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Related Concept Videos

Ribosome Profiling02:24

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.
The technique...
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Ribosomal RNA Synthesis02:53

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Ribosomal RNA Synthesis02:53

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Ribosome synthesis is a highly complex and coordinated process involving more than 200 assembly factors. The synthesis and processing of ribosomal components occurs not only in the nucleolus but also in the nucleoplasm and the cytoplasm of eukaryotic cells.
Ribosome biogenesis begins with the synthesis of 5S and 45S pre-rRNAs by distinct RNA polymerases. The primary transcripts are extensively processed and modified before they are bound and folded by ribosomal proteins and assembly factors,...
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Ribosomes01:27

Ribosomes

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Ribosomes translate genetic information encoded by messenger RNA (mRNA) into proteins. Both prokaryotic and eukaryotic cells have ribosomes. Cells that synthesize large quantities of protein—such as secretory cells in the human pancreas—can contain millions of ribosomes.
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Ribosomes01:27

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Ribosomes translate genetic information encoded by messenger RNA (mRNA) into proteins. Both prokaryotic and eukaryotic cells have ribosomes. Cells that synthesize large quantities of protein—such as secretory cells in the human pancreas—can contain millions of ribosomes.
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Improving Translational Accuracy02:07

Improving Translational Accuracy

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Base complementarity between the three base pairs of mRNA codon and the tRNA anticodon is not a failsafe mechanism. Inaccuracies can range from a single mismatch to no correct base pairing at all. The free energy difference between the correct and nearly correct base pairs can be as small as 3 kcal/ mol. With complementarity being the only proofreading step, the estimated error frequency would be one wrong amino acid in every 100 amino acids incorporated. However, error frequencies observed in...
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Updated: Feb 21, 2026

De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data
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De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data

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Computational resources for ribosome profiling: from database to Web server and software.

Hongwei Wang1, Yan Wang1, Zhi Xie1

  • 1Zhongshan Ophthalmic Center, Sun Yat-sen University.

Briefings in Bioinformatics
|October 3, 2017
PubMed
Summary
This summary is machine-generated.

Ribosome profiling, a method for studying translation, has many computational tools. This review surveys these resources to help researchers choose the best ones for their ribosome profiling data analysis.

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Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genomics

Background:

  • Ribosome profiling offers genome-wide insights into in vivo translation with sub-codon resolution.
  • Its application has significantly advanced the understanding of translation's composition, regulation, and mechanisms.
  • A wide array of computational resources supports ribosome profiling analysis.

Purpose of the Study:

  • To comprehensively review computational resources for ribosome profiling data.
  • To guide experimental and computational biologists in selecting appropriate tools for their research.

Main Methods:

  • Surveyed recent computational advances in ribosome profiling.
  • Focused on databases, web servers, and software tools.
  • Categorized resources for data storage, visualization, and analysis.

Main Results:

  • Identified a growing landscape of computational tools for ribosome profiling.
  • Highlighted resources for managing, interpreting, and analyzing translation data.
  • Provided a structured overview of available software and databases.

Conclusions:

  • A comprehensive reference for computational resources in ribosome profiling is now available.
  • This review aids researchers in making informed decisions for their specific analytical needs.
  • Facilitates efficient use of computational tools for advancing translation research.