7 citations · 17 across the 17 of their papers we have counts for
17 papers
PerturbCellRL: Aligning Distributions and Grounding Biology via Post-Training Perturbation Generators
Dongxia Wu, Mingyu Li, Yuhui Zhang +4
Single-cell perturbation models can reduce costly wet-lab screening by predicting how cells respond transcriptionally to interventions. Recent advances in flow-matching have enable…
Calibrating LLMs with Semantic-level Reward
Fengfei Yu, Ruijia Niu, Dongxia Wu +2
As large language models (LLMs) are deployed in consequential settings such as medical question answering and legal reasoning, the ability to estimate when their outputs are likely…
BALAR : A Bayesian Agentic Loop for Active Reasoning
Aymen Echarghaoui, Dongxia Wu, Emily B. Fox
Large language models increasingly operate in interactive settings where solving a task requires multiple rounds of information exchange with a user. However, most current systems…
CellFluxRL: Biologically-Constrained Virtual Cell Modeling via Reinforcement Learning
Dongxia Wu, Shiye Su, Yuhui Zhang +4
Building virtual cells with generative models to simulate cellular behavior in silico is emerging as a promising paradigm for accelerating drug discovery. However, prior image-base…
Uncertainty-Aware Distribution-to-Distribution Flow Matching for Scientific Imaging
Dongxia Wu, Yuhui Zhang, Serena Yeung-Levy +2
Distribution-to-distribution generative models support scientific imaging tasks ranging from modeling cellular perturbation responses to translating medical images across condition…
Divide and Learn: Multi-Objective Combinatorial Optimization at Scale
Esha Singh, Dongxia Wu, Chien-Yi Yang +3
Multi-objective combinatorial optimization seeks Pareto-optimal solutions over exponentially large discrete spaces, yet existing methods sacrifice generality, scalability, or theor…
SimulRAG: Simulator-based RAG for Grounding LLMs in Long-form Scientific QA
Haozhou Xu, Dongxia Wu, Matteo Chinazzi +3
Large Language Models (LLMs) show promise in generating long-form scientific explanations that synthesize evidence and connect multiple factors. However, in long-form scientific qu…
MF-LAL: Drug Compound Generation Using Multi-Fidelity Latent Space Active Learning
Peter Eckmann, Dongxia Wu, Germano Heinzelmann +2
Current generative models for drug discovery primarily use molecular docking as an oracle to guide the generation of active compounds. However, such models are often not useful in…
Functional-level Uncertainty Quantification for Calibrated Fine-tuning on LLMs
Ruijia Niu, Dongxia Wu, Rose Yu +1
Accurate uncertainty quantification in large language models (LLMs) is essential for reliable confidence estimation, yet fine-tuned LLMs often become overconfident under limited ad…
Diffusion-BBO: Diffusion-Based Inverse Modeling for Online Black-Box Optimization
Dongxia Wu, Nikki Lijing Kuang, Ruijia Niu +2
Online black-box optimization (BBO) aims to optimize an objective function by iteratively querying a black-box oracle in a sample-efficient way. While prior studies focus on forwar…
Learning Granger Causality from Instance-wise Self-attentive Hawkes Processes
Dongxia Wu, Tsuyoshi Idé, Aurélie Lozano +5
We address the problem of learning Granger causality from asynchronous, interdependent, multi-type event sequences. In particular, we are interested in discovering instance-level c…
MFBind: a Multi-Fidelity Approach for Evaluating Drug Compounds in Practical Generative Modeling
Peter Eckmann, Dongxia Wu, Germano Heinzelmann +2
Current generative models for drug discovery primarily use molecular docking to evaluate the quality of generated compounds. However, such models are often not useful in practice b…
Multi-Fidelity Residual Neural Processes for Scalable Surrogate Modeling
Ruijia Niu, Dongxia Wu, Kai Kim +3
Multi-fidelity surrogate modeling aims to learn an accurate surrogate at the highest fidelity level by combining data from multiple sources. Traditional methods relying on Gaussian…
Diffusion Models as Constrained Samplers for Optimization with Unknown Constraints
Lingkai Kong, Yuanqi Du, Wenhao Mu +8
Addressing real-world optimization problems becomes particularly challenging when analytic objective functions or constraints are unavailable. While numerous studies have addressed…
Disentangled Multi-Fidelity Deep Bayesian Active Learning
Dongxia Wu, Ruijia Niu, Matteo Chinazzi +2
To balance quality and cost, various domain areas of science and engineering run simulations at multiple levels of sophistication. Multi-fidelity active learning aims to learn a di…
Multi-fidelity Hierarchical Neural Processes
Dongxia Wu, Matteo Chinazzi, Alessandro Vespignani +2
Science and engineering fields use computer simulation extensively. These simulations are often run at multiple levels of sophistication to balance accuracy and efficiency. Multi-f…
Deep Bayesian Active Learning for Accelerating Stochastic Simulation
Dongxia Wu, Ruijia Niu, Matteo Chinazzi +3
Stochastic simulations such as large-scale, spatiotemporal, age-structured epidemic models are computationally expensive at fine-grained resolution. While deep surrogate models can…