license: cc-by-nc-4.0
FlashPPI: Linear-time prediction of proteome-scale microbial protein interactions
NEW: FlashPPI2 is the latest version of FlashPPI which includes training on high-confidence AFDB heterodimer complexes, improving AUPRC by 17% of the tattabio/ecoli_pdb_benchmark
The original FlashPPI model is available at tattabio/flashppi.
Web Server
FlashPPI is integrated into seqhub.org. You can upload a FASTA and interactively explore whole-proteome networks and contact maps. Explore an example network here.
Usage
See the github repo https://github.com/TattaBio/flashppi for usage and inference scripts.
License
The model code and inference scripts in the GitHub repo are licensed under the Apache License 2.0.
The FlashPPI model weights are hosted on Hugging Face and released under the Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) license. The weights are freely available for academic and research purposes.
Citing
If you use FlashPPI or our datasets in your research, please cite:
@article{
doi:10.1073/pnas.2610619123,
author = {Andre Cornman and Matt Tranzillo and Nicolo G. Zulaybar and Imane Bouzit and Yunha Hwang },
title = {Linear-time prediction of proteome-scale microbial protein interactions},
journal = {Proceedings of the National Academy of Sciences},
volume = {123},
number = {25},
pages = {e2610619123},
year = {2026},
doi = {10.1073/pnas.2610619123},
URL = {https://www.pnas.org/doi/abs/10.1073/pnas.2610619123},
eprint = {https://www.pnas.org/doi/pdf/10.1073/pnas.2610619123},
}