ESM GP Protein Protein Interaction Predictor Model Description ESM GP is a sequence based protein–protein interaction (PPI) predictor that uses a MLP backbone with a last layer Gaussian process (LLGP). It produces a probability score for whether two proteins interact. This is an ablation of TUnA. Intended Use Research use for PPI prediction and representation learning. These weights can be loaded in from the TUnA R repository on Github. Training Data Trained on the Bernett dataset (https://academic.oup.com/bib/article/25/2/bbae076/7621029) composed of Human PPI interactions. Model Architecture Backbone: tuna.models. mlp.MLP protein dim : 640 hid dim : 64 dropout : 0.1 llgp : True use spectral norm : True out targets : 1 gp config : rff features : 4096 gp cov momentum : 1 gp ridge penalty : 1 likelihood : "binary logistic" Evaluation Results (Test Set) AUROC: 0.70 AUPRC: 0.68 Accuracy: 0.63 MCC: 0.27 Precision: 0.65 Citation If you use this model, please cite: TUnA: https://academic.oup.com/bib/article/25/5/bbae359/7720609 Bernett dataset: https://academic.oup.com/bib/article/25/2/bbae076/7621029 License MIT
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