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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...

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Related Experiment Video

Updated: May 13, 2026

Robust Comparison of Protein Levels Across Tissues and Throughout Development Using Standardized Quantitative Western Blotting

Robust Comparison of Protein Levels Across Tissues and Throughout Development Using Standardized Quantitative Western Blotting

Published on: April 9, 2019

Systematic evaluation of reference protein normalization in proteomic experiments.

Henrik Zauber¹, Vivian Schüler, Waltraud Schulze

¹Max Planck Institute of Molecular Plant Physiology Golm, Germany.

Frontiers in Plant Science

|March 2, 2013

Summary

Reference protein normalization (RPN) offers a reliable method for quantitative proteomics. This technique normalizes peptide intensities to a spiked reference protein, simplifying complex data analysis for biological studies.

Keywords:

absolute quantitation data normalization label-free proteomics mass spectrometry based proteomics protein spiking

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Last Updated: May 13, 2026

Robust Comparison of Protein Levels Across Tissues and Throughout Development Using Standardized Quantitative Western Blotting

Robust Comparison of Protein Levels Across Tissues and Throughout Development Using Standardized Quantitative Western Blotting

Published on: April 9, 2019

Selected Reaction Monitoring Mass Spectrometry for Absolute Protein Quantification

Selected Reaction Monitoring Mass Spectrometry for Absolute Protein Quantification

Published on: August 17, 2015

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

Area of Science:

Proteomics
Biochemistry
Mass Spectrometry

Background:

Quantitative proteomics is crucial for biological research, employing various labeling and label-free methods.
Existing methods can be complex and dependent on sample characteristics.

Purpose of the Study:

To systematically evaluate Reference Protein Normalization (RPN) for quantitative proteomics.
To assess RPN's reliability and advantages over traditional methods.

Main Methods:

Utilized a high mass accuracy LC-MS/MS platform.
Applied RPN by normalizing sample peptide intensities to a spiked reference protein's average intensity.
Validated RPN using nutrient starvation-induced protein abundance changes in Arabidopsis thaliana.

Main Results:

RPN demonstrated sufficient reproducibility for reliable data normalization.
The method avoids complex 'fraction of total' analyses.
Successful validation in a biological system (Arabidopsis thaliana).

Conclusions:

RPN is a robust and reproducible normalization strategy for quantitative proteomics.
This method simplifies data analysis and is applicable across various biological contexts.
Guidelines for optimizing protein loads in RPN are provided.