Image Translation-Based Unsupervised Cross-Modality Domain Adaptation for Medical Image Segmentation

Supervised deep learning usually faces more challenges in medical images than in natural images. Since annotations in medical images require the expertise of doctors and are more time-consuming and expensive. Thus, some researchers turn to unsupervised learning methods, which usually face inevitable performance drops. In addition, medical images may have been acquired at different medical centers with different scanners and under different image acquisition protocols, so the modalities of the medical images are often inconsistent. This modality difference (domain shift) also reduces the applicability of deep learning methods. In this regard, we propose an unsupervised crossmodality domain adaptation method based on image translation by transforming the source modality image with annotation into the unannotated target modality and using its annotation to achieve supervised learning of the target modality. In addition, the subtle differences between translated pseudo images and real images are overcome by self-training methods to further improve the task performance of deep learning. The proposed method showed mean Dice Similarity Coefficient (DSC) and Average Symmetric Surface Distance (ASSD) of $0.8351 \pm 0.1152$ and $1.6712 \pm 2.1948$ for vestibular schwannoma (VS), $0.8098 \pm 0.0233$ and $0.2317 \pm 0.1577$ for cochlea on the VS and cochlea segmentation task of the Cross-Modality Domain Adaptation (crossMoDA 2022) challenge validation phase leaderboard.

Multi-Class Segmentation of Aortic Branches and Zones in Computed Tomography Angiography: The AortaSeg24 Challenge

Multi-class segmentation of the aorta in computed tomography angiography (CTA) scans is essential for diagnosing and planning complex endovascular treatments for patients with aortic dissections. However, existing methods reduce aortic segmentation to a binary problem, limiting their ability to measure diameters across different branches and zones. Furthermore, no open-source dataset is currently available to support the development of multi-class aortic segmentation methods. To address this gap, we organized the AortaSeg24 MICCAI Challenge, introducing the first dataset of 100 CTA volumes annotated for 23 clinically relevant aortic branches and zones. This dataset was designed to facilitate both model development and validation. The challenge attracted 121 teams worldwide, with participants leveraging state-of-the-art frameworks such as nnU-Net and exploring novel techniques, including cascaded models, data augmentation strategies, and custom loss functions. We evaluated the submitted algorithms using the Dice Similarity Coefficient (DSC) and Normalized Surface Distance (NSD), highlighting the approaches adopted by the top five performing teams. This paper presents the challenge design, dataset details, evaluation metrics, and an in-depth analysis of the top-performing algorithms. The annotated dataset, evaluation code, and implementations of the leading methods are publicly available to support further research. All resources can be accessed at https://aortaseg24.grand-challenge.org.

DPCL-Diff: The Temporal Knowledge Graph Reasoning based on Graph Node Diffusion Model with Dual-Domain Periodic Contrastive Learning

Temporal knowledge graph (TKG) reasoning that infers future missing facts is an essential and challenging task. Predicting future events typically relies on closely related historical facts, yielding more accurate results for repetitive or periodic events. However, for future events with sparse historical interactions, the effectiveness of this method, which focuses on leveraging high-frequency historical information, diminishes. Recently, the capabilities of diffusion models in image generation have opened new opportunities for TKG reasoning. Therefore, we propose a graph node diffusion model with dual-domain periodic contrastive learning (DPCL-Diff). Graph node diffusion model (GNDiff) introduces noise into sparsely related events to simulate new events, generating high-quality data that better conforms to the actual distribution. This generative mechanism significantly enhances the model's ability to reason about new events. Additionally, the dual-domain periodic contrastive learning (DPCL) maps periodic and non-periodic event entities to Poincar\'e and Euclidean spaces, leveraging their characteristics to distinguish similar periodic events effectively. Experimental results on four public datasets demonstrate that DPCL-Diff significantly outperforms state-of-the-art TKG models in event prediction, demonstrating our approach's effectiveness. This study also investigates the combined effectiveness of GNDiff and DPCL in TKG tasks.

SegRap2023: A Benchmark of Organs-at-Risk and Gross Tumor Volume Segmentation for Radiotherapy Planning of Nasopharyngeal Carcinoma

Radiation therapy is a primary and effective NasoPharyngeal Carcinoma (NPC) treatment strategy. The precise delineation of Gross Tumor Volumes (GTVs) and Organs-At-Risk (OARs) is crucial in radiation treatment, directly impacting patient prognosis. Previously, the delineation of GTVs and OARs was performed by experienced radiation oncologists. Recently, deep learning has achieved promising results in many medical image segmentation tasks. However, for NPC OARs and GTVs segmentation, few public datasets are available for model development and evaluation. To alleviate this problem, the SegRap2023 challenge was organized in conjunction with MICCAI2023 and presented a large-scale benchmark for OAR and GTV segmentation with 400 Computed Tomography (CT) scans from 200 NPC patients, each with a pair of pre-aligned non-contrast and contrast-enhanced CT scans. The challenge's goal was to segment 45 OARs and 2 GTVs from the paired CT scans. In this paper, we detail the challenge and analyze the solutions of all participants. The average Dice similarity coefficient scores for all submissions ranged from 76.68\% to 86.70\%, and 70.42\% to 73.44\% for OARs and GTVs, respectively. We conclude that the segmentation of large-size OARs is well-addressed, and more efforts are needed for GTVs and small-size or thin-structure OARs. The benchmark will remain publicly available here: https://segrap2023.grand-challenge.org

Intergrated Segmentation and Detection Models for Dentex Challenge 2023

Dental panoramic x-rays are commonly used in dental diagnosing. With the development of deep learning, auto detection of diseases from dental panoramic x-rays can help dentists to diagnose diseases more efficiently.The Dentex Challenge 2023 is a competition for automatic detection of abnormal teeth along with their enumeration ids from dental panoramic x-rays. In this paper, we propose a method integrating segmentation and detection models to detect abnormal teeth as well as obtain their enumeration ids.Our codes are available at https://github.com/xyzlancehe/DentexSegAndDet.

Inferior Alveolar Nerve Segmentation in CBCT images using Connectivity-Based Selective Re-training

Inferior Alveolar Nerve (IAN) canal detection in CBCT is an important step in many dental and maxillofacial surgery applications to prevent irreversible damage to the nerve during the procedure.The ToothFairy2023 Challenge aims to establish a 3D maxillofacial dataset consisting of all sparse labels and partial dense labels, and improve the ability of automatic IAN segmentation. In this work, in order to avoid the negative impact brought by sparse labeling, we transform the mixed supervised problem into a semi-supervised problem. Inspired by self-training via pseudo labeling, we propose a selective re-training framework based on IAN connectivity. Our method is quantitatively evaluated on the ToothFairy verification cases, achieving the dice similarity coefficient (DSC) of 0.7956, and 95\% hausdorff distance (HD95) of 4.4905, and wining the champion in the competition. Code is available at https://github.com/GaryNico517/SSL-IAN-Retraining.

The KiTS21 Challenge: Automatic segmentation of kidneys, renal tumors, and renal cysts in corticomedullary-phase CT

This paper presents the challenge report for the 2021 Kidney and Kidney Tumor Segmentation Challenge (KiTS21) held in conjunction with the 2021 international conference on Medical Image Computing and Computer Assisted Interventions (MICCAI). KiTS21 is a sequel to its first edition in 2019, and it features a variety of innovations in how the challenge was designed, in addition to a larger dataset. A novel annotation method was used to collect three separate annotations for each region of interest, and these annotations were performed in a fully transparent setting using a web-based annotation tool. Further, the KiTS21 test set was collected from an outside institution, challenging participants to develop methods that generalize well to new populations. Nonetheless, the top-performing teams achieved a significant improvement over the state of the art set in 2019, and this performance is shown to inch ever closer to human-level performance. An in-depth meta-analysis is presented describing which methods were used and how they faired on the leaderboard, as well as the characteristics of which cases generally saw good performance, and which did not. Overall KiTS21 facilitated a significant advancement in the state of the art in kidney tumor segmentation, and provides useful insights that are applicable to the field of semantic segmentation as a whole.

Exploring Visual Prompts for Whole Slide Image Classification with Multiple Instance Learning

Multiple instance learning (MIL) has emerged as a popular method for classifying histopathology whole slide images (WSIs). However, existing approaches typically rely on pre-trained models from large natural image datasets, such as ImageNet, to generate instance features, which can be sub-optimal due to the significant differences between natural images and histopathology images that lead to a domain shift. In this paper, we present a novel, simple yet effective method for learning domain-specific knowledge transformation from pre-trained models to histopathology images. Our approach entails using a prompt component to assist the pre-trained model in discerning differences between the pre-trained dataset and the target histopathology dataset, resulting in improved performance of MIL models. We validate our method on two publicly available datasets, Camelyon16 and TCGA-NSCLC. Extensive experimental results demonstrate the significant performance improvement of our method for different MIL models and backbones. Upon publication of this paper, we will release the source code for our method.

Koos Classification of Vestibular Schwannoma via Image Translation-Based Unsupervised Cross-Modality Domain Adaptation

The Koos grading scale is a classification system for vestibular schwannoma (VS) used to characterize the tumor and its effects on adjacent brain structures. The Koos classification captures many of the characteristics of treatment deci-sions and is often used to determine treatment plans. Although both contrast-enhanced T1 (ceT1) scanning and high-resolution T2 (hrT2) scanning can be used for Koos Classification, hrT2 scanning is gaining interest because of its higher safety and cost-effectiveness. However, in the absence of annotations for hrT2 scans, deep learning methods often inevitably suffer from performance deg-radation due to unsupervised learning. If ceT1 scans and their annotations can be used for unsupervised learning of hrT2 scans, the performance of Koos classifi-cation using unlabeled hrT2 scans will be greatly improved. In this regard, we propose an unsupervised cross-modality domain adaptation method based on im-age translation by transforming annotated ceT1 scans into hrT2 modality and us-ing their annotations to achieve supervised learning of hrT2 modality. Then, the VS and 7 adjacent brain structures related to Koos classification in hrT2 scans were segmented. Finally, handcrafted features are extracted from the segmenta-tion results, and Koos grade is classified using a random forest classifier. The proposed method received rank 1 on the Koos classification task of the Cross-Modality Domain Adaptation (crossMoDA 2022) challenge, with Macro-Averaged Mean Absolute Error (MA-MAE) of 0.2148 for the validation set and 0.26 for the test set.

3D Vessel Segmentation with Limited Guidance of 2D Structure-agnostic Vessel Annotations

Delineating 3D blood vessels is essential for clinical diagnosis and treatment, however, is challenging due to complex structure variations and varied imaging conditions. Supervised deep learning has demonstrated its superior capacity in automatic 3D vessel segmentation. However, the reliance on expensive 3D manual annotations and limited capacity for annotation reuse hinder the clinical applications of supervised models. To avoid the repetitive and laborious annotating and make full use of existing vascular annotations, this paper proposes a novel 3D shape-guided local discrimination model for 3D vascular segmentation under limited guidance from public 2D vessel annotations. The primary hypothesis is that 3D vessels are composed of semantically similar voxels and exhibit tree-shaped morphology. Accordingly, the 3D region discrimination loss is firstly proposed to learn the discriminative representation measuring voxel-wise similarities and cluster semantically consistent voxels to form the candidate 3D vascular segmentation in unlabeled images; secondly, based on the similarity of the tree-shaped morphology between 2D and 3D vessels, the Crop-and-Overlap strategy is presented to generate reference masks from 2D structure-agnostic vessel annotations, which are fit for varied vascular structures, and the adversarial loss is introduced to guide the tree-shaped morphology of 3D vessels; thirdly, the temporal consistency loss is proposed to foster the training stability and keep the model updated smoothly. To further enhance the model's robustness and reliability, the orientation-invariant CNN module and Reliability-Refinement algorithm are presented. Experimental results from the public 3D cerebrovascular and 3D arterial tree datasets demonstrate that our model achieves comparable effectiveness against nine supervised models.