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Related Experiment Video

Updated: Dec 23, 2025

In Situ Detection of Ribonucleoprotein Complex Assembly in the C. elegans Germline using Proximity Ligation Assay

In Situ Detection of Ribonucleoprotein Complex Assembly in the C. elegans Germline using Proximity Ligation Assay

Published on: May 5, 2020

RNA Conformation Capture by Proximity Ligation.

Grzegorz Kudla¹, Yue Wan^2,3,4, Aleksandra Helwak⁵

¹MRC Human Genetics Unit, University of Edinburgh, Edinburgh EH4 2XU, United Kingdom;

Annual Review of Genomics and Human Genetics

|April 23, 2020

Summary

RNA proximity ligation techniques map RNA structures and interactions within cells. This review covers experimental and computational advances, offering guidance for researchers studying RNA spatial organization.

Keywords:

CLASH Hi-C PARIS RNA structure RNA viruses RNA–RNA interactome SPLASH bioinformatics miRNA

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Last Updated: Dec 23, 2025

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Published on: December 22, 2015

Area of Science:

Molecular Biology
Genomics
Biochemistry

Background:

RNA proximity ligation analyzes RNA spatial proximity and conformations within cells.
Techniques involve cross-linking, fragmentation, ligation, library prep, and sequencing.
Applications include studying individual RNA structures, small RNA interactions, and RNA interactomes.

Purpose of the Study:

Provide an overview of RNA proximity ligation techniques.
Highlight key findings and recent developments.
Offer troubleshooting advice and future research directions.

Main Methods:

Cross-linking (UV or psoralen) of biological samples.
Partial RNA fragmentation and RNA-RNA ligation.
Library preparation and high-throughput sequencing.

Main Results:

Demonstrated utility in diverse models from bacteria to whole animals.
Enabled study of RNA structures, small RNA networks, and interactomes.
Recent advances in experimental and computational methodologies.

Conclusions:

RNA proximity ligation is a powerful tool for understanding RNA biology.
The field has seen significant growth and methodological innovation.
Future directions may involve parallels with DNA proximity ligation and new applications.