arXiv subjects

Guang Yang

Publications and source records attributed to Guang Yang.

At least 181 records · Page 10Linked to original sources

arXiv2025

Memory-Augmented Incomplete Multimodal Survival Prediction via Cross-Slide and Gene-Attentive Hypergraph Learning

Multimodal pathology-genomic analysis is critical for cancer survival prediction. However, existing approaches predominantly integrate formalin-fixed paraffin-embedded (FFPE) slides with genomic data, while neglecting the availability of other preservation slides, such as Fresh Froze (FF) slides. Moreover, as the high-resolution spatial nature of pathology data tends to dominate the cross-modality fusion process, it hinders effective multimodal fusion and leads to modality imbalance challenges between pathology and genomics. These methods also typically require complete data modalities, limiting their clinical applicability with incomplete modalities, such as missing either pathology or genomic data. In this paper, we propose a multimodal survival prediction framework that leverages hypergraph learning to effectively integrate multi-WSI information and cross-modality interactions between pathology slides and genomics data while addressing modality imbalance. In addition, we introduce a memory mechanism that stores previously learned paired pathology-genomic features and dynamically compensates for incomplete modalities. Experiments on five TCGA datasets demonstrate that our model outperforms advanced methods by over 2.3% in C-Index. Under incomplete modality scenarios, our approach surpasses pathology-only (3.3%) and gene-only models (7.9%). Code: https://github.com/MCPathology/M2Surv

cs.CV↗

arXiv2025

Surgery-R1: Advancing Surgical-VQLA with Reasoning Multimodal Large Language Model via Reinforcement Learning

In recent years, significant progress has been made in the field of surgical scene understanding, particularly in the task of Visual Question Localized-Answering in robotic surgery (Surgical-VQLA). However, existing Surgical-VQLA models lack deep reasoning capabilities and interpretability in surgical scenes, which limits their reliability and potential for development in clinical applications. To address this issue, inspired by the development of Reasoning Multimodal Large Language Models (MLLMs), we first build the Surgery-R1-54k dataset, including paired data for Visual-QA, Grounding-QA, and Chain-of-Thought (CoT). Then, we propose the first Reasoning MLLM for Surgical-VQLA (Surgery-R1). In our Surgery-R1, we design a two-stage fine-tuning mechanism to enable the basic MLLM with complex reasoning abilities by utilizing supervised fine-tuning (SFT) and reinforcement fine-tuning (RFT). Furthermore, for an efficient and high-quality rule-based reward system in our RFT, we design a Multimodal Coherence reward mechanism to mitigate positional illusions that may arise in surgical scenarios. Experiment results demonstrate that Surgery-R1 outperforms other existing state-of-the-art (SOTA) models in the Surgical-VQLA task and widely-used MLLMs, while also validating its reasoning capabilities and the effectiveness of our approach. The code and dataset will be organized in https://github.com/FiFi-HAO467/Surgery-R1.

cs.CV↗

arXiv2025

Advancing oncology with federated learning: transcending boundaries in breast, lung, and prostate cancer. A systematic review

Federated Learning (FL) has emerged as a promising solution to address the limitations of centralised machine learning (ML) in oncology, particularly in overcoming privacy concerns and harnessing the power of diverse, multi-center data. This systematic review synthesises current knowledge on the state-of-the-art FL in oncology, focusing on breast, lung, and prostate cancer. Distinct from previous surveys, our comprehensive review critically evaluates the real-world implementation and impact of FL on cancer care, demonstrating its effectiveness in enhancing ML generalisability, performance and data privacy in clinical settings and data. We evaluated state-of-the-art advances in FL, demonstrating its growing adoption amid tightening data privacy regulations. FL outperformed centralised ML in 15 out of the 25 studies reviewed, spanning diverse ML models and clinical applications, and facilitating integration of multi-modal information for precision medicine. Despite the current challenges identified in reproducibility, standardisation and methodology across studies, the demonstrable benefits of FL in harnessing real-world data and addressing clinical needs highlight its significant potential for advancing cancer research. We propose that future research should focus on addressing these limitations and investigating further advanced FL methods, to fully harness data diversity and realise the transformative power of cutting-edge FL in cancer care.

cs.LG↗

arXiv2025

Cyclic Vision-Language Manipulator: Towards Reliable and Fine-Grained Image Interpretation for Automated Report Generation

Despite significant advancements in automated report generation, the opaqueness of text interpretability continues to cast doubt on the reliability of the content produced. This paper introduces a novel approach to identify specific image features in X-ray images that influence the outputs of report generation models. Specifically, we propose Cyclic Vision-Language Manipulator CVLM, a module to generate a manipulated X-ray from an original X-ray and its report from a designated report generator. The essence of CVLM is that cycling manipulated X-rays to the report generator produces altered reports aligned with the alterations pre-injected into the reports for X-ray generation, achieving the term "cyclic manipulation". This process allows direct comparison between original and manipulated X-rays, clarifying the critical image features driving changes in reports and enabling model users to assess the reliability of the generated texts. Empirical evaluations demonstrate that CVLM can identify more precise and reliable features compared to existing explanation methods, significantly enhancing the transparency and applicability of AI-generated reports.

cs.CV↗

arXiv2025

Less is More: DocString Compression in Code Generation

The widespread use of Large Language Models (LLMs) in software engineering has intensified the need for improved model and resource efficiency. In particular, for neural code generation, LLMs are used to translate function/method signature and DocString to executable code. DocStrings which capture user re quirements for the code and used as the prompt for LLMs, often contains redundant information. Recent advancements in prompt compression have shown promising results in Natural Language Processing (NLP), but their applicability to code generation remains uncertain. Our empirical study show that the state-of-the-art prompt compression methods achieve only about 10% reduction, as further reductions would cause significant performance degradation. In our study, we propose a novel compression method, ShortenDoc, dedicated to DocString compression for code generation. Our extensive experiments on six code generation datasets, five open-source LLMs (1B to 10B parameters), and one closed-source LLM GPT-4o confirm that ShortenDoc achieves 25-40% compression while preserving the quality of generated code, outperforming other baseline methods at similar compression levels. The benefit of this research is to improve efficiency and reduce the cost while maintaining the quality of the generated code, especially when calling third-party APIs, and is able to reduce the token processing cost by 25-40%.

cs.SE↗

arXiv2025

Arbitrarily-Conditioned Multi-Functional Diffusion for Multi-Physics Emulation

Modern physics simulation often involves multiple functions of interests, and traditional numerical approaches are known to be complex and computationally costly. While machine learning-based surrogate models can offer significant cost reductions, most focus on a single task, such as forward prediction, and typically lack uncertainty quantification -- an essential component in many applications. To overcome these limitations, we propose Arbitrarily-Conditioned Multi-Functional Diffusion (ACM-FD), a versatile probabilistic surrogate model for multi-physics emulation. ACM-FD can perform a wide range of tasks within a single framework, including forward prediction, various inverse problems, and simulating data for entire systems or subsets of quantities conditioned on others. Specifically, we extend the standard Denoising Diffusion Probabilistic Model (DDPM) for multi-functional generation by modeling noise as Gaussian processes (GP). We propose a random-mask based, zero-regularized denoising loss to achieve flexible and robust conditional generation. We induce a Kronecker product structure in the GP covariance matrix, substantially reducing the computational cost and enabling efficient training and sampling. We demonstrate the effectiveness of ACM-FD across several fundamental multi-physics systems.

cs.LG↗

arXiv2025

HilbertMamba: Local-Global Reciprocal Network for Uterine Fibroid Segmentation in Ultrasound Videos

Regular screening and early discovery of uterine fibroid are crucial for preventing potential malignant transformations and ensuring timely, life-saving interventions. To this end, we collect and annotate the first ultrasound video dataset with 100 videos for uterine fibroid segmentation (UFUV). We also present Local-Global Reciprocal Network (LGRNet) to efficiently and effectively propagate the long-term temporal context which is crucial to help distinguish between uninformative noisy surrounding tissues and target lesion regions. Specifically, the Cyclic Neighborhood Propagation (CNP) is introduced to propagate the inter-frame local temporal context in a cyclic manner. Moreover, to aggregate global temporal context, we first condense each frame into a set of frame bottleneck queries and devise Hilbert Selective Scan (HilbertSS) to both efficiently path connect each frame and preserve the locality bias. A distribute layer is then utilized to disseminate back the global context for reciprocal refinement. Extensive experiments on UFUV and three public Video Polyp Segmentation (VPS) datasets demonstrate consistent improvements compared to state-of-the-art segmentation methods, indicating the effectiveness and versatility of LGRNet. Code, checkpoints, and dataset are available at https://github.com/bio-mlhui/LGRNet

cs.CV↗

arXiv2025

Toward Efficient Kernel-Based Solvers for Nonlinear PDEs

We introduce a novel kernel learning framework toward efficiently solving nonlinear partial differential equations (PDEs). In contrast to the state-of-the-art kernel solver that embeds differential operators within kernels, posing challenges with a large number of collocation points, our approach eliminates these operators from the kernel. We model the solution using a standard kernel interpolation form and differentiate the interpolant to compute the derivatives. Our framework obviates the need for complex Gram matrix construction between solutions and their derivatives, allowing for a straightforward implementation and scalable computation. As an instance, we allocate the collocation points on a grid and adopt a product kernel, which yields a Kronecker product structure in the interpolation. This structure enables us to avoid computing the full Gram matrix, reducing costs and scaling efficiently to a large number of collocation points. We provide a proof of the convergence and rate analysis of our method under appropriate regularity assumptions. In numerical experiments, we demonstrate the advantages of our method in solving several benchmark PDEs.

cs.LG↗

arXiv2025

Enhanced and modulable induced superconducting gap and effective Landé g-factor in Pb-InSb hybrid devices

The hybrid system of a conventional superconductor (SC) on a semiconductor (SM) nanowire with strong spin-orbit coupling (SOC) represents a promising platform for achieving topological superconductivity and Majorana zero modes (MZMs) towards topological quantum computation. While aluminum (Al)-based hybrid nanowire devices have been widely utilized, their limited superconducting gap and intrinsic weak SOC as well as small Landé g-factor may hinder future experimental advancements. In contrast, we demonstrate that lead (Pb)-based hybrid quantum devices exhibit a remarkably large and hard proximity-induced superconducting gap, exceeding that of Al by an order of magnitude. By exploiting electrostatic gating to modulate wavefunction distribution and SC-SM interfacial coupling, this gap can be continuously tuned from its maximum value (~1.4 meV, matching the bulk Pb gap) down to nearly zero while maintaining the hardness. Furthermore, magnetic-field-dependent measurements reveal a radial evolution of the gap structure with anti-crossing feature, indicative of strong SOC and huge effective g-factors up to 76. These findings underscore the superior functionality of Pb-based hybrid systems, significantly advancing their potential for realizing and stabilizing MZMs and the further scalable topological quantum architectures.

cond-mat.mes-hall↗

arXiv2025

Shadow defense against gradient inversion attack in federated learning

Federated learning (FL) has emerged as a transformative framework for privacy-preserving distributed training, allowing clients to collaboratively train a global model without sharing their local data. This is especially crucial in sensitive fields like healthcare, where protecting patient data is paramount. However, privacy leakage remains a critical challenge, as the communication of model updates can be exploited by potential adversaries. Gradient inversion attacks (GIAs), for instance, allow adversaries to approximate the gradients used for training and reconstruct training images, thus stealing patient privacy. Existing defense mechanisms obscure gradients, yet lack a nuanced understanding of which gradients or types of image information are most vulnerable to such attacks. These indiscriminate calibrated perturbations result in either excessive privacy protection degrading model accuracy, or insufficient one failing to safeguard sensitive information. Therefore, we introduce a framework that addresses these challenges by leveraging a shadow model with interpretability for identifying sensitive areas. This enables a more targeted and sample-specific noise injection. Specially, our defensive strategy achieves discrepancies of 3.73 in PSNR and 0.2 in SSIM compared to the circumstance without defense on the ChestXRay dataset, and 2.78 in PSNR and 0.166 in the EyePACS dataset. Moreover, it minimizes adverse effects on model performance, with less than 1\% F1 reduction compared to SOTA methods. Our extensive experiments, conducted across diverse types of medical images, validate the generalization of the proposed framework. The stable defense improvements for FedAvg are consistently over 1.5\% times in LPIPS and SSIM. It also offers a universal defense against various GIA types, especially for these sensitive areas in images.

cs.LG↗

arXiv2025

RoboMIND: Benchmark on Multi-embodiment Intelligence Normative Data for Robot Manipulation

In this paper, we introduce RoboMIND (Multi-embodiment Intelligence Normative Data for Robot Manipulation), a dataset containing 107k demonstration trajectories across 479 diverse tasks involving 96 object classes. RoboMIND is collected through human teleoperation and encompasses comprehensive robotic-related information, including multi-view observations, proprioceptive robot state information, and linguistic task descriptions. To ensure data consistency and reliability for imitation learning, RoboMIND is built on a unified data collection platform and a standardized protocol, covering four distinct robotic embodiments: the Franka Emika Panda, the UR5e, the AgileX dual-arm robot, and a humanoid robot with dual dexterous hands. Our dataset also includes 5k real-world failure demonstrations, each accompanied by detailed causes, enabling failure reflection and correction during policy learning. Additionally, we created a digital twin environment in the Isaac Sim simulator, replicating the real-world tasks and assets, which facilitates the low-cost collection of additional training data and enables efficient evaluation. To demonstrate the quality and diversity of our dataset, we conducted extensive experiments using various imitation learning methods for single-task settings and state-of-the-art Vision-Language-Action (VLA) models for multi-task scenarios. By leveraging RoboMIND, the VLA models achieved high manipulation success rates and demonstrated strong generalization capabilities. To the best of our knowledge, RoboMIND is the largest multi-embodiment teleoperation dataset collected on a unified platform, providing large-scale and high-quality robotic training data. Our project is at https://x-humanoid-robomind.github.io/.

cs.RO↗

arXiv2025

CODE-DITING: A Reasoning-Based Metric for Functional Alignment in Code Evaluation

Trustworthy evaluation methods for code snippets play a crucial role in neural code generation. Traditional methods, which either rely on reference solutions or require executable test cases, have inherent limitation in flexibility and scalability. The recent LLM-as-Judge methodology offers a promising alternative by directly evaluating functional consistency between the problem description and the generated code. To systematically understand the landscape of these LLM-as-Judge methods, we conduct a comprehensive empirical study across three diverse datasets. Our investigation reveals the pros and cons of two categories of LLM-as-Judge methods: the methods based on general foundation models can achieve good performance but require complex prompts and lack explainability, while the methods based on reasoning foundation models provide better explainability with simpler prompts but demand substantial computational resources due to their large parameter sizes. To address these limitations, we propose CODE-DITING, a novel code evaluation method that balances accuracy, efficiency and explainability. We develop a data distillation framework that effectively transfers reasoning capabilities from DeepSeek-R1671B to our CODE-DITING 1.5B and 7B models, significantly enhancing evaluation explainability and reducing the computational cost. With the majority vote strategy in the inference process, CODE-DITING 1.5B outperforms all models with the same magnitude of parameters and achieves performance which would normally exhibit in a model with 5 times of parameter scale. CODE-DITING 7B surpasses GPT-4o and DeepSeek-V3 671B, even though it only uses 1% of the parameter volume of these large models. Further experiments show that CODEDITING is robust to preference leakage and can serve as a promising alternative for code evaluation.

cs.SE↗

arXiv2025

The Staircase of Ethics: Probing LLM Value Priorities through Multi-Step Induction to Complex Moral Dilemmas

Ethical decision-making is a critical aspect of human judgment, and the growing use of LLMs in decision-support systems necessitates a rigorous evaluation of their moral reasoning capabilities. However, existing assessments primarily rely on single-step evaluations, failing to capture how models adapt to evolving ethical challenges. Addressing this gap, we introduce the Multi-step Moral Dilemmas (MMDs), the first dataset specifically constructed to evaluate the evolving moral judgments of LLMs across 3,302 five-stage dilemmas. This framework enables a fine-grained, dynamic analysis of how LLMs adjust their moral reasoning across escalating dilemmas. Our evaluation of nine widely used LLMs reveals that their value preferences shift significantly as dilemmas progress, indicating that models recalibrate moral judgments based on scenario complexity. Furthermore, pairwise value comparisons demonstrate that while LLMs often prioritize the value of care, this value can sometimes be superseded by fairness in certain contexts, highlighting the dynamic and context-dependent nature of LLM ethical reasoning. Our findings call for a shift toward dynamic, context-aware evaluation paradigms, paving the way for more human-aligned and value-sensitive development of LLMs.

cs.CL↗

arXiv2025

Multimodal Cancer Survival Analysis via Hypergraph Learning with Cross-Modality Rebalance

Multimodal pathology-genomic analysis has become increasingly prominent in cancer survival prediction. However, existing studies mainly utilize multi-instance learning to aggregate patch-level features, neglecting the information loss of contextual and hierarchical details within pathology images. Furthermore, the disparity in data granularity and dimensionality between pathology and genomics leads to a significant modality imbalance. The high spatial resolution inherent in pathology data renders it a dominant role while overshadowing genomics in multimodal integration. In this paper, we propose a multimodal survival prediction framework that incorporates hypergraph learning to effectively capture both contextual and hierarchical details from pathology images. Moreover, it employs a modality rebalance mechanism and an interactive alignment fusion strategy to dynamically reweight the contributions of the two modalities, thereby mitigating the pathology-genomics imbalance. Quantitative and qualitative experiments are conducted on five TCGA datasets, demonstrating that our model outperforms advanced methods by over 3.4\% in C-Index performance.

cs.CV↗

arXiv2025

Enhancing Diffusion-Weighted Images (DWI) for Diffusion MRI: Is it Enough without Non-Diffusion-Weighted B=0 Reference?

Diffusion MRI (dMRI) is essential for studying brain microstructure, but high-resolution imaging remains challenging due to the inherent trade-offs between acquisition time and signal-to-noise ratio (SNR). Conventional methods often optimize only the diffusion-weighted images (DWIs) without considering their relationship with the non-diffusion-weighted (b=0) reference images. However, calculating diffusion metrics, such as the apparent diffusion coefficient (ADC) and diffusion tensor with its derived metrics like fractional anisotropy (FA) and mean diffusivity (MD), relies on the ratio between each DWI and the b=0 image, which is crucial for clinical observation and diagnostics. In this study, we demonstrate that solely enhancing DWIs using a conventional pixel-wise mean squared error (MSE) loss is insufficient, as the error in ratio between generated DWIs and b=0 diverges. We propose a novel ratio loss, defined as the MSE loss between the predicted and ground-truth log of DWI/b=0 ratios. Our results show that incorporating the ratio loss significantly improves the convergence of this ratio error, achieving lower ratio MSE and slightly enhancing the peak signal-to-noise ratio (PSNR) of generated DWIs. This leads to improved dMRI super-resolution and better preservation of b=0 ratio-based features for the derivation of diffusion metrics.

eess.IV↗

arXiv2025

Defending Code Language Models against Backdoor Attacks with Deceptive Cross-Entropy Loss

Code Language Models (CLMs), particularly those leveraging deep learning, have achieved significant success in code intelligence domain. However, the issue of security, particularly backdoor attacks, is often overlooked in this process. The previous research has focused on designing backdoor attacks for CLMs, but effective defenses have not been adequately addressed. In particular, existing defense methods from natural language processing, when directly applied to CLMs, are not effective enough and lack generality, working well in some models and scenarios but failing in others, thus fall short in consistently mitigating backdoor attacks. To bridge this gap, we first confirm the phenomenon of "early learning" as a general occurrence during the training of CLMs. This phenomenon refers to that a model initially focuses on the main features of training data but may become more sensitive to backdoor triggers over time, leading to overfitting and susceptibility to backdoor attacks. We then analyze that overfitting to backdoor triggers results from the use of the cross-entropy loss function, where the unboundedness of cross-entropy leads the model to increasingly concentrate on the features of the poisoned data. Based on this insight, we propose a general and effective loss function DeCE (Deceptive Cross-Entropy) by blending deceptive distributions and applying label smoothing to limit the gradient to bounded, which prevents the model from overfitting to backdoor triggers and then enhances the security of CLMs against backdoor attacks.

cs.CR↗

arXiv2025

CEERS: Forging the First Dust Grains in the Universe? A Population of Galaxies with spectroscopically-derived Extremely Low Dust Attenuation (GELDA) at 4.0<z<11.4

We investigate the coevolution of metals and dust in 173 galaxies at $4.0 8.8$ (83.3%) than at $z<8.8$ (26.3%) suggesting they dominate the early Universe. Assuming a prior FIR dust spectrum (from ALPINE), we examine dust-stellar mass trends. The $M_{dust}$ vs. $M_{star}$ diagram shows upper and lower sequences linked by possible transitional galaxies. A transition at $M_{star}=10^8.5 M_\odot$ ($Z_{crit}=12+\log_{10}(O/H)=7.60$ or $Z/Z_\odot=0.1$) may mark the shift from stellar dust production to ISM grain growth, in agreement with theoretical predictions. Our full sample has a high mean gas fraction ($f_{gas}>0.9$), indicating retained gas across all galaxies. Their small sizes and large gas masses imply high gas surface densities but relatively low star formation efficiency. High-redshift GELDAs may naturally explain the observed excess of bright galaxies at $z>9$ compared to theoretical expectations.

astro-ph.GA↗

arXiv2025

Safe Navigation in Dynamic Environments Using Data-Driven Koopman Operators and Conformal Prediction

We propose a novel framework for safe navigation in dynamic environments by integrating Koopman operator theory with conformal prediction. Our approach leverages data-driven Koopman approximation to learn nonlinear dynamics and employs conformal prediction to quantify uncertainty, providing statistical guarantees on approximation errors. This uncertainty is effectively incorporated into a Model Predictive Controller (MPC) formulation through constraint tightening, ensuring robust safety guarantees. We implement a layered control architecture with a reference generator providing waypoints for safe navigation. The effectiveness of our methods is validated in simulation.

cs.RO↗