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Biancalani, Tommaso

  1. Derivative-Free Guidance in Continuous and Discrete Diffusion Models with Soft Value-Based Decoding
    2024/08/15 by Xiner Li, Yulai Zhao, Li, Xiner +18 · 32 citations
    Engineering · Mathematics · #Artificial Intelligence (cs.AI) #Computational Fluid Dynamics and Aerodynamics #FOS: Biological sciences #FOS: Computer and information sciences #Gas Dynamics and Kinetic Theory #Genomics (q-bio.GN) #Guidance and Control Systems #Machine Learning (cs.LG) #Machine Learning (stat.ML)
  2. Fine-Tuning of Continuous-Time Diffusion Models as Entropy-Regularized Control
    2024/02/23 by Masatoshi Uehara, Uehara, Masatoshi, Yulai Zhao +15 · 20 citations
    Computer Science · Mathematics · Physics and Astronomy · #Advanced Mathematical Modeling in Engineering #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Model Reduction and Neural Networks #Numerical methods in inverse problems
  3. Understanding Reinforcement Learning-Based Fine-Tuning of Diffusion Models: A Tutorial and Review
    2024/07/18 by Masatoshi Uehara, Yulai Zhao, Uehara, Masatoshi +5 · 19 citations
    Engineering · #Artificial Intelligence (cs.AI) #FOS: Biological sciences #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Quantitative Methods (q-bio.QM) #Traffic control and management
  4. Inference-Time Alignment in Diffusion Models with Reward-Guided Generation: Tutorial and Review
    2025/01/16 by Masatoshi Uehara, Yulai Zhao, Uehara, Masatoshi +11 · 1 voice · 17 citations
    Physics and Astronomy · #Model Reduction and Neural Networks #cs.AI #cs.LG #q-bio.QM #stat.ML
  5. Fine-Tuning Discrete Diffusion Models via Reward Optimization with Applications to DNA and Protein Design
    2024/10/17 by Chenyu Wang, Masatoshi Uehara, Wang, Chenyu +17 · 16 citations
    Biochemistry, Genetics and Molecular Biology · #DNA and Nucleic Acid Chemistry
  6. Towards Understanding and Improving GFlowNet Training
    2023/05/11 by Max W. Shen, Emmanuel Bengio, Shen, Max W. +9 · 6 citations
    Computer Science · #FOS: Computer and information sciences #Generative Adversarial Networks and Image Synthesis #Machine Learning (cs.LG) #Machine Learning and Algorithms #Machine Learning and Data Classification
  7. Feedback Efficient Online Fine-Tuning of Diffusion Models
    2024/02/26 by Masatoshi Uehara, Yulai Zhao, Uehara, Masatoshi +15 · 6 citations
    Mathematics · Computer Science · Physics and Astronomy · #Numerical methods for differential equations #Matrix Theory and Algorithms #Model Reduction and Neural Networks
  8. Bridging Model-Based Optimization and Generative Modeling via Conservative Fine-Tuning of Diffusion Models
    2024/05/30 by Uehara, Masatoshi, Zhao, Yulai, Hajiramezanali, Ehsan +5 · 7 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML)
  9. Dynamic Search for Inference-Time Alignment in Diffusion Models
    2025/03/03 by Xiner Li, Masatoshi Uehara, Li, Xiner +13 · 12 citations
    Physics and Astronomy · #Model Reduction and Neural Networks
  10. RAG-Enhanced Collaborative LLM Agents for Drug Discovery
    2025/02/22 by Namkyeong Lee, Edward De Brouwer, Lee, Namkyeong +9 · 7 citations
    Biochemistry, Genetics and Molecular Biology · Chemistry · Medicine · #Analytical Chemistry and Chromatography #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Monoclonal and Polyclonal Antibodies Research #Protein purification and stability
  11. Improving Graph Generation by Restricting Graph Bandwidth
    2023/01/25 by Diamant, Nathaniel, Tseng, Alex M., Chuang, Kangway V. +2 · 2 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG) #Social and Information Networks (cs.SI)
  12. Adding Conditional Control to Diffusion Models with Reinforcement Learning
    2024/06/17 by Zhao, Yulai, Uehara, Masatoshi, Scalia, Gabriele +4 · 3 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML)
  13. Conformalized Deep Splines for Optimal and Efficient Prediction Sets
    2023/11/01 by Nathaniel Diamant, Ehsan Hajiramezanali, Diamant, Nathaniel +5 · 2 citations
    Computer Science · Mathematics · #Machine Learning and Data Classification #Statistical Methods and Inference #Adversarial Robustness in Machine Learning
  14. Reward-Guided Iterative Refinement in Diffusion Models at Test-Time with Applications to Protein and DNA Design
    2025/02/20 by Masatoshi Uehara, Xingyu Su, Uehara, Masatoshi +13 · 1 voice · 4 citations
    Biochemistry, Genetics and Molecular Biology · Computer Science · Physics and Astronomy · #Gene Regulatory Network Analysis #Generative Adversarial Networks and Image Synthesis #Model Reduction and Neural Networks
  15. NODAGS-Flow: Nonlinear Cyclic Causal Structure Learning
    2023/01/04 by Sethuraman, Muralikrishnna G., Lopez, Romain, Mohan, Rahul +3 · 2 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Methodology (stat.ME)
  16. Cell Morphology-Guided Small Molecule Generation with GFlowNets
    2024/08/09 by Stephen Zhewen Lu, Ziqing Lu, Lu, Stephen Zhewen +11 · 2 citations
    Biochemistry, Genetics and Molecular Biology · #Cell Image Analysis Techniques #Genetics, Bioinformatics, and Biomedical Research
  17. Joint Embedding vs Reconstruction: Provable Benefits of Latent Space Prediction for Self Supervised Learning
    2025/05/18 by Van Assel, Hugues, Ibrahim, Mark, Biancalani, Tommaso +2 · 3 citations
    #Artificial Intelligence (cs.AI) #Computer Vision and Pattern Recognition (cs.CV) #FOS: Computer and information sciences #Machine Learning (cs.LG)
  18. Efficient Fine-Tuning of Single-Cell Foundation Models Enables Zero-Shot Molecular Perturbation Prediction
    2024/12/18 by S. Maleki, Maleki, Sepideh, Jan-Christian Huetter +8 · 2 citations
    Biochemistry, Genetics and Molecular Biology · Medicine · #Advanced Electron Microscopy Techniques and Applications #Advanced Fluorescence Microscopy Techniques #FOS: Biological sciences #FOS: Computer and information sciences #Machine Learning (cs.LG) #Medical Imaging Techniques and Applications #Quantitative Methods (q-bio.QM)
  19. Contextualizing biological perturbation experiments through language
    2025/02/28 by Wu, Menghua, Littman, Russell, Levine, Jacob +4 · 3 citations
    #Artificial Intelligence (cs.AI) #FOS: Biological sciences #FOS: Computer and information sciences #Machine Learning (cs.LG) #Quantitative Methods (q-bio.QM)
  20. Iterative Distillation for Reward-Guided Fine-Tuning of Diffusion Models in Biomolecular Design
    2025/07/01 by Su, Xingyu, Li, Xiner, Uehara, Masatoshi +7 · 5 citations
    #Artificial Intelligence (cs.AI) #FOS: Biological sciences #FOS: Computer and information sciences #Machine Learning (cs.LG) #Quantitative Methods (q-bio.QM)