There are 7 repositories under protein-protein-interaction topic.
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
EquiDock: geometric deep learning for fast rigid 3D protein-protein docking
Code for ICLR 2024 (Spotlight) paper "MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding"
Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
[ICLR 2022] OntoProtein: Protein Pretraining With Gene Ontology Embedding
We would like to maintain a list of resources which aim to solve molecular docking and other closely related tasks.
Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.
Dataset and package for working with protein-protein interactions in 3D
Structural Bioinformatics Training Workshop & Hackathon 2018
Cancer-dedicated gene set interpretation
An ultra-high-performance protein-protein docking for heterogeneous supercomputers
Contact map analysis for biomolecules; based on MDTraj
Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)
SaprotHub: Making Protein Modeling Accessible to All Biologists
DPPIN: A Biological Repository of Dynamic Protein-Protein Interaction Network Data, IEEE BigData 2022
Methods for mapping genomic data onto 3D protein structure.
Predicting mutational effects on protein-protein binding via a side-chain diffusion probabilistic model (NeurIPS 2023 Poster)
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
Graph Network for protein-protein interface including language model features
Code for ICML 2024 paper "Learning to Predict Mutational Effects of Protein-Protein Interactions by Microenvironment-aware Hierarchical Prompt Learning"
Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.
Explore biomolecular pathways in Reactome from the command-line or a Python script
Fast AlphaFold-Multimer based pipeline for Protein-Protein Interaction (PPI) screening
SVM with Learning Using Privileged Information (LUPI) framework
An implementation of Knowledge-aware attention networks (KAN) for protein-protein extraction task
The repository contains all the code for the paper amino acid encoding using deep learning application
Rosetta FunFolDes – a general framework for the computational design of functional proteins.
De novo molecular design with deep molecular generative models for protein-protein interaction(PPI) inhibitors
Differentiable Pairing using Alignment-based Language Models
A Motif-Based PPI Searching Pipeline for PPI Mining and Protein Design