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Contributed Talks
Mon Apr 27 05:00 AM -- 05:45 AM (PDT) None
Contributed Talks
Invited Talk
Mon Apr 27 05:45 AM -- 06:30 AM (PDT) None
Controlling complex fluid flows with reinforcement learning and differentiable solvers
Sajeda Mokbel
Invited Talk
Mon Apr 27 06:30 AM -- 07:15 AM (PDT) None
Can we hope that scientific foundation models learn the bitter lesson and achieve neural scaling?
Michael W Mahoney
Invited Talk
Mon Apr 27 09:00 AM -- 09:45 AM (PDT) None
Rethinking Diffusion Models for Science: From Generation to Faithful Reconstruction
Mahdi Soltanolkotabi
Invited Talk
Mon Apr 27 09:45 AM -- 10:30 AM (PDT) None
Foundation Models for Structured Data
Bernie Wang
Invited Talk
Mon Apr 27 10:30 AM -- 11:15 AM (PDT) None
What physics can ML models discover from data? Exploring General-Purpose Models from Molecular Dynamics to 3D Turbulence
Aditi Krishnapriyan
Invited Talk
Mon Apr 27 12:00 PM -- 12:45 PM (PDT) None
Grounding foundation models for physical sciences
Rose Yu
Poster
None
On Neural Scaling Laws for Weather Emulation through Continual Learning
Shashank Subramanian ⋅ Alexander Kiefer ⋅ Arnur Nigmetov ⋅ Amir Gholami ⋅ Dmitriy Morozov ⋅ Michael W Mahoney
[ OpenReview
Poster
None
Predicting New Concept--Object Associations in Astronomy by Mining the Literature
Jinchu Li · Yuan-Sen Ting · Alberto Accomazzi · Tirthankar Ghosal · Nesar Ramachandra
[ OpenReview
Poster
None
Language-Enhanced Representation Learning for Single-Cell Transcriptomics
Jiaqi Yang · Zhiyuan Liu · Yaorui SHI · Qingchuan Zhang · Changhao Nai · Junfeng Fang · Yahui Long · Yang Zhang · Xiang Wang
[ OpenReview
Poster
None
Surrogate-Assisted Pedestrian Protection Design via a Foundation Model–Orchestrated Workflow
Osamu Ito · Akihiko Katagiri · · · ·
[ OpenReview
Poster
None
SENDAI: A Hierarchical Sparse-measurement, EfficieNt Data AssImilation Framework
Xingyue Zhang · Yuxuan Bao · Liyao Gao · Nathan Kutz
[ OpenReview
Poster
None
FlowMS: Flow Matching for De Novo Structure Elucidation from Mass Spectra
Jianan Nie · Peng Gao
[ OpenReview
Poster
None
LUMINA: Foundation Models for Topology Transferable ACOPF
Yijiang Li · Zeeshan Memon · Hongwei Jin · Stefano Fenu · Keunju Song · Sunash Sharma · Parfait Gasana · Hongseok Kim · Liang Zhao · Kibaek Kim
[ OpenReview
Poster
None
Towards Foundation Models for Quantum Unitary Synthesis via Zero-Shot MDL
Lukas Theißinger · Thore Gerlach · David Berghaus · Christian Bauckhage
[ OpenReview
Poster
None
Learning What's Real: Disentangling Signal and Measurement Artifacts in Multi-Sensor Data, with Applications to Astrophysics
Pablo Mercader-Perez · Carolina Cuesta-Lazaro · Daniel Muthukrishna · Jeroen Audenaert · V Villar · David Hogg · Marc Huertas-Company · William Freeman
[ OpenReview
Poster
None
The Right Inductive Bias for the Job: Dependency-Aware Masking for Scientific Foundation Models
Alon Hacohen ⋅ Joseph Bingham ⋅ Binyamin Perets ⋅ Dvir Aran
[ OpenReview
Poster
None
Zatom-1: A Multimodal Flow Foundation Model for 3D Molecules and Materials
Alex Morehead · Miruna Cretu · Antonia Panescu · Rishabh Anand · Maurice Weiler · Ty Perez · Samuel Blau · Steven Farrell · Wahid Bhimji · Anubhav Jain · Hrushikesh Sahasrabuddhe · Pietro Lio · Tommi Jaakkola · Rafael Gomez-Bombarelli · Rex Ying · N. Benjamin Erichson · Michael W Mahoney
[ OpenReview
Poster
None
Foundation Models as Physical Priors: Decoupling Geometric Reasoning from Small-Molecule Solubility Prediction
Jonathan Broadbent · Michael Bailey · Mingxuan Li · Abhishek Paul · Louis de Lescure · Paul Chauvin · Lorenzo Anele · Yasser Jangjou · Sven Jager
[ OpenReview
Poster
None
WIND: Weather Inverse Diffusion for Zero-Shot Atmospheric Modeling
Andreas Fürst · Michael Aich · Florian Sestak · Carlos Ruiz-Gonzalez · Niklas Boers · Johannes Brandstetter
[ OpenReview
Poster
None
Vehicle Surface Pressure Prediction from 2D Sketches via a Pre-Trained Diffusion Model
Shunya Nakamura
[ OpenReview
Poster
None
FINGERS-7B: A Multi-Omic Foundation Model for Precision Biomarker Discovery
Arvid Gollwitzer · Adrián de la Colina · Deepak Subramanian · Giovanni Traverso
[ OpenReview
Poster
None
Test-Time Tuned Language Models Enable End-to-end De Novo Molecular Structure Generation from MS/MS Spectra
Laura Mismetti · Marvin Alberts · Andreas Krause · Mara Graziani
[ OpenReview
Poster
None
MEG-XL: Data-Efficient Brain-to-Text via Long-Context Pre-Training
Dulhan Jayalath · Oiwi Parker Jones
[ OpenReview
Poster
None
A Systematic Study of Behavioral Cloning for Scientific Data Annotation
Ishaan Chandok · Core Francisco Park
[ OpenReview
Poster
None
Towards Understanding Hybrid Protein Language Model Design: A Systematic Ablation and Interpretability Study
Yash Semlani · Nauman Javed · Frederick Hoffman · Krithik Ramesh
[ OpenReview
Poster
None
Kraus Constrained Sequence Learning For Quantum Trajectories from Continuous Measurement
Priyanshi Singh · Krishna Bhatia
[ OpenReview
Poster
None
LunarFM: a multimodal representation of the Moon's surface
German Aerospace Center (DLR) (DLR) · Marc Girona-Mata · Sumit Goski · Gautier de Fourtou · · Sylvester Kaczmarek · Raúl Ramos-Pollán
[ OpenReview
Poster
None
Learning Enhanced Protein Representations from Molecular Dynamics via Temporal GNNs
Sajal Chaurasia · Pengkang Guo · Bruno Correia · Pierre Vandergheynst
[ OpenReview
Poster
None
Hierarchy-Guided Multimodal Representation Learning for Taxonomic Inference
Sk Miraj Ahmed · Xi Yu · Yunqi Li · YUEWEI LIN · Wei Xu
[ OpenReview
Poster
None
Optimizing Materials With CliqueFlowmer
Jakub Kuba · Benjamin Miller · Sergey Levine · Pieter Abbeel
[ OpenReview
Poster
None
Foundation models for agricultural sciences - Challenges and opportunities
Ioannis N. Athanasiadis
[ Slides [ Poster [ OpenReview
Poster
None
Evaluating Expert Specialization in Mixture-of-Experts Antibody Language Models
Sarah Burbach · · Jonathan Hurtado · Bryan Briney
[ OpenReview
Poster
None
Multimodal Datasets with Controllable Mutual Information
Raheem Hashmani · Garrett Merz · Helen Qu · Mariel Pettee · Kyle Cranmer
[ OpenReview
Poster
None
Does Aurora Encode Atmospheric Structure? Latent Regime Analysis and Attribution
Emma Kasteleyn · Ana Lucic
[ OpenReview
Poster
None
From Weather to Weathering: Foundation Models for Carbon Removal via Rock Weathering
Sasankh Munukutla · Felipe Oviedo · Kenji Takeda
[ Poster [ OpenReview
Poster
None
Understanding The Limits Of Text-Only Molecular Reasoning: A Case Study In Synthetic Chain-Of-Thought Supervision
Deepa Korani · Mohammad Madani · Josefa Stoisser · Marc Boubnovski Martell · Lawrence Phillips · Kristine Deibler
[ OpenReview
Poster
None
When Protein Dynamics Matter: Integrating Molecular Dynamics into Protein Foundation Models
Reem Aboelsoud · Javad Kasravi · Stefan Kesselheim · Alina Bazarova
[ OpenReview
Poster
None
Foundation Model for Cardiac Time Series via Masked Latent Attention
Moritz Vandenhirtz · Samuel Campillo · Sonia Laguna · Simon Böhi · Irene Cannistraci · Andrea Agostini · Ece Ozkan · Thomas Sutter · Julia E Vogt
[ OpenReview
Poster
None
Beyond Independent Frames: Latent Attention Masked Autoencoders for Multi-View Echocardiography
Simon Böhi · Irene Cannistraci · Sergio Gonzalez · Moritz Vandenhirtz · Sonia Laguna · Samuel Campillo · Max Krähenmann · Andrea Agostini · Ece Ozkan · Thomas Sutter · Julia E Vogt
[ OpenReview
Poster
None
GeoPT: Scaling Physics Simulation via Lifted Geometric Pre-Training
Haixu Wu · Minghao Guo · Zongyi Li · Zhiyang Dou · Mingsheng Long · Kaiming He · Wojciech Matusik
[ OpenReview
Poster
None
SciPredict: Can LLMs Predict the Outcomes of Scientific Experiments in Natural Sciences?
Udari Sehwag · Elaine Lau · Haniyeh Oskouie · Shayan Shabihi · Erich Liang · Andrea Toledo · Guillermo Mangialardi · Sergio Fonrouge · Ed-Yeremai Hernandez-Cardona · Paula Vergara · Utkarsh Tyagi · Chen Bo Calvin Zhang · Pavi Bhatter · Nicholas Johnson · Furong Huang · Ernesto Montoya · Bing Liu
[ OpenReview
Poster
None
ACCURATE TOKENIZATION OF 3D SMALL ORGANIC MOLECULES
Filya Geikyan · Hrant Khachatrian
[ OpenReview
Poster
None
The Reliability Gap in Agentic Evidence Verification for Materials Science
Albert Gong · James Kim · Anmol Kabra · Aaditya Panigrahi · Jiashuo Wang · Arjun Mulchandani · Michael Freeman · Fatmagul Katmer · Joshua Wakefield · Linxi Zhao · Chao Wan · Akanksha Sarkar · Yoav Artzi · Leslie Schoop · John Thickstun · Kilian Weinberger · Eun-Ah Kim · Peter Frazier · Jennifer Sun
[ OpenReview
Poster
None
Back to BERT in 2026: ModernGENA as a Strong, Efficient Baseline for DNA Foundation Models
Alena Aspidova · Yuri Kuratov · Artem Shadskiy · Mikhail Burtsev · Veniamin Fishman
[ OpenReview
Poster
None
Constructing Machine-Precision Neural Networks with Quasi-Interpolants
Catherine Deng · Junmiao Hu · Milan Rohatgi · Jerry Liu · Christopher Re
[ OpenReview
Poster
None
Position: Science is Collaborative—LLM for Science Should Be Too
Terry Zhang · Wenyuan Jiang · Yongjin Yang · Sirui Lu · Bernhard Schölkopf · Zhijing Jin
[ OpenReview
Poster
None
CausalEvolve: Towards Open-Ended Discovery with Causal Scratchpad
Yongqiang Chen · Chenxi Liu · Zhenhao Chen · Tongliang Liu · Bo Han · Kun Zhang
[ OpenReview
Poster
None
CausalGame: Benchmarking Causal Thinking of LLM Agents in Games
Zhenhao Chen · Yongqiang Chen · Chenxi Liu · Junchi Yu · Xiangchen Song · Zijian Li · Jialin Li · Philip Torr · Bo Han · Kun Zhang
[ OpenReview
Poster
None
Higher-order grammar representations for molecular topology generation and understanding
Yiming Huang · Yujie Zeng · Vijay Prakash Dwivedi · Simone Foti · Jianmin Wang · Tolga Birdal
[ Poster [ OpenReview
Poster
None
When Does Context Help? A Systematic Study of Target-Conditional Molecular Property Prediction
Bryan Cheng · Jasper Zhang
[ OpenReview
Poster
None
ECLIPSE: A Composable Pipeline for Predicting ecDNA Formation, Evolution, and Therapeutic Vulnerabilities in Cancer
Bryan Cheng · Jasper Zhang
[ OpenReview
Poster
None
Information-Theoretic Requirements for Gradient-Based Task Affinity Estimation in Multi-Task Learning
Bryan Cheng · Jasper Zhang
[ OpenReview
Poster
None
MMAI Gym for Science: Training Liquid Foundation Models for Drug Discovery
Maksim Kuznetsov · Zulfat Miftahutdinov · Rim Shayakhmetov · Mikołaj Mizera · Roman Schutski · Bogdan Zagribelnyy · Ivan Ilin · Nikita Bondarev · Mihir Bafna · Kaeli Kaymak-Loveless · Thomas MacDougall · Mathieu Reymond · Eugene Babin · Maxim Malkov · Mathias Lechner · Ramin Hasani · Alexander Amini · Vladimir Aladinskiy · Alex Aliper · Alex Zhavoronkov
[ OpenReview
Poster
None
Darwin-7B: A Multi-Omic Foundation Model for the Human Gut Microbiome\\via Sparsified Quality-Aware Tokenization
Arvid Gollwitzer · David de Gruijl
[ OpenReview
Poster
None
(Sparse) Attention to the Details: Preserving Spectral Fidelity in ML-based Weather Forecasting Models
Maksim Zhdanov · Ana Lucic · Max Welling · Jan-Willem van de Meent
[ OpenReview
Poster
None
Efficient Tail-Aware Generative Optimization via Flow Model Fine-Tuning
Zifan Wang · Riccardo De Santi · Xiaoyu Mo · Michael Zavlanos · Andreas Krause · Karl H. Johansson
[ Poster [ OpenReview
Poster
None
FIRE: Multi-fidelity Regression with Distribution-conditioned In-context Learning using Tabular Foundation Models
Rosen Yu · Nicholas Sung · Faez Ahmed
[ OpenReview
Poster
None
Benchmarking foundation models for unsupervised discovery in large multimodal astrophysical datasets
Maxime Ronceray · Marc Huertas-Company · Alexandre Chanson · Malgorzata Siudek · Anna Preto · Michael Smith · J. Zoubian · Clara Bonini
[ OpenReview
Poster
None
MOOSE: Targeted Small Molecule Generation via Multi-Objective-Guided Discrete Diffusion
Elizabeth Mahood · William Pattie · Ethan Jones · Sophia Vincoff · Adi Mashiach · Pranam Chatterjee
[ OpenReview
Poster
None
NeuroLoom: Modeling Cortical Microcircuits with Spiking Neural Networks
Sunkalp Chandra · Seungyong Yang · Gautham Korrapati · Saketh Satti · Dheeraj Chintapalli · Jainish Patel
[ OpenReview
Poster
None
Ligand-Conditioned Protein Sequence Design with L-Caliby
Jinho Kim · Richard Shuai · Possu Huang
[ OpenReview
Poster
None
Neural Scaling Laws for Boosted Jet Tagging
Matthias Vigl · Nicole Hartman · Michael Kagan · Lukas Heinrich
[ OpenReview
Poster
None
Single-Position Intervention Fails: Distributed Output Templates Drive In-Context Learning
Bryan Cheng · Jasper Zhang
[ OpenReview
Poster
None
SNOOPPI: Sequence-Normalized Database of On- and Off-Target Protein-Protein Interactions
Sophia Vincoff · Pranam Chatterjee
[ OpenReview
Poster
None
PepRePs: Peptide-Retargeted Phosphatases via Generative Language Models
Lauren Hong · Tai-Chen Ho · Yi-Shiuan Tseng · Sophia Vincoff · Tong Chen · Pohan chen · Pranam Chatterjee
[ OpenReview
Poster
None
Hybrid Physics-Informed Transformers vs. Traditional Machine Learning for Operational Snow Water Equivalent Forecasting: A Multi-Basin Evaluation
Brandon Yee · Mihir Tekal · Upmanu Lall
[ OpenReview
Poster
None
Full-length mRNA Design with Reward-Guided Masked Diffusion Model Fine-Tuning
Sawan Patel · Sophia Tang · Pranam Chatterjee · Sherwood Yao
[ OpenReview
Poster
None
Augmenting representations with scientific papers
Nicolò Oreste Pinciroli Vago · Rocco Di Tella · Carolina Cuesta-Lazaro · Michael Smith · Cecilia Garraffo · Rafael Martinez-Galarza
[ OpenReview
Poster
None
SaDiT: Efficient Protein Backbone Design via Latent Structural Tokenization and Diffusion Transformers
Shentong Mo · Lanqing Li
[ OpenReview
Poster
None
AI Driven Discovery of Bio Ecological Mediation in Cascading Heatwave Risks
Yiquan Wang · Tin-Yeh Huang · Qingyun Gao · Yuhan Chang · Jialin Zhang
[ OpenReview
Poster
None
EvoFlows: Evolutionary Edit-Based Flow-Matching for Protein Engineering
· Eli Bixby · Nicolas Deutschmann · Constance Ferragu · Jonathan Ziegler
[ OpenReview
Poster
None
Agentic Discovery of Multi-Channel Bioacoustic Association Algorithms
Paramjyoti Mohapatra · Irina Tolkova · Akanksha Sarkar · Atharva Sehgal · Daniel Salisbury · Andrew Von Duyke · Léa Bouffaut · Holger Klinck · Jennifer Sun
[ OpenReview
Poster
None
Built-in Safeguards for Auto-regressive Protein Foundation Models through Self-play
Xiaoyi Fu · Yang Xu · L. CHOW · Yuan Yao
[ OpenReview
Poster
None
Sparse Probes, Murky Physics: Interpretability Challenges in a Foundation Model for Continuum Dynamics
Katherine Rosenfeld · Maike Sonnewald
[ OpenReview
Poster
None
Self-Attention for Quantum Entanglement Prediction
Anuj Gore · Roopayan Ghosh · Dylan Lewis ·
[ OpenReview
Poster
None
ST-Align: Multi-Scale Image-Gene Foundation Modeling for Spatial Transcriptomics via Spot-Niche Alignment
Yuxiang Lin · Ling Luo · Ying Chen · Xushi Zhang · Zihui Wang · Rongshan Yu
[ Poster [ OpenReview
Poster
None
FragmentFlow: Scalable Transition State Generation for Large Molecules
Ron Shprints · Peter Holderrieth · Juno Nam · Rafael Gomez-Bombarelli · Tommi Jaakkola
[ OpenReview
Poster
None
Symmetry-Aware Entropy Reinforcement Learning for Chaos Accurate Holographic Duals in NISQ Hardware
Leonidas Tam
[ OpenReview
Poster
None
Want to train KANS at scale? Now UKAN!
Alireza Moradzadeh · Srimukh Veccham · Lukasz Wawrzyniak · Miles Macklin · Saee Paliwal
[ OpenReview
Poster
None
Unified Cross-Scale 3D Generation and Understanding via Autoregressive Modeling
Shuqi Lu · Haowei Lin · Lin Yao · Zhifeng Gao · Xiaohong Ji · Yitao Liang · Weinan E · Linfeng Zhang · Guolin Ke
[ OpenReview
Poster
None
Rethinking Perturbation Prediction Baselines
Junwei Sun · Ouyang Zhu · Yiqun Chen
[ OpenReview
Poster
None
Effective Biological Representation Learning by Masking Gene Expression
Kian Kenyon-Dean · Ihab Bendidi · Alina Selega · Jordan Sorokin · Luca Bertinetto · David Errington · Oren Kraus · Hayley Donnella
[ OpenReview
Poster
None
Deep Learning for BioImaging: What Are We Learning?
Ivan Svatko · Maxime Sanchez · Ihab Bendidi · Gilles Cottrell · Auguste Genovesio
[ OpenReview
Poster
None
[Short] Real-Time Explanations for Tabular Foundation Models
Luan Borges · Francisco Galuppo Azevedo
[ OpenReview
Poster
None
EVIDENCE-GATED SCIENTIFIC QA WITH EXPLICIT ABSTENTION AND PAGE-LEVEL PROVENANCE
Bruno Menezes · Fábio Porto
[ OpenReview