OmniBioTwin: A System-of-Twinned-Systems Framework for Health Digital Twins

Health digital twins (HDTs) promise patient-specific modeling and decision support but current approaches remain structurally fragmented: monolithic models that address a single organ or task lack cross-scale fidelity, while system-level twins lack generalizable architectural frameworks. We propose OmniBioTwin, a System-of-Twinned-Systems (SoTS) framework that organizes HDTs as modular computational entities coupled through explicit interaction operators within a multi-layer network architecture. The framework comprises seven coordinated layers - spanning data integration, autonomous twin modeling, cross-scale coupling, temporal synchronization, and human-in-the-loop decision support. We demonstrate OmniBioTwin by instantiating a multiscale twin for glucagon-like peptide-1 (GLP-1) signaling pathways in Alzheimer's disease, illustrating how molecular, cellular, and organ-level twins can be composed and coupled within a unified system.

PBSD: Privileged Bayesian Self-Distillation for Long-Horizon Credit Assignment

Long-horizon agentic tasks pose a fundamental credit assignment challenge for outcome-base reinforcement learning: trajectory-level rewards verify final correctness but provide limited guidance on which intermediate reasoning steps or tool interactions contribute to the outcome. The difficulty is especially pronounced in multi-turn search agents, where successful trajectories may contain misleading actions and failed trajectories may contain valuable evidence-gathering steps. We propose PBSD (Privileged Bayesian Self-Distillation), a Bayes-calibrated self-distillation method for fine-grained credit assignment under sparse final rewards. PBSD measures trajectory quality through the posterior-to-prior probability ratio of the verified answer and applies Bayes' rule to convert this hard-to-estimate answer-side ratio into a tractable likelihood ratio between a standard student model and a privileged answer-conditioned teacher model. Autoregressive decomposition of this Bayesian evidence score yields turn-level signals that identify whether each intermediate turn supports or undermines the verified outcome. Consequently, PBSD provides a principled and elegant reweighting scheme that transforms sparse outcome supervision into Bayes-calibrated turn-level credit signals, while remaining fully compatible with standard policy optimization. Experiments demonstrate that PBSD consistently enhances performance across both in-domain and out-of-domain settings, and effectively transfers knowledge from short-context training to long-context inference, suggesting that its fine-grained credit assignment mechanism facilitates more effective policy learning and yields improved generalization.

Multi-Granularity 3D Kidney Lesion Characterization from CT Volumes

Radiology reports describe kidney lesions by type, size, enhancement, and attenuation, yet existing 3D methods predict only at the patient or organ level. We reformulate kidney CT characterization as a per-lesion set-prediction task: one model emits a variable number of lesions per kidney, each with four clinical attributes. We curated 2,619 CT volumes from 788 patients at one academic medical center, with multi-granularity side- and per-lesion labels, and used KiTS23 (489 cases) for zero-shot external validation. We propose \textbf{LesionDETR}, a DETR-style architecture with size-distance Hungarian matching and a hierarchical loss that aggregates per-slot outputs to side-level objectives. Across four input representations and six encoder initializations, two design choices dominate: a segmentation mask as an input channel, and same-domain abdominal pretraining (SuPreM); generic large-corpus pretraining is no better than random initialization. LesionDETR reaches bilateral side-level abnormality AUC $0.799 \pm 0.009$ on UF-Health and $0.817 \pm 0.072$ on KiTS23. A count-conditioned variant reaches per-lesion mAP $0.190 \pm 0.083$ on cystic lesions; rare solid-lesion AP stays at the noise floor, pointing to targeted data collection, not architecture, as the next bottleneck. The framework yields verified per-lesion predictions for downstream structured report generation.

Foundation VAEs for 3D CT Reconstruction, Augmentation, and Generation

Variational autoencoders (VAEs) compress high resolution CT volumes into compact latents while preserving clinically relevant structure. However, training CT-specific VAEs from scratch or heavily fine-tuning them incurs substantial computational and engineering cost, and often degrades under heterogeneous scanners, protocols, and diseases. This paper makes a progressive stride toward training-free medical VAEs by leveraging a critical observation: a single Foundation VAE, pretrained at scale on natural images and videos, can serve as a unified interface for CT Reconstruction, Augmentation, and Generation. With both encoder and decoder frozen, the Foundation VAE reconstructs CT volumes with preserved anatomy while suppressing acquisition noise; training segmentation models on these reconstructions improves surface accuracy by 3.9% NSD on average for pancreatic tumor and lung tumor. Within the same Foundation VAE latent space, a conditional latent diffusion model achieves 3.9% lower average FVD with 36.2% higher CT CLIP score, and improves multi-disease generation faithfulness across 18 types by 2.76% AUC. These results demonstrate Foundation VAEs as a practical interface for scalable CT representation reuse and faithful CT generation. Our code and demo are available at https://github.com/qic999/Foundation-VAE.

Battery-Sim-Agent: Leveraging LLM-Agent for Inverse Battery Parameter Estimation

Parameterizing high-fidelity "digital twins" of batteries is a critical yet challenging inverse problem that hinders the pace of battery innovation. Prevailing methods formulate this as a black-box optimization (BBO) task, employing algorithms that are sample-inefficient and blind to the underlying physics. In this work, we introduce a new paradigm that reframes the inverse problem as a reasoning task, and present Battery-Sim-Agent, the first framework to deploy a Large Language Model (LLM) agent in a closed loop with a high-fidelity battery simulator. The agent mimics a human scientist's workflow: it interprets rich, multi-modal feedback from the simulator, forms physically-grounded hypotheses to explain discrepancies, and proposes structured parameter updates. On a systematically constructed benchmark suite spanning diverse battery chemistries, operating conditions, and difficulty levels, our agent significantly outperforms strong BBO baselines like Bayesian optimization in identifying accurate parameters. We further demonstrate the framework's capability in complex long-horizon degradation fitting tasks and validate its practical applicability on real-world battery datasets. Our results highlight the promise of LLM-agents as reasoning-based optimizers for scientific discovery and battery parameter estimation.

Exploring Autonomous Agentic Data Engineering for Model Specialization

Large Language Models (LLMs) have demonstrated strong performance on general tasks, while often struggling to adapt to specialized domains without high-quality domain-specific data. Existing LLM-based data curation methods primarily rely on human-designed workflows, leaving it unexamined whether LLMs can autonomously execute an end-to-end data engineering pipeline for model specialization. We formalize \textbf{Autonomous Agentic Data Engineering}, a novel task designed to evaluate LLMs as autonomous data engineers that drive model specialization through end-to-end data curation. We frame data as an optimizable component and study agents that plan, generate, and iteratively optimize training data across multiple domains, guided by post-training performance improvement. Experiments show that autonomous LLM data engineers yield substantial gains, as GPT-5.2 constructs a training curriculum that improves a student model by \textbf{57.29\%}, entirely through iterative, agent-driven data adaptation. By illuminating both potential and bottlenecks, our study establishes autonomous data engineering as a measurable capability and charts a path toward agent-driven model specialization\footnote{Code will be released at https://github.com/zjunlp/DataAgent.}.

Skillful high-resolution weather forecasting independent of physical models

Accurate and timely weather forecasts are critical for high-impact decisions in modern society. Machine-learning-based weather prediction is emerging as an alternative for producing initial conditions, forecasts, and even both in end-to-end systems. These methods deliver predictions faster and often with higher skill than traditional numerical weather prediction (NWP). However, even end-to-end models typically rely on NWP-generated reanalyses for supervision, thereby inheriting the biases and resolution limitations of those NWPs, and limiting adaptation to settings where suitable reanalysis products are unavailable, infrequently updated, or expensive to produce. Here we introduce ObsCast, a regional system that generates both analysis and predictions, without using any NWP-derived data in either training or inference, while still achieving state-of-the-art performance in short-term high-resolution regional modeling. Over the contiguous United States and Europe, ObsCast outperforms operational NWP for near-surface variables through 18 h and produces skillful precipitation forecasts. It provides a simpler and more adaptable route to build and refine regional forecasting services directly from local observations, without the need to develop complex and costly traditional forecasting pipelines.

GEAR: Granularity-Adaptive Advantage Reweighting for LLM Agents via Self-Distillation

Reinforcement learning has become a widely used post-training approach for LLM agents, where training commonly relies on outcome-level rewards that provide only coarse supervision. While finer-grained credit assignment is promising for effective policy updates, obtaining reliable local credit and assigning it to the right parts of the long-horizon trajectory remains an open challenge. In this paper, we propose Granularity-adaptivE Advantage Reweighting (GEAR), an adaptive-granularity credit assignment framework that reshapes the trajectory-level GRPO advantage using token- and segment-level signals derived from self-distillation. GEAR compares an on-policy student with a ground-truth-conditioned teacher to obtain a reference-guided divergence signal for identifying adaptive segment boundaries and modulating local advantage weights. This divergence often spikes at the onset of a semantic deviation, while later tokens in the same autoregressive continuation may return to low divergence. GEAR therefore treats such spikes as anchors for adaptive credit regions: where the student remains aligned with the teacher, token-level resolution is preserved; where it departs, GEAR groups the corresponding continuation into an adaptive segment and uses the divergence at the departure point to modulate the segment' s advantage. Experiments across eight mathematical reasoning and agentic tool-use benchmarks with Qwen3 4B and 8B models show that GEAR consistently outperforms standard GRPO, self-distillation-only baselines, and token- or turn-level credit-assignment methods. The gains are especially strong on benchmarks with lower GRPO baseline accuracy, reaching up to around 20\% over GRPO, suggesting that the proposed adaptive reweighting scheme is especially useful in more challenging long-horizon settings.

What to Ignore, What to React: Visually Robust RL Fine-Tuning of VLA Models

Reinforcement learning (RL) fine-tuning has shown promise for Vision-Language-Action (VLA) models in robotic manipulation, but deployment-time visual shifts pose practical challenges. A key difficulty is that standard task rewards supervise task success, but offer limited guidance on whether a visual change is task-irrelevant or changes the behavior required for manipulation. We propose PAIR-VLA (Paired Action Invariance & Sensitivity for Visually Robust VLA), an RL fine-tuning framework to address this difficulty by adding two auxiliary objectives over paired visual variants during PPO optimization: an invariance term that reduces the discrepancy between action distributions for a task-preserving pair (e.g., different distractors), and a sensitivity objective that encourages separable action distributions for a task-altering pair (e.g., target object in a different pose). Together, these objectives turn visual variants from mere observation diversity into behavior-level guidance on policy responses during RL fine-tuning. We evaluate on ManiSkill3 across two representative VLA architectures, OpenVLA and $π_{0.5}$, under diverse out-of-distribution visual shifts including unseen distractors, texture changes, target object pose variation, viewpoint shifts, and lighting changes. Our method consistently improves over standard PPO, achieving average improvements of 16.62% on $π_{0.5}$ and 9.10% on OpenVLA. Notably, ablations further show generalization across visual shifts: invariance guidance learned from distractor and texture variants transfers to target-pose and lighting shifts, while adding sensitivity guidance on target-pose variants further improves robustness to nuisance shifts, highlighting the broader transferability of behavior-level RL guidance.

SAIL: Structure-Aware Interpretable Learning for Anatomy-Aligned Post-hoc Explanations in OCT

Optical coherence tomography (OCT), a commonly used retinal imaging modality, plays a central role in retinal disease diagnosis by providing high-resolution visualization of retinal layers. While deep learning (DL) has achieved expert-level accuracy in OCT-based retinal disease detection, its "black box" nature poses challenges for clinical adoption, where explainability is essential for clinical trust and regulatory approval. Existing post-hoc explainable AI (XAI) methods often struggle to delineate fine-grained lesion structures, respect anatomical boundaries, or suppress noise, limiting the trustworthiness of their explanations. To bridge these gaps, we propose a Structure-Aware Interpretable Learning (SAIL) framework that integrates retinal anatomical priors at the representation level and couples them with semantic features via a fusion design. Without modifying standard post-hoc explainability methods, this representation yields sharper and more anatomically aligned attribution maps. Comprehensive experiments on diverse OCT datasets demonstrate that our structure-aware method consistently enhances interpretability, producing clinically meaningful and anatomy-aware explanations. Ablation studies further show that strong interpretability requires both structural priors and semantic features, and that properly fusing the two is critical to achieve the best explanation quality. Together, these results highlight structure-aware representations as a key step toward reliable explainability in OCT.