Books and Book Chapters

      Analysis of Proteomic Data for Toxicological Applications

      Titz, B.; Schneider, T.; Elamin, A.; Martin, F.; Dijon, S.; Ivanov, N. V.; Hoeng, J.; Peitsch, M. C.

      Date published
      Sep 10, 2015
      DOI
      10.1007/978-1-4939-2778-4_11
      ISBN
      978-1-4939-2778-4
      Published in
      Computational Systems Toxicology
      Editors
      Hoeng, J.; Peitsch, M. C.
      Link to publication
      Topic
      Summary

      Toward a comprehensive characterization of toxicant responses, systems toxicology requires the integration of different data modalities. Proteomics approaches measure changes in the levels of proteins and their posttranslational modifications, which can closely reflect the biological effects of a toxicant. With a focus on mass spectrometry-based proteomics, we describe the isobaric tag-based approach for quantitative proteomics (iTRAQ® and TMT™) and describe computational approaches to derive biological/mechanistic insights. Specifically, we describe the generation and quantification of mass-spectrometry data and the identification of affected proteins, functional modules, and protein subnetworks. We illustrate these approaches using results from a 90-day rat inhalation toxicology study. Overall, we provide the foundation to employ quantitative proteomics within systems toxicology assessment strategies.

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