OpenRaiser/Intern-Atlas huggingface dataset:
HiRef: Leveraging Hierarchical Ontology and Network Refinement for Robust Medication Recommendation
Venue: arXiv cs.AI 2025
Year: 2025

Medication recommendation is a crucial task for assisting physicians in making timely decisions from longitudinal patient medical records. However, real-world EHR data present significant challenges due to the presence of rarely observed medical entities and incomplete records that may not fully capture the clinical ground truth. While data-driven models trained on longitudinal Electronic Health Records often achieve strong empirical performance, they struggle to generalize under missing or novel conditions, largely due to their reliance on observed co-occurrence patterns. To address these issues, we propose Hierarchical Ontology and Network Refinement for Robust Medication Recommendation (HiRef), a unified framework that combines two complementary structures: (i) the hierarchical semantics encoded in curated medical ontologies, and (ii) refined co-occurrence patterns derived from real-world EHRs. We embed ontology entities in hyperbolic space, which naturally captures tree-like relationships and enables knowledge transfer through shared ancestors, thereby improving generalizability to unseen codes. To further improve robustness, we introduce a prior-guided sparse regularization scheme that refines the EHR co-occurrence graph by suppressing spurious edges while preserving clinically meaningful associations. Our model achieves strong performance on EHR benchmarks (MIMIC-III and MIMIC-IV) and maintains high accuracy under simulated unseen-code settings. Extensive experiments with comprehensive ablation studies demonstrate HiRef's resilience to unseen medical codes, supported by in-depth analyses of the learned sparsified graph structure and medical code embeddings.
Unpacking the Implicit Norm Dynamics of Sharpness-Aware Minimization in Tensorized Models
Venue: arXiv cs.LG 2025
Year: 2025

Sharpness-Aware Minimization (SAM) has been proven to be an effective optimization technique for improving generalization in overparameterized models. While prior works have explored the implicit regularization of SAM in simple two-core scale-invariant settings, its behavior in more general tensorized or scale-invariant models remains underexplored. In this work, we leverage scale-invariance to analyze the norm dynamics of SAM in general tensorized models. We introduce the notion of \emph{Norm Deviation} as a global measure of core norm imbalance, and derive its evolution under SAM using gradient flow analysis. We show that SAM's implicit control of Norm Deviation is governed by the covariance between core norms and their gradient magnitudes. Motivated by these findings, we propose a simple yet effective method, \emph{Deviation-Aware Scaling (DAS)}, which explicitly mimics this regularization behavior by scaling core norms in a data-adaptive manner. Our experiments across tensor completion, noisy training, model compression, and parameter-efficient fine-tuning confirm that DAS achieves competitive or improved performance over SAM, while offering reduced computational overhead.
Multi-Label Plant Species Prediction with Metadata-Enhanced Multi-Head Vision Transformers
Venue: arXiv cs.CV 2025
Year: 2025

We present a multi-head vision transformer approach for multi-label plant species prediction in vegetation plot images, addressing the PlantCLEF 2025 challenge. The task involves training models on single-species plant images while testing on multi-species quadrat images, creating a drastic domain shift. Our methodology leverages a pre-trained DINOv2 Vision Transformer Base (ViT-B/14) backbone with multiple classification heads for species, genus, and family prediction, utilizing taxonomic hierarchies. Key contributions include multi-scale tiling to capture plants at different scales, dynamic threshold optimization based on mean prediction length, and ensemble strategies through bagging and Hydra model architectures. The approach incorporates various inference techniques including image cropping to remove non-plant artifacts, top-n filtering for prediction constraints, and logit thresholding strategies. Experiments were conducted on approximately 1.4 million training images covering 7,806 plant species. Results demonstrate strong performance, making our submission 3rd best on the private leaderboard. Our code is available at https://github.com/geranium12/plant-clef-2025/tree/v1.0.0.
Efficient Methods for Accurate Sparse Trajectory Recovery and Map Matching
Venue: arXiv cs.DB 2025
Year: 2025

Real-world trajectories are often sparse with low-sampling rates (i.e., long intervals between consecutive GPS points) and misaligned with road networks, yet many applications demand high-quality data for optimal performance. To improve data quality with sparse trajectories as input, we systematically study two related research problems: trajectory recovery on road network, which aims to infer missing points to recover high-sampling trajectories, and map matching, which aims to map GPS points to road segments to determine underlying routes. In this paper, we present efficient methods TRMMA and MMA for accurate trajectory recovery and map matching, respectively, where MMA serves as the first step of TRMMA. In MMA, we carefully formulate a classification task to map a GPS point from sparse trajectories to a road segment over a small candidate segment set, rather than the entire road network. We develop techniques in MMA to generate effective embeddings that capture the patterns of GPS data, directional information, and road segments, to accurately align sparse trajectories to routes. For trajectory recovery, TRMMA focuses on the segments in the route returned by MMA to infer missing points with position ratios on road segments, producing high-sampling trajectories efficiently by avoiding evaluation of all road segments. Specifically, in TRMMA, we design a dual-transformer encoding process to cohesively capture latent patterns in trajectories and routes, and an effective decoding technique to sequentially predict the position ratios and road segments of missing points. We conduct extensive experiments to compare TRMMA and MMA with numerous existing methods for trajectory recovery and map matching, respectively, on 4 large real-world datasets. TRMMA and MMA consistently achieve the best result quality, often by a significant margin.
EDAPT: Towards Calibration-Free BCIs with Continual Online Adaptation
Venue: arXiv cs.LG 2025
Year: 2025

Brain-computer interfaces (BCIs) suffer from accuracy degradation as neural signals drift over time and vary across users, requiring frequent recalibration that limits practical deployment. We introduce EDAPT, a task- and model-agnostic framework that eliminates calibration through continual model adaptation. EDAPT first trains a baseline decoder using data from multiple users, then continually personalizes this model via supervised finetuning as the neural patterns evolve during use. We tested EDAPT across nine datasets covering three BCI tasks, and found that it consistently improved accuracy over conventional, static methods. These improvements primarily stem from combining population-level pretraining and online continual finetuning, with unsupervised domain adaptation providing further gains on some datasets. EDAPT runs efficiently, updating models within 200 milliseconds on consumer-grade hardware. Finally, decoding accuracy scales with total data budget rather than its allocation between subjects and trials. EDAPT provides a practical pathway toward calibration-free BCIs, reducing a major barrier to BCI deployment.
Emerging Skycube
Venue: arXiv cs.DB 2025
Year: 2025

Combining multi-criteria decision analysis and trend reversal discovery make it possible to extract globally optimal, or non-dominated, data in relation to several criteria, and then to observe their evolution according to a decision-making property. Thus, we introduce Emerging Skycube, a concept associating Skycube and emerging datacube. As far as we know, no DBMS-integrated solution exists to compute an emerging Skycube, and hence taking advantage of ROLAP analysis tools. An emerging datacube has only one measure: we propose to use several to comply to multi-criteria decision analysis constraints which requires multiple attributes. A datacube is expensive to compute. An emerging datacube is about twice as expensive. On the other hand, an emerging Skycube is cheaper as the trend reversal is computed after two Skycube calculations, which considerably reduces the relation volume in comparison with the initial one. It is possible to save even more computing time and storage space. To this end, we propose two successive reductions. First, a Skycube lossless partial materialisation using Skylines concepts lattice, based on the agree concepts lattice and partitions lattice. Then, either the closed emerging Skycube for an information-loss reduction, or the closed emerging L-Skycube for a smaller but lossless reduction.
Med-GLIP: Advancing Medical Language-Image Pre-training with Large-scale Grounded Dataset
Venue: arXiv cs.CV 2025
Year: 2025

Medical image grounding aims to align natural language phrases with specific regions in medical images, serving as a foundational task for intelligent diagnosis, visual question answering (VQA), and automated report generation (MRG). However, existing research is constrained by limited modality coverage, coarse-grained annotations, and the absence of a unified, generalizable grounding framework. To address these challenges, we construct a large-scale medical grounding dataset Med-GLIP-5M comprising over 5.3 million region-level annotations across seven imaging modalities, covering diverse anatomical structures and pathological findings. The dataset supports both segmentation and grounding tasks with hierarchical region labels, ranging from organ-level boundaries to fine-grained lesions. Based on this foundation, we propose Med-GLIP, a modality-aware grounding framework trained on Med-GLIP-5M. Rather than relying on explicitly designed expert modules, Med-GLIP implicitly acquires hierarchical semantic understanding from diverse training data -- enabling it to recognize multi-granularity structures, such as distinguishing lungs from pneumonia lesions. Extensive experiments demonstrate that Med-GLIP consistently outperforms state-of-the-art baselines across multiple grounding benchmarks. Furthermore, integrating its spatial outputs into downstream tasks, including medical VQA and report generation, leads to substantial performance gains. Our dataset will be released soon.
Projected Coupled Diffusion for Test-Time Constrained Joint Generation
Venue: arXiv cs.LG 2025
Year: 2025

Modifications to test-time sampling have emerged as an important extension to diffusion algorithms, with the goal of biasing the generative process to achieve a given objective without having to retrain the entire diffusion model. However, generating jointly correlated samples from multiple pre-trained diffusion models while simultaneously enforcing task-specific constraints without costly retraining has remained challenging. To this end, we propose Projected Coupled Diffusion (PCD), a novel test-time framework for constrained joint generation. PCD introduces a coupled guidance term into the generative dynamics to encourage coordination between diffusion models and incorporates a projection step at each diffusion step to enforce hard constraints. Empirically, we demonstrate the effectiveness of PCD in application scenarios of image-pair generation, object manipulation, and multi-robot motion planning. Our results show improved coupling effects and guaranteed constraint satisfaction without incurring excessive computational costs.
Stabilizing Long-term Multi-turn Reinforcement Learning with Gated Rewards
Venue: arXiv cs.LG 2025
Year: 2025

Reward sparsity in long-horizon reinforcement learning (RL) tasks remains a significant challenge, while existing outcome-based reward shaping struggles to define meaningful immediate rewards without introducing bias or requiring explicit task decomposition. Alternatively, verification-based reward shaping uses stepwise critics, but misalignment between immediate rewards and long-term objectives can lead to reward hacking and suboptimal policies. In this work, we address this problem in the context of software engineering (SWE) tasks, where multi-turn reasoning and rule-based verification are critical. We introduce the SWE-oriented RL Framework, a unified system supporting multi-turn interaction, docker-based execution, and customizable reward functions. Additionally, we propose Gated Reward Accumulation (G-RA), a novel method that accumulates immediate rewards only when high-level (long-term) rewards meet a predefined threshold, ensuring stable RL optimization. Experiments on SWE-bench Verified and kBench demonstrate that G-RA leads to an increase in completion rates (47.6\% \rightarrow 93.8\% and 22.0\% \rightarrow 86.0\%) and modification rates (19.6\% \rightarrow 23.8\% and 12.0\% \rightarrow 42.0\%), while avoiding policy degradation caused by reward misalignment. Our findings highlight the importance of balanced reward accumulation in long-horizon RL and provide a practical solution.
PSScreen: Partially Supervised Multiple Retinal Disease Screening
Venue: arXiv cs.CV 2025
Year: 2025

Leveraging multiple partially labeled datasets to train a model for multiple retinal disease screening reduces the reliance on fully annotated datasets, but remains challenging due to significant domain shifts across training datasets from various medical sites, and the label absent issue for partial classes. To solve these challenges, we propose PSScreen, a novel Partially Supervised multiple retinal disease Screening model. Our PSScreen consists of two streams and one learns deterministic features and the other learns probabilistic features via uncertainty injection. Then, we leverage the textual guidance to decouple two types of features into disease-wise features and align them via feature distillation to boost the domain generalization ability. Meanwhile, we employ pseudo label consistency between two streams to address the label absent issue and introduce a self-distillation to transfer task-relevant semantics about known classes from the deterministic to the probabilistic stream to further enhance the detection performances. Experiments show that our PSScreen significantly enhances the detection performances on six retinal diseases and the normal state averagely and achieves state-of-the-art results on both in-domain and out-of-domain datasets. Codes are available at https://github.com/boyiZheng99/PSScreen.
On Kernelization with Access to NP-Oracles
Venue: arXiv cs.CC 2025
Year: 2025

Kernelization is the standard framework to analyze preprocessing routines mathematically. Here, in terms of efficiency, we demand the preprocessing routine to run in time polynomial in the input size. However, today, various NP-complete problems are already solved very fast in practice; in particular, SAT-solvers and ILP-solvers have become extremely powerful and used frequently. Still, this fails to capture the wide variety of computational problems that lie at higher levels of the polynomial hierarchy. Thus, for such problems, it is natural to relax the definition of kernelization to permit the preprocessing routine to make polynomially many calls to a SAT-solver, rather than run, entirely, in polynomial time. Our conceptual contribution is the introduction of a new notion of a kernel that harnesses the power of SAT-solvers for preprocessing purposes, and which we term a P^NP-Kernel. Technically, we investigate various facets of this notion, by proving both positive and negative results, including a lower-bounds framework to reason about the negative results. Here, we consider both satisfiability and graph problems. Additionally, we present a meta-theorem for so-called "discovery problems". This work falls into a long line of research on extensions of the concept of kernelization, including lossy kernels [Lokshtanov et al., STOC '17], dynamic kernels [Alman et al., ACM TALG '20], counting kernels [Lokshtanov et al., ICTS '24], and streaming kernels [Fafianie and Kratsch, MFCS '14].
AR Surgical Navigation with Surface Tracing: Comparing In-Situ Visualization with Tool-Tracking Guidance for Neurosurgical Applications
Venue: arXiv cs.CV 2025
Year: 2025

Augmented Reality (AR) surgical navigation systems are emerging as the next generation of intraoperative surgical guidance, promising to overcome limitations of traditional navigation systems. However, known issues with AR depth perception due to vergence-accommodation conflict and occlusion handling limitations of the currently commercially available display technology present acute challenges in surgical settings where precision is paramount. This study presents a novel methodology for utilizing AR guidance to register anatomical targets and provide real-time instrument navigation using placement of simulated external ventricular drain catheters on a phantom model as the clinical scenario. The system registers target positions to the patient through a novel surface tracing method and uses real-time infrared tool tracking to aid in catheter placement, relying only on the onboard sensors of the Microsoft HoloLens 2. A group of intended users performed the procedure of simulated insertions under two AR guidance conditions: static in-situ visualization, where planned trajectories are overlaid directly onto the patient anatomy, and real-time tool-tracking guidance, where live feedback of the catheter's pose is provided relative to the plan. Following the insertion tests, computed tomography scans of the phantom models were acquired, allowing for evaluation of insertion accuracy, target deviation, angular error, and depth precision. System Usability Scale surveys assessed user experience and cognitive workload. Tool-tracking guidance improved performance metrics across all accuracy measures and was preferred by users in subjective evaluations. A free copy of this paper and all supplemental materials are available at https://bit.ly/45l89Hq.
GNN-based Unified Deep Learning
Venue: arXiv cs.LG 2025
Year: 2025

Deep learning models often struggle to maintain generalizability in medical imaging, particularly under domain-fracture scenarios where distribution shifts arise from varying imaging techniques, acquisition protocols, patient populations, demographics, and equipment. In practice, each hospital may need to train distinct models - differing in learning task, width, and depth - to match local data. For example, one hospital may use Euclidean architectures such as MLPs and CNNs for tabular or grid-like image data, while another may require non-Euclidean architectures such as graph neural networks (GNNs) for irregular data like brain connectomes. How to train such heterogeneous models coherently across datasets, while enhancing each model's generalizability, remains an open problem. We propose unified learning, a new paradigm that encodes each model into a graph representation, enabling unification in a shared graph learning space. A GNN then guides optimization of these unified models. By decoupling parameters of individual models and controlling them through a unified GNN (uGNN), our method supports parameter sharing and knowledge transfer across varying architectures (MLPs, CNNs, GNNs) and distributions, improving generalizability. Evaluations on MorphoMNIST and two MedMNIST benchmarks - PneumoniaMNIST and BreastMNIST - show that unified learning boosts performance when models are trained on unique distributions and tested on mixed ones, demonstrating strong robustness to unseen data with large distribution shifts. Code and benchmarks: https://github.com/basiralab/uGNN
MSRS: Adaptive Multi-Subspace Representation Steering for Attribute Alignment in Large Language Models
Venue: arXiv cs.AI 2025
Year: 2025

Activation steering offers a promising approach to controlling the behavior of Large Language Models by directly manipulating their internal activations. However, most existing methods struggle to jointly steer multiple attributes, often resulting in interference and undesirable trade-offs. To address this challenge, we propose Multi-Subspace Representation Steering (MSRS), a novel framework for effective multi-attribute steering via subspace representation fine-tuning. MSRS reduces inter-attribute interference by allocating orthogonal subspaces to each attribute, isolating their influence within the model's representation space. MSRS also incorporates a hybrid subspace composition strategy: it combines attribute-specific subspaces for unique steering directions with a shared subspace for common steering directions. A dynamic weighting function learns to efficiently integrate these components for precise control. During inference, MSRS introduces a token-level steering mechanism that dynamically identifies and intervenes on the most semantically relevant tokens, enabling fine-grained behavioral modulation. Experimental results show that MSRS significantly reduces attribute conflicts, surpasses existing methods across a range of attributes, and generalizes effectively to diverse downstream tasks.
Variance Reduced Policy Gradient Method for Multi-Objective Reinforcement Learning
Venue: arXiv cs.LG 2025
Year: 2025

Multi-Objective Reinforcement Learning (MORL) is a generalization of traditional Reinforcement Learning (RL) that aims to optimize multiple, often conflicting objectives simultaneously rather than focusing on a single reward. This approach is crucial in complex decision-making scenarios where agents must balance trade-offs between various goals, such as maximizing performance while minimizing costs. We consider the problem of MORL where the objectives are combined using a non-linear scalarization function. Just like in standard RL, policy gradient methods (PGMs) are amongst the most effective for handling large and continuous state-action spaces in MORL. However, existing PGMs for MORL suffer from high sample inefficiency, requiring large amounts of data to be effective. Previous attempts to solve this problem rely on overly strict assumptions, losing PGMs' benefits in scalability to large state-action spaces. In this work, we address the issue of sample efficiency by implementing variance-reduction techniques to reduce the sample complexity of policy gradients while maintaining general assumptions.
Are Electrodermal Activity-Based Indicators of Driver Cognitive Distraction Robust to Varying Traffic Conditions and Adaptive Cruise Control Use?
Venue: arXiv cs.HC 2025
Year: 2025

In this simulator study, we investigate whether and how electrodermal activity (EDA) reflects driver cognitive distraction under varying traffic conditions and adaptive cruise control (ACC) use. Participants drove in six scenarios, combining two levels of cognitive distraction (presence/absence of a mental calculation task) and three levels of driving environment complexity (different traffic conditions). Throughout the experiment, they were free to activate or deactivate ACC (ACC use, two levels). We analyzed three EDA-based indicators of cognitive distraction: SCL (mean skin conductance level), SCR amplitude (mean amplitude of skin conductance responses), and SCR rate (rate of skin conductance responses). Results indicate that all three indicators were significantly influenced by cognitive distraction and ACC use, while environment complexity influenced SCL and SCR amplitude, but not SCR rate. These findings suggest that EDA-based indicators reflect variations in drivers' mental workload due not only to cognitive distraction, but also to driving environment and automation use.