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Department of Quantitative Biomedicine

The Polymenidou group publishes a protocol for the identification of RNA–RBP interactions in subcellular compartments by CLIP-Seq

Cross-linking immunoprecipitation and high-throughput sequencing (CLIP-seq) allows the identification of RNA bound by RNA-binding proteins (RBPs) in vivo and ex vivo with high specificity. In this protocol paper, the Polymenidou lab describe the adaptation of CLIP-seq to identify the specific RNA targets of an RBP (FUS) at neuronal synapses, including subcompartment isolation, RBP–RNA complex enrichment, and upscaling steps.

See Sahadevan, Pérez-Berlanga & Polymenidou, Methods Mol. Biol.


Schematic of the CLIP-seq protocol allowing stringent purification of RNAs bound to FUS protein. © 2022 The Authors