CLIP-seq

How it works

CLIP-seq combines crosslinking and immunoprecipitation with sequencing to locate RNA regions that interact with a protein of interest. It supports studies of binding patterns and sequence preferences, as well as their relationship with splicing, RNA stability and other post-transcriptional processes.

Applications

• Identify RNA regions associated with RBP binding
• Characterize binding motifs and sequence preferences
• Investigate links between splicing-factor binding and RNA regulation

Key features

• Crosslinking captures RNA-protein interactions in cells
• Provides a focused view of protein-binding regions on RNA
• Crosslinking, antibody selection and library strategy tailored to the target protein

Workflow

1. 01

   Select the target RBP, antibody and crosslinking strategy

2. 02

   Crosslink and immunoprecipitate RNA-protein complexes

3. 03

   Recover bound RNA fragments, prepare libraries and sequence

4. 04

   Identify binding regions and annotate motifs and transcripts

We tailor the experimental workflow and analysis to your samples and study objectives.