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Related Concept Videos

RNA Structure01:23

RNA Structure

Overview
The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA): messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three RNA types consist of a...
RNA Interference01:23

RNA Interference

RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
RNA Interference01:23

RNA Interference

RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
siRNA - Small Interfering RNAs02:30

siRNA - Small Interfering RNAs

Small interfering RNAs, or siRNAs, are short regulatory RNA molecules that can silence genes post-transcriptionally, as well as the transcriptional level in some cases. siRNAs are important for protecting cells against viral infections and silencing transposable genetic elements.
In the cytoplasm, siRNA is processed from a double-stranded RNA, which comes from either endogenous DNA transcription or exogenous sources like a virus. This double-stranded RNA is then cleaved by the ATP-dependent...
Experimental RNAi02:15

Experimental RNAi

RNA interference (RNAi) is a cellular mechanism that inhibits gene expression by suppressing its transcription or activating the RNA degradation process. The mechanism was discovered by Andrew Fire and Craig Mello in 1998 in plants. Today, it is observed in almost all eukaryotes, including protozoa, flies, nematodes, insects, parasites, and mammals. This precise cellular mechanism of gene silencing has been developed into a technique that provides an efficient way to identify and determine the...
Small interfering RNAs (siRNA)02:30

Small interfering RNAs (siRNA)

Small interfering RNAs, or siRNAs, are short regulatory RNA molecules that can silence genes post-transcriptionally, as well as the transcriptional level in some cases. siRNAs are important for protecting cells against viral infections and silencing transposable genetic elements.
In the cytoplasm, siRNA is processed from a double-stranded RNA, which comes from either endogenous DNA transcription or exogenous sources like a virus. This double-stranded RNA is then cleaved by the ATP-dependent...

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Related Experiment Video

Updated: Jul 28, 2026

Detection of RNA-binding Proteins by In Vitro RNA Pull-down in Adipocyte Culture
10:34

Detection of RNA-binding Proteins by In Vitro RNA Pull-down in Adipocyte Culture

Published on: July 22, 2016

Protocol to study in vivo circRNA interactions in the mouse cortex using an RNA pull-down approach.

Valentina Silenzi1, Nicolò Salvi1, Irene Bozzoni2

  • 1Department of Biology and Biotechnologies "Charles Darwin," Sapienza University of Rome, 00185 Rome, Italy.

STAR Protocols
|September 19, 2025
PubMed
Summary

This study details a new protocol to identify circular RNA (circRNA) interactors in mouse brain tissue. The method uses UV crosslinking and RNA pull-down to find proteins associated with specific circRNAs.

Keywords:
Cell BiologyGene ExpressionMolecular BiologyNeuroscienceProtein Biochemistry

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RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA
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RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA

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Enhanced Crosslinking Immunoprecipitation (eCLIP) Method for Efficient Identification of Protein-bound RNA in Mouse Testis
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Enhanced Crosslinking Immunoprecipitation (eCLIP) Method for Efficient Identification of Protein-bound RNA in Mouse Testis

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Related Experiment Videos

Last Updated: Jul 28, 2026

Detection of RNA-binding Proteins by In Vitro RNA Pull-down in Adipocyte Culture
10:34

Detection of RNA-binding Proteins by In Vitro RNA Pull-down in Adipocyte Culture

Published on: July 22, 2016

RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA
09:36

RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA

Published on: April 10, 2018

Enhanced Crosslinking Immunoprecipitation (eCLIP) Method for Efficient Identification of Protein-bound RNA in Mouse Testis
10:31

Enhanced Crosslinking Immunoprecipitation (eCLIP) Method for Efficient Identification of Protein-bound RNA in Mouse Testis

Published on: May 10, 2019

Area of Science:

  • Molecular Biology
  • Neuroscience
  • Genomics

Background:

  • Circular RNAs (circRNAs) are a class of non-coding RNAs with emerging roles in gene regulation.
  • Identifying circRNA-binding proteins is crucial for understanding their functions.
  • Existing methods may have limitations in preserving native interactions.

Purpose of the Study:

  • To present a robust protocol for identifying protein interactors of circRNAs in the mouse cortex.
  • To optimize techniques for preserving native circRNA-protein complexes.
  • To provide a adaptable method for nervous system research.

Main Methods:

  • Tissue dissociation and UV crosslinking of mouse cortical tissue to stabilize RNA-protein interactions.
  • RNA pull-down assays using a specific circular RNA (circDlc1(2)) as bait.
  • Optimization of steps for efficient isolation of circRNA-associated molecules.

Main Results:

  • The protocol successfully identifies potential protein interactors associated with circDlc1(2).
  • UV crosslinking effectively maintains native interactions between circRNAs and proteins.
  • The method is shown to be effective in mouse brain tissue.

Conclusions:

  • This protocol provides a reliable method for discovering circRNA-protein interactions in the central nervous system.
  • The technique can be adapted for studying other circRNAs and brain regions.
  • Further research can utilize this protocol to elucidate circRNA functions in neurological processes.