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Richard Bonneau

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OpenProteinSet: Training data for structural biology at scale

Aug 10, 2023
Gustaf Ahdritz, Nazim Bouatta, Sachin Kadyan, Lukas Jarosch, Daniel Berenberg, Ian Fisk, Andrew M. Watkins, Stephen Ra, Richard Bonneau, Mohammed AlQuraishi

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AbDiffuser: Full-Atom Generation of In-Vitro Functioning Antibodies

Jul 28, 2023
Karolis Martinkus, Jan Ludwiczak, Kyunghyun Cho, Wei-Ching Lian, Julien Lafrance-Vanasse, Isidro Hotzel, Arvind Rajpal, Yan Wu, Richard Bonneau, Vladimir Gligorijevic, Andreas Loukas

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Protein Discovery with Discrete Walk-Jump Sampling

Jun 08, 2023
Nathan C. Frey, Daniel Berenberg, Karina Zadorozhny, Joseph Kleinhenz, Julien Lafrance-Vanasse, Isidro Hotzel, Yan Wu, Stephen Ra, Richard Bonneau, Kyunghyun Cho, Andreas Loukas, Vladimir Gligorijevic, Saeed Saremi

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Dictionary-Assisted Supervised Contrastive Learning

Oct 27, 2022
Patrick Y. Wu, Richard Bonneau, Joshua A. Tucker, Jonathan Nagler

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A Pareto-optimal compositional energy-based model for sampling and optimization of protein sequences

Oct 19, 2022
Nataša Tagasovska, Nathan C. Frey, Andreas Loukas, Isidro Hötzel, Julien Lafrance-Vanasse, Ryan Lewis Kelly, Yan Wu, Arvind Rajpal, Richard Bonneau, Kyunghyun Cho, Stephen Ra, Vladimir Gligorijević

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PropertyDAG: Multi-objective Bayesian optimization of partially ordered, mixed-variable properties for biological sequence design

Oct 08, 2022
Ji Won Park, Samuel Stanton, Saeed Saremi, Andrew Watkins, Henri Dwyer, Vladimir Gligorijevic, Richard Bonneau, Stephen Ra, Kyunghyun Cho

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Multi-segment preserving sampling for deep manifold sampler

May 09, 2022
Daniel Berenberg, Jae Hyeon Lee, Simon Kelow, Ji Won Park, Andrew Watkins, Vladimir Gligorijević, Richard Bonneau, Stephen Ra, Kyunghyun Cho

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