Kun Sun

Zhi Chen, Kun Sun, Fan Yang et al.

In this paper, we present a second order spatial compatibility (SC^2) measure based method for efficient and robust point cloud registration (PCR), called SC^2-PCR. Firstly, we propose a second order spatial compatibility (SC^2) measure to compute the similarity between correspondences. It considers the global compatibility instead of local consistency, allowing for more distinctive clustering between inliers and outliers at early stage. Based on this measure, our registration pipeline employs a global spectral technique to find some reliable seeds from the initial correspondences. Then we design a two-stage strategy to expand each seed to a consensus set based on the SC^2 measure matrix. Finally, we feed each consensus set to a weighted SVD algorithm to generate a candidate rigid transformation and select the best model as the final result. Our method can guarantee to find a certain number of outlier-free consensus sets using fewer samplings, making the model estimation more efficient and robust. In addition, the proposed SC^2 measure is general and can be easily plugged into deep learning based frameworks. Extensive experiments are carried out to investigate the performance of our method. Code will be available at \url{https://github.com/ZhiChen902/SC2-PCR}.

Xiao He, Chang Tang, Xinwang Liu et al.

Deep learning-based hyperspectral image (HSI) classification and object detection techniques have gained significant attention due to their vital role in image content analysis, interpretation, and wider HSI applications. However, current hyperspectral object detection approaches predominantly emphasize either spectral or spatial information, overlooking the valuable complementary relationship between these two aspects. In this study, we present a novel \textbf{S}pectral-\textbf{S}patial \textbf{A}ggregation (S2ADet) object detector that effectively harnesses the rich spectral and spatial complementary information inherent in hyperspectral images. S2ADet comprises a hyperspectral information decoupling (HID) module, a two-stream feature extraction network, and a one-stage detection head. The HID module processes hyperspectral images by aggregating spectral and spatial information via band selection and principal components analysis, consequently reducing redundancy. Based on the acquired spatial and spectral aggregation information, we propose a feature aggregation two-stream network for interacting spectral-spatial features. Furthermore, to address the limitations of existing databases, we annotate an extensive dataset, designated as HOD3K, containing 3,242 hyperspectral images captured across diverse real-world scenes and encompassing three object classes. These images possess a resolution of 512x256 pixels and cover 16 bands ranging from 470 nm to 620 nm. Comprehensive experiments on two datasets demonstrate that S2ADet surpasses existing state-of-the-art methods, achieving robust and reliable results. The demo code and dataset of this work are publicly available at \url{https://github.com/hexiao-cs/S2ADet}.

Qiao Wu, Jiaqi Yang, Kun Sun et al.

3D single object tracking (SOT) is an indispensable part of automated driving. Existing approaches rely heavily on large, densely labeled datasets. However, annotating point clouds is both costly and time-consuming. Inspired by the great success of cycle tracking in unsupervised 2D SOT, we introduce the first semi-supervised approach to 3D SOT. Specifically, we introduce two cycle-consistency strategies for supervision: 1) Self tracking cycles, which leverage labels to help the model converge better in the early stages of training; 2) forward-backward cycles, which strengthen the tracker's robustness to motion variations and the template noise caused by the template update strategy. Furthermore, we propose a data augmentation strategy named SOTMixup to improve the tracker's robustness to point cloud diversity. SOTMixup generates training samples by sampling points in two point clouds with a mixing rate and assigns a reasonable loss weight for training according to the mixing rate. The resulting MixCycle approach generalizes to appearance matching-based trackers. On the KITTI benchmark, based on the P2B tracker, MixCycle trained with $\textbf{10\%}$ labels outperforms P2B trained with $\textbf{100\%}$ labels, and achieves a $\textbf{28.4\%}$ precision improvement when using $\textbf{1\%}$ labels. Our code will be released at \url{https://github.com/Mumuqiao/MixCycle}.

Lei Zhou, Yuzhong Zhang, Jiadong Zhang et al.

Automated breast tumor segmentation on the basis of dynamic contrast-enhancement magnetic resonance imaging (DCE-MRI) has shown great promise in clinical practice, particularly for identifying the presence of breast disease. However, accurate segmentation of breast tumor is a challenging task, often necessitating the development of complex networks. To strike an optimal trade-off between computational costs and segmentation performance, we propose a hybrid network via the combination of convolution neural network (CNN) and transformer layers. Specifically, the hybrid network consists of a encoder-decoder architecture by stacking convolution and decovolution layers. Effective 3D transformer layers are then implemented after the encoder subnetworks, to capture global dependencies between the bottleneck features. To improve the efficiency of hybrid network, two parallel encoder subnetworks are designed for the decoder and the transformer layers, respectively. To further enhance the discriminative capability of hybrid network, a prototype learning guided prediction module is proposed, where the category-specified prototypical features are calculated through on-line clustering. All learned prototypical features are finally combined with the features from decoder for tumor mask prediction. The experimental results on private and public DCE-MRI datasets demonstrate that the proposed hybrid network achieves superior performance than the state-of-the-art (SOTA) methods, while maintaining balance between segmentation accuracy and computation cost. Moreover, we demonstrate that automatically generated tumor masks can be effectively applied to identify HER2-positive subtype from HER2-negative subtype with the similar accuracy to the analysis based on manual tumor segmentation. The source code is available at https://github.com/ZhouL-lab/PLHN.

Kun Sun, Rong Wang

Large Language Models (LLMs) are transforming language sciences. However, their widespread deployment currently suffers from methodological fragmentation and a lack of systematic soundness. This study proposes two comprehensive methodological frameworks designed to guide the strategic and responsible application of LLMs in language sciences. The first method-selection framework defines and systematizes three distinct, complementary approaches, each linked to a specific research goal: (1) prompt-based interaction with general-use models for exploratory analysis and hypothesis generation; (2) fine-tuning of open-source models for confirmatory, theory-driven investigation and high-quality data generation; and (3) extraction of contextualized embeddings for further quantitative analysis and probing of model internal mechanisms. We detail the technical implementation and inherent trade-offs of each method, supported by empirical case studies. Based on the method-selection framework, the second systematic framework proposed provides constructed configurations that guide the practical implementation of multi-stage research pipelines based on these approaches. We then conducted a series of empirical experiments to validate our proposed framework, employing retrospective analysis, prospective application, and an expert evaluation survey. By enforcing the strategic alignment of research questions with the appropriate LLM methodology, the frameworks enable a critical paradigm shift in language science research. We believe that this system is fundamental for ensuring reproducibility, facilitating the critical evaluation of LLM mechanisms, and providing the structure necessary to move traditional linguistics from ad-hoc utility to verifiable, robust science.

Xiyuan Zhao, Xinhao Deng, Qi Li et al.

Website Fingerprinting (WF) attacks can effectively identify the websites visited by Tor clients via analyzing encrypted traffic patterns. Existing attacks focus on identifying different websites, but their accuracy dramatically decreases when applied to identify fine-grained webpages, especially when distinguishing among different subpages of the same website. WebPage Fingerprinting (WPF) attacks face the challenges of highly similar traffic patterns and a much larger scale of webpages. Furthermore, clients often visit multiple webpages concurrently, increasing the difficulty of extracting the traffic patterns of each webpage from the obfuscated traffic. In this paper, we propose Oscar, a WPF attack based on multi-label metric learning that identifies different webpages from obfuscated traffic by transforming the feature space. Oscar can extract the subtle differences among various webpages, even those with similar traffic patterns. In particular, Oscar combines proxy-based and sample-based metric learning losses to extract webpage features from obfuscated traffic and identify multiple webpages. We prototype Oscar and evaluate its performance using traffic collected from 1,000 monitored webpages and over 9,000 unmonitored webpages in the real world. Oscar demonstrates an 88.6% improvement in the multi-label metric Recall@5 compared to the state-of-the-art attacks.

Yuanbo Zhou, Changjia Zhu, Junyu Wang et al.

Guardrail models (a.k.a. safety checkers) are widely deployed to screen user inputs before they reach large language models (LLMs), serving as a primary defense against prompt injection attacks. Due to strict context constraints, these models handle overlength prompts through truncation or segmentation-based inspection. While prior work has focused on semantic adversarial inputs, the security implications of these long-input processing mechanisms remain largely unexplored. In this paper, we identify a critical blind spot arising from the mismatch between the limited inspection windows of guardrail models and the substantially larger context inference windows of downstream LLMs. We introduce a novel Prompt Overflow Attack, which exploits this mismatch by fragmenting malicious instructions and interleaving them with benign filler content across an overlong prompt, such that no individual inspected segment appears malicious while the full context remains actionable to the LLM. Through a systematic evaluation against state-of-the-art guardrail models, including Meta Llama Prompt Guard, IBM Granite Guardian, and DeBERTa-based detectors, we demonstrate that prompts reliably detected in short-context settings can evade guardrail models once adversarially manipulated into over-length inputs, yet remain fully actionable by downstream LLMs. We further propose potential defense strategies and outline mitigation directions to strengthen guardrail models.

Qiao Wu, Kun Sun, Pei An et al.

The high temporal variation of the point clouds is the key challenge of 3D single-object tracking (3D SOT). Existing approaches rely on the assumption that the shape variation of the point clouds and the motion of the objects across neighboring frames are smooth, failing to cope with high temporal variation data. In this paper, we present a novel framework for 3D SOT in point clouds with high temporal variation, called HVTrack. HVTrack proposes three novel components to tackle the challenges in the high temporal variation scenario: 1) A Relative-Pose-Aware Memory module to handle temporal point cloud shape variations; 2) a Base-Expansion Feature Cross-Attention module to deal with similar object distractions in expanded search areas; 3) a Contextual Point Guided Self-Attention module for suppressing heavy background noise. We construct a dataset with high temporal variation (KITTI-HV) by setting different frame intervals for sampling in the KITTI dataset. On the KITTI-HV with 5 frame intervals, our HVTrack surpasses the state-of-the-art tracker CXTracker by 11.3%/15.7% in Success/Precision.

Shuokun Cheng, Jinghao Shi, Kun Sun

Accurate lesion segmentation is crucial for clinical diagnosis and treatment planning. However, lesions often resemble surrounding tissues and exhibit ill-defined boundaries, leading to unstable predictions in boundary/transition regions. Moreover, small-lesion cues can be diluted by multi-scale feature extraction, causing under- or over-segmentation. To address these challenges, we propose an Uncertainty-Aware Hypergraph Refinement Network (UHR-Net). First, we introduce an Uncertainty-Oriented Instance Contrastive (UO-IC) pretraining strategy that couples geometry-aware copy-paste augmentation with hard-negative mining of lesion-like background regions to improve instance-level discrimination for small and visually ambiguous lesions. Second, we design an Uncertainty-Guided Hypergraph Refinement (UGHR) block, which derives an entropy-based uncertainty map from a coarse probability map to guide hypergraph refinement. By splitting hyperedge prototypes into foreground and background groups, UGHR decouples higher-order interactions and improves refinement in ambiguous regions. Experiments on five public benchmarks demonstrate consistent gains over strong baselines. Code is available at: https://github.com/CUGfreshman/UHR-Net.

Yuqi Bai, Kun Sun, Huishi Yin

Recent advancements in large language models (LLMs) and agent technologies offer promising solutions to the simulation of social science experiments, but the availability of data of real-world population required by many of them still poses as a major challenge. This paper explores a novel framework that leverages census data and LLMs to generate virtual populations, significantly reducing resource requirements and bypassing privacy compliance issues associated with real-world data, while keeping a statistical truthfulness. Drawing on real-world census data, our approach first generates a persona that reflects demographic characteristics of the population. We then employ LLMs to enrich these personas with intricate details, using techniques akin to those in image generative models but applied to textual data. Additionally, we propose a framework for the evaluation of the feasibility of our method with respect to capability of LLMs based on personality trait tests, specifically the Big Five model, which also enhances the depth and realism of the generated personas. Through preliminary experiments and analysis, we demonstrate that our method produces personas with variability essential for simulating diverse human behaviors in social science experiments. But the evaluation result shows that only weak sign of statistical truthfulness can be produced due to limited capability of current LLMs. Insights from our study also highlight the tension within LLMs between aligning with human values and reflecting real-world complexities. Thorough and rigorous test call for further research. Our codes are released at https://github.com/baiyuqi/agentic-society.git

Jianghao Yin, Qingbin Li, Kun Sun et al.

While Multimodal Large Language Models (MLLMs) excel at single-image understanding, they exhibit significantly degraded performance in multi-image reasoning scenarios. Multi-image reasoning presents fundamental challenges including complex inter-relationships between images and scattered critical information across image sets. Inspired by human cognitive processes, we propose the Cognition-Inspired Meta-Action Framework (CINEMA), a novel approach that decomposes multi-image reasoning into five structured meta-actions: Global, Focus, Hint, Think, and Answer which explicitly modeling the sequential cognitive steps humans naturally employ. For cold-start training, we introduce a Retrieval-Based Tree Sampling strategy that generates high-quality meta-action trajectories to bootstrap the model with reasoning patterns. During reinforcement learning, we adopt a two-stage paradigm: an exploration phase with Diversity-Preserving Strategy to avoid entropy collapse, followed by an annealed exploitation phase with DAPO to gradually strengthen exploitation. To train our model, we construct a dataset of 57k cold-start and 58k reinforcement learning instances spanning multi-image, multi-frame, and single-image tasks. We conduct extensive evaluations on multi-image reasoning benchmarks, video understanding benchmarks, and single-image benchmarks, achieving competitive state-of-the-art performance on several key benchmarks. Our model surpasses GPT-4o on the MUIR and MVMath benchmarks and notably outperforms specialized video reasoning models on video understanding benchmarks, demonstrating the effectiveness and generalizability of our human cognition-inspired reasoning framework.

Qiaoyu Zheng, Yuze Sun, Chaoyi Wu et al.

Accurate diagnosis with medical large language models is hindered by knowledge gaps and hallucinations. Retrieval and tool-augmented methods help, but their impact is limited by weak use of external knowledge and poor feedback-reasoning traceability. To address these challenges, We introduce Deep-DxSearch, an agentic RAG system trained end-to-end with reinforcement learning (RL) that enables steer tracebale retrieval-augmented reasoning for medical diagnosis. In Deep-DxSearch, we first construct a large-scale medical retrieval corpus comprising patient records and reliable medical knowledge sources to support retrieval-aware reasoning across diagnostic scenarios. More crutially, we frame the LLM as the core agent and the retrieval corpus as its environment, using tailored rewards on format, retrieval, reasoning structure, and diagnostic accuracy, thereby evolving the agentic RAG policy from large-scale data through RL. Experiments demonstrate that our end-to-end agentic RL training framework consistently outperforms prompt-engineering and training-free RAG approaches across multiple data centers. After training, Deep-DxSearch achieves substantial gains in diagnostic accuracy, surpassing strong diagnostic baselines such as GPT-4o, DeepSeek-R1, and other medical-specific frameworks for both common and rare disease diagnosis under in-distribution and out-of-distribution settings. Moreover, ablation studies on reward design and retrieval corpus components confirm their critical roles, underscoring the uniqueness and effectiveness of our approach compared with traditional implementations. Finally, case studies and interpretability analyses highlight improvements in Deep-DxSearch's diagnostic policy, providing deeper insight into its performance gains and supporting clinicians in delivering more reliable and precise preliminary diagnoses. See https://github.com/MAGIC-AI4Med/Deep-DxSearch.

Jiangkai Long, Yanran Zhu, Chang Tang et al.

Spatial transcriptomics enables gene expression profiling with spatial context, offering unprecedented insights into the tissue microenvironment. However, most computational models treat genes as isolated numerical features, ignoring the rich biological semantics encoded in their symbols. This prevents a truly deep understanding of critical biological characteristics. To overcome this limitation, we present SemST, a semantic-guided deep learning framework for spatial transcriptomics data clustering. SemST leverages Large Language Models (LLMs) to enable genes to "speak" through their symbolic meanings, transforming gene sets within each tissue spot into biologically informed embeddings. These embeddings are then fused with the spatial neighborhood relationships captured by Graph Neural Networks (GNNs), achieving a coherent integration of biological function and spatial structure. We further introduce the Fine-grained Semantic Modulation (FSM) module to optimally exploit these biological priors. The FSM module learns spot-specific affine transformations that empower the semantic embeddings to perform an element-wise calibration of the spatial features, thus dynamically injecting high-order biological knowledge into the spatial context. Extensive experiments on public spatial transcriptomics datasets show that SemST achieves state-of-the-art clustering performance. Crucially, the FSM module exhibits plug-and-play versatility, consistently improving the performance when integrated into other baseline methods.

Xinda Wang, Shu Wang, Pengbin Feng et al.

With the increasing usage of open-source software (OSS) components, vulnerabilities embedded within them are propagated to a huge number of underlying applications. In practice, the timely application of security patches in downstream software is challenging. The main reason is that such patches do not explicitly indicate their security impacts in the documentation, which would be difficult to recognize for software maintainers and users. However, attackers can still identify these "secret" security patches by analyzing the source code and generate corresponding exploits to compromise not only unpatched versions of the current software, but also other similar software packages that may contain the same vulnerability due to code cloning or similar design/implementation logic. Therefore, it is critical to identify these secret security patches to enable timely fixes. To this end, we propose a deep learning-based defense system called PatchRNN to automatically identify secret security patches in OSS. Besides considering descriptive keywords in the commit message (i.e., at the text level), we leverage both syntactic and semantic features at the source-code level. To evaluate the performance of our system, we apply it on a large-scale real-world patch dataset and conduct a case study on a popular open-source web server software - NGINX. Experimental results show that the PatchRNN can successfully detect secret security patches with a low false positive rate.

Kun Sun, Rong Wang

The development of different theories of discourse structure has led to the establishment of discourse corpora based on these theories. However, the existence of discourse corpora established on different theoretical bases creates challenges when it comes to exploring them in a consistent and cohesive way. This study has as its primary focus the conversion of PDTB annotations into dependency structures. It employs refined BERT-based discourse parsers to test the validity of the dependency data derived from the PDTB-style corpora in English, Chinese, and several other languages. By converting both PDTB and RST annotations for the same texts into dependencies, this study also applies ``dependency distance'' metrics to examine the correlation between RST dependencies and PDTB dependencies in English. The results show that the PDTB dependency data is valid and that there is a strong correlation between the two types of dependency distance. This study presents a comprehensive approach for analyzing and evaluating discourse corpora by employing discourse dependencies to achieve unified analysis. By applying dependency representations, we can extract data from PDTB, RST, and SDRT corpora in a coherent and unified manner. Moreover, the cross-linguistic validation establishes the framework's generalizability beyond English. The establishment of this comprehensive dependency framework overcomes limitations of existing discourse corpora, supporting a diverse range of algorithms and facilitating further studies in computational discourse analysis and language sciences.

Hao Zhou, Kun Sun, Shaoming Li et al.

Online controlled experiments play a crucial role in enabling data-driven decisions across a wide range of companies. Variance reduction is an effective technique to improve the sensitivity of experiments, achieving higher statistical power while using fewer samples and shorter experimental periods. However, typical variance reduction methods (e.g., regression-adjusted estimators) are built upon the intuitional assumption of Gaussian distributions and cannot properly characterize the real business metrics with heavy-tailed distributions. Furthermore, outliers diminish the correlation between pre-experiment covariates and outcome metrics, greatly limiting the effectiveness of variance reduction. In this paper, we develop a novel framework that integrates the Student's t-distribution with machine learning tools to fit heavy-tailed metrics and construct a robust average treatment effect estimator in online controlled experiments, which we call STATE. By adopting a variational EM method to optimize the loglikehood function, we can infer a robust solution that greatly eliminates the negative impact of outliers and achieves significant variance reduction. Moreover, we extend the STATE method from count metrics to ratio metrics by utilizing linear transformation that preserves unbiased estimation, whose variance reduction is more complex but less investigated in existing works. Finally, both simulations on synthetic data and long-term empirical results on Meituan experiment platform demonstrate the effectiveness of our method. Compared with the state-of-the-art estimators (CUPAC/MLRATE), STATE achieves over 50% variance reduction, indicating it can reach the same statistical power with only half of the observations, or half the experimental duration.

Xiao Zhou, Luoyi Sun, Dexuan He et al.

Deep learning has enabled the development of highly robust foundation models for various pathological tasks across diverse diseases and patient cohorts. Among these models, vision-language pre-training, which leverages large-scale paired data to align pathology image and text embedding spaces, and provides a novel zero-shot paradigm for downstream tasks. However, existing models have been primarily data-driven and lack the incorporation of domain-specific knowledge, which limits their performance in cancer diagnosis, especially for rare tumor subtypes. To address this limitation, we establish a Knowledge-enhanced Pathology (KEEP) foundation model that harnesses disease knowledge to facilitate vision-language pre-training. Specifically, we first construct a disease knowledge graph (KG) that covers 11,454 human diseases with 139,143 disease attributes, including synonyms, definitions, and hypernym relations. We then systematically reorganize the millions of publicly available noisy pathology image-text pairs, into 143K well-structured semantic groups linked through the hierarchical relations of the disease KG. To derive more nuanced image and text representations, we propose a novel knowledge-enhanced vision-language pre-training approach that integrates disease knowledge into the alignment within hierarchical semantic groups instead of unstructured image-text pairs. Validated on 18 diverse benchmarks with more than 14,000 whole slide images (WSIs), KEEP achieves state-of-the-art performance in zero-shot cancer diagnostic tasks. Notably, for cancer detection, KEEP demonstrates an average sensitivity of 89.8% at a specificity of 95.0% across 7 cancer types. For cancer subtyping, KEEP achieves a median balanced accuracy of 0.456 in subtyping 30 rare brain cancers, indicating strong generalizability for diagnosing rare tumors.

Kun Sun, Rong Wang, Anders Søgaard

Amidst the rapid evolution of LLMs, the significance of evaluation in comprehending and propelling these models forward is increasingly paramount. Evaluations have revealed that factors such as scaling, training types, architectures and other factors profoundly impact the performance of LLMs. However, the extent and nature of these impacts continue to be subjects of debate because most assessments have been restricted to a limited number of models and data points. Clarifying the effects of these factors on performance scores can be more effectively achieved through a statistical lens. Our study embarks on a thorough re-examination of these LLMs, targeting the inadequacies in current evaluation methods. With the advent of a uniform evaluation framework, our research leverages an expansive dataset of evaluation results, introducing a comprehensive statistical methodology. This includes the application of ANOVA, Tukey HSD tests, GAMM, and clustering technique, offering a robust and transparent approach to deciphering LLM performance data. Contrary to prevailing findings, our results challenge assumptions about emergent abilities and the influence of given training types and architectures in LLMs. These findings furnish new perspectives on the characteristics, intrinsic nature, and developmental trajectories of LLMs. By providing straightforward and reliable methods to scrutinize and reassess LLM performance data, this study contributes a nuanced perspective on LLM efficiency and potentials.

Xu He, Di Wu, Yan Zhai et al.

The rise of large language model (LLM)-based multi-agent systems (MAS) introduces new security and reliability challenges. While these systems show great promise in decomposing and coordinating complex tasks, they also face multi-faceted risks across prompt manipulation, unsafe tool usage, and emergent agent miscoordination. Existing guardrail mechanisms offer only partial protection, primarily at the input-output level, and fall short in addressing systemic or multi-point failures in MAS. In this work, we present a system-level anomaly detection framework tailored for MAS, integrating structural modeling with runtime behavioral oversight. Our approach consists of two components. First, we propose a graph-based framework that models agent interactions as dynamic execution graphs, enabling semantic anomaly detection at node, edge, and path levels. Second, we introduce a pluggable SentinelAgent, an LLM-powered oversight agent that observes, analyzes, and intervenes in MAS execution based on security policies and contextual reasoning. By bridging abstract detection logic with actionable enforcement, our method detects not only single-point faults and prompt injections but also multi-agent collusion and latent exploit paths. We validate our framework through two case studies, including an email assistant and Microsoft's Magentic-One system, demonstrating its ability to detect covert risks and provide explainable root-cause attribution. Our work lays the foundation for more trustworthy, monitorable, and secure agent-based AI ecosystems.

Rong Wang, Kun Sun, Jonas Kuhn

Large Language Models (LLMs) have demonstrated remarkable capabilities across various tasks, yet they often struggle with spatial reasoning. This paper presents a novel neural-symbolic framework that enhances LLMs' spatial reasoning abilities through iterative feedback between LLMs and Answer Set Programming (ASP). We evaluate our approach on two benchmark datasets: StepGame and SparQA, implementing three distinct strategies: (1) direct prompting baseline, (2) Facts+Rules prompting, and (3) DSPy-based LLM+ASP pipeline with iterative refinement. Our experimental results demonstrate that the LLM+ASP pipeline significantly outperforms baseline methods, achieving an average 82% accuracy on StepGame and 69% on SparQA, marking improvements of 40-50% and 8-15% respectively over direct prompting. The success stems from three key innovations: (1) effective separation of semantic parsing and logical reasoning through a modular pipeline, (2) iterative feedback mechanism between LLMs and ASP solvers that improves program rate, and (3) robust error handling that addresses parsing, grounding, and solving failures. Additionally, we propose Facts+Rules as a lightweight alternative that achieves comparable performance on complex SparQA dataset, while reducing computational overhead.Our analysis across different LLM architectures (Deepseek, Llama3-70B, GPT-4.0 mini) demonstrates the framework's generalizability and provides insights into the trade-offs between implementation complexity and reasoning capability, contributing to the development of more interpretable and reliable AI systems.

Kun Sun, Rong Wang

The majority of research in computational psycholinguistics has concentrated on the processing of words. This study introduces innovative methods for computing sentence-level metrics using multilingual large language models. The metrics developed sentence surprisal and sentence relevance and then are tested and compared to validate whether they can predict how humans comprehend sentences as a whole across languages. These metrics offer significant interpretability and achieve high accuracy in predicting human sentence reading speeds. Our results indicate that these computational sentence-level metrics are exceptionally effective at predicting and elucidating the processing difficulties encountered by readers in comprehending sentences as a whole across a variety of languages. Their impressive performance and generalization capabilities provide a promising avenue for future research in integrating LLMs and cognitive science.

Weike Zhao, Chaoyi Wu, Yanjie Fan et al. · harvard

Rare diseases collectively affect over 300 million individuals worldwide, yet timely and accurate diagnosis remains a pervasive challenge. This is largely due to their clinical heterogeneity, low individual prevalence, and the limited familiarity most clinicians have with rare conditions. Here, we introduce DeepRare, the first rare disease diagnosis agentic system powered by a large language model (LLM), capable of processing heterogeneous clinical inputs. The system generates ranked diagnostic hypotheses for rare diseases, each accompanied by a transparent chain of reasoning that links intermediate analytic steps to verifiable medical evidence. DeepRare comprises three key components: a central host with a long-term memory module; specialized agent servers responsible for domain-specific analytical tasks integrating over 40 specialized tools and web-scale, up-to-date medical knowledge sources, ensuring access to the most current clinical information. This modular and scalable design enables complex diagnostic reasoning while maintaining traceability and adaptability. We evaluate DeepRare on eight datasets. The system demonstrates exceptional diagnostic performance among 2,919 diseases, achieving 100% accuracy for 1013 diseases. In HPO-based evaluations, DeepRare significantly outperforms other 15 methods, like traditional bioinformatics diagnostic tools, LLMs, and other agentic systems, achieving an average Recall@1 score of 57.18% and surpassing the second-best method (Reasoning LLM) by a substantial margin of 23.79 percentage points. For multi-modal input scenarios, DeepRare achieves 70.60% at Recall@1 compared to Exomiser's 53.20% in 109 cases. Manual verification of reasoning chains by clinical experts achieves 95.40% agreements. Furthermore, the DeepRare system has been implemented as a user-friendly web application http://raredx.cn/doctor.

Kun Sun

In recent years, several influential computational models and metrics have been proposed to predict how humans comprehend and process sentence. One particularly promising approach is contextual semantic similarity. Inspired by the attention algorithm in Transformer and human memory mechanisms, this study proposes an ``attention-aware'' approach for computing contextual semantic relevance. This new approach takes into account the different contributions of contextual parts and the expectation effect, allowing it to incorporate contextual information fully. The attention-aware approach also facilitates the simulation of existing reading models and evaluate them. The resulting ``attention-aware'' metrics of semantic relevance can more accurately predict fixation durations in Chinese reading tasks recorded in an eye-tracking corpus than those calculated by existing approaches. The study's findings further provide strong support for the presence of semantic preview benefits in Chinese naturalistic reading. Furthermore, the attention-aware metrics of semantic relevance, being memory-based, possess high interpretability from both linguistic and cognitive standpoints, making them a valuable computational tool for modeling eye-movements in reading and further gaining insight into the process of language comprehension. Our approach underscores the potential of these metrics to advance our comprehension of how humans understand and process language, ultimately leading to a better understanding of language comprehension and processing.

Rong Wang, Kun Sun

This study employs deep learning techniques to explore four speaker profiling tasks on the TIMIT dataset, namely gender classification, accent classification, age estimation, and speaker identification, highlighting the potential and challenges of multi-task learning versus single-task models. The motivation for this research is twofold: firstly, to empirically assess the advantages and drawbacks of multi-task learning over single-task models in the context of speaker profiling; secondly, to emphasize the undiminished significance of skillful feature engineering for speaker recognition tasks. The findings reveal challenges in accent classification, and multi-task learning is found advantageous for tasks of similar complexity. Non-sequential features are favored for speaker recognition, but sequential ones can serve as starting points for complex models. The study underscores the necessity of meticulous experimentation and parameter tuning for deep learning models.

Kun Sun, Rong Wang

Data-driven approaches have revolutionized scientific research, with machine learning and statistical analysis being commonly used methodologies. Despite their widespread use, these approaches differ significantly in their techniques, objectives and implementations. Few studies have systematically applied both methods to identical datasets to highlight potential differences, particularly in language and cognitive sciences. This study employs the Buckeye Speech Corpus to illustrate how machine learning and statistical analysis are applied in data-driven research to obtain distinct insights on language production. We demonstrate the theoretical differences, implementation steps, and unique objectives of each approach through a comprehensive, tutorial-like comparison. Our analysis reveals that while machine learning excels at pattern recognition and prediction, statistical methods provide deeper insights into relationships between variables. The study highlights how semantic relevance, a novel metric measuring contextual influence on target words, contributes to understanding word duration in speech. We also systematically compare the differences between regression models used in machine learning and statistical analysis, particularly focusing on the training and fitting processes. Additionally, we clarify several common misconceptions that contribute to the confusion between these two approaches. Overall, by elucidating the complementary strengths of machine learning and statistics, this research enhances our understanding of diverse data-driven strategies in language and cognitive sciences, offering researchers valuable guidance on when and how to effectively apply these approaches in different research contexts.

Yuqi Bai, Tianyu Huang, Kun Sun et al.

This research focuses on using large language models (LLMs) to simulate social experiments, exploring their ability to emulate human personality in virtual persona role-playing. The research develops an end-to-end evaluation framework, including individual-level analysis of stability and identifiability, as well as population-level analysis called progressive personality curves to examine the veracity and consistency of LLMs in simulating human personality. Methodologically, this research proposes important modifications to traditional psychometric approaches (CFA and construct validity) which are unable to capture improvement trends in LLMs at their current low-level simulation, potentially leading to remature rejection or methodological misalignment. The main contributions of this research are: proposing a systematic framework for LLM virtual personality evaluation; empirically demonstrating the critical role of persona detail in personality simulation quality; and identifying marginal utility effects of persona profiles, especially a Scaling Law in LLM personality simulation, offering operational evaluation metrics and a theoretical foundation for applying large language models in social science experiments.

Kun Sun, Rong Wang

In a recent study, Lu, Song, and Zhang (2025) (LSZ) propose that large language models (LLMs), when prompted in different languages, display culturally specific tendencies. They report that the two models (i.e., GPT and ERNIE) respond in more interdependent and holistic ways when prompted in Chinese, and more independent and analytic ways when prompted in English. LSZ attribute these differences to deep-seated cultural patterns in the models, claiming that prompt language alone can induce substantial cultural shifts. While we acknowledge the empirical patterns they observed, we find their experiments, methods, and interpretations problematic. In this paper, we critically re-evaluate the methodology, theoretical framing, and conclusions of LSZ. We argue that the reported "cultural tendencies" are not stable traits but fragile artifacts of specific models and task design. To test this, we conducted targeted replications using a broader set of LLMs and a larger number of test items. Our results show that prompt language has minimal effect on outputs, challenging LSZ's claim that these models encode grounded cultural beliefs.

Yilin Li, Guozhu Meng, Mingyang Sun et al.

On-device deep learning models have extensive real world demands. Deep learning compilers efficiently compile models into executables for deployment on edge devices, but these executables may face the threat of reverse engineering. Previous studies have attempted to decompile DNN executables, but they face challenges in handling compilation optimizations and analyzing quantized compiled models. In this paper, we present NeuroDeX to unlock diverse support in decompiling DNN executables. NeuroDeX leverages the semantic understanding capabilities of LLMs along with dynamic analysis to accurately and efficiently perform operator type recognition, operator attribute recovery and model reconstruction. NeuroDeX can recover DNN executables into high-level models towards compilation optimizations, different architectures and quantized compiled models. We conduct experiments on 96 DNN executables across 12 common DNN models. Extensive experimental results demonstrate that NeuroDeX can decompile non-quantized executables into nearly identical high-level models. NeuroDeX can recover functionally similar high-level models for quantized executables, achieving an average top-1 accuracy of 72%. NeuroDeX offers a more comprehensive and effective solution compared to previous DNN executables decompilers.

Dexuan He, Xiao Zhou, Wenbin Guan et al. · harvard

Rare cancers comprise 20-25% of all malignancies but face major diagnostic challenges due to limited expert availability-especially in pediatric oncology, where they represent over 70% of cases. While pathology vision-language (VL) foundation models show promising zero-shot capabilities for common cancer subtyping, their clinical performance for rare cancers remains limited. Existing multi-instance learning (MIL) methods rely only on visual features, overlooking cross-modal knowledge and compromising interpretability critical for rare cancer diagnosis. To address this limitation, we propose PathPT, a novel framework that fully exploits the potential of vision-language pathology foundation models through spatially-aware visual aggregation and task-specific prompt tuning. Unlike conventional MIL, PathPT converts WSI-level supervision into fine-grained tile-level guidance by leveraging the zero-shot capabilities of VL models, thereby preserving localization on cancerous regions and enabling cross-modal reasoning through prompts aligned with histopathological semantics. We benchmark PathPT on eight rare cancer datasets(four adult and four pediatric) spanning 56 subtypes and 2,910 WSIs, as well as three common cancer datasets, evaluating four state-of-the-art VL models and four MIL frameworks under three few-shot settings. Results show that PathPT consistently delivers superior performance, achieving substantial gains in subtyping accuracy and cancerous region grounding ability. This work advances AI-assisted diagnosis for rare cancers, offering a scalable solution for improving subtyping accuracy in settings with limited access to specialized expertise.

Brian Choi, Shu Wang, Isabelle Choi et al.

With the widespread deployment of deep neural network (DNN) models, dynamic watermarking techniques are being used to protect the intellectual property of model owners. However, recent studies have shown that existing watermarking schemes are vulnerable to watermark removal and ambiguity attacks. Besides, the vague criteria for determining watermark presence further increase the likelihood of such attacks. In this paper, we propose a secure DNN watermarking scheme named ChainMarks, which generates secure and robust watermarks by introducing a cryptographic chain into the trigger inputs and utilizes a two-phase Monte Carlo method for determining watermark presence. First, ChainMarks generates trigger inputs as a watermark dataset by repeatedly applying a hash function over a secret key, where the target labels associated with trigger inputs are generated from the digital signature of model owner. Then, the watermarked model is produced by training a DNN over both the original and watermark datasets. To verify watermarks, we compare the predicted labels of trigger inputs with the target labels and determine ownership with a more accurate decision threshold that considers the classification probability of specific models. Experimental results show that ChainMarks exhibits higher levels of robustness and security compared to state-of-the-art watermarking schemes. With a better marginal utility, ChainMarks provides a higher probability guarantee of watermark presence in DNN models with the same level of watermark accuracy.

Kun Sun, Rong Wang

Semantic relevance metrics can capture both the inherent semantics of individual objects and their relationships to other elements within a visual scene. Numerous previous research has demonstrated that these metrics can influence human visual processing. However, these studies often did not fully account for contextual information or employ the recent deep learning models for more accurate computation. This study investigates human visual perception and processing by introducing the metrics of contextual semantic relevance. We evaluate semantic relationships between target objects and their surroundings from both vision-based and language-based perspectives. Testing a large eye-movement dataset from visual comprehension, we employ state-of-the-art deep learning techniques to compute these metrics and analyze their impacts on fixation measures on human visual processing through advanced statistical models. These metrics could also simulate top-down and bottom-up processing in visual perception. This study further integrates vision-based and language-based metrics into a novel combined metric, addressing a critical gap in previous research that often treated visual and semantic similarities separately. Results indicate that all metrics could precisely predict fixation measures in visual perception and processing, but with distinct roles in prediction. The combined metric outperforms other metrics, supporting theories that emphasize the interaction between semantic and visual information in shaping visual perception/processing. This finding aligns with growing recognition of the importance of multi-modal information processing in human cognition. These insights enhance our understanding of cognitive mechanisms underlying visual processing and have implications for developing more accurate computational models in fields such as cognitive science and human-computer interaction.

Rong Wang, Kun Sun

The traditional personality models only yield binary results. This paper presents a novel approach for training personality detection models that produce continuous output values, using mixed strategies. By leveraging the PANDORA dataset, which includes extensive personality labeling of Reddit comments, we developed models that predict the Big Five personality traits with high accuracy. Our approach involves fine-tuning a RoBERTa-base model with various strategies such as Multi-Layer Perceptron (MLP) integration, and hyperparameter tuning. The results demonstrate that our models significantly outperform traditional binary classification methods, offering precise continuous outputs for personality traits, thus enhancing applications in AI, psychology, human resources, marketing and health care fields.

Kun Sun, Rong Wang

Machine Translation (MT) Quality Estimation (QE) assesses translation reliability without reference texts. This study introduces "textual similarity" as a new metric for QE, using sentence transformers and cosine similarity to measure semantic closeness. Analyzing data from the MLQE-PE dataset, we found that textual similarity exhibits stronger correlations with human scores than traditional metrics (hter, model evaluation, sentence probability etc.). Employing GAMMs as a statistical tool, we demonstrated that textual similarity consistently outperforms other metrics across multiple language pairs in predicting human scores. We also found that "hter" actually failed to predict human scores in QE. Our findings highlight the effectiveness of textual similarity as a robust QE metric, recommending its integration with other metrics into QE frameworks and MT system training for improved accuracy and usability.

Kun Sun, Rong Wang

Automated essay scoring (AES) involves predicting a score that reflects the writing quality of an essay. Most existing AES systems produce only a single overall score. However, users and L2 learners expect scores across different dimensions (e.g., vocabulary, grammar, coherence) for English essays in real-world applications. To address this need, we have developed two models that automatically score English essays across multiple dimensions by employing fine-tuning and other strategies on two large datasets. The results demonstrate that our systems achieve impressive performance in evaluation using three criteria: precision, F1 score, and Quadratic Weighted Kappa. Furthermore, our system outperforms existing methods in overall scoring.

Qi Qi, Kunqian Li, Haiyong Zheng et al.

Due to the wavelength-dependent light attenuation, refraction and scattering, underwater images usually suffer from color distortion and blurred details. However, due to the limited number of paired underwater images with undistorted images as reference, training deep enhancement models for diverse degradation types is quite difficult. To boost the performance of data-driven approaches, it is essential to establish more effective learning mechanisms that mine richer supervised information from limited training sample resources. In this paper, we propose a novel underwater image enhancement network, called SGUIE-Net, in which we introduce semantic information as high-level guidance across different images that share common semantic regions. Accordingly, we propose semantic region-wise enhancement module to perceive the degradation of different semantic regions from multiple scales and feed it back to the global attention features extracted from its original scale. This strategy helps to achieve robust and visually pleasant enhancements to different semantic objects, which should thanks to the guidance of semantic information for differentiated enhancement. More importantly, for those degradation types that are not common in the training sample distribution, the guidance connects them with the already well-learned types according to their semantic relevance. Extensive experiments on the publicly available datasets and our proposed dataset demonstrated the impressive performance of SGUIE-Net. The code and proposed dataset are available at: https://trentqq.github.io/SGUIE-Net.html

Jiaming Mu, Binghui Wang, Qi Li et al.

Graph Neural Networks (GNNs) have achieved state-of-the-art performance in various graph structure related tasks such as node classification and graph classification. However, GNNs are vulnerable to adversarial attacks. Existing works mainly focus on attacking GNNs for node classification; nevertheless, the attacks against GNNs for graph classification have not been well explored. In this work, we conduct a systematic study on adversarial attacks against GNNs for graph classification via perturbing the graph structure. In particular, we focus on the most challenging attack, i.e., hard label black-box attack, where an attacker has no knowledge about the target GNN model and can only obtain predicted labels through querying the target model.To achieve this goal, we formulate our attack as an optimization problem, whose objective is to minimize the number of edges to be perturbed in a graph while maintaining the high attack success rate. The original optimization problem is intractable to solve, and we relax the optimization problem to be a tractable one, which is solved with theoretical convergence guarantee. We also design a coarse-grained searching algorithm and a query-efficient gradient computation algorithm to decrease the number of queries to the target GNN model. Our experimental results on three real-world datasets demonstrate that our attack can effectively attack representative GNNs for graph classification with less queries and perturbations. We also evaluate the effectiveness of our attack under two defenses: one is well-designed adversarial graph detector and the other is that the target GNN model itself is equipped with a defense to prevent adversarial graph generation. Our experimental results show that such defenses are not effective enough, which highlights more advanced defenses.

Fengting Li, Xuankai Liu, Xiaoli Zhang et al.

Deep neural networks (DNNs) have been applied in a wide range of applications,e.g.,face recognition and image classification; however,they are vulnerable to adversarial examples. By adding a small amount of imperceptible perturbations,an attacker can easily manipulate the outputs of a DNN. Particularly,the localized adversarial examples only perturb a small and contiguous region of the target object,so that they are robust and effective in both digital and physical worlds. Although the localized adversarial examples have more severe real-world impacts than traditional pixel attacks,they have not been well addressed in the literature. In this paper,we propose a generic defense system called TaintRadar to accurately detect localized adversarial examples via analyzing critical regions that have been manipulated by attackers. The main idea is that when removing critical regions from input images,the ranking changes of adversarial labels will be larger than those of benign labels. Compared with existing defense solutions,TaintRadar can effectively capture sophisticated localized partial attacks, e.g.,the eye-glasses attack,while not requiring additional training or fine-tuning of the original model's structure. Comprehensive experiments have been conducted in both digital and physical worlds to verify the effectiveness and robustness of our defense.

Shu Wang, Jiahao Cao, Xu He et al.

Automatic speech recognition (ASR) systems have been widely deployed in modern smart devices to provide convenient and diverse voice-controlled services. Since ASR systems are vulnerable to audio replay attacks that can spoof and mislead ASR systems, a number of defense systems have been proposed to identify replayed audio signals based on the speakers' unique acoustic features in the frequency domain. In this paper, we uncover a new type of replay attack called modulated replay attack, which can bypass the existing frequency domain based defense systems. The basic idea is to compensate for the frequency distortion of a given electronic speaker using an inverse filter that is customized to the speaker's transform characteristics. Our experiments on real smart devices confirm the modulated replay attacks can successfully escape the existing detection mechanisms that rely on identifying suspicious features in the frequency domain. To defeat modulated replay attacks, we design and implement a countermeasure named DualGuard. We discover and formally prove that no matter how the replay audio signals could be modulated, the replay attacks will either leave ringing artifacts in the time domain or cause spectrum distortion in the frequency domain. Therefore, by jointly checking suspicious features in both frequency and time domains, DualGuard can successfully detect various replay attacks including the modulated replay attacks. We implement a prototype of DualGuard on a popular voice interactive platform, ReSpeaker Core v2. The experimental results show DualGuard can achieve 98% accuracy on detecting modulated replay attacks.

Xuewei Feng, Chuanpu Fu, Qi Li et al.

In this paper, we uncover a new off-path TCP hijacking attack that can be used to terminate victim TCP connections or inject forged data into victim TCP connections by manipulating the new mixed IPID assignment method, which is widely used in Linux kernel version 4.18 and beyond to help defend against TCP hijacking attacks. The attack has three steps. First, an off-path attacker can downgrade the IPID assignment for TCP packets from the more secure per-socket-based policy to the less secure hash-based policy, building a shared IPID counter that forms a side channel on the victim. Second, the attacker detects the presence of TCP connections by observing the shared IPID counter on the victim. Third, the attacker infers the sequence number and the acknowledgment number of the detected connection by observing the side channel of the shared IPID counter. Consequently, the attacker can completely hijack the connection, i.e., resetting the connection or poisoning the data stream. We evaluate the impacts of this off-path TCP attack in the real world. Our case studies of SSH DoS, manipulating web traffic, and poisoning BGP routing tables show its threat on a wide range of applications. Our experimental results show that our off-path TCP attack can be constructed within 215 seconds and the success rate is over 88%. Finally, we analyze the root cause of the exploit and develop a new IPID assignment method to defeat this attack. We prototype our defense in Linux 4.18 and confirm its effectiveness through extensive evaluation over real applications on the Internet.

Tao Xu, Kun Sun, Wenbing Tao

Image feature point matching is a key step in Structure from Motion(SFM). However, it is becoming more and more time consuming because the number of images is getting larger and larger. In this paper, we proposed a GPU accelerated image matching method with improved Cascade Hashing. Firstly, we propose a Disk-Memory-GPU data exchange strategy and optimize the load order of data, so that the proposed method can deal with big data. Next, we parallelize the Cascade Hashing method on GPU. An improved parallel reduction and an improved parallel hashing ranking are proposed to fulfill this task. Finally, extensive experiments show that our image matching is about 20 times faster than SiftGPU on the same graphics card, nearly 100 times faster than the CPU CasHash method and hundreds of times faster than the CPU Kd-Tree based matching method. Further more, we introduce the epipolar constraint to the proposed method, and use the epipolar geometry to guide the feature matching procedure, which further reduces the matching cost.

Kun Sun, Wenbing Tao

Accuracy and efficiency are two key problems in large scale incremental Structure from Motion (SfM). In this paper, we propose a unified framework to divide the image set into clusters suitable for reconstruction as well as find multiple reliable and stable starting points. Image partitioning performs in two steps. First, some small image groups are selected at places with high image density, and then all the images are clustered according to their optimal reconstruction paths to these image groups. This promises that the scene is always reconstructed from dense places to sparse areas, which can reduce error accumulation when images have weak overlap. To enable faster speed, images outside the selected group in each cluster are further divided to achieve a greater degree of parallelism. Experiments show that our method achieves significant speedup, higher accuracy and better completeness.

Yun Gu, Guang-Zhong Yang, Jie Yang et al.

Echocardiography plays an important part in diagnostic aid in cardiac diseases. A critical step in echocardiography-aided diagnosis is to extract the standard planes since they tend to provide promising views to present different structures that are benefit to diagnosis. To this end, this paper proposes a spatial-temporal embedding framework to extract the standard view planes from 4D STIC (spatial-temporal image corre- lation) volumes. The proposed method is comprised of three stages, the frame smoothing, spatial-temporal embedding and final classification. In first stage, an L 0 smoothing filter is used to preprocess the frames that removes the noise and preserves the boundary. Then a compact repre- sentation is learned via embedding spatial and temporal features into a latent space in the supervised scheme considering both standard plane information and diagnosis result. In last stage, the learned features are fed into support vector machine to identify the standard plane. We eval- uate the proposed method on a 4D STIC volume dataset with 92 normal cases and 93 abnormal cases in three standard planes. It demonstrates that our method outperforms the baselines in both classification accuracy and computational efficiency.