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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-seq03:21

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Nucleic Acid Structure01:25

Nucleic Acid Structure

The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms  a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA has a double-helix structure. The...
Ribosome Profiling02:24

Ribosome Profiling

Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...

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Related Experiment Video

Updated: Jun 23, 2026

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
10:34

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

Suffix techniques as a rapid method for RNA substructure search.

Raphael A Bauer1, Kristian Rother, Janusz M Bujnicki

  • 1Institute of Molecular Biology and Bioinformatics, Structural Bioinformatics Group, Charité Universitätsmedizin (Medical University), Arnimallee 22, 14195 Berlin, Germany. raphael.bauer@charite.de

Genome Informatics. International Conference on Genome Informatics
|May 9, 2009
PubMed
Summary
This summary is machine-generated.

This study compares two RNA backbone conformation notations, finding that both effectively identify similar RNA structures and homologous elements. This aids in understanding the RNA apparatus within Systems Biology.

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RNA Secondary Structure Prediction Using High-throughput SHAPE
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2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications

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Related Experiment Videos

Last Updated: Jun 23, 2026

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
10:34

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

RNA Secondary Structure Prediction Using High-throughput SHAPE
13:42

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications
05:41

2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications

Published on: July 10, 2020

Area of Science:

  • Structural bioinformatics
  • Computational biology
  • RNA structure analysis

Background:

  • The RNA Ontology Consortium introduced a two-letter notation for RNA backbone conformation.
  • Assessing RNA structure similarity is crucial for understanding RNA function and evolution.

Purpose of the Study:

  • To compare a novel two-letter RNA backbone notation (suite notation) with a custom string representation using pseudotorsion angles.
  • To evaluate the efficacy of these representations in detecting structural similarities and self-similarities within RNA datasets.

Main Methods:

  • Utilized suffix techniques for inexact substructure similarity detection.
  • Applied both suite and pseudotorsion representations to four diverse RNA structure datasets.
  • Assessed similarity and self-similarity metrics for each representation.

Main Results:

  • Both suite and pseudotorsion representations successfully identified structural similarities across diverse RNA datasets.
  • The methods recovered numerous homologous structural elements, validating their utility.
  • The study demonstrates the potential for these representations in RNA structural biology.

Conclusions:

  • The suite notation and pseudotorsion angle representation are effective tools for RNA structure comparison.
  • These methods facilitate the discovery of homologous RNA structures, advancing Systems Biology.
  • Freely available software and datasets support further research in RNA structural analysis.