007/978-1-4939-2253-6_11.

RNA antisense purification (RAP) for mapping RNA interactions with chromatin

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RNA antisense purification (RAP) for mapping RNA interactions with chromatin

Jesse Engreitz et al. Methods Mol Biol. 2015.

Abstract

RNA-centric biochemical purification is a general approach for studying the functions and mechanisms of noncoding RNAs. Here, we describe the experimental procedures for RNA antisense purification (RAP), a method for selective purification of endogenous RNA complexes from cell extracts that enables mapping of RNA interactions with chromatin. In RAP, the user cross-links cells to fix endogenous RNA complexes and purifies these complexes through hybrid capture with biotinylated antisense oligos. DNA loci that interact with the target RNA are identified using high-throughput DNA sequencing.

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