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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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Related Experiment Video

Updated: Apr 27, 2026

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification

Published on: November 15, 2017

High-throughput proteomics.

Zhaorui Zhang¹, Si Wu, David L Stenoien

¹Environmental Molecular Sciences Laboratory.

Annual Review of Analytical Chemistry (Palo Alto, Calif.)

|July 12, 2014

Summary

High-throughput proteomics uses mass spectrometry (MS) for large-scale protein analysis. This review covers advanced separation, quantification, and MS techniques for comprehensive proteome characterization.

Keywords:

ion-mobility spectrometry liquid chromatography mass spectrometry proteomics

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Last Updated: Apr 27, 2026

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification

Published on: November 15, 2017

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Published on: November 13, 2021

Area of Science:

Proteomics
Analytical Chemistry
Biochemistry

Background:

High-throughput proteomics, centered on mass spectrometry (MS), is crucial for large-scale protein characterization.
The inherent complexity of proteomes necessitates advanced separation and MS instrumentation to improve coverage, dynamic range, and sensitivity.

Purpose of the Study:

To review separation and prefractionation techniques for large-scale proteomics.
To discuss quantification strategies for both bottom-up and top-down proteomics.
To provide an overview of mass analyzers, fragmentation techniques, and emerging methods.

Main Methods:

Review of established and emerging separation techniques (e.g., chromatography, electrophoresis).
Discussion of prefractionation strategies for complex biological samples.
Analysis of quantification methods: label-free and stable-isotope labeling.

Main Results:

Comprehensive overview of techniques enhancing proteome coverage and sensitivity.
Detailed comparison of peptide-level (bottom-up) and protein-level (top-down) approaches.
Summary of mass spectrometry instrumentation and data acquisition strategies.

Conclusions:

Advanced separation and quantification methods are vital for deep proteome profiling.
The choice of technique depends on the specific research question and sample complexity.
Emerging MS technologies continue to push the boundaries of proteomic analysis.