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RNA-seq03:21

RNA-seq

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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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Ribosome Profiling

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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.
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Related Experiment Video

Updated: Mar 9, 2026

Sequencing of mRNA from Whole Blood using Nanopore Sequencing
11:26

Sequencing of mRNA from Whole Blood using Nanopore Sequencing

Published on: June 3, 2019

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Rapid resistome mapping using nanopore sequencing.

Eric van der Helm1, Lejla Imamovic1, Mostafa M Hashim Ellabaan1

  • 1Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark.

Nucleic Acids Research
|January 8, 2017
PubMed
Summary

A new poreFUME workflow rapidly characterizes the gut resistome, identifying antibiotic resistance genes. This approach could personalize bacterial infection treatments and improve patient outcomes.

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Area of Science:

  • Microbiology
  • Genomics
  • Infectious Diseases

Background:

  • Antibiotic resistance in pathogens is a critical global health threat.
  • Gut microbiome composition influences antibiotic treatment efficacy.
  • Characterizing the gut resistome is crucial for personalized medicine but lacks rapid methods.

Purpose of the Study:

  • To develop a rapid workflow for comprehensive gut resistome characterization.
  • To enable functional metagenomic analysis of antibiotic resistance genes.
  • To inform future antibiotic treatment strategies.

Main Methods:

  • Development of the poreFUME workflow.
  • Utilizing functional metagenomic selections and nanopore sequencing.
  • Application to characterize the gut resistome of an ICU patient.

Main Results:

  • The poreFUME workflow successfully mapped the gut resistome.
  • Achieved >97% accuracy in annotating antibiotic resistance genes.
  • Demonstrated functional characterization of resistance genes in a clinical sample.

Conclusions:

  • The poreFUME pipeline offers an efficient method for resistome profiling.
  • This approach has the potential to guide individualized antibiotic therapy.
  • Facilitates rapid identification of antibiotic resistance mechanisms.