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Updated: Feb 2, 2026

Extraction of Histones from Clinical Specimens for Epigenetic Profiling by Mass Spectrometry
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Extraction of Histones from Clinical Specimens for Epigenetic Profiling by Mass Spectrometry

Published on: November 21, 2025

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Clinical potential of mass spectrometry-based proteogenomics

Bing Zhang1, Jeffrey R Whiteaker2, Andrew N Hoofnagle3,4

  • 1Department of Molecular and Human Genetics, Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX, USA.

Nature Reviews. Clinical Oncology
|November 30, 2018
PubMed

Insights

Proteogenomics, combining genomic and proteomic data, offers a more complete view of tumor biology than genomics alone. This approach aims to improve patient-treatment matching for better cancer therapy outcomes.

Area of Science:

  • Oncology
  • Proteomics
  • Genomics

Background:

  • Personalized oncology relies on targeting specific genetic alterations in cancer.
  • Genome-driven treatments improve survival for some patients, but many do not respond.
  • Genomic analysis alone may miss crucial tumor information present in the proteome.

Purpose of the Study:

  • To discuss the added value of proteogenomics over genome-driven approaches in cancer characterization.
  • To summarize efforts in integrating targeted proteomic measurements into clinical settings.
  • To enable more successful patient-treatment matching through a comprehensive view of tumor biology.

Main Methods:

  • Leveraging both genomic and proteomic data for a complete view of tumor biology.
  • Utilizing selected/multiple reaction monitoring (SRM/MRM) mass spectrometry for targeted proteomic measurements.
  • Incorporating proteomic data into clinical laboratories for clinical proteogenomics.

Main Results:

  • Proteogenomics provides novel information beyond genomic analysis.
  • Combining proteomic and genomic data offers a more complete understanding of tumor biology.
  • This integrated approach has the potential to improve treatment selection for cancer patients.

Conclusions:

  • Proteogenomics enhances cancer characterization by integrating proteomic and genomic insights.
  • Targeted proteomic measurements are being incorporated into clinical labs to facilitate clinical proteogenomics.
  • This approach promises to improve the efficacy of personalized oncology by better matching patients to treatments.

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