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Proteomics

Proteomics

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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Updated: Jul 1, 2025

Dynamic Proteomic and miRNA Analysis of Polysomes from Isolated Mouse Heart After Langendorff Perfusion

Dynamic Proteomic and miRNA Analysis of Polysomes from Isolated Mouse Heart After Langendorff Perfusion

Published on: August 29, 2018

Proteomic Profiling of Messenger Ribonucleoproteins in Mouse Tissues Based on Formaldehyde Cross-Linking.

Jiankun Wang¹, Jialin Liu¹, Rongbing Huang¹

¹College of Chemistry and Molecular Engineering, Beijing National Laboratory for Molecular Sciences, Peking-Tsinghua Center for Life Sciences, Synthetic and Functional Biomolecules Center, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Peking University, Beijing 100871, China.

Journal of Proteome Research

|March 13, 2024

Summary

Messenger ribonucleoprotein particles (mRNPs) are crucial for gene expression. A new method, FAXRAP, allows scientists to identify mRNA-associated proteins (mRAPs) in tissues, revealing insights into diseases like Parkinson's.

Keywords:

RNA-associated protein formaldehyde cross-linking messenger ribonucleoprotein particle posttranscriptional regulation network

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Last Updated: Jul 1, 2025

Dynamic Proteomic and miRNA Analysis of Polysomes from Isolated Mouse Heart After Langendorff Perfusion

Dynamic Proteomic and miRNA Analysis of Polysomes from Isolated Mouse Heart After Langendorff Perfusion

Published on: August 29, 2018

Proteomic Sample Preparation from Formalin Fixed and Paraffin Embedded Tissue

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Published on: September 2, 2013

Membrane-SPINE: A Biochemical Tool to Identify Protein-protein Interactions of Membrane Proteins In Vivo

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Published on: November 7, 2013

Area of Science:

Molecular Biology
Proteomics
Gene Expression Regulation

Background:

Messenger ribonucleoprotein particles (mRNPs) regulate tissue-specific gene expression through posttranscriptional mechanisms.
Identifying mRNA-associated proteins (mRAPs) within mRNPs at the tissue level presents significant proteomic challenges.

Purpose of the Study:

To develop a novel chemical strategy for profiling mRAPs in intact tissues.
To systematically identify tissue-specific mRAPs in various mouse organs.
To investigate changes in brain mRAPs in a Parkinson's disease model.

Main Methods:

Development of formaldehyde cross-linking-based mRNA-associated protein profiling (FAXRAP).
Application of FAXRAP to cultured cells and intact mouse organs (liver, kidney, heart, brain).
Proteomic analysis of mRAPs in wild-type and Parkinson's disease model mice.

Main Results:

FAXRAP successfully enabled the identification of mRAPs in diverse mouse organs.
Systematic profiling revealed tissue-specific mRAP landscapes.
Investigation in a Parkinson's disease model showed a global decrease in mRNP assembly in the brain.

Conclusions:

FAXRAP is an effective chemical strategy for identifying tissue-specific mRAPs.
The study provides novel insights into mRNP alterations in Parkinson's disease.
FAXRAP is expected to advance the understanding of posttranscriptional regulatory networks.