SRMA-Mamba: Spatial Reverse Mamba Attention Network for Pathological Liver Segmentation in MRI Volumes

Liver Cirrhosis plays a critical role in the prognosis of chronic liver disease. Early detection and timely intervention are critical in significantly reducing mortality rates. However, the intricate anatomical architecture and diverse pathological changes of liver tissue complicate the accurate detection and characterization of lesions in clinical settings. Existing methods underutilize the spatial anatomical details in volumetric MRI data, thereby hindering their clinical effectiveness and explainability. To address this challenge, we introduce a novel Mamba-based network, SRMA-Mamba, designed to model the spatial relationships within the complex anatomical structures of MRI volumes. By integrating the Spatial Anatomy-Based Mamba module (SABMamba), SRMA-Mamba performs selective Mamba scans within liver cirrhotic tissues and combines anatomical information from the sagittal, coronal, and axial planes to construct a global spatial context representation, enabling efficient volumetric segmentation of pathological liver structures. Furthermore, we introduce the Spatial Reverse Attention module (SRMA), designed to progressively refine cirrhotic details in the segmentation map, utilizing both the coarse segmentation map and hierarchical encoding features. Extensive experiments demonstrate that SRMA-Mamba surpasses state-of-the-art methods, delivering exceptional performance in 3D pathological liver segmentation. Our code is available for public: {\color{blue}{https://github.com/JunZengz/SRMA-Mamba}}.

Large Language Model Evaluated Stand-alone Attention-Assisted Graph Neural Network with Spatial and Structural Information Interaction for Precise Endoscopic Image Segmentation

Accurate endoscopic image segmentation on the polyps is critical for early colorectal cancer detection. However, this task remains challenging due to low contrast with surrounding mucosa, specular highlights, and indistinct boundaries. To address these challenges, we propose FOCUS-Med, which stands for Fusion of spatial and structural graph with attentional context-aware polyp segmentation in endoscopic medical imaging. FOCUS-Med integrates a Dual Graph Convolutional Network (Dual-GCN) module to capture contextual spatial and topological structural dependencies. This graph-based representation enables the model to better distinguish polyps from background tissues by leveraging topological cues and spatial connectivity, which are often obscured in raw image intensities. It enhances the model's ability to preserve boundaries and delineate complex shapes typical of polyps. In addition, a location-fused stand-alone self-attention is employed to strengthen global context integration. To bridge the semantic gap between encoder-decoder layers, we incorporate a trainable weighted fast normalized fusion strategy for efficient multi-scale aggregation. Notably, we are the first to introduce the use of a Large Language Model (LLM) to provide detailed qualitative evaluations of segmentation quality. Extensive experiments on public benchmarks demonstrate that FOCUS-Med achieves state-of-the-art performance across five key metrics, underscoring its effectiveness and clinical potential for AI-assisted colonoscopy.

Mamba Guided Boundary Prior Matters: A New Perspective for Generalized Polyp Segmentation

Polyp segmentation in colonoscopy images is crucial for early detection and diagnosis of colorectal cancer. However, this task remains a significant challenge due to the substantial variations in polyp shape, size, and color, as well as the high similarity between polyps and surrounding tissues, often compounded by indistinct boundaries. While existing encoder-decoder CNN and transformer-based approaches have shown promising results, they struggle with stable segmentation performance on polyps with weak or blurry boundaries. These methods exhibit limited abilities to distinguish between polyps and non-polyps and capture essential boundary cues. Moreover, their generalizability still falls short of meeting the demands of real-time clinical applications. To address these limitations, we propose SAM-MaGuP, a groundbreaking approach for robust polyp segmentation. By incorporating a boundary distillation module and a 1D-2D Mamba adapter within the Segment Anything Model (SAM), SAM-MaGuP excels at resolving weak boundary challenges and amplifies feature learning through enriched global contextual interactions. Extensive evaluations across five diverse datasets reveal that SAM-MaGuP outperforms state-of-the-art methods, achieving unmatched segmentation accuracy and robustness. Our key innovations, a Mamba-guided boundary prior and a 1D-2D Mamba block, set a new benchmark in the field, pushing the boundaries of polyp segmentation to new heights.

PRS-Med: Position Reasoning Segmentation with Vision-Language Model in Medical Imaging

Recent advancements in prompt-based medical image segmentation have enabled clinicians to identify tumors using simple input like bounding boxes or text prompts. However, existing methods face challenges when doctors need to interact through natural language or when position reasoning is required - understanding spatial relationships between anatomical structures and pathologies. We present PRS-Med, a framework that integrates vision-language models with segmentation capabilities to generate both accurate segmentation masks and corresponding spatial reasoning outputs. Additionally, we introduce the MMRS dataset (Multimodal Medical in Positional Reasoning Segmentation), which provides diverse, spatially-grounded question-answer pairs to address the lack of position reasoning data in medical imaging. PRS-Med demonstrates superior performance across six imaging modalities (CT, MRI, X-ray, ultrasound, endoscopy, RGB), significantly outperforming state-of-the-art methods in both segmentation accuracy and position reasoning. Our approach enables intuitive doctor-system interaction through natural language, facilitating more efficient diagnoses. Our dataset pipeline, model, and codebase will be released to foster further research in spatially-aware multimodal reasoning for medical applications.

FocusNet: Transformer-enhanced Polyp Segmentation with Local and Pooling Attention

Colonoscopy is vital in the early diagnosis of colorectal polyps. Regular screenings can effectively prevent benign polyps from progressing to CRC. While deep learning has made impressive strides in polyp segmentation, most existing models are trained on single-modality and single-center data, making them less effective in real-world clinical environments. To overcome these limitations, we propose FocusNet, a Transformer-enhanced focus attention network designed to improve polyp segmentation. FocusNet incorporates three essential modules: the Cross-semantic Interaction Decoder Module (CIDM) for generating coarse segmentation maps, the Detail Enhancement Module (DEM) for refining shallow features, and the Focus Attention Module (FAM), to balance local detail and global context through local and pooling attention mechanisms. We evaluate our model on PolypDB, a newly introduced dataset with multi-modality and multi-center data for building more reliable segmentation methods. Extensive experiments showed that FocusNet consistently outperforms existing state-of-the-art approaches with a high dice coefficients of 82.47% on the BLI modality, 88.46% on FICE, 92.04% on LCI, 82.09% on the NBI and 93.42% on WLI modality, demonstrating its accuracy and robustness across five different modalities. The source code for FocusNet is available at https://github.com/JunZengz/FocusNet.

Liver Cirrhosis Stage Estimation from MRI with Deep Learning

We present an end-to-end deep learning framework for automated liver cirrhosis stage estimation from multi-sequence MRI. Cirrhosis is the severe scarring (fibrosis) of the liver and a common endpoint of various chronic liver diseases. Early diagnosis is vital to prevent complications such as decompensation and cancer, which significantly decreases life expectancy. However, diagnosing cirrhosis in its early stages is challenging, and patients often present with life-threatening complications. Our approach integrates multi-scale feature learning with sequence-specific attention mechanisms to capture subtle tissue variations across cirrhosis progression stages. Using CirrMRI600+, a large-scale publicly available dataset of 628 high-resolution MRI scans from 339 patients, we demonstrate state-of-the-art performance in three-stage cirrhosis classification. Our best model achieves 72.8% accuracy on T1W and 63.8% on T2W sequences, significantly outperforming traditional radiomics-based approaches. Through extensive ablation studies, we show that our architecture effectively learns stage-specific imaging biomarkers. We establish new benchmarks for automated cirrhosis staging and provide insights for developing clinically applicable deep learning systems. The source code will be available at https://github.com/JunZengz/CirrhosisStage.

A Reverse Mamba Attention Network for Pathological Liver Segmentation

We present RMA-Mamba, a novel architecture that advances the capabilities of vision state space models through a specialized reverse mamba attention module (RMA). The key innovation lies in RMA-Mamba's ability to capture long-range dependencies while maintaining precise local feature representation through its hierarchical processing pipeline. By integrating Vision Mamba (VMamba)'s efficient sequence modeling with RMA's targeted feature refinement, our architecture achieves superior feature learning across multiple scales. This dual-mechanism approach enables robust handling of complex morphological patterns while maintaining computational efficiency. We demonstrate RMA-Mamba's effectiveness in the challenging domain of pathological liver segmentation (from both CT and MRI), where traditional segmentation approaches often fail due to tissue variations. When evaluated on a newly introduced cirrhotic liver dataset (CirrMRI600+) of T2-weighted MRI scans, RMA-Mamba achieves the state-of-the-art performance with a Dice coefficient of 92.08%, mean IoU of 87.36%, and recall of 92.96%. The architecture's generalizability is further validated on the cancerous liver segmentation from CT scans (LiTS: Liver Tumor Segmentation dataset), yielding a Dice score of 92.9% and mIoU of 88.99%. The source code of the proposed RMA-Mamba is available at https://github.com/JunZengz/RMAMamba.

Diverse Image Generation with Diffusion Models and Cross Class Label Learning for Polyp Classification

Pathologic diagnosis is a critical phase in deciding the optimal treatment procedure for dealing with colorectal cancer (CRC). Colonic polyps, precursors to CRC, can pathologically be classified into two major types: adenomatous and hyperplastic. For precise classification and early diagnosis of such polyps, the medical procedure of colonoscopy has been widely adopted paired with various imaging techniques, including narrow band imaging and white light imaging. However, the existing classification techniques mainly rely on a single imaging modality and show limited performance due to data scarcity. Recently, generative artificial intelligence has been gaining prominence in overcoming such issues. Additionally, various generation-controlling mechanisms using text prompts and images have been introduced to obtain visually appealing and desired outcomes. However, such mechanisms require class labels to make the model respond efficiently to the provided control input. In the colonoscopy domain, such controlling mechanisms are rarely explored; specifically, the text prompt is a completely uninvestigated area. Moreover, the unavailability of expensive class-wise labels for diverse sets of images limits such explorations. Therefore, we develop a novel model, PathoPolyp-Diff, that generates text-controlled synthetic images with diverse characteristics in terms of pathology, imaging modalities, and quality. We introduce cross-class label learning to make the model learn features from other classes, reducing the burdensome task of data annotation. The experimental results report an improvement of up to 7.91% in balanced accuracy using a publicly available dataset. Moreover, cross-class label learning achieves a statistically significant improvement of up to 18.33% in balanced accuracy during video-level analysis. The code is available at https://github.com/Vanshali/PathoPolyp-Diff.

L2GNet: Optimal Local-to-Global Representation of Anatomical Structures for Generalized Medical Image Segmentation

Continuous Latent Space (CLS) and Discrete Latent Space (DLS) models, like AttnUNet and VQUNet, have excelled in medical image segmentation. In contrast, Synergistic Continuous and Discrete Latent Space (CDLS) models show promise in handling fine and coarse-grained information. However, they struggle with modeling long-range dependencies. CLS or CDLS-based models, such as TransUNet or SynergyNet are adept at capturing long-range dependencies. Since they rely heavily on feature pooling or aggregation using self-attention, they may capture dependencies among redundant regions. This hinders comprehension of anatomical structure content, poses challenges in modeling intra-class and inter-class dependencies, increases false negatives and compromises generalization. Addressing these issues, we propose L2GNet, which learns global dependencies by relating discrete codes obtained from DLS using optimal transport and aligning codes on a trainable reference. L2GNet achieves discriminative on-the-fly representation learning without an additional weight matrix in self-attention models, making it computationally efficient for medical applications. Extensive experiments on multi-organ segmentation and cardiac datasets demonstrate L2GNet's superiority over state-of-the-art methods, including the CDLS method SynergyNet, offering an novel approach to enhance deep learning models' performance in medical image analysis.

SAM-Mamba: Mamba Guided SAM Architecture for Generalized Zero-Shot Polyp Segmentation

Polyp segmentation in colonoscopy is crucial for detecting colorectal cancer. However, it is challenging due to variations in the structure, color, and size of polyps, as well as the lack of clear boundaries with surrounding tissues. Traditional segmentation models based on Convolutional Neural Networks (CNNs) struggle to capture detailed patterns and global context, limiting their performance. Vision Transformer (ViT)-based models address some of these issues but have difficulties in capturing local context and lack strong zero-shot generalization. To this end, we propose the Mamba-guided Segment Anything Model (SAM-Mamba) for efficient polyp segmentation. Our approach introduces a Mamba-Prior module in the encoder to bridge the gap between the general pre-trained representation of SAM and polyp-relevant trivial clues. It injects salient cues of polyp images into the SAM image encoder as a domain prior while capturing global dependencies at various scales, leading to more accurate segmentation results. Extensive experiments on five benchmark datasets show that SAM-Mamba outperforms traditional CNN, ViT, and Adapter-based models in both quantitative and qualitative measures. Additionally, SAM-Mamba demonstrates excellent adaptability to unseen datasets, making it highly suitable for real-time clinical use.