Research

Digital Biology

Our Digital Biology team leverages advanced machine learning and simulation techniques to revolutionise drug discovery at its core. Collaborating with domain experts, to transform intricate biological data into actionable insights, the team drives breakthroughs in genomics, proteomics, quantum chemistry, and beyond

Decision-Making

Our Decision-Making team pioneers reinforcement learning methods. By building AI systems that drive real-world impact—from chip design to resource management and scientific discovery—the team ensures the next generation of AI agents excels at dynamic decision-making.

ML Systems

Our Machine Learning (ML) systems team transform AI ambitions into practical, adaptable advancements. Driving breakthroughs from foundation models in biology to cutting-edge scientific computing, they tackle novel system challenges in AI infrastructure, enabling efficient large-scale ML algorithms.

Machine Learning

Our Fundamental Machine Learning (ML) team push the boundaries of theory to unlock new pathways for transformative real-world applications. Through exploring the theoretical foundations of modern AI, the team designs robust models and algorithms that power applied innovation.

Our research

NeurIPS 2025

MEMENTO: Memory-Enhanced Neural Solvers for Routing Problems

Breaking the Performance Ceiling in Reinforcement Learning

Oryx: InstaDeep’s scalable sequence model for multi-agent coordination in offline settings

Genome annotation with SegmentNT

Advancing AI with Bayesian Flow Networks

Talking biology with ChatNT

Flexible antibody design with AbBFN2

Enhancing Peptide Sequencing with AI

Exploring the Proteome with ProtBFN

Decoding our Genome with Nucleotide Transformers

See all news

Our publications

Bayes-PD: Exploring a Sequence to Binding Bayesian Neural Network model trained on Phage Display data

Ilann Amiaud-Plachy, Michael Blank, Oliver Bent, Sebastien Boyer

NeurIPS 2025 - Structured Probabilistic Inference & Generative Modeling 08 Jan 2026

GeoGraph: Geometric and Graph-based Ensemble Descriptors for Intrinsically Disordered Proteins

Eoin Quinn, Marco Carobene, Jean Quentin, Sebastien Boyer, Miguel Arbesú, Oliver Bent

NeurIPS 2025 Workshops 05 Jan 2026

Annotating the genome at single-nucleotide resolution with DNA foundation models

Bernardo P. de Almeida, Hugo Dalla-Torre, Guillaume Richard, Christopher Blum, Lorenz Hexemer, Maxence Gélard, Javier Mendoza-Revilla, Ziqi Tang, Frederikke I. Marin, David M. Emms, Priyanka Pandey, Stefan Laurent, Marie Lopez, Alexandre Laterre, Maren Lang, Uğur Şahin, Karim Beguir, Thomas Pierrot

Nature Methods (2025) 05 Jan 2026

A foundational model for joint sequence-function multi-species modeling at scale for long-range genomic prediction

Sam Boshar, Benjamin Evans, Ziqi Tang, Armand Picard, Yanis Adel, Franziska K. Lorbeer, Chandana Rajesh, Tristan Karch, Shawn Sidbon, David Emms, Javier Mendoza-Revilla, Fatimah Al-Ani, Evan Seitz, Yair Schiff, Yohan Bornachot, Ariana Hernandez, Marie Lopez, Alexandre Laterre, Karim Beguir, Peter Koo, Volodymyr Kuleshov, Alexander Stark, Bernardo P. de Almeida, Thomas Pierrot

- 23 Dec 2025

Assessing data size requirements for training generalizable sequence-based TCR specificity models via pan-allelic MHC-I point-mutation ligandome evaluation

Antoine Delaunay, Miles McGibbon, Bachir Djermani, Nikolai Gorbushin, Sergio Chaves García-Mascaraque, Isaac Rayment, Ilya Kizhvatov, Cécile Petit, Maren Lang, Karim Beguir, Ugur Sahin, Liviu Copoiu, Nicolas Lopez Carranza, AndreyTovchigrechko

Scientific Reports 09 Dec 2025

MEMENTO: Memory-Enhanced Neural Solvers for Routing Problems

Felix Chalumeau, Refiloe Shabe, Noah De Nicola, Arnu Pretorius, Thomas D. Barrett, Nathan Grinsztajn

NeurIPS 2025 (Spotlight) 25 Nov 2025

Breaking the Performance Ceiling in ReinforcementLearning requires Inference Strategies

Felix Chalumeau, Daniel Rajaonarivonivelomanantsoa, Ruan de Kock, Claude Formanek, Sasha Abramowitz, Oumayma Mahjoub, Wiem Khlifi, Simon Du Toit, Louay Ben Nessir, Refiloe Shabe, Arnol Fokam, Siddarth Singh, Ulrich Mbou Sob, Arnu Pretorius

NeurIPS 2025 (Oral) 18 Nov 2025

Oryx: a Scalable Sequence Model forMany-Agent Coordination in Offline MARL

Claude Formanek, Omayma Mahjoub, Louay Ben Nessir, Sasha Abramowitz, Ruan de Kock, Wiem Khlifi, Daniel Rajaonarivonivelomanantsoa, Simon Du Toit, Arnol Fokam, Siddarth Singh, Ulrich Mbou Sob, Felix Chalumeau, Arnu Pretorius

NeurIPS 2025 11 Nov 2025

Are genomic language models all you need? Exploring genomic language models on protein downstream tasks

Sam Boshar, Evan Trop, Bernardo P. de Almeida, Liviu Copoiu , Thomas Pierrot

Bioinformatics (2024) 23 Sep 2025

Multi-Agent Reinforcement Learning with Selective State-Space Models

Jemma Daniel, Ruan John de Kock, Louay Ben Nessir , Sasha Abramowitz, Omayma Mahjoub, Wiem Khlifi, Juan Claude Formanek, Arnu Pretorius

AAMAS 2025 19 Sep 2025

Sable: a Performant, Efficient and Scalable Sequence Model for MARL

Omayma Mahjoub, Sasha Abramowitz, Ruan de Kock, Wiem Khlifi, Simon du Toit, Jemma Daniel, Louay Ben Nessir, Claude Formanek, Louise Beyers, Liam Clark, Arnu Pretorius

ICML 2025 31 Jul 2025

Bimodal masked language modeling for bulk RNA-seq and DNA methylation representation learning

Maxence Gélard, Hakim Benkirane, Thomas Pierrot, Guillaume Richard, Paul-Henry Cournède

ICML 2025 Workshop 31 Jul 2025

InstaNovo-P: A de novo peptide sequencing model for phosphoproteomics

Jesper Lauridsen, Pathmanaban Ramasamy , Rachel Catzel, Vahap Canbay, Amandla Mabona, Kevin Eloff, Paul Fullwood, Jennifer Ferguson, Annekatrine Kirketerp-Møller, Ida Sofie Goldschmidt, Tine Claeys, Sam van Puyenbroeck, Santiago Nicolas Lopez Carranza, Erwin M. Schoof, Lennart Martens, Jeroen Van Goey, Chiara Frankavilla, Timothy Patrick Jenkins, Konstantinos Kalogeropoulos

- 29 Jul 2025

ChatNT: A Multimodal Conversational Agent for DNA, RNA and Protein Tasks

Bernardo P. de Almeida, Guillaume Richard, Hugo Dalla-Torre, Christopher Blum, Lorenz Hexemer, Priyanka Pandey, Stefan Laurent, Chandana Rajesh, Marie Lopez, Alexandre Laterre, Maren Lang, Uğur Şahin, Karim Beguir, Thomas Pierrot

Nature Machine Intelligence (2025) 04 Jul 2025

Unified framework for matchgate classical shadows

Valentin Heyraud, Héloise Chomet, Jules Tilly

npj Quantum Information 04 Jul 2025

Leveraging State Space Models in Long Range Genomics

Matvei Popov, Aymen Kallala, Anirudha Ramesh, Narimane Hennouni, Shivesh Khaitan , Rick Gentry, Alain-Sam Cohen

ICLR LMRL (2025) 12 May 2025

Open-Source and FAIR Research Software for Proteomics

Lukas Käll, Yasset Perez-Riverol, Wout Bittremieux, William S. Noble, Lennart Martens, Aivett Bilbao, Michael R. Lazear, Bjorn Grüning, Daniel S. Katz, Michael J. MacCoss, Chengxin Dai, Jimmy K. Eng, Robbin Bouwmeester, Michael R. Shortreed, Enrique Audain, Timo Sachsenberg, Jeroen Van Goey, Georg Wallmann, Bo Wen, William E. Fondrie

- 12 May 2025

AbBFN2: A flexible antibody foundation model based on Bayesian Flow Networks

Bora Guloglu, Miguel Bragança, Alex Graves, Scott Cameron, Timothy Atkinson, Liviu Copoiu, Alexandre Laterre, Thomas D. Barrett

- 06 May 2025

Metalic: Meta-Learning In-Context with Protein Language Models

Jacob Beck, Shikha Surana, Manus McAuliffe, Oliver Bent, Thomas D. Barrett, Juan Jose Garau Luis, Paul Duckworth

ICLR 2025 04 Apr 2025

Simple Guidance Mechanisms for Discrete Diffusion Models

Hugo Dalla-Torre, Sam Boshar, Bernardo P. de Almeida, Thomas Pierrot, Yair Schiff, Subham Sekhar Sahoo, Hao Phung, Guanghan Wang, Alexander Rush, Volodymyr Kuleshov

ICLR 2025 03 Apr 2025

De novo peptide sequencing with InstaNovo: Accurate, database-free peptide identification for large scale proteomics experiments

Kevin Eloff, Konstantinos Kalogeropoulos, Oliver Morell, Amandla Mabona, Jakob Berg Jespersen, Wesley WIlliams, Sam P. B. van Beljouw, Marcin Skwark, Andreas Hougaard Laustsen, Stan J. J. Brouns, Erwin M. Schoof, Jeroen Van Goey, Ulrich auf dem Keller, Karim Beguir, Nicolas Lopez Carranza, Timothy P. Jenkins

Nature Machine Intelligence 31 Mar 2025

Bayesian Optimisation for Protein Sequence Design: Gaussian Processes with Zero-Shot Protein Language Model Prior Mean

Carolin Benjamins, Shikha Surana, Oliver Bent , Marius Lindauer, Paul Duckworth

NeurIPS 2024 workshop 19 Dec 2024

BulkRNABert: Cancer prognosis from bulk RNA-seq based language models

Maxence Gélard, Guillaume Richard, Thomas Pierrot, Paul-Henry Cournède

ML4H 2024 15 Dec 2024

BoostMD – Accelerating MD with MLIP

Lars L. Schaaf, Ilyes Batatia, Christoph Brunken, Thomas D. Barrett, Jules Tilly

NeurIPS 2024 workshop 15 Dec 2024

Learning the Language of Protein Structures

Benoit Gaujac, Jérémie Donà, Liviu Copoiu, Timothy Atkinson, Thomas Pierrot, Thomas D. Barrett

NeurIPS 2024 workshop 15 Dec 2024

Bayesian Optimisation for Protein Sequence Design: Back to Basics with Gaussian Process Surrogates

Carolin Benjamins, Shikha Surana, Oliver Bent, Marius Lindauer, Paul Duckworth

NeurIPS 2024 workshop 14 Dec 2024

Multi-modal Transfer Learning between Biological Foundation Models

Juan Jose Garau-Luis, Patrick Bordes, Liam Gonzalez, Masa Roller, Bernardo P. de Almeida, Lorenz Hexemer, Christopher Blum, Stefan Laurent, Jan Grzegorzewski, Maren Lang, Thomas Pierrot, Guillaume Richard

NeurIPS 2024 12 Dec 2024

Dispelling the Mirage of Progress in Offline MARL

Claude Formanek, Callum Rhys Tilbury, Louise Beyers, Jonathan Shock, Arnu Pretorius

NeurIPS 2024 12 Dec 2024

SPO: Sequential Policy Optimisation

Matthew V Macfarlane, Edan Toledo, Donal Byrne, Paul Duckworth, Alexandre Laterre

NeurIPS 2024 11 Dec 2024

Nucleotide Transformer: building and evaluating robust foundation models for human genomics

Hugo Dalla-Torre, Liam Gonzalez, Javier Mendoza-Revilla, Nicolas Lopez Carranza, Adam Henryk Grzywaczewski, Francesco Oteri, Christian Dallago, Evan Trop, Bernardo P. de Almeida, Hassan Sirelkhatim, Guillaume Richard, Marcin Skwark, Karim Beguir, Marie Lopez , Thomas Pierrot

Nature Methods 2024 28 Nov 2024

Protein Sequence Modelling with Bayesian Flow Networks

Timothy Atkinson, Thomas D. Barrett, Scott Cameron, Bora Guloglu, Matthew Greenig, Louis Robinson, Alex Graves, Liviu Copoiu, Alexandre Laterre

- 27 Sep 2024

SMX: Sequential Monte Carlo Planning for Expert Iteration

Edan Toledo, Matthew Macfarlane, Donal John Byrne, Siddarth Singh, Paul Duckworth, Alexandre Laterre

ICML 2024 17 Jul 2024

Multi-Objective Quality-Diversity for Crystal Structure Prediction

Hannah Janmohamed, Marta Wolinska, Shikha Surana, Aaron Walsh, Thomas Pierrot, Antoine Cully

Gecco 2024 17 Jul 2024

Overconfident Oracles: Limitations of In Silico Sequence Design Benchmarking

Shikha Surana, Nathan Grinsztajn, Timothy Atkinson, Paul Duckworth, Thomas D. Barrett

ICML 2024 workshop 17 Jul 2024

Generative Model for Small Molecules with Latent Space RL Fine-Tuning to Protein Targets

Ulrich A. Mbou So, Qiulin Li, Dries Smit, Arnu Pretorius, Oliver Bent, Miguel Arbesú

ICML 2024 workshop 17 Jul 2024

Should we be going MAD? A Look at Multi-Agent Debate Strategies for LLMs

Andries Petrus Smit, Nathan Grinsztajn, Paul Duckworth, Thomas D Barrett, Arnu Pretorius

ICML 2024 17 Jul 2024

Quality-Diversity for One-Shot Biological Sequence Design

Jérémie DONA, Arthur Flajolet, Andrei Marginean, Antoine Cully, Thomas PIERROT

ICML 2024 17 Jul 2024

Likelihood-based fine-tuning of protein language models for few-shot fitness prediction and design

Alex Hawkins-Hooker, Jakub Kmec, Oliver Bent , Paul Duckworth

ICML 2024 workshop 17 Jul 2024

A large language foundational model for edible plant genomes

Javier Mendoza-Revilla, Evan Trop, Liam Gonzalez, Maša Roller, Hugo Dalla-Torre, Bernado de Almedia, Nicolas Lopez Carranza, Guillaume Richard, Marcin Skwark , Karim Beguir, Thomas Pierrot, Marie Lopez

Nature Communications Biology 2024 17 Jul 2024

Coordination Failure in Cooperative Offline MARL

Callum Rhys Tilbury, Claude Formanek, Louise Beyers, Jonathan Shock, Arnu Pretorius

ICML 2024 ARLET Workshop 17 Jul 2024

Machine Learning of Force Fields for Molecular Dynamics Simulations of Proteins at DFT Accuracy

Mustafa Omar, Sebastien Boyer, Christoph Brunken, Bakary Diallo, Nicolas Lopez Carranza, Oliver Bent

ICLR 2024 GEM Workshop 03 May 2024

Model-Based Reinforcement Learning for Protein Backbone Design

Frédéric Renard, Cyprien Courtot, Oliver Bent

ICLR 2024 GEM Workshop 03 May 2024

Protein binding affinity prediction under multiple substitutions based on eGNNs with residue and atomic graphs and language model information: eGRAL

Arturo Fiorellini-Bernardis, Sebastien Boyer, Christoph Brunken, Bakary Diallo, Karim Beguir, Nicolas Lopez Carranza, Oliver Bent

ICLR 2024 GEM Workshop 03 May 2024

Exploring Genomic Language Models on Protein Downstream Tasks

Sam Boshar, Evan Trop, Bernardo P. de Almeida, Thomas Pierrot

LLMs4Bio AAAI 2024 | MLGenX ICLR 2024 02 May 2024

Advancing DNA Language Models: The Genomics Long-Range Benchmark

Chia-Hsiang Kao, Evan Trop, McKinley Polen, Yair Schiff, Bernardo P. de Almeida, Aaron Gokaslan, Thomas Pierrot, Volodymyr Kuleshov

LLMs4Bio AAAI 2024 | MLGenX ICLR 2024 02 May 2024

ChatNT: A Multimodal Conversational Agent for DNA, RNA and Protein Tasks

Guillaume Richard*, Bernardo P. de Almeida*, Hugo Dalla-Torre, Christopher Blum, Lorenz Hexemer, Priyanka Pandey, Stefan Laurent, Marie Lopez, Alexandre Laterre, Maren Lang, Ugur Sahin, Karim Beguir, Thomas Pierrot

- 30 Apr 2024

SegmentNT: annotating the genome at single-nucleotide resolution with DNA foundation models

Bernardo P. de Almeida, Hugo Dalla-Torre, Guillaume Richard, Christopher Blum, Lorenz Hexemer, Maxence Gelard, Priyanka Pandey, Stefan Laurent, Alexandre Laterre, Maren Lang, Ugur Sahin, Karim Beguir, Thomas Pierrot

- 14 Mar 2024

Jumanji: a Diverse Suite of Scalable Reinforcement Learning Environments in JAX

Clément Bonnet, Daniel Luo, Donal Byrne, Shikha Surana, Vincent Coyette, Paul Duckworth, Laurence I. Midgley, Tristan Kalloniatis, Sasha Abramowitz, Cemlyn N. Waters, Andries P. Smit, Nathan Grinsztajn, Ulrich A. Mbou Sob, Omayma Mahjoub, Elshadai Tegegn, Mohamed A. Mimouni, Raphael Boige, Ruan de Kock, Daniel Furelos-Blanco, Victor Le, Arnu Pretorius, Alexandre Laterre

ICLR 2024 14 Mar 2024

How much can change in a year? Revisiting Evaluation in Multi-Agent Reinforcement Learning

Omayma Mahjoub, Ruan de Kock, Siddarth Singh, Wiem Khlifi, Abidine Vall, Kale-ab Tessera, Arnu Pretorius

AAAI workshop 13 Mar 2024

On Diagnostics for Understanding Agent Training Behaviour in Cooperative MARL

Omayma Mahjoub, Ruan de Kock, Siddarth Singh, Wiem Khlifi, Abidine Vall, Rihab Gorsane, Arnu Pretorius

AAAI workshop 13 Mar 2024

Efficiently Quantifying Individual Agent Importance in Cooperative MARL

Omayma Mahjoub, Ruan de Kock, Siddarth Singh, Wiem Khlifi, Abidine Vall, Rihab Gorsane, Arnu Pretorius

AAAI workshop 13 Mar 2024

TunBERT: Pretrained Contextualized Text Representation for Tunisian Dialect

Hatem Haddad, Abir Messaoudi, Chayma Fourati, Moez Ben HajHmida, Ahmed Cheikh Rouhou, Abir Korched, Amel Sellami, Faten Ghriss

- 12 Mar 2024

Graph Neural Networks for End-to-End Information Extraction from Handwritten Documents

Yessine Khanfir, Marwa Dhiaf, Emna Ghodhbani, Ahmed Cheikh Rouhou, Yousri Kessentini

WACV 2024 12 Mar 2024

BioCLIP: Contrasting Sequence with Structure: Pre-training Graph Representations with Protein Language Models

Louis Robinson, Timothy Atkinson, Liviu Copoiu, Patrick Bordes , Thomas Pierrot , Thomas D. Barrett

NeurIPS workshop 15 Dec 2023

Generalisable Agents for Neural Network Optimisation

Kale-ab Tessera, Callum Rhys Tilbury, Sasha Abramowitz, Ruan de Kock, Omayma Mahjoub, Benjamin Rosman, Sara Hooker, Arnu Pretorius

NeurIPS workshop 15 Dec 2023

Offline RL for generative design of protein binders

Denis Tarasov, Ulrich A. Mbou Sob , Miguel Arbesú, Nima Siboni, Sebastien Boyer , Andries Smit, Oliver Bent, Arnu Pretorius

NeurIPS workshop 15 Dec 2023

Preferential Bayesian Optimisation for Protein Design with Fine-Tuned Protein Language Model Ensembles

Alex Hawkins-Hooker , Paul Duckworth, Oliver Bent

NeurIPS workshop 15 Dec 2023

FrameDiPT: SE(3) Diffusion Model for Protein Structure Inpainting

Cheng Zhang, Adam Leach, Tom Makkink, Miguel Arbesu, Ibtissem Kadri, Daniel Luo, Liron Mizrahi , Sabrine Krichen, Maren Lang , Andrey Tovchigrechko , Nicolas Lopez Carranza, Ugur Sahin, Karim Beguir , Michael Rooney , Yunguan Fu

NeurIPS workshop 15 Dec 2023

Are we going MAD? Benchmarking Multi-Agent Debate between Language Models for Medical Q&A

Dries Smit, Paul Duckworth, Nathan Grinsztajn, Kale-ab Tessera, Tom Barrett, Arnu Pretorius

NeurIPS workshop 15 Dec 2023

LightMHC: A Light Model for pMHC Structure Prediction with Graph Neural Networks

Antoine Delaunay , Yunguan Fu, Nikolai Gorbushin, Robert McHardy, Bachir Djermani , Liviu Copoiu, Michael Rooney, Maren Lang, Andrey Tovchigrechko , Ugur Sahin, Karim Beguir , Nicolas Lopez Carranza

NeurIPS workshop 15 Dec 2023

PASTA: Pretrained Action-State Transformer Agents

Raphael Boige, Yannis Flet-Berliac, Arthur Flajolet, Guillaume Richard, Thomas Pierrot

NeurIPS workshop 15 Dec 2023

Combinatorial Optimization with Policy Adaptation using Latent Space Search

Felix Chalumeau, Shikha Surana, Clement Bonnet, Nathan Grinsztajn, Arnu Pretorius, Alexandre Laterre, Thomas D. Barrett

NeurIPS workshop 11 Dec 2023

Nonparametric Boundary Geometry in Physics Informed Deep Learning

Scott Cameron, Arnu Pretorius, Stephen Roberts

NeurIPS 11 Dec 2023

Winner Takes It All: Training Performant RL Populations for Combinatorial Optimization

Nathan Grinsztajn, Daniel Furelos Blanco (internship), Tom Barrett, Shikha Surana, Clément Bonnet, Thomas Barrett

NeurIPS 11 Dec 2023

Optimizing Empty Container Repositioning and Fleet Deployment via Configurable Semi-POMDPs

Riccardo Poiani, Ciprian Stirbu, Alberto Maria Metelli, Marcello Restelli

IEEE Transactions on Intelligent Transportation Systems 01 Dec 2023

Progressive loss of conserved spike protein neutralizing antibody sites in Omicron sublineages is balanced by preserved T cell immunity

Alexander Muik, Bonny Gaby Lui, Jasmin Quandt, Huitian Diao, Yunguan Fu, Maren Bacher, Jessica Gordon, Aras Toker, Jessica Grosser, Orkun Ozhelvaci, Katharina Grikscheit, Sebastian Hoehl, Niko Kohmer, Yaniv Lustig, Gili Regev-Yochay, Sandra Ciesek, Karim Beguir, Asaf Poran, Isabel Vogler, Ozlem Tureci, Ugur Sahin

Cell Report 29 Aug 2023

QDax: A Library for Quality-Diversity and Population-based Algorithms with Hardware Acceleration

Felix Chalumeau, Bryan Lim, Raphael Boige, Maxime Allard, Luca Grillotti, Manon Flageat, Valentin Mace , Guillaume Richard , Arthur Flajolet, Thomas Pierrot, Antoine Cully

JMLR - Machine Learning Open Source Software (2023) 07 Aug 2023

The Quality-Diversity Transformer: Generating Behavior-Conditioned Trajectories with Decision Transformers

Valentin Macé, Raphaël Boige, Felix Chalumeau, Thomas Pierrot, Guillaume Richard, Nicolas Perrin-Gilbert

GECCO 17 Jul 2023

MAP-Elites with Descriptor-Conditioned Gradients and Archive Distillation into a Single Policy

Maxence Faldor, Felix Chalumeau,, Manon Flageat, Antoine Cully

GECCO 17 Jul 2023

Gradient-Informed Quality Diversity for the Illumination of Discrete Spaces

Raphael Boige, Guillaume Richard, Jérémie Dona, Thomas Pierrot , Antoine Cully

GECCO 15 Jul 2023

The challenge of redundancy on multi-agent value factorisation

Siddarth Singh, Benjamin Rosman

AAMAS Journal 02 Jun 2023

Predicting protein stability changes under multiple amino acid substitutions using equivariant graph neural networks

Sebastien Boyer, Sam Money-Kyrle, Oliver Bent

ICLR Workshop 05 May 2023

Reduce, Reuse, Recycle: Selective Reincarnation in Multi-Agent Reinforcement Learning

Claude Formanek, Callum Rhys Tilbury, Jonathan Shock, Kale-ab Tessera, Arnu Pretorius

ICLR Workshop 05 May 2023

Neuroevolution is a Competitive Alternative to Reinforcement Learning for Skill Discovery

Felix Chalumeau, Raphael Boige, Bryan Lim, Valentin Macé, Maxime Allard, Arthur Flajolet, Antoine Cully, Thomas Pierrot

ICLR 01 May 2023

Evolving Populations of RL Algorithms with MAP-Elites

Thomas Pierrot, Arthur Flajolet

ICLR 01 May 2023

Empirical Analysis of PGA-MAP-Elites for Neuroevolution in Uncertain Domains

John Smith, Felix Chalumeau, Antoine Cully

ACM Transactions on Evolutionary Learning and Optimization 29 Mar 2023

Scaling multi-agent reinforcement learning to full 11 vs 11 simulated robotic football

Andries Smit, Herman A. Engelbrecht, Willie Brink, Arnu Pretorius

AAMAS Journal 24 Feb 2023

Reinforcement Learning for Branch-and-Bound Optimisation using Retrospective Trajectories

Christopher W.F. Parsonson, Alexandre Laterre, Thomas D Barrett

AAAI 13 Feb 2023

Exact Combinatorial Optimisation with Deep Reinforcement Learning

Christopher W. F. Parsonson, Alexandre Laterre, Thomas D. Barrett

AAAI 06 Feb 2023

Off-the-Grid MARL: Datasets and Baselines for Cooperative Offline Multi-Agent Reinforcement Learning

Claude Formanek, Asad Jeewa, Jonathan Shock, Arnu Pretorius

- 01 Feb 2023

Early Computational Detection of Potential High Risk SARS-CoV-2 Variants

Karim Beguir, Marcin J Skwark, Yunguan Fu, Thomas Pierrot, Santiago Nicolas Lopez Carranza, Alexandre Laterre, Ibtissem Kadri, Bonny Gaby Lui, Bianca Sanger, Yunpeng Liu, Asaf Poran, Alexander Muik, Ugur Sahin

Computers in Biology and Medicine 23 Jan 2023

Peptide-MHC Structure Prediction With Mixed Residue and Atom Graph Neural Network

Antoine P. Delaunay, Yunguan Fu, Alberto Bégué, Robert McHardy, Bachir A. Djermani, Michael Rooney, Andrey Tovchigrechko, Liviu Copoiu, Marcin J. Skwark, Nicolas Lopez Carranza, Maren Lang, Karim Beguir, Uğur Şahin

NeurIPS Workshop 04 Dec 2022

Flow Annealed Importance Sampling Bootstrap

Laurence Illing Midgley, Vincent Stimper, Gregor Simm, Bernhard Scholkopf,, José Miguel Hernández-Lobato

NeurIPS Workshop 02 Dec 2022

So ManyFolds, So Little Time: Efficient Protein Structure Prediction with pLMs and MSAs

Thomas D. Barrett, Amelia Villegas-Morcillo, Louis Robinson, Benoit Gaujac, David Adméte, Elia Saquand, Karim Beguir, Arthur Flajolet

NeurIPS 01 Dec 2022

Debiasing Meta-Gradients for Self-Tuning Reinforcement Learning

Clément Bonnet, Laurence Illing Midgley, Alexandre Laterre

NeurIPS Workshop 01 Dec 2022

Universally Expressive Communication in Multi-Agent Reinforcement Learning

Matthew Morris, Thomas D. Barrett, Arnu Pretorius

NeurIPS 01 Dec 2022

Towards a Standardised Performance Evaluation Protocol for Cooperative MARL

Rihab Gorsane, Omayma Mahjoub, Ruan de Kock, Roland Dubb, Siddarth Singh, Arnu Pretorius

NeurIPS 01 Oct 2022

A Sequence Modelling Approach to Question Answering in Text-Based Games

Greg Furman, Edan Toledo, Jonathan Shock, Jan Buys

NA ACL Workshop 14 Jul 2022

Assessing Quality-Diversity Neuro-Evolution Algorithms Performance in Hard Exploration Problems

Félix Chalumeau, Thomas Pierrot, Arthur Flajolet, Karim Beguir, Antoine Cully, Nicolas Perrin-Gilbert

GECCO Workshop 09 Jul 2022

Multi-Objective Quality Diversity Optimization

Thomas Pierrot, Guillaume Richard, Karim Beguir, Antoine Cully

GECCO 09 Jul 2022

Fast Population-Based Reinforcement Learning on a Single Machine

Arthur Flajolet, Claire Bizon Monroc, Karim Beguir, Thomas Pierrot

ICML 17 Jun 2022

The structural basis of Cdc7-Dbf4 kinase dependent targeting and phosphorylation of the MCM2-7 double hexamer

Almutasem Saleh, Yasunori Noguchi, Ricardo Aramayo, Marina E. Ivanova , Kathryn M. Stevens , Alex Montoya, S. Sunidhi, Nicolas Lopez Carranza , Marcin J. Skwark, Christian Speck

Nature Communications 25 May 2022

Diversity Policy Gradient for Sample Efficient Quality-Diversity Optimization

T. Pierrot, V. Macé, F. Chalumeau, A. Flajolet, G. Cideron, K. Beguir, A. Cully, O. Sigaud, N. Perrin-Gilbert

ICLR, GECCO 28 Apr 2022

Autoregressive neural-network wavefunctions for ab initio quantum chemistry

Dr Thomas Barrett, Prof A. I. Lvovsky , Aleksei Malyshev

Nature Machine Intelligence 06 Apr 2022

Robust and Scalable SDE Learning: a Functional Perspective

Scott Cameron, Tyron Cameron, Arnu Pretorius, Stephen Roberts

ICLR 24 Jan 2022

One Step at a Time: Pros and Cons of Multi-Step Meta-Gradient Reinforcement Learning

C. Bonnet, P. Caron, T. Barrett, I. Davies, A. Laterre

NeurIPS Workshop 2021 06 Dec 2021

On pseudo-absence generation and machine learning for locust breeding ground prediction in Africa

I.S. Yusuf, K. Tessera, T. Tumiel, Z. Slim, A. Kerkeni, S. Nevo, A. Pretorius

NeurIPS Workshop 2021 06 Dec 2021

Causal Multi-Agent Reinforcement Learning: Review and Open Problems

S.J. Grimbly, J. Shock, A. Pretorius

NeurIPS Workshop 2021 06 Dec 2021

Mava: A new Framework for Distributed Multi-Agent Reinforcement Learning

A. Pretorius, K. Tessera, A.P. Smit, C. Formanek, S.J. Grimbly, K. Eloff, S. Danisa, L. Francis, J. Shock, H. Kamper, W. Brink, H. Engelbrecht, A. Laterre, K. Beguir

- 06 Jul 2021

Scaling Properties of Deep Residual Networks

A-S. Cohen, R. Cont, A. Rossier, R. Xu

ICML 27 May 2021

Designing a Prospective COVID-19 Therapeutic with Reinforcement Learning

M. J. Skwark, N. L. Carranza, T. Pierrot, J. Phillips, S. Said, A. Laterre, A. Kerkeni, U. Sahin, K. Beguir

NeurIPS 09 Dec 2020

Offline Reinforcement Learning Hands-On

Louis Monier, Jakub Kmec, Alexandre Laterre, Thomas Pierrot, Valentin Courgeau, Olivier Sigaud, Karim Beguir

NeurIPS Workshop 01 Dec 2020

A game-theoretic analysis of networked system control for common-pool resource management using multi-agent reinforcement learning

A. Pretorius, S. Cameron, E. Van Biljon, T. Makkink, S. Mawjee, J. Du Plessis, J. Shock, A. Laterre, K. Beguir

NeurIPS 2020 29 Sep 2020

AlphaNPI-X: Learning Compositional Neural Programs for Continuous Control

T. Pierrot, N. Perrin, F. Behbahani, A. Laterre, O. Sigaud, K. Beguir, N. De Freitas

- 27 Jul 2020

Towards a Better Understanding of Genetic Operators for Ordering Optimization: Application to the Capacitated Vehicle Routing Problem

Rihab Gorsane, Khalil Gorsan Mestiri, Sana Ben Hamid

ICSOFT 07 Jul 2020

Masakhane — Machine Translation For Africa

I. Orife, J. Kreutzer, B. Sibanda, D. Whitenack, K. Siminyu, L. Martinus, J. T. Ali, J. Abbott, V. Marivate, S. Kabongo, M. Meressa, E. Murhabazi, O. Ahia, E. van Biljon, A. Ramkilowan, A. Akinfaderin, A. Öktem, W. Akin, G. Kioko, K. Degila, H. Kamper, B. Dossou, C. Emezue, K. Ogueji, A. Bashir

ICLR 27 Mar 2020

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Digital Biology

Decision-Making

ML Systems

Machine Learning

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NeurIPS 2025

MEMENTO: Memory-Enhanced Neural Solvers for Routing Problems

Breaking the Performance Ceiling in Reinforcement Learning

Oryx: InstaDeep’s scalable sequence model for multi-agent coordination in offline settings

Genome annotation with SegmentNT

Advancing AI with Bayesian Flow Networks

Talking biology with ChatNT

Flexible antibody design with AbBFN2

Enhancing Peptide Sequencing with AI

Exploring the Proteome with ProtBFN

Decoding our Genome with Nucleotide Transformers

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