Find the papers that actually matter

In this work, we present a novel latent diffusion-based pipeline for 3D kidney anomaly detection on contrast-enhanced abdominal CT. The method combines Denoising Diffusion Probabilistic Models (DDPMs), Denoising Diffusion Implicit Models (DDIMs), and Vector-Quantized Generative Adversarial Networks (VQ-GANs). Unlike prior slice-wise approaches, our method operates directly on an image volume and leverages weak supervision with only case-level pseudo-labels. We benchmark our approach against state-of-the-art supervised segmentation and detection models. This study demonstrates the feasibility and promise of 3D latent diffusion for weakly supervised anomaly detection. While the current results do not yet match supervised baselines, they reveal key directions for improving reconstruction fidelity and lesion localization. Our findings provide an important step toward annotation-efficient, generative modeling of complex abdominal anatomy.

Accurate tumor segmentation and classification in breast ultrasound (BUS) imaging remain challenging due to low contrast, speckle noise, and diverse lesion morphology. This study presents a multi-task deep learning framework that jointly performs lesion segmentation and diagnostic classification using embeddings from the Segment Anything Model (SAM) vision encoder. Unlike prompt-based SAM variants, our approach employs a prompt-free, fully supervised adaptation where high-dimensional SAM features are decoded through either a lightweight convolutional head or a UNet-inspired decoder for pixel-wise segmentation. The classification branch is enhanced via mask-guided attention, allowing the model to focus on lesion-relevant features while suppressing background artifacts. Experiments on the PRECISE 2025 breast ultrasound dataset, split per class into 80 percent training and 20 percent testing, show that the proposed method achieves a Dice Similarity Coefficient (DSC) of 0.887 and an accuracy of 92.3 percent, ranking among the top entries on the PRECISE challenge leaderboard. These results demonstrate that SAM-based representations, when coupled with segmentation-guided learning, significantly improve both lesion delineation and diagnostic prediction in breast ultrasound imaging.

CLIP and BiomedCLIP are examples of vision-language foundation models and offer strong cross-modal embeddings; however, they are not optimized for fine-grained medical retrieval tasks, such as retrieving clinically relevant radiology reports using chest X-ray (CXR) image queries. To address this shortcoming, we propose a multi-task learning framework to fine-tune BiomedCLIP and evaluate improvements to CXR image-text retrieval. Using BiomedCLIP as the backbone, we incorporate a lightweight MLP projector head trained with a multi-task composite loss function that includes: (1) a binary cross-entropy loss to distinguish normal from abnormal CXR studies, (2) a supervised contrastive loss to reinforce intra-class consistency, and (3) a CLIP loss to maintain cross-modal alignment. Experimental results demonstrate that the fine-tuned model achieves more balanced and clinically meaningful performance across both image-to-text and text-to-image retrieval tasks compared to the pretrained BiomedCLIP and general-purpose CLIP models. Furthermore, t-SNE visualizations reveal clearer semantic clustering of normal and abnormal cases, demonstrating the model's enhanced diagnostic sensitivity. These findings highlight the value of domain-adaptive, multi-task learning for advancing cross-modal retrieval in biomedical applications.

Early diagnosis of breast cancer is crucial for improving survival rates. Radiomics and deep learning (DL) have shown significant potential in assisting radiologists with early cancer detection. This paper aims to critically assess the performance of radiomics, DL, and ensemble techniques in detecting cancer from screening mammograms. Two independent datasets were used: the RSNA 2023 Breast Cancer Detection Challenge (11,913 patients) and a Mexican cohort from the TecSalud dataset (19,400 patients). The ConvNeXtV1-small DL model was trained on the RSNA dataset and validated on the TecSalud dataset, while radiomics models were developed using the TecSalud dataset and validated with a leave-one-year-out approach. The ensemble method consistently combined and calibrated predictions using the same methodology. Results showed that the ensemble approach achieved the highest area under the curve (AUC) of 0.87, compared to 0.83 for ConvNeXtV1-small and 0.80 for radiomics. In conclusion, ensemble methods combining DL and radiomics predictions significantly enhance breast cancer diagnosis from mammograms.

Pathology foundation models substantially advanced the possibilities in computational pathology -- yet tradeoffs in terms of performance, robustness, and computational requirements remained, which limited their clinical deployment. In this report, we present Atlas 2, Atlas 2-B, and Atlas 2-S, three pathology vision foundation models which bridge these shortcomings by showing state-of-the-art performance in prediction performance, robustness, and resource efficiency in a comprehensive evaluation across eighty public benchmarks. Our models were trained on the largest pathology foundation model dataset to date comprising 5.5 million histopathology whole slide images, collected from three medical institutions Charité - Universtätsmedizin Berlin, LMU Munich, and Mayo Clinic.

Accurate segmentation of the pancreas and its lesions in CT scans is crucial for the precise diagnosis and treatment of pancreatic cancer. However, it remains a highly challenging task due to several factors such as low tissue contrast with surrounding organs, blurry anatomical boundaries, irregular organ shapes, and the small size of lesions. To tackle these issues, we propose DB-MSMUNet (Dual-Branch Multi-scale Mamba UNet), a novel encoder-decoder architecture designed specifically for robust pancreatic segmentation. The encoder is constructed using a Multi-scale Mamba Module (MSMM), which combines deformable convolutions and multi-scale state space modeling to enhance both global context modeling and local deformation adaptation. The network employs a dual-decoder design: the edge decoder introduces an Edge Enhancement Path (EEP) to explicitly capture boundary cues and refine fuzzy contours, while the area decoder incorporates a Multi-layer Decoder (MLD) to preserve fine-grained details and accurately reconstruct small lesions by leveraging multi-scale deep semantic features. Furthermore, Auxiliary Deep Supervision (ADS) heads are added at multiple scales to both decoders, providing more accurate gradient feedback and further enhancing the discriminative capability of multi-scale features. We conduct extensive experiments on three datasets: the NIH Pancreas dataset, the MSD dataset, and a clinical pancreatic tumor dataset provided by collaborating hospitals. DB-MSMUNet achieves Dice Similarity Coefficients of 89.47%, 87.59%, and 89.02%, respectively, outperforming most existing state-of-the-art methods in terms of segmentation accuracy, edge preservation, and robustness across different datasets. These results demonstrate the effectiveness and generalizability of the proposed method for real-world pancreatic CT segmentation tasks.

Examination of T-cell receptor (TCR) clonality has become a way of understanding immunologic response to cancer and its interventions in recent years. An aspect of these analyses is determining which receptors expand or contract statistically significantly as a function of an exogenous perturbation such as therapeutic intervention. We characterize the commonly used Fisher's exact test approach for such analyses and propose an alternative formulation that does not necessitate pairwise, within-patient comparisons. We develop this flexible Bayesian longitudinal mixture model that accommodates variable length patient followup and handles missingness where present, not omitting data in estimation because of structural practicalities. Once clones are partitioned by the model into dynamic (expanding or contracting) and static categories, one can associate their counts or other characteristics with disease state, interventions, baseline biomarkers, and patient prognosis. We apply these developments to a cohort of prostate cancer patients who underwent randomized metastasis-directed therapy or not. Our analyses reveal a significant increase in clonal expansions among MDT patients and their association with later progressions both independent and within strata of MDT. Analysis of receptor motifs and VJ gene enrichment combinations using a high-dimensional penalized log-linear model we develop also suggests distinct biological characteristics of expanding clones, with and without inducement by MDT.

Three-dimensional medical image segmentation is a fundamental yet computationally demanding task due to the cubic growth of voxel processing and the redundant computation on homogeneous regions. To address these limitations, we propose \textbf{TokenSeg}, a boundary-aware sparse token representation framework for efficient 3D medical volume segmentation. Specifically, (1) we design a \emph{multi-scale hierarchical encoder} that extracts 400 candidate tokens across four resolution levels to capture both global anatomical context and fine boundary details; (2) we introduce a \emph{boundary-aware tokenizer} that combines VQ-VAE quantization with importance scoring to select 100 salient tokens, over 60\% of which lie near tumor boundaries; and (3) we develop a \emph{sparse-to-dense decoder} that reconstructs full-resolution masks through token reprojection, progressive upsampling, and skip connections. Extensive experiments on a 3D breast DCE-MRI dataset comprising 960 cases demonstrate that TokenSeg achieves state-of-the-art performance with 94.49\% Dice and 89.61\% IoU, while reducing GPU memory and inference latency by 64\% and 68\%, respectively. To verify the generalization capability, our evaluations on MSD cardiac and brain MRI benchmark datasets demonstrate that TokenSeg consistently delivers optimal performance across heterogeneous anatomical structures. These results highlight the effectiveness of anatomically informed sparse representation for accurate and efficient 3D medical image segmentation.

This study presents a unified Attention U-Net architecture trained jointly on MRI (BraTS 2021) and CT (LIDC-IDRI) datasets to investigate the generalizability of a single model across diverse imaging modalities and anatomical sites. Our proposed pipeline incorporates modality-harmonized preprocessing, attention-gated skip connections, and a modality-aware Focal Tversky loss function. To the best of our knowledge, this study is among the first to evaluate a single Attention U-Net trained simultaneously on separate MRI (BraTS) and CT (LIDC-IDRI) tumor datasets, without relying on modality-specific encoders or domain adaptation. The unified model demonstrates competitive performance in terms of Dice coefficient, IoU, and AUC on both domains, thereby establishing a robust and reproducible baseline for future research in cross-modality tumor segmentation.

Large language models (LLMs) frequently fail to challenge users' harmful beliefs in domains ranging from medical advice to social reasoning. We argue that these failures can be understood and addressed pragmatically as consequences of LLMs defaulting to accommodating users' assumptions and exhibiting insufficient epistemic vigilance. We show that social and linguistic factors known to influence accommodation in humans (at-issueness, linguistic encoding, and source reliability) similarly affect accommodation in LLMs, explaining performance differences across three safety benchmarks that test models' ability to challenge harmful beliefs, spanning misinformation (Cancer-Myth, SAGE-Eval) and sycophancy (ELEPHANT). We further show that simple pragmatic interventions, such as adding the phrase "wait a minute", significantly improve performance on these benchmarks while preserving low false-positive rates. Our results highlight the importance of considering pragmatics for evaluating LLM behavior and improving LLM safety.