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Official code repository of "BERTology Meets Biology: Interpreting Attention in Protein Language Models."

Deepaffinity ⭐ 80

Protein-compound affinity prediction through unified RNN-CNN

Transformercpi ⭐ 71

TransformerCPI: Improving compound–protein interaction prediction by sequence-based deep learning with self-attention mechanism and label reversal experiments(BIOINFORMATICS 2020) https://doi.org/10.1093/bioinformatics/btaa524

Factored Attention ⭐ 50

This repository contains code for reproducing results in our paper Interpreting Potts and Transformer Protein Models Through the Lens of Simplified Attention

Protein Localization ⭐ 43

Using Transformer protein embeddings with a linear attention mechanism to make SOTA de-novo predictions for the subcellular location of proteins 🔬

Protein Transformer ⭐ 25

Predicting protein structure through sequence modeling

Farseer Nmr ⭐ 9

A software suite for automatic treatment, analysis and plotting of large and multivariable datasets of bioNMR peaklists.

Mulocdeep ⭐ 8

An implementation of Knowledge-aware attention networks (KAN) for protein-protein extraction task

Struct2graph ⭐ 8

A PyTorch implementation of GCN with mutual attention for protein-protein interaction prediction

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