Awesome Protein Representation Learning

GearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)

Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019

Code for ICLR 2024 (Spotlight) paper "MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding"

ProtFlash: A lightweight protein language model

Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)

ProteinReDiff: Complex-based ligand-binding proteins redesign by equivariant diffusion-based generative models

Protein Structure Transformer (PST): Endowing pretrained protein language models with structural knowledge

Code for AAAI 2024 paper "PSC-CPI: Multi-Scale Protein Sequence-Structure Contrasting for Efficient and Generalizable Compound-Protein Interaction Prediction"