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RNA-seq

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...

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Related Experiment Video

Updated: Jan 3, 2026

Method for the Isolation and Identification of mRNAs, microRNAs and Protein Components of Ribonucleoprotein Complexes from Cell Extracts using RIP-Chip

Method for the Isolation and Identification of mRNAs, microRNAs and Protein Components of Ribonucleoprotein Complexes from Cell Extracts using RIP-Chip

Published on: September 29, 2012

Chemo-biological mRNA imaging with single nucleotide specificity.

Andrea Knoll¹, Svenja Kankowski, Sophie Schöllkopf

¹Humboldt University Berlin, Department of Chemistry, Brook-Taylor-Str. 2, D-12489 Berlin, Germany. oliver.seitz@chemie.hu-berlin.de.

Chemical Communications (Cambridge, England)

|November 26, 2019

Summary

This study presents a novel method combining chemical and biological detection systems to accurately image C-to-U edited mRNA. This technique effectively distinguishes edited from unedited mRNA states in cells.

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Last Updated: Jan 3, 2026

Method for the Isolation and Identification of mRNAs, microRNAs and Protein Components of Ribonucleoprotein Complexes from Cell Extracts using RIP-Chip

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Published on: September 29, 2012

Visualizing Genetic Variants, Short Targets, and Point Mutations in the Morphological Tissue Context with an RNA In Situ Hybridization Assay

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Real-time Imaging of Single Engineered RNA Transcripts in Living Cells Using Ratiometric Bimolecular Beacons

Real-time Imaging of Single Engineered RNA Transcripts in Living Cells Using Ratiometric Bimolecular Beacons

Published on: August 6, 2014

Area of Science:

Molecular Biology
Biochemistry
Cell Biology

Background:

Accurate detection of RNA modifications like C-to-U editing is crucial for understanding gene regulation.
Distinguishing edited mRNA from mismatched targets or unbound probes presents a significant challenge in molecular imaging.

Purpose of the Study:

To develop a robust method for unambiguous imaging of C-to-U edited mRNA.
To differentiate between edited and unedited mRNA states within cellular environments.

Main Methods:

Integration of Fluorescence In Situ Hybridization (FISH) probes (chemical detection) with the MS2 RNA tagging system (biological detection).
Utilizing ratio measurements derived from the combined detection system to analyze mRNA states.
Application in HEK cells to study Glycine Receptor alpha 2 (GlyR α2) mRNA editing.

Main Results:

The combined FIT probe and MS2 technique successfully enabled unambiguous imaging of C-to-U edited mRNA.
Ratio measurements effectively discriminated between the edited and unedited states of GlyR α2 mRNA.
The method demonstrated high specificity in distinguishing target mRNA from background signals.

Conclusions:

The developed dual-system approach provides a reliable strategy for visualizing and quantifying mRNA editing events.
This technique offers a valuable tool for studying the functional implications of RNA editing in biological systems.
Future applications may include studying various RNA editing processes in different cell types and organisms.