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Related Concept Videos

Proteomics01:33

Proteomics

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A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
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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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Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

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The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the...
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Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

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Gene expression can be regulated at almost every step from gene to protein. Transcription is the step that is most commonly regulated. This involves the binding of proteins to short regulatory sequences on the DNA. This association can either promote or inhibit the transcription of a gene associated with the respective sequence.
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
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Updated: Jun 10, 2025

A Mass Spectrometry-Based Proteomics Approach for Global and High-Confidence Protein R-Methylation Analysis
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Mass Spectrometry-Based Proteomics for Assessing Epitranscriptomic Regulations.

Yen-Yu Yang1, Zhongwen Cao2, Yinsheng Wang1,2

  • 1Department of Chemistry, University of California, Riverside, California, USA.

Mass Spectrometry Reviews
|October 18, 2024
PubMed
Summary
This summary is machine-generated.

Epitranscriptomics studies RNA modifications like N6-methyladenosine (m6A). Proteomics, particularly bottom-up approaches, is key to identifying RNA-binding proteins and understanding gene expression regulation.

Keywords:
N6‐methyladenosineRNA modificationsRNA‐binding proteinsepitranscriptomicsproteomics

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Area of Science:

  • Molecular Biology
  • Genetics
  • Biochemistry

Background:

  • Epitranscriptomics investigates dynamic RNA modifications influencing gene expression.
  • N6-methyladenosine (m6A) is a key modification affecting mRNA metabolism.
  • Mass spectrometry-based proteomics is vital for studying epitranscriptomic regulation.

Purpose of the Study:

  • To review the application of bottom-up proteomics in epitranscriptomics.
  • To highlight the identification and quantification of RNA modification-binding proteins (RWE proteins).
  • To discuss the characterization of RWE protein functions and interactions.

Main Methods:

  • Bottom-up proteomics.
  • High-resolution mass spectrometry.
  • Advanced sample preparation techniques.

Main Results:

  • Proteomics enables high-throughput identification and quantification of epitranscriptomic proteins.
  • Characterization of RNA modification reader, writer, and eraser (RWE) proteins.
  • Insights into RWE protein functions, posttranslational modifications, and interaction networks.

Conclusions:

  • Bottom-up proteomics is essential for in-depth epitranscriptomic analysis.
  • This approach advances understanding of RNA modification regulatory networks.
  • Potential for novel therapeutic applications based on epitranscriptomic insights.