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Related Concept Videos

Ribosome Profiling02:24

Ribosome Profiling

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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.
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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. 
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DNA Microarrays02:34

DNA Microarrays

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Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
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Nucleic Acid Structure01:25

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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.
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Proteomics01:33

Proteomics

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A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
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Related Experiment Video

Updated: Mar 29, 2026

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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Probing dimensionality beyond the linear sequence of mRNA.

Cristian Del Campo1, Zoya Ignatova2

  • 1Biochemistry and Molecular Biology, Department of Chemistry, University of Hamburg, Hamburg, Germany.

Current Genetics
|December 10, 2015
PubMed
Summary

Messenger RNA (mRNA) plays a key role in cellular processes beyond protein synthesis. New methods reveal its complex structures and functions, advancing our understanding of gene expression regulation.

Keywords:
DMSDeep sequencingPARSRibosome profilingSHAPESecondary structureTertiary structuremRNA

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Area of Science:

  • Molecular Biology
  • Genomics
  • Biochemistry

Background:

  • Messenger RNA (mRNA) acts as a crucial intermediary between DNA and protein synthesis.
  • Emerging research highlights mRNA's direct roles in cellular localization, translation regulation, and degradation.
  • Understanding mRNA's structural dynamics is key to deciphering its multifaceted functions.

Purpose of the Study:

  • To review and compare emerging methods for probing mRNA secondary structure.
  • To assess the potential and resolution of transcriptome-wide structural probing techniques.
  • To highlight the importance of combined approaches for a comprehensive view of mRNA structure.

Main Methods:

  • Deep sequencing technologies
  • Structural probing techniques
  • Transcriptome-wide analysis

Main Results:

  • New insights reveal mRNA's central role in diverse cellular processes.
  • Global transcriptome-wide approaches provide a detailed view of mRNA secondary structure.
  • Combining different methods offers a richer understanding of mRNA architecture.

Conclusions:

  • Advanced techniques are revolutionizing the study of mRNA structure and function.
  • Future research should focus on unraveling complex mRNA architectures and tertiary interactions.
  • A deeper understanding of mRNA structure is critical for various biological processes.