Protein‐protein interaction networks as miners of biological discovery

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  • Steven Wang
    Department of Biological Sciences Columbia University New York New York USA
  • Runxin Wu
    Department of Biomedical Engineering Johns Hopkins University Baltimore Maryland USA
  • Jiaqi Lu
    Department of Chemistry and Biochemistry University of Notre Dame Notre Dame Indiana USA
  • Yijia Jiang
    Department of Biomedical Informatics Harvard Medical School Boston Massachusetts USA
  • Tao Huang
    Bio‐Med Big Data Center, Shanghai Institute of Nutrition and Health Chinese Academy of Sciences Shanghai China
  • Yu‐Dong Cai
    School of Life Sciences Shanghai University Shanghai China

Description

<jats:title>Abstract</jats:title><jats:p>Protein‐protein interactions (PPIs) form the basis of a myriad of biological pathways and mechanism, such as the formation of protein complexes or the components of signaling cascades. Here, we reviewed experimental methods for identifying PPI pairs, including yeast two‐hybrid (Y2H), mass spectrometry (MS), co‐localization, and co‐immunoprecipitation. Furthermore, a range of computational methods leveraging biochemical properties, evolution history, protein structures and more have enabled identification of additional PPIs. Given the wealth of known PPIs, we reviewed important network methods to construct and analyze networks of PPIs. These methods aid biological discovery through identifying hub genes and dynamic changes in the network, and have been thoroughly applied in various fields of biological research. Lastly, we discussed the challenges and future direction of research utilizing the power of PPI networks.</jats:p>

Journal

  • PROTEOMICS

    PROTEOMICS 22 (15-16), 2022-05-24

    Wiley

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