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An Introduction to Mass Spectrometry-Based Proteomics.

Steven R Shuken1,2,3,4

  • 1Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, United States.

Journal of Proteome Research
|June 1, 2023
PubMed
Summary

This tutorial simplifies quantitative proteomics using mass spectrometry for researchers. It covers sample preparation to data analysis, making complex techniques accessible for a broader audience.

Keywords:
bottom-updata-dependent acquisitionlabel-free quantificationmass spectrometryproteomicsuntargeted proteomics

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Area of Science:

  • Proteomics
  • Analytical Chemistry
  • Biochemistry

Background:

  • Mass spectrometry is a versatile tool for proteome analysis.
  • The complexity of mass spectrometry-based proteomics presents a high barrier to entry.
  • A simplified approach is needed to make proteomics accessible.

Purpose of the Study:

  • To provide an accessible, illustrated guide to quantitative proteomic experiments.
  • To explain the technical details of mass spectrometry-based proteomics for beginners.
  • To lower the barrier to entry for researchers interested in proteomics.

Main Methods:

  • Overview of a quantitative proteomic experiment from sample preparation to data analysis.
  • Explanation of data acquisition, processing, and analysis in mass spectrometry.
  • Illustrated guide with simplified explanations for complex concepts.

Main Results:

  • The tutorial offers a clear pathway through a quantitative proteomic workflow.
  • Key concepts of mass spectrometry and protein analysis are explained.
  • Readers gain an understanding of experimental steps and data interpretation.

Conclusions:

  • This guide makes quantitative proteomics more accessible to those with limited prior knowledge.
  • It serves as a foundational resource for understanding mass spectrometry-based proteomic experiments.
  • Future directions in proteomics, including next-generation sequencing, are discussed.