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Related Concept Videos

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...
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: May 18, 2026

Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes
05:07

Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes

Published on: November 7, 2025

Transcriptome analysis using RNA-Seq.

Wieteke A M Hoeijmakers1, Richárd Bártfai, Hendrik G Stunnenberg

  • 1Department of Molecular Biology, Nijmegen Center for Molecular Life Sciences, Nijmegen, The Netherlands.

Methods in Molecular Biology (Clifton, N.J.)
|September 20, 2012
PubMed
Summary

This study details a robust RNA sequencing (RNA-seq) protocol for transcriptome analysis, even for poorly characterized species like Plasmodium. The method requires minimal total RNA, enabling gene expression studies and analysis of most RNA types.

More Related Videos

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
11:52

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Published on: August 4, 2016

Related Experiment Videos

Last Updated: May 18, 2026

Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes
05:07

Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes

Published on: November 7, 2025

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
11:52

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Published on: August 4, 2016

Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • Next-generation sequencing (NGS) offers high-resolution transcriptome analysis.
  • RNA sequencing (RNA-seq) is valuable for studying organisms with limited genomic data, such as Plasmodium.
  • Existing RNA-seq protocols may have limitations regarding RNA input quantity or scope.

Purpose of the Study:

  • To present a detailed protocol for preparing RNA sequencing libraries.
  • To enable transcriptome analysis using RNA-seq, particularly for challenging samples.
  • To facilitate quantitative gene expression measurement and broader RNA species analysis.

Main Methods:

  • RNA isolation and fragmentation.
  • Ribosomal RNA depletion.
  • Complementary DNA (cDNA) synthesis.
  • Sequencing library preparation from 1-2 μg of total RNA.

Main Results:

  • A comprehensive RNA-seq library preparation protocol is described.
  • The protocol is effective for samples with limited total RNA.
  • It supports quantitative gene expression analysis and the study of diverse RNA species.

Conclusions:

  • This RNA-seq protocol provides a versatile method for transcriptome analysis.
  • It is particularly useful for poorly characterized organisms and limited RNA amounts.
  • The protocol supports various RNA-seq applications beyond gene expression profiling.