Accurate correspondence matching in coronary angiography images is crucial for reconstructing 3D coronary artery structures, which is essential for precise diagnosis and treatment planning of coronary artery disease (CAD). Traditional matching methods for natural images often fail to generalize to X-ray images due to inherent differences such as lack of texture, lower contrast, and overlapping structures, compounded by insufficient training data. To address these challenges, we propose a novel pipeline that generates realistic paired coronary angiography images using a diffusion model conditioned on 2D projections of 3D reconstructed meshes from Coronary Computed Tomography Angiography (CCTA), providing high-quality synthetic data for training. Additionally, we employ large-scale image foundation models to guide feature aggregation, enhancing correspondence matching accuracy by focusing on semantically relevant regions and keypoints. Our approach demonstrates superior matching performance on synthetic datasets and effectively generalizes to real-world datasets, offering a practical solution for this task. Furthermore, our work investigates the efficacy of different foundation models in correspondence matching, providing novel insights into leveraging advanced image foundation models for medical imaging applications.

The accurate segmentation of guidewires in interventional cardiac fluoroscopy videos is crucial for computer-aided navigation tasks. Although deep learning methods have demonstrated high accuracy and robustness in wire segmentation, they require substantial annotated datasets for generalizability, underscoring the need for extensive labeled data to enhance model performance. To address this challenge, we propose the Segmentation-guided Frame-consistency Video Diffusion Model (SF-VD) to generate large collections of labeled fluoroscopy videos, augmenting the training data for wire segmentation networks. SF-VD leverages videos with limited annotations by independently modeling scene distribution and motion distribution. It first samples the scene distribution by generating 2D fluoroscopy images with wires positioned according to a specified input mask, and then samples the motion distribution by progressively generating subsequent frames, ensuring frame-to-frame coherence through a frame-consistency strategy. A segmentation-guided mechanism further refines the process by adjusting wire contrast, ensuring a diverse range of visibility in the synthesized image. Evaluation on a fluoroscopy dataset confirms the superior quality of the generated videos and shows significant improvements in guidewire segmentation.

Medical image segmentation is crucial for clinical decision-making, but the scarcity of annotated data presents significant challenges. Few-shot segmentation (FSS) methods show promise but often require training on the target domain and struggle to generalize across different modalities. Similarly, adapting foundation models such as the segment anything model (SAM) for medical imaging has limitations, including the need for fine-tuning and domain-specific adaptation. To address these issues, we propose a novel method that adapts DINOv2 and SAM 2 for retrieval-augmented few-shot medical image segmentation. Our approach uses DINOv2's feature as query to retrieve similar samples from limited annotated data, which are then encoded as memories and stored in memory bank. With the memory attention mechanism of SAM 2, the model leverages these memories as conditions to generate accurate segmentation of the target image. We evaluated our framework on three medical image segmentation tasks, demonstrating superior performance and generalizability across various modalities without the need for any retraining or fine-tuning. Overall, this method offers a practical and effective solution for few-shot medical image segmentation and holds significant potential as a valuable annotation tool in clinical applications.

Fast and accurate MRI image reconstruction from undersampled data is crucial in clinical practice. Deep learning based reconstruction methods have shown promising advances in recent years. However, recovering fine details from undersampled data is still challenging. In this paper, we introduce a novel deep learning based method, Pyramid Convolutional RNN (PC-RNN), to reconstruct images from multiple scales. Based on the formulation of MRI reconstruction as an inverse problem, we design the PC-RNN model with three convolutional RNN (ConvRNN) modules to iteratively learn the features in multiple scales. Each ConvRNN module reconstructs images at different scales and the reconstructed images are combined by a final CNN module in a pyramid fashion. The multi-scale ConvRNN modules learn a coarse-to-fine image reconstruction. Unlike other common reconstruction methods for parallel imaging, PC-RNN does not employ coil sensitive maps for multi-coil data and directly model the multiple coils as multi-channel inputs. The coil compression technique is applied to standardize data with various coil numbers, leading to more efficient training. We evaluate our model on the fastMRI knee and brain datasets and the results show that the proposed model outperforms other methods and can recover more details. The proposed method is one of the winner solutions in the 2019 fastMRI competition.

MOTIVATION: The human microbial communities are associated with many human diseases such as obesity, diabetes and inflammatory bowel disease. High-throughput sequencing technology has been widely used to quantify the microbial composition in order to understand its impacts on human health. Longitudinal measurements of microbial communities are commonly obtained in many microbiome studies. A key question in such microbiome studies is to identify the microbes that are associated with clinical outcomes or environmental factors. However, microbiome compositional data are highly skewed, bounded in [0,1), and often sparse with many zeros. In addition, the observations from repeated measures in longitudinal studies are correlated. A method that takes into account these features is needed for association analysis in longitudinal microbiome data. RESULTS: In this paper, we propose a two-part zero-inflated Beta regression model with random effects (ZIBR) for testing the association between microbial abundance and clinical covariates for longitudinal microbiome data. The model includes a logistic regression component to model presence/absence of a microbe in the samples and a Beta regression component to model non-zero microbial abundance, where each component includes a random effect to account for the correlations among the repeated measurements on the same subject. Both simulation studies and the application to real microbiome data have shown that ZIBR model outperformed the previously used methods. The method provides a useful tool for identifying the relevant taxa based on longitudinal or repeated measures in microbiome research. AVAILABILITY AND IMPLEMENTATION: https://github.com/chvlyl/ZIBR CONTACT: [email protected].

Quasi-twisted (QT) codes are a generalization of quasi-cyclic (QC) codes. Based on consta-cyclic simplex codes, a new explicit construction of a family of 2-generator quasi-twisted (QT) two-weight codes is presented. It is also shown that many codes in the family meet the Griesmer bound and therefore are length-optimal. New distance-optimal binary QC [195, 8, 96], [210, 8, 104], and [240, 8, 120] codes, and good ternary QC [208, 6, 135] and [221, 6, 144] codes are also obtained by the construction.

Based on cyclic simplex codes, a new construction of a family of two-weight codes is given. These two-weight codes are in a simple 2-generator quasi-cyclic form. Based on this construction, new optimal binary quasi-cyclic [195, 8, 96], [210, 8, 104] and [240, 8, 120] codes, good QC ternary [195, 6, 126], [208, 6, 135], [221, 6, 144] codes are thus obtained. It is also shown that some codes that meet the Griesmer bound and thus are optimal. Furthermre, binary self-complementary codes in a 3-generator quasi-cyclic form, are also constructed.

As a generalization of cyclic codes, quasi-cyclic (QC) codes contain many good linear codes. But quasi-cyclic codes studied so far are mainly limited to one generator (1-generator) QC codes. In this correspondence, 2-generator and 3-generator QC codes are studied, and many good, new QC codes are constructed from simplex codes. Some new binary QC codes or related codes, that improve the bounds on maximum minimum distance for binary linear codes are constructed. They are 5-generator QC [93,17,34] and [254,23,102] codes, and related [96,17,36], [256,23,104] codes