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Related Concept Videos

RNA-seq03:21

RNA-seq

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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. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
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Ribosome Profiling02:24

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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.
The technique...
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Types of RNA01:20

Types of RNA

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Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in regulating gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
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Related Experiment Video

Updated: Dec 13, 2025

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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Chemical Approaches To Analyzing RNA Structure Transcriptome-Wide.

Whitney E England1, Chely M Garfio1, Robert C Spitale1,2,3

  • 1Department of Pharmaceutical Sciences, University of California, Irvine, Irvine, CA 92697, USA.

Chembiochem : a European Journal of Chemical Biology
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Chemical probes and deep sequencing reveal RNA structures critical for cell biology. This review details advancements in chemical probing for understanding RNA

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Area of Science:

  • Molecular Biology
  • Biochemistry
  • Genomics

Background:

  • RNA molecules fold into complex 3D structures essential for their biological functions.
  • Chemical probes are established tools for studying RNA structure-function relationships.
  • Recent technological integration offers new avenues for global RNA structure analysis.

Purpose of the Study:

  • To review recent advancements in chemical probe design for cellular RNA structure interrogation.
  • To discuss how chemical probing has enhanced understanding of RNA biology transcriptome-wide.
  • To bridge the gap between RNA structure and its functional implications in biological systems.

Main Methods:

  • Development of novel chemical probes for RNA structure mapping.
  • Application of high-throughput sequencing technologies (deep sequencing) for data acquisition.
  • Integration of chemical probing with sequencing to analyze RNA structures in situ.

Main Results:

  • Chemical probing enables holistic assessment of RNA structures across the transcriptome.
  • Advanced probe designs allow for interrogation of RNA structures within living cells.
  • These methods provide unprecedented insights into structure-based RNA regulation.

Conclusions:

  • Chemical probing is a powerful technique for elucidating RNA structure-function dynamics.
  • Recent methodological advances facilitate transcriptome-wide RNA structure analysis.
  • Understanding cellular RNA structures is key to deciphering RNA biology and disease.