protein-protein-interaction
There are 156 repositories under protein-protein-interaction topic.
kexinhuang12345/DeepPurpose
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
lightdock/lightdock
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
octavian-ganea/equidock_public
EquiDock: geometric deep learning for fast rigid 3D protein-protein docking
LirongWu/MAPE-PPI
Code for ICLR 2024 (Spotlight) paper "MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding"
DeepRank/deeprank
This repository has been integrated in https://github.com/DeepRank/deeprank2
FreshAirTonight/af2complex
Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
zjunlp/OntoProtein
[ICLR 2022] OntoProtein: Protein Pretraining With Gene Ontology Embedding
Thinklab-SJTU/awesome-molecular-docking
We would like to maintain a list of resources which aim to solve molecular docking and other closely related tasks.
sbl-sdsc/mmtf-pyspark
Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.
sbl-sdsc/mmtf-workshop-2018
Structural Bioinformatics Training Workshop & Hackathon 2018
anton-bushuiev/PPIRef
Dataset and utilities for working with protein-protein interactions in 3D
sigven/oncoEnrichR
Cancer-dedicated gene set interpretation
akiyamalab/MEGADOCK
An ultra-high-performance protein-protein docking for heterogeneous supercomputers
dwhswenson/contact_map
Contact map analysis for biomolecules; based on MDTraj
DeepGraphLearning/SiamDiff
Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)
sbl-sdsc/mmtf-genomics
Methods for mapping genomic data onto 3D protein structure.
DongqiFu/DPPIN
DPPIN: A Biological Repository of Dynamic Protein-Protein Interaction Network Data, IEEE BigData 2022
lightdock/lightdock-python2.7
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
EureKaZhu/DiffAffinity
Predicting mutational effects on protein-protein binding via a side-chain diffusion probabilistic model (NeurIPS 2023 Poster)
DeepRank/DeepRank-GNN-esm
Graph Network for protein-protein interface including language model features
sbl-sdsc/mmtf-spark
Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.
dvklopfenstein/ReactomePy
Explore biomolecular pathways in Reactome from the command-line or a Python script
wajidarshad/LUPI-SVM
SVM with Learning Using Privileged Information (LUPI) framework
zhuango/KAN
An implementation of Knowledge-aware attention networks (KAN) for protein-protein extraction task
ikmb/amino_acid_encoding_deep_learning_applications
The repository contains all the code for the paper amino acid encoding using deep learning application
LPDI-EPFL/FunFolDesData
Rosetta FunFolDes – a general framework for the computational design of functional proteins.
AspirinCode/iPPIGAN
De novo molecular design with deep molecular generative models for protein-protein interaction(PPI) inhibitors
westlake-repl/SaprotHub
SaprotHub: Making Protein Modeling Accessible to All Biologists
aedera/anc2vec
Unsupervised neural network for learning embeddings of GO terms.
gdocking/gdock
Protein-Protein Docking using Genetic Algorithm
Bitbol-Lab/DiffPALM
Differentiable Pairing using Alignment-based Language Models
haddocking/haddocking.github.io
Webpage of the Bonvinlab @ Utrecht University and HADDOCK software
unistbig/netGO
R/Shiny package for network-integrated pathway enrichment analysis
Wang-Lin-boop/PPI-Miner
A Motif-Based PPI Searching Pipeline for PPI Mining and Protein Design
YeongHyeon/PIPGCN-TF2
Unofficial TensorFlow implementation of Protein Interface Prediction using Graph Convolutional Networks.