Saprot: Protein Language Model with Structural Alphabet

Protein Language Model

ProtFlash: A lightweight protein language model

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

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

Directed evolution of proteins in sequence space with gradients

PaccMann models for protein language modeling

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

Protein language model trained on coding DNA

An unofficial re-implementation of AntiBERTy, an antibody-specific protein language model, in PyTorch.

Spectral Framework For AI Model Evaluation

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

In silico protein surgery using ESM.

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

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

AutoML system for building trustworthy peptide bioactivity predictors

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

Published in PLOS ONE. Phage-host interaction prediction tool that uses protein language models to represent the receptor-binding proteins of phages. It presents improvements over using handcrafted sequence properties and eliminates the need to manually extract and select features from phage sequences

Structure-aware adapter fine-tuning PLMs, with high training speed and impressive performance.

Implementation of Abyssal, a deep neural network trained with a new "mega" dataset to predict the impact of an amino acid variant on protein stability.