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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