LLM-Bootstrapped Targeted Finding Guidance for Factual MLLM-based Medical Report Generation

The automatic generation of medical reports utilizing Multimodal Large Language Models (MLLMs) frequently encounters challenges related to factual instability, which may manifest as the omission of findings or the incorporation of inaccurate information, thereby constraining their applicability in clinical settings. Current methodologies typically produce reports based directly on image features, which inherently lack a definitive factual basis. In response to this limitation, we introduce Fact-Flow, an innovative framework that separates the process of visual fact identification from the generation of reports. This is achieved by initially predicting clinical findings from the image, which subsequently directs the MLLM to produce a report that is factually precise. A pivotal advancement of our approach is a pipeline that leverages a Large Language Model (LLM) to autonomously create a dataset of labeled medical findings, effectively eliminating the need for expensive manual annotation. Extensive experimental evaluations conducted on two disease-focused medical datasets validate the efficacy of our method, demonstrating a significant enhancement in factual accuracy compared to state-of-the-art models, while concurrently preserving high standards of text quality.

Unsupervised Causal Prototypical Networks for De-biased Interpretable Dermoscopy Diagnosis

Despite the success of deep learning in dermoscopy image analysis, its inherent black-box nature hinders clinical trust, motivating the use of prototypical networks for case-based visual transparency. However, inevitable selection bias in clinical data often drives these models toward shortcut learning, where environmental confounders are erroneously encoded as predictive prototypes, generating spurious visual evidence that misleads medical decision-making. To mitigate these confounding effects, we propose CausalProto, an Unsupervised Causal Prototypical Network that fundamentally purifies the visual evidence chain. Framed within a Structural Causal Model, we employ an Information Bottleneck-constrained encoder to enforce strict unsupervised orthogonal disentanglement between pathological features and environmental confounders. By mapping these decoupled representations into independent prototypical spaces, we leverage the learned spurious dictionary to perform backdoor adjustment via do-calculus, transforming complex causal interventions into efficient expectation pooling to marginalize environmental noise. Extensive experiments on multiple dermoscopy datasets demonstrate that CausalProto achieves superior diagnostic performance and consistently outperforms standard black box models, while simultaneously providing transparent and high purity visual interpretability without suffering from the traditional accuracy compromise.

Directed Ordinal Diffusion Regularization for Progression-Aware Diabetic Retinopathy Grading

Diabetic Retinopathy (DR) progresses as a continuous and irreversible deterioration of the retina, following a well-defined clinical trajectory from mild to severe stages. However, most existing ordinal regression approaches model DR severity as a set of static, symmetric ranks, capturing relative order while ignoring the inherent unidirectional nature of disease progression. As a result, the learned feature representations may violate biological plausibility, allowing implausible proximity between non-consecutive stages or even reverse transitions. To bridge this gap, we propose Directed Ordinal Diffusion Regularization (D-ODR), which explicitly models the feature space as a directed flow by constructing a progression-constrained directed graph that strictly enforces forward disease evolution. By performing multi-scale diffusion on this directed structure, D-ODR imposes penalties on score inversions along valid progression paths, thereby effectively preventing the model from learning biologically inconsistent reverse transitions. This mechanism aligns the feature representation with the natural trajectory of DR worsening. Extensive experiments demonstrate that D-ODR yields superior grading performance compared to state-of-the-art ordinal regression and DR-specific grading methods, offering a more clinically reliable assessment of disease severity. Our code is available on https://github.com/HovChen/D-ODR.

VasGuideNet: Vascular Topology-Guided Couinaud Liver Segmentation with Structural Contrastive Loss

Accurate Couinaud liver segmentation is critical for preoperative surgical planning and tumor localization.However, existing methods primarily rely on image intensity and spatial location cues, without explicitly modeling vascular topology. As a result, they often produce indistinct boundaries near vessels and show limited generalization under anatomical variability.We propose VasGuideNet, the first Couinaud segmentation framework explicitly guided by vascular topology. Specifically, skeletonized vessels, Euclidean distance transform (EDT)--derived geometry, and k-nearest neighbor (kNN) connectivity are encoded into topology features using Graph Convolutional Networks (GCNs). These features are then injected into a 3D encoder--decoder backbone via a cross-attention fusion module. To further improve inter-class separability and anatomical consistency, we introduce a Structural Contrastive Loss (SCL) with a global memory bank.On Task08_HepaticVessel and our private LASSD dataset, VasGuideNet achieves Dice scores of 83.68% and 76.65% with RVDs of 1.68 and 7.08, respectively. It consistently outperforms representative baselines including UNETR, Swin UNETR, and G-UNETR++, delivering higher Dice/mIoU and lower RVD across datasets, demonstrating its effectiveness for anatomically consistent segmentation. Code is available at https://github.com/Qacket/VasGuideNet.git.

MaS-VQA: A Mask-and-Select Framework for Knowledge-Based Visual Question Answering

Knowledge-based Visual Question Answering (KB-VQA) requires models to answer questions by integrating visual information with external knowledge. However, retrieved knowledge is often noisy, partially irrelevant, or misaligned with the visual content, while internal model knowledge is difficult to control and interpret. Naive aggregation of these sources limits reasoning effectiveness and reduces answer accuracy. To address this, we propose MaS-VQA, a selection-driven framework that tightly couples explicit knowledge filtering with implicit knowledge reasoning. MaS-VQA first retrieves candidate passages and applies a Mask-and-Select mechanism to jointly prune irrelevant image regions and weakly relevant knowledge fragments, producing compact, high-signal multimodal knowledge . This filtered knowledge then guides the activation of internal knowledge in a constrained semantic space, enabling complementary co-modeling of explicit and implicit knowledge for robust answer prediction. Experiments on Encyclopedic-VQA and InfoSeek demonstrate consistent performance gains across multiple MLLM backbones, and ablations verify that the selection mechanism effectively reduces noise and enhances knowledge utilization.

REAL: Resolving Knowledge Conflicts in Knowledge-Intensive Visual Question Answering via Reasoning-Pivot Alignment

Knowledge-intensive Visual Question Answering (KI-VQA) frequently suffers from severe knowledge conflicts caused by the inherent limitations of open-domain retrieval. However, existing paradigms face critical limitations due to the lack of generalizable conflict detection and intra-model constraint mechanisms to handle conflicting evidence. To address these challenges, we propose the REAL (Reasoning-Pivot Alignment) framework centered on the novel concept of the Reasoning-Pivot. Distinct from reasoning steps that prioritize internal self-derivation, a reasoning-pivot serves as an atomic unit (node or edge) in the reasoning chain that emphasizes knowledge linkage, and it typically relies on external evidence to complete the reasoning. Supported by our constructed REAL-VQA dataset, our approach integrates Reasoning-Pivot Aware SFT (RPA-SFT) to train a generalizable discriminator by aligning conflicts with pivot extraction, and employs Reasoning-Pivot Guided Decoding (RPGD), an intra-model decoding strategy that leverages these pivots for targeted conflict mitigation. Extensive experiments across diverse benchmarks demonstrate that REAL significantly enhances discrimination accuracy and achieves state-of-the-art performance, validating the effectiveness of our pivot-driven resolution paradigm.

Towards Scalable Web Accessibility Audit with MLLMs as Copilots

Ensuring web accessibility is crucial for advancing social welfare, justice, and equality in digital spaces, yet the vast majority of website user interfaces remain non-compliant, due in part to the resource-intensive and unscalable nature of current auditing practices. While WCAG-EM offers a structured methodology for site-wise conformance evaluation, it involves great human efforts and lacks practical support for execution at scale. In this work, we present an auditing framework, AAA, which operationalizes WCAG-EM through a human-AI partnership model. AAA is anchored by two key innovations: GRASP, a graph-based multimodal sampling method that ensures representative page coverage via learned embeddings of visual, textual, and relational cues; and MaC, a multimodal large language model-based copilot that supports auditors through cross-modal reasoning and intelligent assistance in high-effort tasks. Together, these components enable scalable, end-to-end web accessibility auditing, empowering human auditors with AI-enhanced assistance for real-world impact. We further contribute four novel datasets designed for benchmarking core stages of the audit pipeline. Extensive experiments demonstrate the effectiveness of our methods, providing insights that small-scale language models can serve as capable experts when fine-tuned.

Multi-Omics Analysis for Cancer Subtype Inference via Unrolling Graph Smoothness Priors

Integrating multi-omics datasets through data-driven analysis offers a comprehensive understanding of the complex biological processes underlying various diseases, particularly cancer. Graph Neural Networks (GNNs) have recently demonstrated remarkable ability to exploit relational structures in biological data, enabling advances in multi-omics integration for cancer subtype classification. Existing approaches often neglect the intricate coupling between heterogeneous omics, limiting their capacity to resolve subtle cancer subtype heterogeneity critical for precision oncology. To address these limitations, we propose a framework named Graph Transformer for Multi-omics Cancer Subtype Classification (GTMancer). This framework builds upon the GNN optimization problem and extends its application to complex multi-omics data. Specifically, our method leverages contrastive learning to embed multi-omics data into a unified semantic space. We unroll the multiplex graph optimization problem in that unified space and introduce dual sets of attention coefficients to capture structural graph priors both within and among multi-omics data. This approach enables global omics information to guide the refining of the representations of individual omics. Empirical experiments on seven real-world cancer datasets demonstrate that GTMancer outperforms existing state-of-the-art algorithms.

OpenGT: A Comprehensive Benchmark For Graph Transformers

Graph Transformers (GTs) have recently demonstrated remarkable performance across diverse domains. By leveraging attention mechanisms, GTs are capable of modeling long-range dependencies and complex structural relationships beyond local neighborhoods. However, their applicable scenarios are still underexplored, this highlights the need to identify when and why they excel. Furthermore, unlike GNNs, which predominantly rely on message-passing mechanisms, GTs exhibit a diverse design space in areas such as positional encoding, attention mechanisms, and graph-specific adaptations. Yet, it remains unclear which of these design choices are truly effective and under what conditions. As a result, the community currently lacks a comprehensive benchmark and library to promote a deeper understanding and further development of GTs. To address this gap, this paper introduces OpenGT, a comprehensive benchmark for Graph Transformers. OpenGT enables fair comparisons and multidimensional analysis by establishing standardized experimental settings and incorporating a broad selection of state-of-the-art GNNs and GTs. Our benchmark evaluates GTs from multiple perspectives, encompassing diverse tasks and datasets with varying properties. Through extensive experiments, our benchmark has uncovered several critical insights, including the difficulty of transferring models across task levels, the limitations of local attention, the efficiency trade-offs in several models, the application scenarios of specific positional encodings, and the preprocessing overhead of some positional encodings. We aspire for this work to establish a foundation for future graph transformer research emphasizing fairness, reproducibility, and generalizability. We have developed an easy-to-use library OpenGT for training and evaluating existing GTs. The benchmark code is available at https://github.com/eaglelab-zju/OpenGT.

ImputeINR: Time Series Imputation via Implicit Neural Representations for Disease Diagnosis with Missing Data

Healthcare data frequently contain a substantial proportion of missing values, necessitating effective time series imputation to support downstream disease diagnosis tasks. However, existing imputation methods focus on discrete data points and are unable to effectively model sparse data, resulting in particularly poor performance for imputing substantial missing values. In this paper, we propose a novel approach, ImputeINR, for time series imputation by employing implicit neural representations (INR) to learn continuous functions for time series. ImputeINR leverages the merits of INR in that the continuous functions are not coupled to sampling frequency and have infinite sampling frequency, allowing ImputeINR to generate fine-grained imputations even on extremely sparse observed values. Extensive experiments conducted on eight datasets with five ratios of masked values show the superior imputation performance of ImputeINR, especially for high missing ratios in time series data. Furthermore, we validate that applying ImputeINR to impute missing values in healthcare data enhances the performance of downstream disease diagnosis tasks. Codes are available.