PrePPI: Predicting Protein-Protein Interactions by Combining Structural and non-Structural Information
PrePPI is a database of predicted protein-protein interactions (PPIs). PrePPI currently contains approximately 1.3 million predicted PPIs for the human proteome and predictions for additional proteomes will be released soon. Predicted interactions in the database are determined using a Bayesian framework that combines structural, functional, evolutionary and expression information.
The references indicated below provide detailed descriptions of the methods used and how the database was constructed.
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References
Zhang QC, Petrey D, Deng L, Qiang L, Shi Y, Thu CA, Bisikirska B, Lefebvre C, Accili D, Hunter T, Maniatis T, Califano A, Honig B. Structure-based prediction of protein-protein interactions on a genome-wide scale. Nature. 2012 Oct 25;490(7421):556-60.
Zhang QC, Petrey D, Garzón JI, Deng L, Honig B. PrePPI: a structure-informed database of protein-protein interactions. Nucleic Acids Res. 2013 Jan;41(Database issue):D828-33.
Garzón JI, Deng L, Murray D, Shapira S, Petrey D, Honig B. A computational interactome and functional annotation for the human proteome. Elife. 2016;5:e18715.
Petrey D, Zhao H, Trudeau SJ, Murray D, Honig B. PrePPI: A Structure Informed Proteome-wide Database of Protein-Protein Interactions. J Mol Biol. 2023;168052.
Acknowledgments
PredUs is supported by a funding from the NIH Grant # GM030518, NESG NIH Grant # GM074958 and MAGNet NIH Grant # CA121852.
Questions
For questions regarding PrePPI, contact honigsoftware@zi.columbia.edu.