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Updated: Mar 5, 2026

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution
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Measuring RNA structure transcriptome-wide with icSHAPE.

Dalen Chan1, Chao Feng1, Robert C Spitale2

  • 1Department of Pharmaceutical Sciences, University of California, Irvine, Irvine, CA 92697, United States.

Methods (San Diego, Calif.)
|March 25, 2017
PubMed
Summary
This summary is machine-generated.

Researchers developed icSHAPE, a novel technology to measure RNA flexibility and single-strandedness. This method enhances understanding of RNA structure and function within cells.

Keywords:
Chemical probingRNA sequencingRNA structureicSHAPE

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Area of Science:

  • Molecular Biology
  • Genetics
  • Biochemistry

Background:

  • RNA molecules are central to gene regulation, including gene expression and protein translation.
  • The function of RNA is dictated by its complex folded structures.
  • Existing chemical methods for RNA structure analysis are accurate but challenging for large RNAs.

Purpose of the Study:

  • To describe the biochemical basis of icSHAPE, a novel technology for RNA structure analysis.
  • To introduce a method for measuring RNA flexibility and single-strandedness.
  • To enable transcriptome-wide analyses of RNA structures in their native cellular environment.

Main Methods:

  • Utilizes chemical probing to assess RNA flexibility and single-strandedness.
  • Extends traditional methods for transcriptome-wide applications.
  • Focuses on the biochemical principles underlying the icSHAPE technology.

Main Results:

  • Provides a novel technology, icSHAPE, for RNA structure interrogation.
  • Enables accurate measurement of RNA flexibility and single-strandedness.
  • Facilitates analysis of RNA structures within the cellular environment.

Conclusions:

  • icSHAPE significantly expands the understanding of RNA function.
  • This technology allows for large-scale analyses of RNA structures in vivo.
  • Novel methods like icSHAPE are crucial for advancing RNA biology research.