arXiv subjects

Ziyu Lu

Publications and source records attributed to Ziyu Lu.

13 recordsLinked to original sources

arXiv2026

OntologyAligner: Ontology-Aligned Retrieval and Hierarchy-Guided Large Language Model Reranking for Biomedical Ontology Normalization

Biomedical ontology normalization maps free-text expressions to standardized concepts, enabling consistent integration and analysis of biomedical data. This task remains challenging because lexical variation and subtle distinctions among hierarchically related concepts can obscure concept boundaries. We present OntologyAligner, a three-stage framework that combines ontology-aligned retrieval, large language model candidate reranking, and selective hierarchy-guided refinement. We also construct PhenoNormBench, a unified benchmark comprising 13,390 samples from seven Human Phenotype Ontology datasets. OntologyAligner achieved state-of-the-art performance on HPO normalization, with 88.78% Macro Top-1 Accuracy and 86.75% Micro Top-1 Accuracy, exceeding the strongest baseline by 4.85 and 5.07 percentage points, respectively. Ablation analyses showed complementary contributions from all three stages, and sensitivity analyses demonstrated stability across candidate-set sizes and model backbones. Applications to MONDO, MEDIC, and NCBITaxon further established portability to other ontologies. OntologyAligner offers a generalizable framework for accurate mapping of biomedical text to structured ontology concepts. PhenoNormBench and the code are publicly available at https://github.com/zhelishisongjie/OntologyAligner.

cs.AI↗

arXiv2026

RealCAD: Towards Real-World Image-to-CAD Reconstruction under Domain Shift and Parameter Bias

Reconstructing editable Computer-Aided Design (CAD) models from images is essential for downstream modification, manufacturing, and design reuse. However, existing image-to-CAD methods are developed predominantly on synthetic renderings and face two coupled obstacles: a substantial appearance domain gap between synthetic and real images, and a previously overlooked parameter bias in widely used CAD data. We show that the local normalization adopted by DeepCAD concentrates several geometric parameters around a few discrete values while encoding substantial information in a single scale factor. Consequently, a model can achieve deceptively high parameter accuracy by exploiting these frequent values rather than inferring geometry from the input image. In this paper, we propose RealCAD, a unified framework that addresses these limitations at the representation, image, and feature levels. At the representation level, we redistribute scale information to the corresponding geometric parameters, producing less concentrated parameter distributions in a shared scale space. At the image level, geometry-constrained translation converts synthetic renderings toward the real-image domain while conditioning on object contours. At the feature level, a multi-positive contrastive objective aligns representations of the same CAD model across viewpoints and image domains, enabling CAD sequence prediction from each individual view. We further introduce OpenRealCAD, comprising four-view photographs of 392 3D-printed objects paired with ground-truth command sequences. Experiments show that the revised representation substantially reduces the accuracy attainable from parameter-frequency priors, making parameter accuracy a more reliable measure of image-conditioned geometric inference. RealCAD further improves real-domain command and parameter accuracy, while retaining competitive synthetic-domain performance.

cs.CV↗

arXiv2026

Tree-of-Ideas: Automated Research Ideation via Cross-Trajectory Reasoning over Scholarly Evolution

Effective research ideation requires moving beyond a static understanding of prior work to trace how research problems and solutions evolve across the literature. Existing methods either treat papers as unstructured context or model scholarly evolution as isolated citation chains, overlooking interactions among research trajectories. We propose Tree-of-Ideas (ToI), a two-stage framework. EvoTrace reconstructs branching scholarly trajectories from citations, tracking evolving methods, resolved problems, and gaps. EvoAgent then reasons across trajectories to identify convergent problems and complementary solutions, generating grounded research ideas. Across six AI research topics, ToI achieves the highest score among automatic methods (6.27 vs. 5.36 for the strongest baseline on a 10-point scale), with strong Novelty (6.36) and Groundedness (7.00). Also, its score approaches that of human-paper references (6.29), demonstrating the value of cross-path evolutionary reasoning.

cs.AI↗

arXiv2026

FAST-GS: Frequency Aware Space-time Gaussian Splatting for Photorealistic Dynamic Novel View Synthesis

4D Gaussian Splatting (4DGS) excels in dynamic 3D reconstruction and real-time novel view synthesis via efficient 4D Gaussian representations and parallelizable rendering. However, existing 4DGS approaches rely on a single polynomial to model motion, which limits performance in complex dynamic scenes where high-frequency motion components are prevalent, and fails to ensure long-term stability due to cumulative trajectory drift. To address these issues, we propose a Fourier Motion Modeling module: this paradigm decomposes motion into frequency-based sinusoidal components, capturing both low-frequency global trajectories and high-frequency local details to model complex motion patterns accurately. It retains the real-time rendering capability of 4DGS while improving complex motion fitting and long-term coherence. Additionally, we integrate a motion-aware regularization strategy into the loss function: it uses frequency-dependent weights to suppress high-frequency jitter while preserving low-frequency motion coherence. Extensive experiments on N3V and Google Immersive datasets from multiple scenarios demonstrate the effectiveness of our method.

cs.CV↗

arXiv2026

CanvasAgent: Enabling Complex Image Creation and Editing via Visual Tool Orchestration

Complex image creation and editing often require more than a single generation or editing model. A user request may involve synthesizing images, localizing objects, segmenting regions, editing selected content, compositing intermediate assets, reading text, and enhancing the final result. Such tasks shift multimodal agents from perception-augmented reasoning to manipulation-centered visual creation, where tools must actively transform visual states rather than merely inspect them. However, existing multimodal tool-use agents are mostly optimized for perception, search, or domain-specific editing, and lack large-scale supervision for executable image-creation trajectories. In this paper, we introduce CanvasCraft, a large-scale multimodal tool-use dataset for complex image creation and editing, and \textbf{CanvasAgent}, a tool-augmented multimodal agent that learns to orchestrate heterogeneous visual tools through multi-turn interaction. CanvasCraft contains 140K fully annotated executable trajectories and 10K RL task specifications. CanvasAgent is first trained with SFT to learn executable reasoning-action trajectories, and is then optimized with GRPO using a hybrid reward that combines outcome- and process-level signals. During rollout, CanvasAgent inspects intermediate results, tracks visual assets, and adapts tool decisions to the evolving visual state. Experiments evaluate both final image quality and trajectory behavior, demonstrating the effectiveness of CanvasAgent and the proposed dataset for complex multi-tool image creation workflows.

cs.CV↗

arXiv2026

BEAP-Agent: Backtrackable Execution and Adaptive Planning for GUI Agents

GUI agents are designed to automate repetitive tasks and enhance productivity. However, existing GUI agents struggle to recover once they follow an incorrect exploration path, often leading to task failure. In this work, we model GUI task execution as a DFS process and propose BEAP-Agent, a DFS-based framework that supports long-range, multi-level state backtracking with dynamic task tracking and updating. The framework consists of three collaborative components: Planner, Executor, and Tracker. Together, they enable effective task exploration and execution. BEAP-Agent fills the gap in systematic backtracking mechanisms for GUI agents, offering a systematic solution for long-horizon task exploration. We conducted a systematic evaluation on the OSWorld benchmark, where BEAP-Agent achieved an accuracy of 28.2%, validating the effectiveness of the proposed method.

cs.AI↗

arXiv2025

GEN3D: Generating Domain-Free 3D Scenes from a Single Image

Despite recent advancements in neural 3D reconstruction, the dependence on dense multi-view captures restricts their broader applicability. Additionally, 3D scene generation is vital for advancing embodied AI and world models, which depend on diverse, high-quality scenes for learning and evaluation. In this work, we propose Gen3d, a novel method for generation of high-quality, wide-scope, and generic 3D scenes from a single image. After the initial point cloud is created by lifting the RGBD image, Gen3d maintains and expands its world model. The 3D scene is finalized through optimizing a Gaussian splatting representation. Extensive experiments on diverse datasets demonstrate the strong generalization capability and superior performance of our method in generating a world model and Synthesizing high-fidelity and consistent novel views.

cs.CV↗

arXiv2025

Benchmarking Probabilistic Time Series Forecasting Models on Neural Activity

Neural activity forecasting is central to understanding neural systems and enabling closed-loop control. While deep learning has recently advanced the state-of-the-art in the time series forecasting literature, its application to neural activity forecasting remains limited. To bridge this gap, we systematically evaluated eight probabilistic deep learning models, including two foundation models, that have demonstrated strong performance on general forecasting benchmarks. We compared them against four classical statistical models and two baseline methods on spontaneous neural activity recorded from mouse cortex via widefield imaging. Across prediction horizons, several deep learning models consistently outperformed classical approaches, with the best model producing informative forecasts up to 1.5 seconds into the future. Our findings point toward future control applications and open new avenues for probing the intrinsic temporal structure of neural activity.

cs.LG↗

arXiv2025

MathSmith: Towards Extremely Hard Mathematical Reasoning by Forging Synthetic Problems with a Reinforced Policy

Large language models have achieved substantial progress in mathematical reasoning, yet their advancement is limited by the scarcity of high-quality, high-difficulty training data. Existing synthesis methods largely rely on transforming human-written templates, limiting both diversity and scalability. We propose MathSmith, a novel framework for synthesizing challenging mathematical problems to enhance LLM reasoning. Rather than modifying existing problems, MathSmith constructs new ones from scratch by randomly sampling concept-explanation pairs from PlanetMath, ensuring data independence and avoiding contamination. To increase difficulty, we design nine predefined strategies as soft constraints during rationales. We further adopts reinforcement learning to jointly optimize structural validity, reasoning complexity, and answer consistency. The length of the reasoning trace generated under autoregressive prompting is used to reflect cognitive complexity, encouraging the creation of more demanding problems aligned with long-chain-of-thought reasoning. Experiments across five benchmarks, categorized as easy & medium (GSM8K, MATH-500) and hard (AIME2024, AIME2025, OlympiadBench), show that MathSmith consistently outperforms existing baselines under both short and long CoT settings. Additionally, a weakness-focused variant generation module enables targeted improvement on specific concepts. Overall, MathSmith exhibits strong scalability, generalization, and transferability, highlighting the promise of high-difficulty synthetic data in advancing LLM reasoning capabilities. Our code and data are available at https://github.com/Jasaxion/MathSmith.

cs.CL↗

arXiv2025

ProDS: Preference-oriented Data Selection for Instruction Tuning

Instruction data selection aims to identify a high-quality subset from the training set that matches or exceeds the performance of the full dataset on target tasks. Existing methods focus on the instruction-to-response mapping, but neglect the human preference for diverse responses. In this paper, we propose Preference-oriented Data Selection method (ProDS) that scores training samples based on their alignment with preferences observed in the target set. Our key innovation lies in shifting the data selection criteria from merely estimating features for accurate response generation to explicitly aligning training samples with human preferences in target tasks. Specifically, direct preference optimization (DPO) is employed to estimate human preferences across diverse responses. Besides, a bidirectional preference synthesis strategy is designed to score training samples according to both positive preferences and negative preferences. Extensive experimental results demonstrate our superiority to existing task-agnostic and targeted methods.

cs.LG↗

arXiv2025

AnyTSR: Any-Scale Thermal Super-Resolution for UAV

Thermal imaging can greatly enhance the application of intelligent unmanned aerial vehicles (UAV) in challenging environments. However, the inherent low resolution of thermal sensors leads to insufficient details and blurred boundaries. Super-resolution (SR) offers a promising solution to address this issue, while most existing SR methods are designed for fixed-scale SR. They are computationally expensive and inflexible in practical applications. To address above issues, this work proposes a novel any-scale thermal SR method (AnyTSR) for UAV within a single model. Specifically, a new image encoder is proposed to explicitly assign specific feature code to enable more accurate and flexible representation. Additionally, by effectively embedding coordinate offset information into the local feature ensemble, an innovative any-scale upsampler is proposed to better understand spatial relationships and reduce artifacts. Moreover, a novel dataset (UAV-TSR), covering both land and water scenes, is constructed for thermal SR tasks. Experimental results demonstrate that the proposed method consistently outperforms state-of-the-art methods across all scaling factors as well as generates more accurate and detailed high-resolution images. The code is located at https://github.com/vision4robotics/AnyTSR.

cs.CV↗

arXiv2023

Attention for Causal Relationship Discovery from Biological Neural Dynamics

This paper explores the potential of the transformer models for learning Granger causality in networks with complex nonlinear dynamics at every node, as in neurobiological and biophysical networks. Our study primarily focuses on a proof-of-concept investigation based on simulated neural dynamics, for which the ground-truth causality is known through the underlying connectivity matrix. For transformer models trained to forecast neuronal population dynamics, we show that the cross attention module effectively captures the causal relationship among neurons, with an accuracy equal or superior to that for the most popular Granger causality analysis method. While we acknowledge that real-world neurobiology data will bring further challenges, including dynamic connectivity and unobserved variability, this research offers an encouraging preliminary glimpse into the utility of the transformer model for causal representation learning in neuroscience.

cs.LG↗

arXiv2023

A piecewise deterministic Markov process approach modeling a dry friction problem with noise

Understanding and predicting the dynamical properties of systems involving dry friction is a major concern in physics and engineering. It abounds in many mechanical processes, from the sound produced by a violin to the screeching of chalk on a blackboard to human infant crawling dynamics and friction-based locomotion of a multitude of living organisms (snakes, bacteria, scallops..) to the displacement of mechanical structures (building, bridges, nuclear plants, massive industrial infrastructures) under earthquakes and beyond. Surprisingly, even for low-dimensional systems, the modeling of dry friction in the presence of random forcing has not been elucidated. In this paper, we propose a piecewise deterministic Markov process approach modeling a system with dry friction including different coefficients for the static and dynamic forces. In this mathematical framework, we derive the corresponding Kolmogorov equations and related tools to compute statistical quantities of interest related to the distributions of the static (sticked) and dynamic phases. We show ergodicity and provide a representation formula of the stationary measure using independent identically distributed portions of the trajectory (excursions). We also obtain deterministic characterizations of the Laplace transforms of the probability density functions of the durations of the static and dynamic phases.

math.PR↗