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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 proteomics...

Protein Networks

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...

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: Jun 21, 2026

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

Probing cellular complexity with proteomics.

W Blackstock¹, A Rowley

¹Cell Map Project, Glaxo Wellcome Medicines Research Centre, Gunnels Wood Road, Stevenage, Herts, UK. wpb0799@ggr.co.uk

Current Opinion in Molecular Therapeutics

|July 25, 2009

Summary

This summary is machine-generated.

High-throughput proteomics offers a rapid route to studying protein complexes and higher-order structures. This advanced approach aids in understanding gene function when classical methods are insufficient.

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Area of Science:

Genomics and Proteomics
Molecular Biology
Bioinformatics

Background:

The rapid pace of genome sequencing generates vast amounts of data with largely unknown gene functions.
Classical gene annotation methods are insufficient to handle the scale of newly discovered sequences.
High-throughput approaches are increasingly necessary for global gene expression analysis.

Purpose of the Study:

To explore the utility of proteomics as a high-throughput method for functional genomics.
To investigate the challenges and potential of protein-level measurements compared to transcriptomics.
To highlight the specific applications of proteomics in studying protein complexes.

Main Methods:

Utilizing proteomics to analyze protein expression profiles.
Comparing protein abundance with messenger RNA (mRNA) levels (transcriptome).
Employing mass spectrometry for the direct isolation and identification of protein complexes ('cell map proteomics').

Main Results:

Direct protein-level measurements are currently technically challenging and less competitive than mRNA-based approaches.
Correlation between mRNA and protein abundance is complex and not always straightforward.
Cell map proteomics, using mass spectrometry, is a powerful tool for studying protein complexes.

Conclusions:

Proteomics plays a crucial role in focused studies, particularly for investigating protein complexes.
Cell map proteomics provides a rapid method for elucidating protein complex structures and functions.
Advanced proteomic techniques are essential for complementing genomic data and understanding cellular mechanisms.