Yao Zhang

Yao Zhang, Nanjun He, Jiawei Yang et al.

Accurate brain tumor segmentation from Magnetic Resonance Imaging (MRI) is desirable to joint learning of multimodal images. However, in clinical practice, it is not always possible to acquire a complete set of MRIs, and the problem of missing modalities causes severe performance degradation in existing multimodal segmentation methods. In this work, we present the first attempt to exploit the Transformer for multimodal brain tumor segmentation that is robust to any combinatorial subset of available modalities. Concretely, we propose a novel multimodal Medical Transformer (mmFormer) for incomplete multimodal learning with three main components: the hybrid modality-specific encoders that bridge a convolutional encoder and an intra-modal Transformer for both local and global context modeling within each modality; an inter-modal Transformer to build and align the long-range correlations across modalities for modality-invariant features with global semantics corresponding to tumor region; a decoder that performs a progressive up-sampling and fusion with the modality-invariant features to generate robust segmentation. Besides, auxiliary regularizers are introduced in both encoder and decoder to further enhance the model's robustness to incomplete modalities. We conduct extensive experiments on the public BraTS $2018$ dataset for brain tumor segmentation. The results demonstrate that the proposed mmFormer outperforms the state-of-the-art methods for incomplete multimodal brain tumor segmentation on almost all subsets of incomplete modalities, especially by an average 19.07% improvement of Dice on tumor segmentation with only one available modality. The code is available at https://github.com/YaoZhang93/mmFormer.

Jiawei Yang, Hanbo Chen, Yu Zhao et al.

Whole slide image (WSI) classification often relies on deep weakly supervised multiple instance learning (MIL) methods to handle gigapixel resolution images and slide-level labels. Yet the decent performance of deep learning comes from harnessing massive datasets and diverse samples, urging the need for efficient training pipelines for scaling to large datasets and data augmentation techniques for diversifying samples. However, current MIL-based WSI classification pipelines are memory-expensive and computation-inefficient since they usually assemble tens of thousands of patches as bags for computation. On the other hand, despite their popularity in other tasks, data augmentations are unexplored for WSI MIL frameworks. To address them, we propose ReMix, a general and efficient framework for MIL based WSI classification. It comprises two steps: reduce and mix. First, it reduces the number of instances in WSI bags by substituting instances with instance prototypes, i.e., patch cluster centroids. Then, we propose a ``Mix-the-bag'' augmentation that contains four online, stochastic and flexible latent space augmentations. It brings diverse and reliable class-identity-preserving semantic changes in the latent space while enforcing semantic-perturbation invariance. We evaluate ReMix on two public datasets with two state-of-the-art MIL methods. In our experiments, consistent improvements in precision, accuracy, and recall have been achieved but with orders of magnitude reduced training time and memory consumption, demonstrating ReMix's effectiveness and efficiency. Code is available.

Yao Zhang, Haokun Chen, Ahmed Frikha et al. · deepmind, oxford

Visual Question Answering (VQA) is a multi-discipline research task. To produce the right answer, it requires an understanding of the visual content of images, the natural language questions, as well as commonsense reasoning over the information contained in the image and world knowledge. Recently, large-scale Vision-and-Language Pre-trained Models (VLPMs) have been the mainstream approach to VQA tasks due to their superior performance. The standard practice is to fine-tune large-scale VLPMs pre-trained on huge general-domain datasets using the domain-specific VQA datasets. However, in reality, the application domain can change over time, necessitating VLPMs to continually learn and adapt to new domains without forgetting previously acquired knowledge. Most existing continual learning (CL) research concentrates on unimodal tasks, whereas a more practical application scenario, i.e, CL on cross-domain VQA, has not been studied. Motivated by this, we introduce CL-CrossVQA, a rigorous Continual Learning benchmark for Cross-domain Visual Question Answering, through which we conduct extensive experiments on 4 VLPMs, 4 CL approaches, and 5 VQA datasets from different domains. In addition, by probing the forgetting phenomenon of the intermediate layers, we provide insights into how model architecture affects CL performance, why CL approaches can help mitigate forgetting in VLPMs to some extent, and how to design CL approaches suitable for VLPMs in this challenging continual learning environment. To facilitate future work on CL for cross-domain VQA, we will release our datasets and code.

Jun Ma, Ronald Xie, Shamini Ayyadhury et al.

Cell segmentation is a critical step for quantitative single-cell analysis in microscopy images. Existing cell segmentation methods are often tailored to specific modalities or require manual interventions to specify hyper-parameters in different experimental settings. Here, we present a multi-modality cell segmentation benchmark, comprising over 1500 labeled images derived from more than 50 diverse biological experiments. The top participants developed a Transformer-based deep-learning algorithm that not only exceeds existing methods but can also be applied to diverse microscopy images across imaging platforms and tissue types without manual parameter adjustments. This benchmark and the improved algorithm offer promising avenues for more accurate and versatile cell analysis in microscopy imaging.

Jun Ma, Yao Zhang, Song Gu et al.

Quantitative organ assessment is an essential step in automated abdominal disease diagnosis and treatment planning. Artificial intelligence (AI) has shown great potential to automatize this process. However, most existing AI algorithms rely on many expert annotations and lack a comprehensive evaluation of accuracy and efficiency in real-world multinational settings. To overcome these limitations, we organized the FLARE 2022 Challenge, the largest abdominal organ analysis challenge to date, to benchmark fast, low-resource, accurate, annotation-efficient, and generalized AI algorithms. We constructed an intercontinental and multinational dataset from more than 50 medical groups, including Computed Tomography (CT) scans with different races, diseases, phases, and manufacturers. We independently validated that a set of AI algorithms achieved a median Dice Similarity Coefficient (DSC) of 90.0\% by using 50 labeled scans and 2000 unlabeled scans, which can significantly reduce annotation requirements. The best-performing algorithms successfully generalized to holdout external validation sets, achieving a median DSC of 89.5\%, 90.9\%, and 88.3\% on North American, European, and Asian cohorts, respectively. They also enabled automatic extraction of key organ biology features, which was labor-intensive with traditional manual measurements. This opens the potential to use unlabeled data to boost performance and alleviate annotation shortages for modern AI models.

Yang Liu, Yao Zhang, Yixin Wang et al.

Recently, the dominant DETR-based approaches apply central-concept spatial prior to accelerate Transformer detector convergency. These methods gradually refine the reference points to the center of target objects and imbue object queries with the updated central reference information for spatially conditional attention. However, centralizing reference points may severely deteriorate queries' saliency and confuse detectors due to the indiscriminative spatial prior. To bridge the gap between the reference points of salient queries and Transformer detectors, we propose SAlient Point-based DETR (SAP-DETR) by treating object detection as a transformation from salient points to instance objects. In SAP-DETR, we explicitly initialize a query-specific reference point for each object query, gradually aggregate them into an instance object, and then predict the distance from each side of the bounding box to these points. By rapidly attending to query-specific reference region and other conditional extreme regions from the image features, SAP-DETR can effectively bridge the gap between the salient point and the query-based Transformer detector with a significant convergency speed. Our extensive experiments have demonstrated that SAP-DETR achieves 1.4 times convergency speed with competitive performance. Under the standard training scheme, SAP-DETR stably promotes the SOTA approaches by 1.0 AP. Based on ResNet-DC-101, SAP-DETR achieves 46.9 AP.

Haokun Chen, Jianing Li, Yao Zhang et al.

Multimodal Large Language Models (MLLMs) achieve impressive performance once optimized on massive datasets. Such datasets often contain sensitive or copyrighted content, raising significant data privacy concerns. Regulatory frameworks mandating the 'right to be forgotten' drive the need for machine unlearning. This technique allows for the removal of target data without resource-consuming retraining. However, while well-studied for text, visual concept unlearning in MLLMs remains underexplored. A primary challenge is precisely removing a target visual concept without disrupting model performance on related entities. To address this, we introduce AUVIC, a novel visual concept unlearning framework for MLLMs. AUVIC applies adversarial perturbations to enable precise forgetting. This approach effectively isolates the target concept while avoiding unintended effects on similar entities. To evaluate our method, we construct VCUBench. It is the first benchmark designed to assess visual concept unlearning in group contexts. Experimental results demonstrate that AUVIC achieves state-of-the-art target forgetting rates while incurs minimal performance degradation on non-target concepts.

Xi Chen, Yun Xiong, Siwei Zhang et al.

Discrete-Time Dynamic Graphs (DTDGs), which are prevalent in real-world implementations and notable for their ease of data acquisition, have garnered considerable attention from both academic researchers and industry practitioners. The representation learning of DTDGs has been extensively applied to model the dynamics of temporally changing entities and their evolving connections. Currently, DTDG representation learning predominantly relies on GNN+RNN architectures, which manifest the inherent limitations of both Graph Neural Networks (GNNs) and Recurrent Neural Networks (RNNs). GNNs suffer from the over-smoothing issue as the models architecture goes deeper, while RNNs struggle to capture long-term dependencies effectively. GNN+RNN architectures also grapple with scaling to large graph sizes and long sequences. Additionally, these methods often compute node representations separately and focus solely on individual node characteristics, thereby overlooking the behavior intersections between the two nodes whose link is being predicted, such as instances where the two nodes appear together in the same context or share common neighbors. This paper introduces a novel representation learning method DTFormer for DTDGs, pivoting from the traditional GNN+RNN framework to a Transformer-based architecture. Our approach exploits the attention mechanism to concurrently process topological information within the graph at each timestamp and temporal dynamics of graphs along the timestamps, circumventing the aforementioned fundamental weakness of both GNNs and RNNs. Moreover, we enhance the model's expressive capability by incorporating the intersection relationships among nodes and integrating a multi-patching module. Extensive experiments conducted on six public dynamic graph benchmark datasets confirm our model's efficacy, achieving the SOTA performance.

Xiaowen Ma, Chenyang Lin, Yao Zhang et al.

Leveraging multiple Large Language Models(LLMs) has proven effective for addressing complex, high-dimensional tasks, but current approaches often rely on static, manually engineered multi-agent configurations. To overcome these constraints, we present the Agentic Neural Network(ANN), a framework that conceptualizes multi-agent collaboration as a layered neural network architecture. In this design, each agent operates as a node, and each layer forms a cooperative "team" focused on a specific subtask. Agentic Neural Network follows a two-phase optimization strategy: (1) Forward Phase-Drawing inspiration from neural network forward passes, tasks are dynamically decomposed into subtasks, and cooperative agent teams with suitable aggregation methods are constructed layer by layer. (2) Backward Phase-Mirroring backpropagation, we refine both global and local collaboration through iterative feedback, allowing agents to self-evolve their roles, prompts, and coordination. This neuro-symbolic approach enables ANN to create new or specialized agent teams post-training, delivering notable gains in accuracy and adaptability. Across four benchmark datasets, ANN surpasses leading multi-agent baselines under the same configurations, showing consistent performance improvements. Our findings indicate that ANN provides a scalable, data-driven framework for multi-agent systems, combining the collaborative capabilities of LLMs with the efficiency and flexibility of neural network principles. We plan to open-source the entire framework.

Yang Liu, Yao Zhang, Yixin Wang et al.

Transformer, an attention-based encoder-decoder model, has already revolutionized the field of natural language processing (NLP). Inspired by such significant achievements, some pioneering works have recently been done on employing Transformer-liked architectures in the computer vision (CV) field, which have demonstrated their effectiveness on three fundamental CV tasks (classification, detection, and segmentation) as well as multiple sensory data stream (images, point clouds, and vision-language data). Because of their competitive modeling capabilities, the visual Transformers have achieved impressive performance improvements over multiple benchmarks as compared with modern Convolution Neural Networks (CNNs). In this survey, we have reviewed over one hundred of different visual Transformers comprehensively according to three fundamental CV tasks and different data stream types, where a taxonomy is proposed to organize the representative methods according to their motivations, structures, and application scenarios. Because of their differences on training settings and dedicated vision tasks, we have also evaluated and compared all these existing visual Transformers under different configurations. Furthermore, we have revealed a series of essential but unexploited aspects that may empower such visual Transformers to stand out from numerous architectures, e.g., slack high-level semantic embeddings to bridge the gap between the visual Transformers and the sequential ones. Finally, three promising research directions are suggested for future investment. We will continue to update the latest articles and their released source codes at https://github.com/liuyang-ict/awesome-visual-transformers.

Yao Zhang, Jiawei Yang, Jiang Tian et al.

Liver cancer is one of the most common cancers worldwide. Due to inconspicuous texture changes of liver tumor, contrast-enhanced computed tomography (CT) imaging is effective for the diagnosis of liver cancer. In this paper, we focus on improving automated liver tumor segmentation by integrating multi-modal CT images. To this end, we propose a novel mutual learning (ML) strategy for effective and robust multi-modal liver tumor segmentation. Different from existing multi-modal methods that fuse information from different modalities by a single model, with ML, an ensemble of modality-specific models learn collaboratively and teach each other to distill both the characteristics and the commonality between high-level representations of different modalities. The proposed ML not only enables the superiority for multi-modal learning but can also handle missing modalities by transferring knowledge from existing modalities to missing ones. Additionally, we present a modality-aware (MA) module, where the modality-specific models are interconnected and calibrated with attention weights for adaptive information exchange. The proposed modality-aware mutual learning (MAML) method achieves promising results for liver tumor segmentation on a large-scale clinical dataset. Moreover, we show the efficacy and robustness of MAML for handling missing modalities on both the liver tumor and public brain tumor (BRATS 2018) datasets. Our code is available at https://github.com/YaoZhang93/MAML.

Jun Ma, Yao Zhang, Song Gu et al.

With the unprecedented developments in deep learning, automatic segmentation of main abdominal organs seems to be a solved problem as state-of-the-art (SOTA) methods have achieved comparable results with inter-rater variability on many benchmark datasets. However, most of the existing abdominal datasets only contain single-center, single-phase, single-vendor, or single-disease cases, and it is unclear whether the excellent performance can generalize on diverse datasets. This paper presents a large and diverse abdominal CT organ segmentation dataset, termed AbdomenCT-1K, with more than 1000 (1K) CT scans from 12 medical centers, including multi-phase, multi-vendor, and multi-disease cases. Furthermore, we conduct a large-scale study for liver, kidney, spleen, and pancreas segmentation and reveal the unsolved segmentation problems of the SOTA methods, such as the limited generalization ability on distinct medical centers, phases, and unseen diseases. To advance the unsolved problems, we further build four organ segmentation benchmarks for fully supervised, semi-supervised, weakly supervised, and continual learning, which are currently challenging and active research topics. Accordingly, we develop a simple and effective method for each benchmark, which can be used as out-of-the-box methods and strong baselines. We believe the AbdomenCT-1K dataset will promote future in-depth research towards clinical applicable abdominal organ segmentation methods. The datasets, codes, and trained models are publicly available at https://github.com/JunMa11/AbdomenCT-1K.

Feiyu Yang, Zhan Song, Zhenzhong Xiao et al.

Recently, the leading performance of human pose estimation is dominated by heatmap based methods. While being a fundamental component of heatmap processing, heatmap decoding (i.e. transforming heatmaps to coordinates) receives only limited investigations, to our best knowledge. This work fills the gap by studying the heatmap decoding processing with a particular focus on the errors introduced throughout the prediction process. We found that the errors of heatmap based methods are surprisingly significant, which nevertheless was universally ignored before. In view of the discovered importance, we further reveal the intrinsic limitations of the previous widely used heatmap decoding methods and thereout propose a Distribution-Aware and Error-Compensation Coordinate Decoding (DAEC). Serving as a model-agnostic plug-in, DAEC learns its decoding strategy from training data and remarkably improves the performance of a variety of state-of-the-art human pose estimation models with negligible extra computation. Specifically, equipped with DAEC, the SimpleBaseline-ResNet152-256x192 and HRNet-W48-256x192 are significantly improved by 2.6 AP and 2.9 AP achieving 72.6 AP and 75.7 AP on COCO, respectively. Moreover, the HRNet-W32-256x256 and ResNet-152-256x256 frameworks enjoy even more dramatic promotions of 8.4% and 7.8% on MPII with PCKh0.1 metric. Extensive experiments performed on these two common benchmarks, demonstrates that DAEC exceeds its competitors by considerable margins, backing up the rationality and generality of our novel heatmap decoding idea. The project is available at https://github.com/fyang235/DAEC.

Ziheng Zhao, Yao Zhang, Chaoyi Wu et al. · harvard

This paper aims to build a model that can Segment Anything in 3D medical images, driven by medical terminologies as Text prompts, termed as SAT. Our main contributions are three-fold: (i) We construct the first multimodal knowledge tree on human anatomy, including 6502 anatomical terminologies; Then, we build the largest and most comprehensive segmentation dataset for training, collecting over 22K 3D scans from 72 datasets, across 497 classes, with careful standardization on both image and label space; (ii) We propose to inject medical knowledge into a text encoder via contrastive learning and formulate a large-vocabulary segmentation model that can be prompted by medical terminologies in text form; (iii) We train SAT-Nano (110M parameters) and SAT-Pro (447M parameters). SAT-Pro achieves comparable performance to 72 nnU-Nets -- the strongest specialist models trained on each dataset (over 2.2B parameters combined) -- over 497 categories. Compared with the interactive approach MedSAM, SAT-Pro consistently outperforms across all 7 human body regions with +7.1% average Dice Similarity Coefficient (DSC) improvement, while showing enhanced scalability and robustness. On 2 external (cross-center) datasets, SAT-Pro achieves higher performance than all baselines (+3.7% average DSC), demonstrating superior generalization ability.

Yao Zhang, Hewei Gao, Haokun Chen et al.

Multimodal Large Language Models (MLLMs) excel in tasks like multimodal reasoning and cross-modal retrieval but face deployment challenges in real-world scenarios due to distributed multimodal data and strict privacy requirements. Federated Learning (FL) offers a solution by enabling collaborative model training without centralizing data. However, realizing FL for MLLMs presents significant challenges, including high computational demands, limited client capacity, substantial communication costs, and heterogeneous client data. Existing FL methods assume client-side deployment of full models, an assumption that breaks down for large-scale MLLMs due to their massive size and communication demands. To address these limitations, we propose FedNano, the first FL framework that centralizes the LLM on the server while introducing NanoEdge, a lightweight module for client-specific adaptation. NanoEdge employs modality-specific encoders, connectors, and trainable NanoAdapters with low-rank adaptation. This design eliminates the need to deploy LLM on clients, reducing client-side storage by 95%, and limiting communication overhead to only 0.01% of the model parameters. By transmitting only compact NanoAdapter updates, FedNano handles heterogeneous client data and resource constraints while preserving privacy. Experiments demonstrate that FedNano outperforms prior FL baselines, bridging the gap between MLLM scale and FL feasibility, and enabling scalable, decentralized multimodal AI systems.

Yao Zhang, Jiawei Yang, Feng Hou et al.

Accurate segmentation of cardiac structures can assist doctors to diagnose diseases, and to improve treatment planning, which is highly demanded in the clinical practice. However, the shortage of annotation and the variance of the data among different vendors and medical centers restrict the performance of advanced deep learning methods. In this work, we present a fully automatic method to segment cardiac structures including the left (LV) and right ventricle (RV) blood pools, as well as for the left ventricular myocardium (MYO) in MRI volumes. Specifically, we design a semi-supervised learning method to leverage unlabelled MRI sequence timeframes by label propagation. Then we exploit style transfer to reduce the variance among different centers and vendors for more robust cardiac image segmentation. We evaluate our method in the M&Ms challenge 7 , ranking 2nd place among 14 competitive teams.

Jiawei Yang, Yuan Liang, Yao Zhang et al.

The ability of deep learning to predict with uncertainty is recognized as key for its adoption in clinical routines. Moreover, performance gain has been enabled by modelling uncertainty according to empirical evidence. While previous work has widely discussed the uncertainty estimation in segmentation and classification tasks, its application on bounding-box-based detection has been limited, mainly due to the challenge of bounding box aligning. In this work, we explore to augment a 2.5D detection CNN with two different bounding-box-level (or instance-level) uncertainty estimates, i.e., predictive variance and Monte Carlo (MC) sample variance. Experiments are conducted for lung nodule detection on LUNA16 dataset, a task where significant semantic ambiguities can exist between nodules and non-nodules. Results show that our method improves the evaluating score from 84.57% to 88.86% by utilizing a combination of both types of variances. Moreover, we show the generated uncertainty enables superior operating points compared to using the probability threshold only, and can further boost the performance to 89.52%. Example nodule detections are visualized to further illustrate the advantages of our method.

Yixin Wang, Yao Zhang, Jiang Tian et al.

Though deep learning has achieved advanced performance recently, it remains a challenging task in the field of medical imaging, as obtaining reliable labeled training data is time-consuming and expensive. In this paper, we propose a double-uncertainty weighted method for semi-supervised segmentation based on the teacher-student model. The teacher model provides guidance for the student model by penalizing their inconsistent prediction on both labeled and unlabeled data. We train the teacher model using Bayesian deep learning to obtain double-uncertainty, i.e. segmentation uncertainty and feature uncertainty. It is the first to extend segmentation uncertainty estimation to feature uncertainty, which reveals the capability to capture information among channels. A learnable uncertainty consistency loss is designed for the unsupervised learning process in an interactive manner between prediction and uncertainty. With no ground-truth for supervision, it can still incentivize more accurate teacher's predictions and facilitate the model to reduce uncertain estimations. Furthermore, our proposed double-uncertainty serves as a weight on each inconsistency penalty to balance and harmonize supervised and unsupervised training processes. We validate the proposed feature uncertainty and loss function through qualitative and quantitative analyses. Experimental results show that our method outperforms the state-of-the-art uncertainty-based semi-supervised methods on two public medical datasets.

Yixin Wang, Yao Zhang, Feng Hou et al.

Automatic brain tumor segmentation from multi-modality Magnetic Resonance Images (MRI) using deep learning methods plays an important role in assisting the diagnosis and treatment of brain tumor. However, previous methods mostly ignore the latent relationship among different modalities. In this work, we propose a novel end-to-end Modality-Pairing learning method for brain tumor segmentation. Paralleled branches are designed to exploit different modality features and a series of layer connections are utilized to capture complex relationships and abundant information among modalities. We also use a consistency loss to minimize the prediction variance between two branches. Besides, learning rate warmup strategy is adopted to solve the problem of the training instability and early over-fitting. Lastly, we use average ensemble of multiple models and some post-processing techniques to get final results. Our method is tested on the BraTS 2020 online testing dataset, obtaining promising segmentation performance, with average dice scores of 0.891, 0.842, 0.816 for the whole tumor, tumor core and enhancing tumor, respectively. We won the second place of the BraTS 2020 Challenge for the tumor segmentation task.

Yongchao Liu, Yue Jin, Yong Chen et al.

Accelerating deep model training and inference is crucial in practice. Existing deep learning frameworks usually concentrate on optimizing training speed and pay fewer attentions to inference-specific optimizations. Actually, model inference differs from training in terms of computation, e.g. parameters are refreshed each gradient update step during training, but kept invariant during inference. These special characteristics of model inference open new opportunities for its optimization. In this paper, we propose a hardware-aware optimization framework, namely Woodpecker-DL (WPK), to accelerate inference by taking advantage of multiple joint optimizations from the perspectives of graph optimization, automated searches, domain-specific language (DSL) compiler techniques and system-level exploration. In WPK, we investigated two new automated search approaches based on genetic algorithm and reinforcement learning, respectively, to hunt the best operator code configurations targeting specific hardware. A customized DSL compiler is further attached to these search algorithms to generate efficient codes. To create an optimized inference plan, WPK systematically explores high-speed operator implementations from third-party libraries besides our automatically generated codes and singles out the best implementation per operator for use. Extensive experiments demonstrated that on a Tesla P100 GPU, we can achieve the maximum speedup of 5.40 over cuDNN and 1.63 over TVM on individual convolution operators, and run up to 1.18 times faster than TensorRT for end-to-end model inference.

Zhe Ma, Jianfeng Dong, Yao Zhang et al.

This paper strives to learn fine-grained fashion similarity. In this similarity paradigm, one should pay more attention to the similarity in terms of a specific design/attribute among fashion items, which has potential values in many fashion related applications such as fashion copyright protection. To this end, we propose an Attribute-Specific Embedding Network (ASEN) to jointly learn multiple attribute-specific embeddings in an end-to-end manner, thus measure the fine-grained similarity in the corresponding space. With two attention modules, i.e., Attribute-aware Spatial Attention and Attribute-aware Channel Attention, ASEN is able to locate the related regions and capture the essential patterns under the guidance of the specified attribute, thus make the learned attribute-specific embeddings better reflect the fine-grained similarity. Extensive experiments on four fashion-related datasets show the effectiveness of ASEN for fine-grained fashion similarity learning and its potential for fashion reranking.

Nicholas Heller, Fabian Isensee, Klaus H. Maier-Hein et al.

There is a large body of literature linking anatomic and geometric characteristics of kidney tumors to perioperative and oncologic outcomes. Semantic segmentation of these tumors and their host kidneys is a promising tool for quantitatively characterizing these lesions, but its adoption is limited due to the manual effort required to produce high-quality 3D segmentations of these structures. Recently, methods based on deep learning have shown excellent results in automatic 3D segmentation, but they require large datasets for training, and there remains little consensus on which methods perform best. The 2019 Kidney and Kidney Tumor Segmentation challenge (KiTS19) was a competition held in conjunction with the 2019 International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI) which sought to address these issues and stimulate progress on this automatic segmentation problem. A training set of 210 cross sectional CT images with kidney tumors was publicly released with corresponding semantic segmentation masks. 106 teams from five continents used this data to develop automated systems to predict the true segmentation masks on a test set of 90 CT images for which the corresponding ground truth segmentations were kept private. These predictions were scored and ranked according to their average So rensen-Dice coefficient between the kidney and tumor across all 90 cases. The winning team achieved a Dice of 0.974 for kidney and 0.851 for tumor, approaching the inter-annotator performance on kidney (0.983) but falling short on tumor (0.923). This challenge has now entered an "open leaderboard" phase where it serves as a challenging benchmark in 3D semantic segmentation.

Yao Zhang, Cheng Zhong, Yang Zhang et al.

Liver tumor segmentation plays an important role in hepatocellular carcinoma diagnosis and surgical planning. In this paper, we propose a novel Semantic Feature Attention Network (SFAN) for liver tumor segmentation from Computed Tomography (CT) volumes, which exploits the impact of both low-level and high-level features. In the SFAN, a Semantic Attention Transmission (SAT) module is designed to select discriminative low-level localization details with the guidance of neighboring high-level semantic information. Furthermore, a Global Context Attention (GCA) module is proposed to effectively fuse the multi-level features with the guidance of global context. Our experiments are based on 2 challenging databases, the public Liver Tumor Segmentation (LiTS) Challenge database and a large-scale in-house clinical database with 912 CT volumes. Experimental results show that our proposed framework can not only achieve the state-of-the-art performance with the Dice per case on liver tumor segmentation in LiTS database, but also outperform some widely used segmentation algorithms in the large-scale clinical database.

Yao Zhang, Yixin Wang, Feng Hou et al.

Automated segmentation of kidney and tumor from 3D CT scans is necessary for the diagnosis, monitoring, and treatment planning of the disease. In this paper, we describe a two-stage framework for kidney and tumor segmentation based on 3D fully convolutional network (FCN). The first stage preliminarily locate the kidney and cut off the irrelevant background to reduce class imbalance and computation cost. Then the second stage precisely segment the kidney and tumor on the cropped patch. The proposed method ranks the 4th place out of 105 competitive teams in MICCAI 2019 KiTS Challenge with a Composite Dice of 90.24%.

Jinyi Zou, Xiao Ma, Cheng Zhong et al.

This short paper reports the algorithms we used and the evaluation performances for ISIC Challenge 2018. Our team participates in all the tasks in this challenge. In lesion segmentation task, the pyramid scene parsing network (PSPNet) is modified to segment the lesions. In lesion attribute detection task, the modified PSPNet is also adopted in a multi-label way. In disease classification task, the DenseNet-169 is adopted for multi-class classification.