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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.
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 8, 2026

Global Identification of Co-Translational Interaction Networks by Selective Ribosome Profiling

Global Identification of Co-Translational Interaction Networks by Selective Ribosome Profiling

Published on: October 7, 2021

Interrogating translational efficiency and lineage-specific transcriptomes using ribosome affinity purification.

Pingzhu Zhou¹, Yijing Zhang, Qing Ma

¹Department of Cardiology, Boston Children's Hospital, Boston, MA 02115.

Proceedings of the National Academy of Sciences of the United States of America

|September 5, 2013

Summary

This summary is machine-generated.

A new mouse model, Rosa26(fsTRAP), enhances ribosome profiling (TRAP) for cell-specific RNA analysis. This tool aids in studying gene expression, translational control, and noncoding RNA binding in various cell types and disease models.

Keywords:

heart pressure overload

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Area of Science:

Molecular Biology
Genetics
Developmental Biology

Background:

Transcriptional profiling is crucial for understanding development and disease.
Isolating RNA from specific cell types or compartments enhances transcriptional profiling.
Translating ribosome affinity purification (TRAP) isolates ribosome-bound RNA from specific cells but is limited by mouse line availability.

Purpose of the Study:

To characterize a new TRAP allele (Rosa26(fsTRAP)) for broader accessibility.
To demonstrate the utility of Rosa26(fsTRAP) for cell type-specific transcriptomics.
To investigate translational regulation and noncoding RNA ribosome binding.

Main Methods:

Characterization of the Rosa26(fsTRAP) mouse allele.
Application of TRAP in endothelium and cardiomyocytes.
Analysis of ribosome-bound transcripts, including noncoding RNAs.

Main Results:

Endothelium-specific TRAP identified endothelial cell-enriched transcripts.
Cardiomyocyte-restricted TRAP revealed differentially expressed genes in a disease model.
TRAP effectively studied translational control of nuclear-encoded mitochondrial genes.
A subset of long intergenic noncoding RNAs showed weak ribosome binding; most noncoding RNAs bound similarly to coding transcripts.

Conclusions:

The Rosa26(fsTRAP) allele significantly improves the accessibility and application of TRAP.
TRAP is a powerful tool for cell type-specific transcriptome analysis and translational regulation studies.
TRAP provides insights into the ribosome binding of various noncoding RNAs.