Objective: To develop and evaluate a scalable methodology for harmonizing inconsistent units in large-scale clinical datasets, addressing a key barrier to data interoperability. Materials and Methods: We designed a novel unit harmonization system combining BM25, sentence embeddings, Bayesian optimization, and a bidirectional transformer based binary classifier for retrieving and matching laboratory test entries. The system was evaluated using the Optum Clinformatics Datamart dataset (7.5 billion entries). We implemented a multi-stage pipeline: filtering, identification, harmonization proposal generation, automated re-ranking, and manual validation. Performance was assessed using Mean Reciprocal Rank (MRR) and other standard information retrieval metrics. Results: Our hybrid retrieval approach combining BM25 and sentence embeddings (MRR: 0.8833) significantly outperformed both lexical-only (MRR: 0.7985) and embedding-only (MRR: 0.5277) approaches. The transformer-based reranker further improved performance (absolute MRR improvement: 0.10), bringing the final system MRR to 0.9833. The system achieved 83.39\% precision at rank 1 and 94.66\% recall at rank 5. Discussion: The hybrid architecture effectively leverages the complementary strengths of lexical and semantic approaches. The reranker addresses cases where initial retrieval components make errors due to complex semantic relationships in medical terminology. Conclusion: Our framework provides an efficient, scalable solution for unit harmonization in clinical datasets, reducing manual effort while improving accuracy. Once harmonized, data can be reused seamlessly in different analyses, ensuring consistency across healthcare systems and enabling more reliable multi-institutional studies and meta-analyses.

Notice to Air Missions (NOTAMs) serve as a critical channel for disseminating key flight safety information, yet their complex linguistic structures and implicit reasoning pose significant challenges for automated parsing. Existing research mainly focuses on surface-level tasks such as classification and named entity recognition, lacking deep semantic understanding. To address this gap, we propose NOTAM semantic parsing, a task emphasizing semantic inference and the integration of aviation domain knowledge to produce structured, inference-rich outputs. To support this task, we construct Knots (Knowledge and NOTAM Semantics), a high-quality dataset of 12,347 expert-annotated NOTAMs covering 194 Flight Information Regions, enhanced through a multi-agent collaborative framework for comprehensive field discovery. We systematically evaluate a wide range of prompt-engineering strategies and model-adaptation techniques, achieving substantial improvements in aviation text understanding and processing. Our experimental results demonstrate the effectiveness of the proposed approach and offer valuable insights for automated NOTAM analysis systems. Our code is available at: https://github.com/Estrellajer/Knots.

Accurate 3D fruit counting in orchards is challenging due to heavy occlusion, semantic ambiguity between fruits and surrounding structures, and the high computational cost of volumetric reconstruction. Existing pipelines often rely on multi-view 2D segmentation and dense volumetric sampling, which lead to accumulated fusion errors and slow inference. We introduce FruitLangGS, a language-guided 3D fruit counting framework that reconstructs orchard-scale scenes using an adaptive-density Gaussian Splatting pipeline with radius-aware pruning and tile-based rasterization, enabling scalable 3D representation. During inference, compressed CLIP-aligned semantic vectors embedded in each Gaussian are filtered via a dual-threshold cosine similarity mechanism, retrieving Gaussians relevant to target prompts while suppressing common distractors (e.g., foliage), without requiring retraining or image-space masks. The selected Gaussians are then sampled into dense point clouds and clustered geometrically to estimate fruit instances, remaining robust under severe occlusion and viewpoint variation. Experiments on nine different orchard-scale datasets demonstrate that FruitLangGS consistently outperforms existing pipelines in instance counting recall, avoiding multi-view segmentation fusion errors and achieving up to 99.7% recall on Pfuji-Size_Orch2018 orchard dataset. Ablation studies further confirm that language-conditioned semantic embedding and dual-threshold prompt filtering are essential for suppressing distractors and improving counting accuracy under heavy occlusion. Beyond fruit counting, the same framework enables prompt-driven 3D semantic retrieval without retraining, highlighting the potential of language-guided 3D perception for scalable agricultural scene understanding.

Flooding remains a major global challenge, worsened by climate change and urbanization, demanding advanced solutions for effective disaster management. While traditional 2D flood mapping techniques provide limited insights, 3D flood mapping, powered by deep learning (DL), offers enhanced capabilities by integrating flood extent and depth. This paper presents a comprehensive survey of deep learning-based 3D flood mapping, emphasizing its advancements over 2D maps by integrating flood extent and depth for effective disaster management and urban planning. The survey categorizes deep learning techniques into task decomposition and end-to-end approaches, applicable to both static and dynamic flood features. We compare key DL architectures, highlighting their respective roles in enhancing prediction accuracy and computational efficiency. Additionally, this work explores diverse data sources such as digital elevation models, satellite imagery, rainfall, and simulated data, outlining their roles in 3D flood mapping. The applications reviewed range from real-time flood prediction to long-term urban planning and risk assessment. However, significant challenges persist, including data scarcity, model interpretability, and integration with traditional hydrodynamic models. This survey concludes by suggesting future directions to address these limitations, focusing on enhanced datasets, improved models, and policy implications for flood management. This survey aims to guide researchers and practitioners in leveraging DL techniques for more robust and reliable 3D flood mapping, fostering improved flood management strategies.

Visual Information Extraction (VIE) converts unstructured document images into structured formats like JSON, critical for medical applications such as report analysis and online consultations. Traditional methods rely on OCR and language models, while end-to-end multimodal models offer direct JSON generation. However, domain-specific schemas and high annotation costs limit their effectiveness in medical VIE. We base our approach on the Reinforcement Learning with Verifiable Rewards (RLVR) framework to address these challenges using only 100 annotated samples. Our approach ensures dataset diversity, a balanced precision-recall reward mechanism to reduce hallucinations and improve field coverage, and innovative sampling strategies to enhance reasoning capabilities. Fine-tuning Qwen2.5-VL-7B with our RLVR method, we achieve state-of-the-art performance on medical VIE tasks, significantly improving F1, precision, and recall. While our models excel on tasks similar to medical datasets, performance drops on dissimilar tasks, highlighting the need for domain-specific optimization. Case studies further demonstrate the value of reasoning during training and inference for VIE.

Soil organic carbon (SOC) monitoring often relies on selecting representative field sampling locations based on environmental covariates. We propose a novel hybrid methodology that integrates spectral clustering - an unsupervised machine learning technique with conditioned Latin hypercube sampling (cLHS) to enhance the representativeness of SOC sampling. In our approach, spectral clustering partitions the study area into $K$ homogeneous zones using multivariate covariate data, and cLHS is then applied within each zone to select sampling locations that collectively capture the full diversity of environmental conditions. This hybrid spectral-cLHS method ensures that even minor but important environmental clusters are sampled, addressing a key limitation of vanilla cLHS which can overlook such areas. We demonstrate on a real SOC mapping dataset that spectral-cLHS provides more uniform coverage of covariate feature space and spatial heterogeneity than standard cLHS. This improved sampling design has the potential to yield more accurate SOC predictions by providing better-balanced training data for machine learning models.

This paper presents an automated one-shot bird call classification pipeline designed for rare species absent from large publicly available classifiers like BirdNET and Perch. While these models excel at detecting common birds with abundant training data, they lack options for species with only 1-3 known recordings-a critical limitation for conservationists monitoring the last remaining individuals of endangered birds. To address this, we leverage the embedding space of large bird classification networks and develop a classifier using cosine similarity, combined with filtering and denoising preprocessing techniques, to optimize detection with minimal training data. We evaluate various embedding spaces using clustering metrics and validate our approach in both a simulated scenario with Xeno-Canto recordings and a real-world test on the critically endangered tooth-billed pigeon (Didunculus strigirostris), which has no existing classifiers and only three confirmed recordings. The final model achieved 1.0 recall and 0.95 accuracy in detecting tooth-billed pigeon calls, making it practical for use in the field. This open-source system provides a practical tool for conservationists seeking to detect and monitor rare species on the brink of extinction.

Large-scale physical systems defined on irregular grids pose significant scalability challenges for deep learning methods, especially in the presence of long-range interactions and multi-scale coupling. Traditional approaches that compute all pairwise interactions, such as attention, become computationally prohibitive as they scale quadratically with the number of nodes. We present Erwin, a hierarchical transformer inspired by methods from computational many-body physics, which combines the efficiency of tree-based algorithms with the expressivity of attention mechanisms. Erwin employs ball tree partitioning to organize computation, which enables linear-time attention by processing nodes in parallel within local neighborhoods of fixed size. Through progressive coarsening and refinement of the ball tree structure, complemented by a novel cross-ball interaction mechanism, it captures both fine-grained local details and global features. We demonstrate Erwin's effectiveness across multiple domains, including cosmology, molecular dynamics, and particle fluid dynamics, where it consistently outperforms baseline methods both in accuracy and computational efficiency.

Real-world data is often assumed to lie within a low-dimensional structure embedded in high-dimensional space. In practical settings, we observe only a finite set of samples, forming what we refer to as the sample data subspace. It serves an essential approximation supporting tasks such as dimensionality reduction and generation. A major challenge lies in whether generative models can reliably synthesize samples that stay within this subspace rather than drifting away from the underlying structure. In this work, we provide theoretical insights into this challenge by leveraging Flow Matching models, which transform a simple prior into a complex target distribution via a learned velocity field. By treating the real data distribution as discrete, we derive analytical expressions for the optimal velocity field under a Gaussian prior, showing that generated samples memorize real data points and represent the sample data subspace exactly. To generalize to suboptimal scenarios, we introduce the Orthogonal Subspace Decomposition Network (OSDNet), which systematically decomposes the velocity field into subspace and off-subspace components. Our analysis shows that the off-subspace component decays, while the subspace component generalizes within the sample data subspace, ensuring generated samples preserve both proximity and diversity.

Modeling the complex three-dimensional (3D) dynamics of relational systems is an important problem in the natural sciences, with applications ranging from molecular simulations to particle mechanics. Machine learning methods have achieved good success by learning graph neural networks to model spatial interactions. However, these approaches do not faithfully capture temporal correlations since they only model next-step predictions. In this work, we propose Equivariant Graph Neural Operator (EGNO), a novel and principled method that directly models dynamics as trajectories instead of just next-step prediction. Different from existing methods, EGNO explicitly learns the temporal evolution of 3D dynamics where we formulate the dynamics as a function over time and learn neural operators to approximate it. To capture the temporal correlations while keeping the intrinsic SE(3)-equivariance, we develop equivariant temporal convolutions parameterized in the Fourier space and build EGNO by stacking the Fourier layers over equivariant networks. EGNO is the first operator learning framework that is capable of modeling solution dynamics functions over time while retaining 3D equivariance. Comprehensive experiments in multiple domains, including particle simulations, human motion capture, and molecular dynamics, demonstrate the significantly superior performance of EGNO against existing methods, thanks to the equivariant temporal modeling.