ESM2_AMP

The feature files for all proteins in the dataset required for the protein-protein interaction prediction framework (i.e., ESM2 embeddings) and the weight files for the models.real_test_dataset_embedding.zip is the feature representation of proteins and protein pair samples in the real_test dataset.ESM2_AMPS.pth is the weight file for the ESM2_AMPS model (Trainning on Pan_dataset);ESM2_AMP_CSE.pth is the weight file for the ESM2_AMP_CSE model;ESM2_DPM.pth is the weight file for the ESM2_DPM model;ESM2_AMPS_Bernett.zip is the weight file for the ESM2_AMPS model (Trainning on Bernett dataset);ESM2_GRU_Bernett.zip is the weight file for the ESM2_GRU model (Trainning on Bernett dataset);ESM2_AMPS and ESM2_AMP_CSE attention_weights.zip are the extracted attention weights when the input dataset is real_test dataset for the ESM2_AMPS and ESM2_AMP_CSE models.segment_model_weights.zip contains feature attribution-related models for "segment 0-9", including the autoencoder model, AE_DNN model, and AE_RF model.cls_segment_eos_model_weights.zip contains feature attribution-related models for "cls_segment 0-9_eos", including the autoencoder model, AE_DNN model, and AE_RF model.10.pan_pairs_features.zip contains cls, segment0-9, and eos features, which are used for training the ESM2_AMPS and ESM2_AMP_CSE models.11.pan_pairs_mean_feature.zip contains ESM2_mean features, which are used for training the ESM2_DPM model.<br>The following are the protein characteristics provided in the three datasets:Pan_dataset_protein_features.npy contains the ESM2 embedding features of all proteins in the Pan_dataset; Bernett_dataset_protein_features.zip is a collection of ESM2 embedding features for all proteins in the Bernett dataset;<br>Multi_species_dataset_protein_features.zip is a collection of ESM2 embedding features for all proteins in the Multi_species_dataset;<br>