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Related Concept Videos

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
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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...
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...
Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Nucleic acids02:43

Nucleic acids

Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes, the...

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Analyzing and Building Nucleic Acid Structures with 3DNA
16:24

Analyzing and Building Nucleic Acid Structures with 3DNA

Published on: April 26, 2013

Sharing and archiving nucleic acid structure mapping data.

Philippe Rocca-Serra1, Stanislav Bellaousov, Amanda Birmingham

  • 1Oxford e-Research Center, University of Oxford, OX1 3QG, Oxford, United Kingdom.

RNA (New York, N.Y.)
|May 26, 2011
PubMed
Summary
This summary is machine-generated.

Researchers developed a standard for sharing nucleic acid structure mapping data. This new format enables public access to chemical probing results in a standardized, searchable database.

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Last Updated: Jun 1, 2026

Analyzing and Building Nucleic Acid Structures with 3DNA
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Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
22:27

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

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Bioinformatics

Background:

  • Nucleic acid structure and dynamics are crucial for biological function.
  • Chemical and enzymatic probing are powerful methods for characterizing nucleic acid structures.
  • A standardized method for sharing nucleic acid structure mapping data is currently lacking.

Purpose of the Study:

  • To develop a standardized format for reporting nucleic acid structure mapping experiments.
  • To facilitate public accessibility and data sharing of nucleic acid probing results.

Main Methods:

  • Development of a data schema for nucleic acid chemical probing data.
  • Implementation of generic public servers for data storage, retrieval, and searching.
  • Creation of a consistent nomenclature (ontology) within the Ontology of Biomedical Investigations (OBI).

Main Results:

  • A standardized schema for single nucleotide resolution nucleic acid structure mapping experiments (SNRNASMs) has been established.
  • A system for public data sharing using persistent URLs (PURLs) has been created.
  • A tutorial and templates are available for implementing the proposed data format.

Conclusions:

  • The developed standard provides a simple approach for making nucleic acid structure mapping data publicly available.
  • The proposed schema and ontology promote data consistency and interoperability.
  • This initiative will enhance the collaborative research potential in nucleic acid structural biology.