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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...

Next-generation Sequencing

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....

Genomics

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...

Genome Annotation and Assembly

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.

Ribosome Profiling

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.
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Related Experiment Video

Updated: May 5, 2026

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Published on: April 8, 2017

Key Concepts in Transcriptomics Data Analysis in the Era of Next-Gen Sequencing.

Saumya Kumar^1,2

¹Centre for Individualised Infection Medicine (CiiM), a joint venture between the Helmholtz Centre for Infection Research (HZI) and Hannover Medical School (MHH), Hannover, Germany. saumya.dileepkumar@helmholtz-hzi.de.

Advances in Experimental Medicine and Biology

|May 3, 2026

Summary

Next-generation sequencing, particularly RNA-sequencing (RNA-seq), provides deep insights into cellular molecular profiles. This chapter details bulk and single-cell transcriptomics analysis methods for understanding biological systems in health and disease.

Keywords:

Bulk RNA-seq Data analysis RNA-seq Single-cell RNA-seq Transcriptomics

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RNA-seq Analysis of Transcriptomes in Thrombin-treated and Control Human Pulmonary Microvascular Endothelial Cells

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Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Next-generation sequencing (NGS) technologies have revolutionized molecular profiling.
Transcriptome sequencing (RNA-seq) offers cost-effective, high-resolution analysis of RNA molecules.
Proteome measurements remain challenging, making transcriptome analysis crucial for biological insights.

Purpose of the Study:

To discuss fundamental and advanced analysis methods for transcriptomics.
To cover both bulk and single-cell transcriptomics approaches.
To enhance understanding of biological systems in human health and disease.

Main Methods:

RNA-sequencing (RNA-seq) for high-throughput data generation.
Single-cell transcriptomics for large-scale dataset analysis.
Analysis of molecular profiles, pathways, and networks.

Main Results:

RNA-seq enables detailed investigation of the complete transcriptome.
Single-cell studies yield large datasets for enhanced biological system understanding.
Analysis methods facilitate exploration of diverse tissues and cellular subsets.

Conclusions:

Transcriptome sequencing is a powerful tool for molecular exploration.
Advanced analysis methods are key to leveraging transcriptomics data.
Understanding transcriptomics is vital for advancing human health and disease research.