Junxuan Yu

Yuhao Huang, Xin Yang, Lian Liu et al.

The Segment Anything Model (SAM) is the first foundation model for general image segmentation. It has achieved impressive results on various natural image segmentation tasks. However, medical image segmentation (MIS) is more challenging because of the complex modalities, fine anatomical structures, uncertain and complex object boundaries, and wide-range object scales. To fully validate SAM's performance on medical data, we collected and sorted 53 open-source datasets and built a large medical segmentation dataset with 18 modalities, 84 objects, 125 object-modality paired targets, 1050K 2D images, and 6033K masks. We comprehensively analyzed different models and strategies on the so-called COSMOS 1050K dataset. Our findings mainly include the following: 1) SAM showed remarkable performance in some specific objects but was unstable, imperfect, or even totally failed in other situations. 2) SAM with the large ViT-H showed better overall performance than that with the small ViT-B. 3) SAM performed better with manual hints, especially box, than the Everything mode. 4) SAM could help human annotation with high labeling quality and less time. 5) SAM was sensitive to the randomness in the center point and tight box prompts, and may suffer from a serious performance drop. 6) SAM performed better than interactive methods with one or a few points, but will be outpaced as the number of points increases. 7) SAM's performance correlated to different factors, including boundary complexity, intensity differences, etc. 8) Finetuning the SAM on specific medical tasks could improve its average DICE performance by 4.39% and 6.68% for ViT-B and ViT-H, respectively. We hope that this comprehensive report can help researchers explore the potential of SAM applications in MIS, and guide how to appropriately use and develop SAM.

Junxuan Yu, Rusi Chen, Yongsong Zhou et al.

Echocardiography video is a primary modality for diagnosing heart diseases, but the limited data poses challenges for both clinical teaching and machine learning training. Recently, video generative models have emerged as a promising strategy to alleviate this issue. However, previous methods often relied on holistic conditions during generation, hindering the flexible movement control over specific cardiac structures. In this context, we propose an explainable and controllable method for echocardiography video generation, taking an initial frame and a motion curve as guidance. Our contributions are three-fold. First, we extract motion information from each heart substructure to construct motion curves, enabling the diffusion model to synthesize customized echocardiography videos by modifying these curves. Second, we propose the structure-to-motion alignment module, which can map semantic features onto motion curves across cardiac structures. Third, The position-aware attention mechanism is designed to enhance video consistency utilizing Gaussian masks with structural position information. Extensive experiments on three echocardiography datasets show that our method outperforms others regarding fidelity and consistency. The full code will be released at https://github.com/mlmi-2024-72/ECM.

Chaoyu Chen, Xin Yang, Rusi Chen et al.

Ultrasound (US) image segmentation is an active research area that requires real-time and highly accurate analysis in many scenarios. The detect-to-segment (DTS) frameworks have been recently proposed to balance accuracy and efficiency. However, existing approaches may suffer from inadequate contour encoding or fail to effectively leverage the encoded results. In this paper, we introduce a novel Fourier-anchor-based DTS framework called Fourier Feature Pyramid Network (FFPN) to address the aforementioned issues. The contributions of this paper are two fold. First, the FFPN utilizes Fourier Descriptors to adequately encode contours. Specifically, it maps Fourier series with similar amplitudes and frequencies into the same layer of the feature map, thereby effectively utilizing the encoded Fourier information. Second, we propose a Contour Sampling Refinement (CSR) module based on the contour proposals and refined features produced by the FFPN. This module extracts rich features around the predicted contours to further capture detailed information and refine the contours. Extensive experimental results on three large and challenging datasets demonstrate that our method outperforms other DTS methods in terms of accuracy and efficiency. Furthermore, our framework can generalize well to other detection or segmentation tasks.

Jian Wang, Qiongying Ni, Hongkui Yu et al.

Accurate fetal birth weight (FBW) estimation is essential for optimizing delivery decisions and reducing perinatal mortality. However, clinical methods for FBW estimation are inefficient, operator-dependent, and challenging to apply in cases of complex fetal anatomy. Existing deep learning methods are based on 2D standard ultrasound (US) images or videos that lack spatial information, limiting their prediction accuracy. In this study, we propose the first method for directly estimating FBW from 3D fetal US volumes. Our approach integrates a multi-scale feature fusion network (MFFN) and a synthetic sample-based learning framework (SSLF). The MFFN effectively extracts and fuses multi-scale features under sparse supervision by incorporating channel attention, spatial attention, and a ranking-based loss function. SSLF generates synthetic samples by simply combining fetal head and abdomen data from different fetuses, utilizing semi-supervised learning to improve prediction performance. Experimental results demonstrate that our method achieves superior performance, with a mean absolute error of $166.4\pm155.9$ $g$ and a mean absolute percentage error of $5.1\pm4.6$%, outperforming existing methods and approaching the accuracy of a senior doctor. Code is available at: https://github.com/Qioy-i/EFW.

Junxuan Yu, Yaofei Duan, Yuhao Huang et al.

Echocardiography is routine for cardiac examination. However, 2D ultrasound (US) struggles with accurate metric calculation and direct observation of 3D cardiac structures. Moreover, 3D US is limited by low resolution, small field of view and scarce availability in practice. Constructing the cardiac anatomical twin from 2D images is promising to provide precise treatment planning and clinical quantification. However, it remains challenging due to the rare paired data, complex structures, and US noises. In this study, we introduce a novel generative framework UltraTwin, to obtain cardiac anatomical twin from sparse multi-view 2D US. Our contribution is three-fold. First, pioneered the construction of a real-world and high-quality dataset containing strictly paired multi-view 2D US and CT, and pseudo-paired data. Second, we propose a coarse-to-fine scheme to achieve hierarchical reconstruction optimization. Last, we introduce an implicit autoencoder for topology-aware constraints. Extensive experiments show that UltraTwin reconstructs high-quality anatomical twins versus strong competitors. We believe it advances anatomical twin modeling for potential applications in personalized cardiac care.