RIP-Chip

RIP-Chip is immunoprecipitation of an RNA-binding protein coupled to reverse transcription and a microarray. It has been used to find interactions between RNA and protein (one protein but many RNA species per analysis).

An alternative methodology (RIP-Seq) is to sequence the RNAs that were pulled down using high-throughput sequencing rather than analyze them with a microarray.

A similar technique is ChIP-on-chip, which detects the binding of proteins to genomic DNA rather than RNA. A competing technique is CLIP-Seq, where the RNA binding protein is cross-linked to the RNA via the use of UV light, followed by nuclease digestion and analyzed with high-throughput sequencing.