publications

2026

1. bioRxiv

   pLM representations unlock metagenomic space beyond homology

   Lola Le Breton, David Heurtel-Depeiges, Douglas C. Millar, Lara E. Zetzsche, Robert M. Vernon, and 3 more authors

   bioRxiv, 2026

   DOI Bib PDF

   @article{lebreton2026plm,
     title = {pLM representations unlock metagenomic space beyond homology},
     author = {Le Breton, Lola and Heurtel-Depeiges, David and Millar, Douglas C. and Zetzsche, Lara E. and Vernon, Robert M. and Langmead, Christopher James and Chandar, Sarath and Fournier, Quentin},
     year = {2026},
     journal = {bioRxiv},
     doi = {10.64898/2026.07.28.739874},
     url = {https://www.biorxiv.org/content/10.64898/2026.07.28.739874v1},
   }

2025

1. arXiv

   Structure-Aligned Protein Language Model

   Can Chen^*, David Heurtel-Depeiges^*, Robert M. Vernon, Christopher James Langmead, Yoshua Bengio, and 1 more author

   arXiv preprint arXiv:2505.16896. *Equal contribution , 2025

   Bib PDF

   @article{chen2025structure,
     title = {Structure-Aligned Protein Language Model},
     author = {Chen, Can and Heurtel-Depeiges, David and Vernon, Robert M. and Langmead, Christopher James and Bengio, Yoshua and Fournier, Quentin},
     year = {2025},
     journal = {arXiv preprint arXiv:2505.16896},
     url = {https://arxiv.org/abs/2505.16896},
   }

2. ICML

   Compression via Pre-trained Transformers: A Study on Byte-Level Multimodal Data

   David Heurtel-Depeiges^*, Anian Ruoss^*, Joel Veness, and Tim Genewein

   Forty-second International Conference on Machine Learning. *Equal contribution , 2025

   To appear in ICML 2025

   PDF

2024

1. ICML

   

   Listening to the noise: Blind Denoising with Gibbs Diffusion

   David Heurtel-Depeiges, Charles Margossian, Ruben Ohana, and Bruno Régaldo-Saint Blancard

   In Forty-first International Conference on Machine Learning, 2024

   Bib PDF Code Poster

   @inproceedings{heurte2023listening,
     title = {Listening to the noise: Blind Denoising with Gibbs Diffusion},
     author = {Heurtel-Depeiges, David and Margossian, Charles and Ohana, Ruben and R{\'e}galdo-Saint Blancard, Bruno},
     booktitle = {Forty-first International Conference on Machine Learning},
     year = {2024},
     url = {https://openreview.net/forum?id=rmEgJ7bhuZ},
   }

2023

1. ML4PS NeurIPS

   Removing Dust from CMB Observations with Diffusion Models

   David Heurtel-Depeiges, Blakesley Burkhart, Ruben Ohana, and Bruno Régaldo-Saint Blancard

   ML for the Physical Sciences Workshop, NeurIPS, 2023

   Oral presentation

   PDF