Predicting Protein-Protein Interactions from the Molecular to the Proteome Level.

By O. Keskin, Nurcan Tunçbağ, A. Gursoy. 2016

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Artificial intelligence to deep learning: machine intelligence approach for drug discovery (2021, unknown): “If two proteins’ genes are not close by in the genome, then this method cannot reliably predict an interaction between these two genes [156, 157].”
Application of docking methodologies to modeled proteins (2020, background): “4,30,31 A thorough investigation of low-resolution free docking on a large set of protein models of different accuracy showed that such docking determines the gross structural features of the complex for a significant portion of the protein models, including highly inaccurate ones.”
Crystal structures of eukaryote glycosyltransferases reveal biologically relevant enzyme homooligomers (2018, background): “The latter approach is a very active field of research, and a great many server-based analysis tools are now freely available [10, 11].”
Network-based prediction of protein interactions (2018, background): “(d) PPIs often require complementary interfaces [7, 8], hence two proteins, X and Y, with similar interfaces share many of their neighbors.”