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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...
Real Time RT-PCR02:57

Real Time RT-PCR

Real-time reverse transcription-polymerase chain reaction, or Real-time RT-PCR, is an analytical tool used to determine the expression level of target genes. The method involves converting mRNA to complementary DNA with the help of an enzyme known as reverse transcriptase, followed by the PCR amplification of the cDNA. These two processes can be performed simultaneously in a single tube or separately as a two-step reaction.
The real-time quantification of the number of amplified products is...

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Updated: May 11, 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

Principles of transcriptome analysis and gene expression quantification: an RNA-seq tutorial.

Jochen B W Wolf1

  • 1Department of Evolutionary Biology, Uppsala University, Uppsala, Sweden. jochen.wolf@ebc.uu.se

Molecular Ecology Resources
|April 30, 2013
PubMed
Summary
This summary is machine-generated.

Next-generation sequencing (NGS) and RNA-sequencing (RNA-seq) are revolutionizing evolutionary biology and molecular ecology. This guide provides practical insights into RNA-seq workflows for eco-evolutionary research.

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AQRNA-seq for Quantifying Small RNAs
05:12

AQRNA-seq for Quantifying Small RNAs

Published on: February 2, 2024

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Last Updated: May 11, 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

AQRNA-seq for Quantifying Small RNAs
05:12

AQRNA-seq for Quantifying Small RNAs

Published on: February 2, 2024

Area of Science:

  • Eco-evolutionary sciences
  • Molecular ecology
  • Evolutionary biology

Background:

  • Genome-wide analyses were historically limited to biomedical applications and model organisms.
  • Advancements in next-generation sequencing (NGS) and bioinformatics have democratized large-scale genomic data.
  • These technologies are now integral to fields like evolutionary biology and molecular ecology.

Purpose of the Study:

  • To introduce next-generation sequencing (NGS) principles and applications in eco-evolutionary research.
  • To provide practical guidance on transcriptome shotgun sequencing (RNA-seq) workflows.
  • To equip researchers, especially beginners, with essential knowledge for analyzing large-scale genomic data.

Main Methods:

  • Overview of next-generation sequencing (NGS) technologies.
  • Detailed explanation of RNA-sequencing (RNA-seq) workflow steps: sampling, RNA extraction, library preparation, and data analysis.
  • Discussion of relevant bioinformatic tools and principles for RNA-seq data.

Main Results:

  • RNA-seq enables answering fundamental questions in evolutionary biology, such as the genetic basis of local adaptation and speciation.
  • It facilitates the study of gene expression evolution at a genome-wide scale.
  • The tutorial highlights practical considerations and potential challenges in RNA-seq data analysis.

Conclusions:

  • Genome-wide data accessibility is transforming eco-evolutionary sciences.
  • A foundational understanding of NGS and RNA-seq is crucial for researchers in these fields.
  • This guide serves as a valuable resource for both novice and experienced scientists working with large-scale genomic datasets.