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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 Structure01:19

RNA Structure

The basic structure of RNA consists of a string of ribonucleotides attached by phosphodiester bonds. 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) involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three...
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...
RNA Stability01:53

RNA Stability

Intact DNA strands can be found in fossils, while scientists sometimes struggle to keep RNA intact under laboratory conditions. The structural variations between RNA and DNA underlie the differences in their stability and longevity. Because DNA is double-stranded, it is inherently more stable. The single-stranded structure of RNA is less stable but also more flexible and can form weak internal bonds. Additionally, most RNAs in the cell are relatively short, while DNA can be up to 250 million...

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Related Experiment Video

Updated: May 20, 2026

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
11:32

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen

Published on: May 24, 2017

RILogo: visualizing RNA-RNA interactions.

Peter Menzel1, Stefan E Seemann, Jan Gorodkin

  • 1The Bioinformatics Centre, Department of Biology, University of Copenhagen, Ole Maaløes Vej 5, Copenhagen DK-2200, Denmark. pmenzel@gmail.com

Bioinformatics (Oxford, England)
|July 25, 2012
PubMed
Summary
This summary is machine-generated.

RILogo visualizes RNA base pairing, improving functional characterization of non-coding RNAs. Novel measures enhance accuracy in predicting RNA interactions from sequence alignments.

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RNA-Associated Chromatin DNA-DNA Interaction Method
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Last Updated: May 20, 2026

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
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Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen

Published on: May 24, 2017

RNA-Associated Chromatin DNA-DNA Interaction Method
11:01

RNA-Associated Chromatin DNA-DNA Interaction Method

Published on: April 30, 2026

Area of Science:

  • Computational biology
  • Bioinformatics
  • Molecular biology

Background:

  • Non-coding RNA discovery is accelerating, necessitating methods to understand RNA interactions.
  • Predicting RNA duplex formation is crucial for characterizing RNA functionality.
  • Existing computational tools often rely on single sequences or homologous alignments.

Purpose of the Study:

  • To present RILogo, a program for visualizing RNA-RNA base pairing.
  • To introduce novel mutual information measures for enhanced accuracy in predicting RNA interactions.

Main Methods:

  • RILogo accepts structure-annotated RNA sequences or alignments as input.
  • For alignments, RILogo generates sequence logos displaying mutual information of paired columns.
  • Development of two new mutual information measures incorporating evolutionary distances.

Main Results:

  • RILogo provides visualization of inter- and intramolecular base pairing.
  • The novel measures demonstrate increased accuracy compared to previous methods.
  • RILogo facilitates the analysis of RNA-RNA interactions.

Conclusions:

  • RILogo is a valuable tool for studying RNA-RNA interactions and functionality.
  • The new mutual information measures offer improved accuracy for analyzing RNA sequence alignments.
  • Accurate prediction of RNA base pairing is essential for understanding non-coding RNA roles.