Notin, Pascal

18 publications

ICML 2025 Protriever: End-to-End Differentiable Protein Homology Search for Fitness Prediction Ruben Weitzman, Peter Mørch Groth, Lood Van Niekerk, Aoi Otani, Yarin Gal, Debora Susan Marks, Pascal Notin

ICLRW 2025 Protriever: End-to-End Differentiable Protein Homology Search for Fitness Prediction Ruben Weitzman, Peter Mørch Groth, Aoi Otani, Debora Susan Marks, Yarin Gal, Pascal Notin

ICLRW 2025 RNAGym: Benchmarks for RNA Fitness and Structure Prediction Rohit Arora, Murphy Angelo, Christian Andrew Choe, Aaron W Kollasch, Fiona Qu, Courtney A. Shearer, Ruben Weitzman, Artem Gazizov, Sarah Gurev, Erik Xie, Debora Susan Marks, Pascal Notin

ICLRW 2025 Residue-Level Text Conditioning for Protein Language Model Mutation Effect Prediction Dan Berenberg, Nate Gruver, Alan Nawzad Amin, Peter Mørch Groth, Leo Chen, Harsh R. Srivastava, Pascal Notin, Debora Susan Marks, Andrew Gordon Wilson, Kyunghyun Cho, Richard Bonneau

ICLRW 2025 Sampling Protein Language Models for Functional Protein Design Jeremie Theddy Darmawan, Yarin Gal, Pascal Notin

CLeaR 2025 The CausalBench Challenge: A Machine Learning Contest for Gene Network Inference from Single-Cell Perturbation Data Mathieu Chevalley, Jacob Sackett-Sanders, Yusuf H Roohani, Pascal Notin, Artemy Bakulin, Dariusz Brzezinski, Kaiwen Deng, Yuanfang Guan, Justin Hong, Michael Ibrahim, Wojciech Kotlowski, Marcin Kowiel, Panagiotis Misiakos, Achille Nazaret, Markus Püschel, Chris Wendler, Arash Mehrjou, Patrick Schwab

ICMLW 2024 Augmenting Evolutionary Models with Structure-Based Retrieval Yining Huang, Zuobai Zhang, Jian Tang, Debora Susan Marks, Pascal Notin

NeurIPS 2024 Multi-Scale Representation Learning for Protein Fitness Prediction Zuobai Zhang, Pascal Notin, Yining Huang, Aurélie Lozano, Vijil Chenthamarakshan, Debora Marks, Payel Das, Jian Tang

NeurIPSW 2023 Combining Structure and Sequence for Superior Fitness Prediction Steffanie Paul, Aaron Kollasch, Pascal Notin, Debora Marks

ICML 2023 DiscoBAX: Discovery of Optimal Intervention Sets in Genomic Experiment Design Clare Lyle, Arash Mehrjou, Pascal Notin, Andrew Jesson, Stefan Bauer, Yarin Gal, Patrick Schwab

ICLRW 2023 DyNeMoC: A Semi-Supervised Architecture for Classifying Time Series Brain Data Abu Mohammad Shabbir Khan, Chetan Gohil, Pascal Notin, Joost van Amersfoort, Mark Woolrich, Yarin Gal

NeurIPS 2023 ProteinGym: Large-Scale Benchmarks for Protein Fitness Prediction and Design Pascal Notin, Aaron Kollasch, Daniel Ritter, Lood van Niekerk, Steffanie Paul, Han Spinner, Nathan Rollins, Ada Shaw, Rose Orenbuch, Ruben Weitzman, Jonathan Frazer, Mafalda Dias, Dinko Franceschi, Yarin Gal, Debora Marks

NeurIPS 2023 ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers Pascal Notin, Ruben Weitzman, Debora Marks, Yarin Gal

NeurIPSW 2023 Sampling Protein Language Models for Functional Protein Design Jeremie Theddy Darmawan, Yarin Gal, Pascal Notin

ICLR 2022 GeneDisco: A Benchmark for Experimental Design in Drug Discovery Arash Mehrjou, Ashkan Soleymani, Andrew Jesson, Pascal Notin, Yarin Gal, Stefan Bauer, Patrick Schwab

NeurIPSW 2022 TranceptEVE: Combining Family-Specific and Family-Agnostic Models of Protein Sequences for Improved Fitness Prediction Pascal Notin, Lood Van Niekerk, Aaron W Kollasch, Daniel Ritter, Yarin Gal, Debora Susan Marks

ICML 2022 Tranception: Protein Fitness Prediction with Autoregressive Transformers and Inference-Time Retrieval Pascal Notin, Mafalda Dias, Jonathan Frazer, Javier Marchena-Hurtado, Aidan N Gomez, Debora Marks, Yarin Gal

NeurIPS 2021 Improving Black-Box Optimization in VAE Latent Space Using Decoder Uncertainty Pascal Notin, José Miguel Hernández-Lobato, Yarin Gal