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Tommi Jaakkola

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Dirichlet Flow Matching with Applications to DNA Sequence Design

Feb 08, 2024
Hannes Stark, Bowen Jing, Chenyu Wang, Gabriele Corso, Bonnie Berger, Regina Barzilay, Tommi Jaakkola

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Generative Flows on Discrete State-Spaces: Enabling Multimodal Flows with Applications to Protein Co-Design

Feb 07, 2024
Andrew Campbell, Jason Yim, Regina Barzilay, Tom Rainforth, Tommi Jaakkola

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AlphaFold Meets Flow Matching for Generating Protein Ensembles

Feb 07, 2024
Bowen Jing, Bonnie Berger, Tommi Jaakkola

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Sample, estimate, aggregate: A recipe for causal discovery foundation models

Feb 02, 2024
Menghua Wu, Yujia Bao, Regina Barzilay, Tommi Jaakkola

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Correcting Diffusion Generation through Resampling

Dec 10, 2023
Yujian Liu, Yang Zhang, Tommi Jaakkola, Shiyu Chang

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Equivariant Scalar Fields for Molecular Docking with Fast Fourier Transforms

Dec 07, 2023
Bowen Jing, Tommi Jaakkola, Bonnie Berger

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Fast non-autoregressive inverse folding with discrete diffusion

Dec 05, 2023
John J. Yang, Jason Yim, Regina Barzilay, Tommi Jaakkola

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Risk-Controlling Model Selection via Guided Bayesian Optimization

Dec 04, 2023
Bracha Laufer-Goldshtein, Adam Fisch, Regina Barzilay, Tommi Jaakkola

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Removing Biases from Molecular Representations via Information Maximization

Dec 01, 2023
Chenyu Wang, Sharut Gupta, Caroline Uhler, Tommi Jaakkola

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Learning Interatomic Potentials at Multiple Scales

Oct 20, 2023
Xiang Fu, Albert Musaelian, Anders Johansson, Tommi Jaakkola, Boris Kozinsky

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