arXiv subjects

Xiwen Chen

Publications and source records attributed to Xiwen Chen.

At least 37 records · Page 2Linked to original sources

arXiv2026

MedMamba: Recasting Mamba for Medical Time Series Classification

Medical time series, such as electrocardiograms (ECG) and electroencephalograms (EEG), exhibit complex temporal dynamics and structured cross-channel dependencies, posing fundamental challenges for automated analysis. Conventional convolutional and recurrent models struggle to capture long-range dependencies, while Transformer-based approaches incur quadratic complexity and often introduce redundant interactions that are misaligned with the intrinsic structure of physiological signals. To address these limitations, we propose MedMamba, a principle-driven multi-scale bidirectional state space architecture tailored for medical time series classification. Our design is guided by three key inductive biases of physiological signals: spatial centralization, multi-timescale temporal composition, and non-causal contextual dependency. These principles are instantiated through a lightweight channel-mixing module for cross-channel reparameterization, multi-scale convolutional tokenization for temporal decomposition, and bidirectional Mamba blocks for efficient global context modeling with linear complexity. Extensive experiments on six benchmark datasets spanning EEG, ECG, and human activity signals demonstrate that MedMamba consistently outperforms state-of-the-art methods across diverse modalities. Notably, it achieves 85.97% accuracy on PTB and establishes new state-of-the-art performance on the challenging ADFTD dataset (54.72% accuracy and 52.01% F1-score). Strong results on long-sequence benchmarks, such as SleepEDF, further validate its capability in modeling long-range dependencies. Moreover, MedMamba achieves a speedup of 4.6x in inference, highlighting its practicality for real-time clinical deployment. These results suggest that principle-guided state space modeling offers an effective and scalable alternative to Transformer-based approaches for medical time series analysis.

eess.SP↗

arXiv2026

Bridging Restoration and Diagnosis: A Comprehensive Benchmark for Retinal Fundus Enhancement

Over the past decade, generative models have demonstrated success in enhancing fundus images. However, the evaluation of these models remains a challenge. A benchmark for fundus image enhancement is needed for three main reasons:(1) Conventional denoising metrics such as PSNR and SSIM fail to capture clinically relevant features, such as lesion preservation and vessel morphology consistency, limiting their applicability in real-world settings; (2) There is a lack of unified evaluation protocols that address both paired and unpaired enhancement methods, particularly those guided by clinical expertise; and (3) An evaluation framework should provide actionable insights to guide future advancements in clinically aligned enhancement models. To address these gaps, we introduce EyeBench-V2, a benchmark designed to bridge the gap between enhancement model performance and clinical utility. Our work offers three key contributions:(1) Multi-dimensional clinical-alignment through downstream evaluations: Beyond standard enhancement metrics, we assess performance across clinically meaningful tasks including vessel segmentation, diabetic retinopathy (DR) grading, generalization to unseen noise patterns, and lesion segmentation. (2) Expert-guided evaluation design: We curate a novel dataset enabling fair comparisons between paired and unpaired enhancement methods, accompanied by a structured manual assessment protocol by medical experts, which evaluates clinically critical aspects such as lesion structure alterations, background color shifts, and the introduction of artificial structures. (3) Actionable insights: Our benchmark provides a rigorous, task-oriented analysis of existing generative models, equipping clinical researchers with the evidence needed to make informed decisions, while also identifying limitations in current methods to inform the design of next-generation enhancement models.

cs.CV↗

arXiv2026

Your Agent is More Brittle Than You Think: Uncovering Indirect Injection Vulnerabilities in Agentic LLMs

The rapid deployment of open-source frameworks has significantly advanced the development of modern multi-agent systems. However, expanded action spaces, including uncontrolled privilege exposure and hidden inter-system interactions, pose severe security challenges. Specifically, Indirect Prompt Injections (IPI), which conceal malicious instructions within third-party content, can trigger unauthorized actions such as data exfiltration during normal operations. While current security evaluations predominantly rely on isolated single-turn benchmarks, the systemic vulnerabilities of these agents within complex dynamic environments remain critically underexplored. To bridge this gap, we systematically evaluate six defense strategies against four sophisticated IPI attack vectors across nine LLM backbones. Crucially, we conduct our evaluation entirely within dynamic multi-step tool-calling environments to capture the true attack surface of modern autonomous agents. Moving beyond binary success rates, our multidimensional analysis reveals a pronounced fragility. Advanced injections successfully bypass nearly all baseline defenses, and some surface-level mitigations even produce counterproductive side effects. Furthermore, while agents execute malicious instructions almost instantaneously, their internal states exhibit abnormally high decision entropy. Motivated by this latent hesitation, we investigate Representation Engineering (RepE) as a robust detection strategy. By extracting hidden states at the tool-input position, we revealed that the RepE-based circuit breaker successfully identifies and intercepts unauthorized actions before the agent commits to them, achieving high detection accuracy across diverse LLM backbones. This study exposes the limitations of current IPI defenses and provides a highly practical paradigm for building resilient multi-agent architectures.

cs.CL↗

arXiv2026

OTPrune: Distribution-Aligned Visual Token Pruning via Optimal Transport

Multi-modal large language models (MLLMs) achieve strong visual-language reasoning but suffer from high inference cost due to redundant visual tokens. Recent work explores visual token pruning to accelerate inference, while existing pruning methods overlook the underlying distributional structure of visual representations. We propose OTPrune, a training-free framework that formulates pruning as distribution alignment via optimal transport (OT). By minimizing the 2-Wasserstein distance between the full and pruned token distributions, OTPrune preserves both local diversity and global representativeness while reducing inference cost. Moreover, we derive a tractable submodular objective that enables efficient optimization, and theoretically prove its monotonicity and submodularity, providing a principled foundation for stable and efficient pruning. We further provide a comprehensive analysis that explains how distributional alignment contributes to stable and semantically faithful pruning. Comprehensive experiments on wider benchmarks demonstrate that OTPrune achieves superior performance-efficiency tradeoffs compared to state-of-the-art methods. The code is available at https://github.com/xiwenc1/OTPrune.

cs.CV↗

arXiv2026

AlphaLab: Autonomous Multi-Agent Research Across Optimization Domains with Frontier LLMs

We present AlphaLab, an autonomous research harness that leverages frontier LLM agentic capabilities to automate the full experimental cycle in quantitative, computation-intensive domains. Given only a dataset and a natural-language objective, AlphaLab proceeds through three phases without human intervention: (1) it adapts to the domain and explores the data, writing analysis code and producing a research report; (2) it constructs and adversarially validates its own evaluation framework; and (3) it runs large-scale GPU experiments via a Strategist/Worker loop, accumulating domain knowledge in a persistent playbook that functions as a form of online prompt optimization. All domain-specific behavior is factored into adapters generated by the model itself, so the same pipeline handles qualitatively different tasks without modification. We evaluate AlphaLab with two frontier LLMs (GPT-5.2 and Claude Opus 4.6) on three domains: CUDA kernel optimization, where it writes GPU kernels that run 4.4x faster than torch.compile on average (up to 91x); LLM pretraining, where the full system achieves 22% lower validation loss than a single-shot baseline using the same model; and traffic forecasting, where it beats standard baselines by 23-25% after researching and implementing published model families from the literature. The two models discover qualitatively different solutions in every domain (neither dominates uniformly), suggesting that multi-model campaigns provide complementary search coverage. We additionally report results on financial time series forecasting in the appendix, and release all code at https://brendanhogan.github.io/alphalab-paper/.

cs.LG↗

arXiv2026

LLaDA-MedV: Exploring Large Language Diffusion Models for Biomedical Image Understanding

Autoregressive models (ARMs) have long dominated the landscape of biomedical vision-language models (VLMs). Recently, masked diffusion models such as LLaDA have emerged as promising alternatives, yet their application in the biomedical domain remains largely underexplored. To bridge this gap, we introduce LLaDA-MedV, the first large language diffusion model tailored for biomedical image understanding through vision instruction tuning. LLaDA-MedV achieves relative performance gains of 7.855% over LLaVA-Med and 1.867% over LLaDA-V in the open-ended biomedical visual conversation task, and sets new state-of-the-art accuracy on the closed-form subset of three VQA benchmarks: 84.93% on VQA-RAD, 92.31% on SLAKE, and 95.15% on PathVQA. Furthermore, a detailed comparison with LLaVA-Med suggests that LLaDA-MedV is capable of generating reasonably longer responses by explicitly controlling response length, which can lead to more informative outputs. We also conduct an in-depth analysis of both the training and inference stages, highlighting the critical roles of initialization weight selection, fine-tuning strategies, and the interplay between sampling steps and response repetition. The code and model weight is released at https://github.com/LLM-VLM-GSL/LLaDA-MedV.

cs.CV↗

arXiv2026

AriadneMem: Threading the Maze of Lifelong Memory for LLM Agents

Long-horizon LLM agents require memory systems that remain accurate under fixed context budgets. However, existing systems struggle with two persistent challenges in long-term dialogue: (i) \textbf{disconnected evidence}, where multi-hop answers require linking facts distributed across time, and (ii) \textbf{state updates}, where evolving information (e.g., schedule changes) creates conflicts with older static logs. We propose AriadneMem, a structured memory system that addresses these failure modes via a decoupled two-phase pipeline. In the \textbf{offline construction phase}, AriadneMem employs \emph{entropy-aware gating} to filter noise and low-information message before LLM extraction and applies \emph{conflict-aware coarsening} to merge static duplicates while preserving state transitions as temporal edges. In the \textbf{online reasoning phase}, rather than relying on expensive iterative planning, AriadneMem executes \emph{algorithmic bridge discovery} to reconstruct missing logical paths between retrieved facts, followed by \emph{single-call topology-aware synthesis}. On LoCoMo experiments with GPT-4o, AriadneMem improves \textbf{Multi-Hop F1 by 15.2\%} and \textbf{Average F1 by 9.0\%} over strong baselines. Crucially, by offloading reasoning to the graph layer, AriadneMem reduces \textbf{total runtime by 77.8\%} using only \textbf{497} context tokens. The code is available at https://github.com/LLM-VLM-GSL/AriadneMem.

cs.CL↗

arXiv2026

EZBlender: Efficient 3D Editing with Plan-and-ReAct Agent

As a cornerstone of the modern digital economy, 3D modeling and rendering demand substantial resources and manual effort when scene editing is performed in the traditional manner. Despite recent progress in VLM-based agents for 3D editing, the fundamental trade-off between editing precision and agent responsiveness remains unresolved. To overcome these limitations, we present EZBlender, a Blender agent with a hybrid framework that combines planning-based task decomposition and reactive local autonomy for efficient human AI collaboration and semantically faithful 3D editing. Specifically, this unexplored Plan-and-ReAct design not only preserves editing quality but also significantly reduces latency and computational cost. To further validate the efficiency and effectiveness of the proposed edge-autonomy architecture, we construct a dedicated multi-tasking benchmark that has not been systematically investigated in prior research. In addition, we provide a comprehensive analysis of language model preference, system responsiveness, and economic efficiency.

cs.HC↗

arXiv2026

AHA: Aligning Large Audio-Language Models for Reasoning Hallucinations via Counterfactual Hard Negatives

Although Large Audio-Language Models (LALMs) deliver state-of-the-art (SOTA) performance, they frequently suffer from hallucinations, e.g. generating text not grounded in the audio input. We analyze these grounding failures and identify a distinct taxonomy: Event Omission, False Event Identity, Temporal Relation Error, and Quantitative Temporal Error. To address this, we introduce the AHA (Audio Hallucination Alignment) framework. By leveraging counterfactual hard negative mining, our pipeline constructs a high-quality preference dataset that forces models to distinguish strict acoustic evidence from linguistically plausible fabrications. Additionally, we establish AHA-Eval, a diagnostic benchmark designed to rigorously test these fine-grained temporal reasoning capabilities. We apply this data to align Qwen2.5-Omni. The resulting model, Qwen-Audio-AHA, achieves a 13.7% improvement on AHA-Eval. Crucially, this benefit generalizes beyond our diagnostic set. Our model shows substantial gains on public benchmarks, including 1.3% on MMAU-Test and 1.6% on MMAR, outperforming latest SOTA methods. The model and dataset are open-sourced at https://github.com/LLM-VLM-GSL/AHA.

cs.SD↗

arXiv2025

Factorized Transport Alignment for Multimodal and Multiview E-commerce Representation Learning

The rapid growth of e-commerce requires robust multimodal representations that capture diverse signals from user-generated listings. Existing vision-language models (VLMs) typically align titles with primary images, i.e., single-view, but overlook non-primary images and auxiliary textual views that provide critical semantics in open marketplaces such as Etsy or Poshmark. To this end, we propose a framework that unifies multimodal and multi-view learning through Factorized Transport, a lightweight approximation of optimal transport, designed for scalability and deployment efficiency. During training, the method emphasizes primary views while stochastically sampling auxiliary ones, reducing training cost from quadratic in the number of views to constant per item. At inference, all views are fused into a single cached embedding, preserving the efficiency of two-tower retrieval with no additional online overhead. On an industrial dataset of 1M product listings and 0.3M interactions, our approach delivers consistent improvements in cross-view and query-to-item retrieval, achieving up to +7.9% Recall@500 over strong multimodal baselines. Overall, our framework bridges scalability with optimal transport-based learning, making multi-view pretraining practical for large-scale e-commerce search.

cs.IR↗

arXiv2025

Fast 2DGS: Efficient Image Representation with Deep Gaussian Prior

As generative models become increasingly capable of producing high-fidelity visual content, the demand for efficient, interpretable, and editable image representations has grown substantially. Recent advances in 2D Gaussian Splatting (2DGS) have emerged as a promising solution, offering explicit control, high interpretability, and real-time rendering capabilities (>1000 FPS). However, high-quality 2DGS typically requires post-optimization. Existing methods adopt random or heuristics (e.g., gradient maps), which are often insensitive to image complexity and lead to slow convergence (>10s). More recent approaches introduce learnable networks to predict initial Gaussian configurations, but at the cost of increased computational and architectural complexity. To bridge this gap, we present Fast-2DGS, a lightweight framework for efficient Gaussian image representation. Specifically, we introduce Deep Gaussian Prior, implemented as a conditional network to capture the spatial distribution of Gaussian primitives under different complexities. In addition, we propose an attribute regression network to predict dense Gaussian properties. Experiments demonstrate that this disentangled architecture achieves high-quality reconstruction in a single forward pass, followed by minimal fine-tuning. More importantly, our approach significantly reduces computational cost without compromising visual quality, bringing 2DGS closer to industry-ready deployment.

cs.CV↗

arXiv2025

Prompt-OT: An Optimal Transport Regularization Paradigm for Knowledge Preservation in Vision-Language Model Adaptation

Vision-language models (VLMs) such as CLIP demonstrate strong performance but struggle when adapted to downstream tasks. Prompt learning has emerged as an efficient and effective strategy to adapt VLMs while preserving their pre-trained knowledge. However, existing methods still lead to overfitting and degrade zero-shot generalization. To address this challenge, we propose an optimal transport (OT)-guided prompt learning framework that mitigates forgetting by preserving the structural consistency of feature distributions between pre-trained and fine-tuned models. Unlike conventional point-wise constraints, OT naturally captures cross-instance relationships and expands the feasible parameter space for prompt tuning, allowing a better trade-off between adaptation and generalization. Our approach enforces joint constraints on both vision and text representations, ensuring a holistic feature alignment. Extensive experiments on benchmark datasets demonstrate that our simple yet effective method can outperform existing prompt learning strategies in base-to-novel generalization, cross-dataset evaluation, and domain generalization without additional augmentation or ensemble techniques. The code is available at https://github.com/ChongQingNoSubway/Prompt-OT

cs.CV↗

arXiv2025

VAOT: Vessel-Aware Optimal Transport for Retinal Fundus Enhancement

Color fundus photography (CFP) is central to diagnosing and monitoring retinal disease, yet its acquisition variability (e.g., illumination changes) often degrades image quality, which motivates robust enhancement methods. Unpaired enhancement pipelines are typically GAN-based, however, they can distort clinically critical vasculature, altering vessel topology and endpoint integrity. Motivated by these structural alterations, we propose Vessel-Aware Optimal Transport (\textbf{VAOT}), a framework that combines an optimal-transport objective with two structure-preserving regularizers: (i) a skeleton-based loss to maintain global vascular connectivity and (ii) an endpoint-aware loss to stabilize local termini. These constraints guide learning in the unpaired setting, reducing noise while preserving vessel structure. Experimental results on synthetic degradation benchmark and downstream evaluations in vessel and lesion segmentation demonstrate the superiority of the proposed methods against several state-of-the art baselines. The code is available at https://github.com/Retinal-Research/VAOT

cs.CV↗

arXiv2025

EVTP-IVS: Effective Visual Token Pruning For Unifying Instruction Visual Segmentation In Multi-Modal Large Language Models

Instructed Visual Segmentation (IVS) tasks require segmenting objects in images or videos based on natural language instructions. While recent multimodal large language models (MLLMs) have achieved strong performance on IVS, their inference cost remains a major bottleneck, particularly in video. We empirically analyze visual token sampling in MLLMs and observe a strong correlation between subset token coverage and segmentation performance. This motivates our design of a simple and effective token pruning method that selects a compact yet spatially representative subset of tokens to accelerate inference. In this paper, we introduce a novel visual token pruning method for IVS, called EVTP-IV, which builds upon the k-center by integrating spatial information to ensure better coverage. We further provide an information-theoretic analysis to support our design. Experiments on standard IVS benchmarks show that our method achieves up to 5X speed-up on video tasks and 3.5X on image tasks, while maintaining comparable accuracy using only 20% of the tokens. Our method also consistently outperforms state-of-the-art pruning baselines under varying pruning ratios.

cs.CV↗

arXiv2025

Smarter Together: Combining Large Language Models and Small Models for Physiological Signals Visual Inspection

Large language models (LLMs) have shown promising capabilities in visually interpreting medical time-series data. However, their general-purpose design can limit domain-specific precision, and the proprietary nature of many models poses challenges for fine-tuning on specialized clinical datasets. Conversely, small specialized models (SSMs) offer strong performance on focused tasks but lack the broader reasoning needed for complex medical decision-making. To address these complementary limitations, we introduce \ConMIL{} (Conformalized Multiple Instance Learning), a novel decision-support framework distinctively synergizes three key components: (1) a new Multiple Instance Learning (MIL) mechanism, QTrans-Pooling, designed for per-class interpretability in identifying clinically relevant physiological signal segments; (2) conformal prediction, integrated with MIL to generate calibrated, set-valued outputs with statistical reliability guarantees; and (3) a structured approach for these interpretable and uncertainty-quantified SSM outputs to enhance the visual inspection capabilities of LLMs. Our experiments on arrhythmia detection and sleep stage classification demonstrate that \ConMIL{} can enhance the accuracy of LLMs such as ChatGPT4.0, Qwen2-VL-7B, and MiMo-VL-7B-RL. For example, \ConMIL{}-supported Qwen2-VL-7B and MiMo-VL-7B-RL both achieves 94.92% and 96.82% precision on confident samples and (70.61% and 78.02%)/(78.10% and 71.98%) on uncertain samples for the two tasks, compared to 46.13% and 13.16% using the LLM alone. These results suggest that integrating task-specific models with LLMs may offer a promising pathway toward more interpretable and trustworthy AI-driven clinical decision support.

cs.AI↗

arXiv2025

Cracking Instance Jigsaw Puzzles: An Alternative to Multiple Instance Learning for Whole Slide Image Analysis

While multiple instance learning (MIL) has shown to be a promising approach for histopathological whole slide image (WSI) analysis, its reliance on permutation invariance significantly limits its capacity to effectively uncover semantic correlations between instances within WSIs. Based on our empirical and theoretical investigations, we argue that approaches that are not permutation-invariant but better capture spatial correlations between instances can offer more effective solutions. In light of these findings, we propose a novel alternative to existing MIL for WSI analysis by learning to restore the order of instances from their randomly shuffled arrangement. We term this task as cracking an instance jigsaw puzzle problem, where semantic correlations between instances are uncovered. To tackle the instance jigsaw puzzles, we propose a novel Siamese network solution, which is theoretically justified by optimal transport theory. We validate the proposed method on WSI classification and survival prediction tasks, where the proposed method outperforms the recent state-of-the-art MIL competitors. The code is available at https://github.com/xiwenc1/MIL-JigsawPuzzles.

eess.IV↗

arXiv2025

How Effective Can Dropout Be in Multiple Instance Learning ?

Multiple Instance Learning (MIL) is a popular weakly-supervised method for various applications, with a particular interest in histological whole slide image (WSI) classification. Due to the gigapixel resolution of WSI, applications of MIL in WSI typically necessitate a two-stage training scheme: first, extract features from the pre-trained backbone and then perform MIL aggregation. However, it is well-known that this suboptimal training scheme suffers from "noisy" feature embeddings from the backbone and inherent weak supervision, hindering MIL from learning rich and generalizable features. However, the most commonly used technique (i.e., dropout) for mitigating this issue has yet to be explored in MIL. In this paper, we empirically explore how effective the dropout can be in MIL. Interestingly, we observe that dropping the top-k most important instances within a bag leads to better performance and generalization even under noise attack. Based on this key observation, we propose a novel MIL-specific dropout method, termed MIL-Dropout, which systematically determines which instances to drop. Experiments on five MIL benchmark datasets and two WSI datasets demonstrate that MIL-Dropout boosts the performance of current MIL methods with a negligible computational cost. The code is available at https://github.com/ChongQingNoSubway/MILDropout.

cs.CV↗

arXiv2025

Toward Effective Reinforcement Learning Fine-Tuning for Medical VQA in Vision-Language Models

Recently, reinforcement learning (RL)-based tuning has shifted the trajectory of Multimodal Large Language Models (MLLMs), particularly following the introduction of Group Relative Policy Optimization (GRPO). However, directly applying it to medical tasks remains challenging for achieving clinically grounded model behavior. Motivated by the need to align model response with clinical expectations, we investigate four critical dimensions that affect the effectiveness of RL-based tuning in medical visual question answering (VQA): base model initialization strategy, the role of medical semantic alignment, the impact of length-based rewards on long-chain reasoning, and the influence of bias. We conduct extensive experiments to analyze these factors for medical MLLMs, providing new insights into how models are domain-specifically fine-tuned. Additionally, our results also demonstrate that GRPO-based RL tuning consistently outperforms standard supervised fine-tuning (SFT) in both accuracy and reasoning quality.

cs.CL↗