Gligorijevic, Vladimir

18 publications

ICLRW 2025 All-Atom Protein Generation with Latent Diffusion Amy X. Lu, Wilson Yan, Sarah A Robinson, Simon Kelow, Kevin K Yang, Vladimir Gligorijevic, Kyunghyun Cho, Richard Bonneau, Pieter Abbeel, Nathan C. Frey

ICML 2025 Generalists vs. Specialists: Evaluating LLMs on Highly-Constrained Biophysical Sequence Optimization Tasks Angelica Chen, Samuel Don Stanton, Frances Ding, Robert G Alberstein, Andrew Martin Watkins, Richard Bonneau, Vladimir Gligorijevic, Kyunghyun Cho, Nathan C. Frey

ICLRW 2025 Guided Generation of B-Cell Receptors with Conditional Walk-Jump Sampling Taylor Joren, Sarah A Robinson, Homa MohammadiPeyhani, Sai Pooja Mahajan, Edith Lee, Stephen Lillington, Qixin Bei, Saeed Saremi, Jae Hyeon Lee, Richard Bonneau, Isidro Hotzel, Vladimir Gligorijevic, Simon Kelow, Nathan C. Frey

ICLRW 2025 Orchestrating Tool Ecosystem of Drug Discovery with Intention-Aware LLM Agents Mingyu Derek Ma, Karina Zadorozhny, Jesse Swanson, Nathan C. Frey, Keunwoo Choi, Maksim Eremeev, Sabrina J Mielke, Wenmo Sun, Melody Liu, Jonathan Wickes, Vladimir Gligorijevic, Richard Bonneau, Henri Dwyer, Kyunghyun Cho, Stephen Ra

NeurIPS 2025 Unified All-Atom Molecule Generation with Neural Fields Matthieu Kirchmeyer, Pedro O. Pinheiro, Emma Willett, Karolis Martinkus, Joseph Kleinhenz, Emily K. Makowski, Andrew Martin Watkins, Vladimir Gligorijevic, Richard Bonneau, Saeed Saremi

ICMLW 2024 Compressing the Latent Space of Single-Sequence Protein Predictors for Multimodal Generation Amy X. Lu, Wilson Yan, Vladimir Gligorijevic, Pieter Abbeel, Kevin K Yang, Nathan C. Frey

ICMLW 2024 Cramming Protein Language Model Training in 24 GPU Hours Nathan C. Frey, Taylor Joren, Aya Abdelsalam Ismail, Allen Goodman, Richard Bonneau, Kyunghyun Cho, Vladimir Gligorijevic

NeurIPS 2024 Implicitly Guided Design with PropEn: Match Your Data to Follow the Gradient Nataša Tagasovska, Vladimir Gligorijević, Kyunghyun Cho, Andreas Loukas

NeurIPSW 2024 LLMs Are Highly-Constrained Biophysical Sequence Optimizers Angelica Chen, Samuel Don Stanton, Robert G Alberstein, Andrew Martin Watkins, Richard Bonneau, Vladimir Gligorijevic, Kyunghyun Cho, Nathan C. Frey

ICLR 2024 Protein Discovery with Discrete Walk-Jump Sampling Nathan C. Frey, Dan Berenberg, Karina Zadorozhny, Joseph Kleinhenz, Julien Lafrance-Vanasse, Isidro Hotzel, Yan Wu, Stephen Ra, Richard Bonneau, Kyunghyun Cho, Andreas Loukas, Vladimir Gligorijevic, Saeed Saremi

NeurIPS 2023 AbDiffuser: Full-Atom Generation of In-Vitro Functioning Antibodies Karolis Martinkus, Jan Ludwiczak, Wei-Ching Liang, Julien Lafrance-Vanasse, Isidro Hotzel, Arvind Rajpal, Yan Wu, Kyunghyun Cho, Richard Bonneau, Vladimir Gligorijevic, Andreas Loukas

NeurIPSW 2023 Identifying Regularization Schemes That Make Feature Attributions Faithful Julius Adebayo, Samuel Don Stanton, Simon Kelow, Michael Maser, Richard Bonneau, Vladimir Gligorijevic, Kyunghyun Cho, Stephen Ra, Nathan C. Frey

ICLRW 2023 Learning Protein Family Manifolds with Smoothed Energy-Based Models Nathan C. Frey, Dan Berenberg, Joseph Kleinhenz, Isidro Hotzel, Julien Lafrance-Vanasse, Ryan Lewis Kelly, Yan Wu, Arvind Rajpal, Stephen Ra, Richard Bonneau, Kyunghyun Cho, Andreas Loukas, Vladimir Gligorijevic, Saeed Saremi

NeurIPSW 2023 Protein Discovery with Discrete Walk-Jump Sampling Nathan Frey, Dan Berenberg, Karina Zadorozhny, Joseph Kleinhenz, Julien Lafrance-Vanasse, Isidro Hotzel, Yan Wu, Stephen Ra, Richard Bonneau, Kyunghyun Cho, Vladimir Gligorijevic, Saeed Saremi

NeurIPSW 2022 A Pareto-Optimal Compositional Energy-Based Model for Sampling and Optimization of Protein Sequences Natasa Tagasovska, Nathan C. Frey, Andreas Loukas, Isidro Hotzel, Julien Lafrance-Vanasse, Ryan Lewis Kelly, Yan Wu, Arvind Rajpal, Richard Bonneau, Kyunghyun Cho, Stephen Ra, Vladimir Gligorijevic

NeurIPSW 2022 Automated Protein Function Description for Novel Class Discovery Meet Barot, Vladimir Gligorijevic, Richard Bonneau, Kyunghyun Cho

ICLRW 2022 Multi-Segment Preserving Sampling for Deep Manifold Sampler Dan Berenberg, Jae Hyeon Lee, Simon Kelow, Ji Won Park, Andrew Watkins, Richard Bonneau, Vladimir Gligorijevic, Stephen Ra, Kyunghyun Cho

NeurIPSW 2022 PropertyDAG: Multi-Objective Bayesian Optimization of Partially Ordered, Mixed-Variable Properties for Biological Sequence Design Ji Won Park, Samuel Don Stanton, Saeed Saremi, Andrew Martin Watkins, Henri Dwyer, Vladimir Gligorijevic, Richard Bonneau, Stephen Ra, Kyunghyun Cho