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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...
Next-generation Sequencing03:00

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.

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Related Experiment Video

Updated: May 24, 2026

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

RNA-Seq Atlas--a reference database for gene expression profiling in normal tissue by next-generation sequencing.

Markus Krupp1, Jens U Marquardt, Ugur Sahin

  • 1Department of Medicine I, Johannes Gutenberg University, 55131 Mainz, Germany. kruppm@uni-mainz.de

Bioinformatics (Oxford, England)
|February 21, 2012
PubMed
Summary
This summary is machine-generated.

RNA-Seq Atlas is a new web resource providing gene expression profiles from RNA sequencing. This database offers tools for comparing tissues and identifying specific gene expression patterns for biomedical research.

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Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
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Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

Area of Science:

  • Genomics
  • Bioinformatics

Background:

  • Next-generation sequencing (NGS) technologies, particularly RNA-Seq, offer a comprehensive and unbiased view of gene expression.
  • RNA-Seq analysis is crucial for advancing personalized medicine and clinical research.
  • Existing bioinformatics resources for RNA-Seq data are still developing, especially for the biomedical research community.

Purpose of the Study:

  • To develop RNA-Seq Atlas, a web-based repository for RNA-Seq gene expression profiles.
  • To provide accessible query tools for comparing tissues and identifying specific gene expression patterns.
  • To integrate RNA-Seq data with functional and genetic databases for enhanced analysis.

Main Methods:

  • Generation of a web-based repository containing RNA-Seq gene expression profiles.
  • Development of query tools for comparative tissue analysis and pattern identification.
  • Integration of data with functional databases (gene ontologies, signaling pathways) and existing microarray profiles (BioGPS, NCI60).

Main Results:

  • RNA-Seq Atlas offers open access to RNA-Seq gene expression profiles and data mining tools.
  • The platform enables detailed comparisons between RNA-Seq and microarray data.
  • This is the first database providing data mining tools and open access to large-scale RNA-Seq expression profiles.

Conclusions:

  • RNA-Seq Atlas serves as a valuable resource for identifying tissue-specific genes and expression profiles.
  • It facilitates the comparison of gene expression across diverse tissues.
  • The database supports systems biology approaches by linking tissue function to gene expression changes.