Saprot: Protein Language Model with Structural Alphabet (AA+3Di)

Protein Language Model

ProtFlash: A lightweight protein language model

Implementation of PocketGen: Generating Full-Atom Ligand-Binding Protein Pockets

Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval

Exploring Evolution-aware & free protein language models as protein function predictors

ProTrek: Navigating the Protein Universe through Tri-Modal Contrastive Learning

Inference code for PoET: A generative model of protein families as sequences-of-sequences

Detection of remote homology by comparison of protein language model representations

PaccMann models for protein language modeling

Protein language model trained on coding DNA

Latent-based Directed Evolution guided by Gradient Ascent for Protein Design

pLM-informed E(3) equivariant deep graph neural networks for protein-nucleic acid binding site prediction

AutoML system for building trustworthy peptide bioactivity predictors

MSAGPT

Structure-aware adapter fine-tuning PLMs, with high training speed and impressive performance (Journal of Chemical Information and Modeling 2024).

An ensemble-based approach for prediction of protein S-nitrosylation sites integrating supervised word embedding and embedding from protein language model

Deep Learning tool trained on protein sequence embeddings from protein language models to accurately detect remote homologues for CATH superfamilies

Simple Contrastive Embedding of the Primary sequence of T cell Receptors

Simple python interface for the OpenProtein.AI REST API.