\textit{Objectives}: Data scarcity and domain shifts lead to biased training sets that do not accurately represent deployment conditions. A related practical problem is cross-modal image segmentation, where the objective is to segment unlabelled images using previously labelled datasets from other imaging modalities. \textit{Methods}: We propose a cross-modal segmentation method based on conventional image synthesis boosted by a new data augmentation technique called Generative Blending Augmentation (GBA). GBA leverages a SinGAN model to learn representative generative features from a single training image to diversify realistically tumor appearances. This way, we compensate for image synthesis errors, subsequently improving the generalization power of a downstream segmentation model. The proposed augmentation is further combined to an iterative self-training procedure leveraging pseudo labels at each pass. \textit{Results}: The proposed solution ranked first for vestibular schwannoma (VS) segmentation during the validation and test phases of the MICCAI CrossMoDA 2022 challenge, with best mean Dice similarity and average symmetric surface distance measures. \textit{Conclusion and significance}: Local contrast alteration of tumor appearances and iterative self-training with pseudo labels are likely to lead to performance improvements in a variety of segmentation contexts.
Nanjing University（南京大学）；Medical School of Nanjing University（南京大学医学院）；National Institute of Healthcare Data Science, Nanjing University（南京大学国家健康数据科学研究院）；UNC Chapel Hill（北卡罗来纳大学教堂山分校）
Conventional data augmentation realized by performing simple pre-processing operations (\eg, rotation, crop, \etc) has been validated for its advantage in enhancing the performance for medical image segmentation. However, the data generated by these conventional augmentation methods are random and sometimes harmful to the subsequent segmentation. In this paper, we developed a novel automatic learning-based data augmentation method for medical image segmentation which models the augmentation task as a trial-and-error procedure using deep reinforcement learning (DRL). In our method, we innovativ…
Peking University（北京大学）；Canon Medical Systems（佳能医疗系统公司）
Data augmentation is an effective and universal technique for improving generalization performance of deep neural networks. It could enrich diversity of training samples that is essential in medical image segmentation tasks because 1) the scale of medical image dataset is typically smaller, which may increase the risk of overfitting; 2) the shape and modality of different objects such as organs or tumors are unique, thus requiring customized data augmentation policy. However, most data augmentation implementations are hand-crafted and suboptimal in medical image processing. To fully exploit th…
Real-Time Brain Tumor Detection in Intraoperative Ultrasound Using YOLO11: From Model Training to Deployment in the Operating Room
Department of Neurosurgery, Rio Hortega University Hospital（里奥霍尔特加大学医院神经外科部）；Department of Neurosurgery, Tata Memorial Centre, Homi Bhabha National Institute（塔塔纪念中心神经外科部，霍米·巴布哈国家研究所）；Biomedical Engineering Group, University of Valladolid（瓦拉多利德大学生物医学工程小组）；UMR 1253, iBrain, Université de Tours, Inserm（UMR 1253，iBrain， Tours大学，Inserm）；Department of Neurosurgery, CHRU de Tours（图尔CHRU医院神经外科部）；Department of Neurosrugery, ARNAS Civico Di Cristina Benfratelli Hospital（ARNAS公民迪克里斯塔弗拉蒂医院神经外科部）；Fondazione IRCCS Istituto Neurologico Carlo Besta（IRCCS神经学研究所卡尔罗·贝斯塔基金会）；University of Milan（米兰大学）；Johns Hopkins Medical School（约翰霍普金斯医学院）
Automatic brain tumor segmentation from Magnetic Resonance Imaging (MRI) data plays an important role in assessing tumor response to therapy and personalized treatment stratification.Manual segmentation is tedious and subjective.Deep-learning-based algorithms for brain tumor segmentation have the potential to provide objective and fast tumor segmentation.However, the training of such algorithms requires large datasets which are not always available. Data augmentation techniques may reduce the need for large datasets.However current approaches are mostly parametric and may result in suboptimal …
Center for Medical Image Science and Visualization (CMIV)（医学图像科学与可视化中心）
Training segmentation networks requires large annotated datasets, which in medical imaging can be hard to obtain. Despite this fact, data augmentation has in our opinion not been fully explored for brain tumor segmentation. In this project we apply different types of data augmentation (flipping, rotation, scaling, brightness adjustment, elastic deformation) when training a standard 3D U-Net, and demonstrate that augmentation significantly improves the network's performance in many cases. Our conclusion is that brightness augmentation and elastic deformation work best, and that combinations of …
R$^{2}$Seg: Training-Free OOD Medical Tumor Segmentation via Anatomical Reasoning and Statistical Rejection
Carnegie Mellon University（卡内基梅隆大学）；University of Cambridge（剑桥大学）；Zhejiang University（浙江大学）；ETH Zurich（苏黎世联邦理工学院）；University of Illinois Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）
Korea Advanced Institute of Science and Technology (KAIST)（韩国高等科学技术研究院（KAIST））
Medical image analysis using deep neural networks has been actively studied. Deep neural networks are trained by learning data. For accurate training of deep neural networks, the learning data should be sufficient, of good quality, and should have a generalized property. However, in medical images, it is difficult to acquire sufficient patient data because of the difficulty of patient recruitment, the burden of annotation of lesions by experts, and the invasion of patients' privacy. In comparison, the medical images of healthy volunteers can be easily acquired. Using healthy brain images, the …
Hebei University of Technology（河北工业大学）；University of Macau（澳门大学）；University of Oxford（牛津大学）；Harbin Institute of Technology（哈尔滨工业大学）
Recently deep learning methods, in particular, convolutional neural networks (CNNs), have led to a massive breakthrough in the range of computer vision. Also, the large-scale annotated dataset is the essential key to a successful training procedure. However, it is a huge challenge to get such datasets in the medical domain. Towards this, we present a data augmentation method for generating synthetic medical images using cycle-consistency Generative Adversarial Networks (GANs). We add semi-supervised attention modules to generate images with convincing details. We treat tumor images and normal …
Huazhong University of Science and Technology（华中科技大学）；Kennesaw State University（肯尼索州立大学）
The crossMoDA challenge aims to automatically segment the vestibular schwannoma (VS) tumor and cochlea regions of unlabeled high-resolution T2 scans by leveraging labeled contrast-enhanced T1 scans. The 2022 edition extends the segmentation task by including multi-institutional scans. In this work, we proposed an unpaired cross-modality segmentation framework using data augmentation and hybrid convolutional networks. Considering heterogeneous distributions and various image sizes for multi-institutional scans, we apply the min-max normalization for scaling the intensities of all scans between …
Beijing Technology and Business University（北京工商大学）
Automatic segmentation of glioma and its subregions is of great significance for diagnosis, treatment and monitoring of disease. In this paper, an augmentation method, called TensorMixup, was proposed and applied to the three dimensional U-Net architecture for brain tumor segmentation. The main ideas included that first, two image patches with size of 128 in three dimensions were selected according to glioma information of ground truth labels from the magnetic resonance imaging data of any two patients with the same modality. Next, a tensor in which all elements were independently sampled from…
University Grenoble Alpes（格勒诺布尔-阿尔卑斯大学）；Inria（法国国家信息与自动化研究所）；CNRS（法国国家科学研究中心）；Grenoble INP（格勒诺布尔国立高等物理、数学与信息学院）
Performing data augmentation for learning deep neural networks is known to be important for training visual recognition systems. By artificially increasing the number of training examples, it helps reducing overfitting and improves generalization. While simple image transformations can already improve predictive performance in most vision tasks, larger gains can be obtained by leveraging task-specific prior knowledge. In this work, we consider object detection, semantic and instance segmentation and augment the training images by blending objects in existing scenes, using instance segmentation…
Purpose: The purpose of this study is to investigate the robustness of a commonly-used convolutional neural network for image segmentation with respect to visually-subtle adversarial perturbations, and suggest new methods to make these networks more robust to such perturbations. Materials and Methods: In this retrospective study, the accuracy of brain tumor segmentation was studied in subjects with low- and high-grade gliomas. A three-dimensional UNet model was implemented to segment four different MR series (T1-weighted, post-contrast T1-weighted, T2- weighted, and T2-weighted FLAIR) into fou…
Department of Science and Technology, Linkoping University（林雪平大学科技学院）；Sectra AB（Sectra公司）；Center for Medical Image Science and Visualization, Linkoping University（林雪平大学医学影像科学与可视化中心）
The scarcity of labeled data is a major bottleneck for developing accurate and robust deep learning-based models for histopathology applications. The problem is notably prominent for the task of metastasis detection in lymph nodes, due to the tissue's low tumor-to-non-tumor ratio, resulting in labor- and time-intensive annotation processes for the pathologists. This work explores alternatives on how to augment the training data for colon carcinoma metastasis detection when there is limited or no representation of the target domain. Through an exhaustive study of cross-validated experiments wit…
How We Won BraTS-SSA 2025: Brain Tumor Segmentation in the Sub-Saharan African Population Using Segmentation-Aware Data Augmentation and Model Ensembling
Kwame Nkrumah University of Science and Technology（卡布雷·克鲁马大学科学与技术大学）；University of Cape Coast（科克斯特大学）；University of Toronto（多伦多大学）；Department of Biomedical Engineering, McGill University（麦吉尔大学生物医学工程系）；Department of Physics, Federal University of Technology（联邦技术大学物理系）
Numerous oncology indications have extensively quantified metabolically active tumors using positron emission tomography (PET) and computed tomography (CT). F-fluorodeoxyglucose-positron emission tomography (FDG-PET) is frequently utilized in clinical practice and clinical drug research to detect and measure metabolically active malignancies. The assessment of tumor burden using manual or computer-assisted tumor segmentation in FDG-PET images is widespread. Deep learning algorithms have also produced effective solutions in this area. However, there may be a need to improve the performance of a…
A Multi-Stage Deep Learning Framework with PKCP-MixUp Augmentation for Pediatric Liver Tumor Diagnosis Using Multi-Phase Contrast-Enhanced CT
Wuhan Children's Hospital (Wuhan Maternal and Child Healthcare Hospital), Tongji Medical College, Huazhong University of Science and Technology（华中科技大学同济医学院武汉儿童医院（武汉市妇幼保健院））；Wuhan University（武汉大学）；Wuhan Cloud Computing Technology Co., Ltd.（武汉云计算技术有限公司）
Lobachevsky State University（罗巴切夫斯基国立大学）；Intel（英特尔）
MRI analysis takes central position in brain tumor diagnosis and treatment, thus it's precise evaluation is crucially important. However, it's 3D nature imposes several challenges, so the analysis is often performed on 2D projections that reduces the complexity, but increases bias. On the other hand, time consuming 3D evaluation, like, segmentation, is able to provide precise estimation of a number of valuable spatial characteristics, giving us understanding about the course of the disease.\newline Recent studies, focusing on the segmentation task, report superior performance of Deep Learning …
Tumor-aware augmentation with task-guided attention analysis improves rectal cancer segmentation from magnetic resonance images
Department of Medical Physics, Memorial Sloan Kettering Cancer Center（医学物理系，纪念斯隆凯特琳癌症中心）；Department of Radiology, Memorial Sloan Kettering Cancer Center（放射学系，纪念斯隆凯特琳癌症中心）；Department of Radiation Oncology, Memorial Sloan Kettering Cancer Center（放射肿瘤学系，纪念斯隆凯特琳癌症中心）；Department of Surgery, Memorial Sloan Kettering Cancer Center（外科系，纪念斯隆凯特琳癌症中心）；Department of Medicine, Memorial Sloan Kettering Cancer Center（医学系，纪念斯隆凯特琳癌症中心）
Macquarie University（麦考瑞大学）；Australian Institute of Health Innovation（澳大利亚健康创新研究院）
Pre-processing and Data Augmentation play an important role in Deep Convolutional Neural Networks (DCNN). Whereby several methods aim for standardization and augmentation of the dataset, we here propose a novel method aimed to feed DCNN with spherical space transformed input data that could better facilitate feature learning compared to standard Cartesian space images and volumes. In this work, the spherical coordinates transformation has been applied as a preprocessing method that, used in conjunction with normal MRI volumes, improves the accuracy of brain tumor segmentation and patient overa…
École de Technologie Superiéure, Université du Québec（魁北克大学高等技术学院）；State University of Ponta Grossa (UEPG)（蓬塔格罗萨州立大学）；Pontifical Catholic University of Paraná（巴拉那天主教大学）；Federal University of Paraná（巴拉那联邦大学）
Data imbalance is a major problem that affects several machine learning (ML) algorithms. Such a problem is troublesome because most of the ML algorithms attempt to optimize a loss function that does not take into account the data imbalance. Accordingly, the ML algorithm simply generates a trivial model that is biased toward predicting the most frequent class in the training data. In the case of histopathologic images (HIs), both low-level and high-level data augmentation (DA) techniques still present performance issues when applied in the presence of inter-patient variability; whence the model…
Head and Neck Tumor Segmentation of MRI from Pre- and Mid-radiotherapy with Pre-training, Data Augmentation and Dual Flow UNet
University of Electronic Science and Technology of China（电子科技大学）；Shanghai AI Laboratory（上海人工智能实验室）；Sichuan Cancer Hospital & Institute, Sichuan Cancer Center（四川省肿瘤医院·研究所（四川省癌症防治中心））
German Cancer Research Center (DKFZ)（德国癌症研究中心）；Heidelberg University Hospital（海德堡大学医院）
We apply nnU-Net to the segmentation task of the BraTS 2020 challenge. The unmodified nnU-Net baseline configuration already achieves a respectable result. By incorporating BraTS-specific modifications regarding postprocessing, region-based training, a more aggressive data augmentation as well as several minor modifications to the nnUNet pipeline we are able to improve its segmentation performance substantially. We furthermore re-implement the BraTS ranking scheme to determine which of our nnU-Net variants best fits the requirements imposed by it. Our final ensemble took the first place in the…
The University of Tokyo（东京大学）；National Institute of Informatics（国立信息学研究所）；University of Cambridge（剑桥大学）；Cancer Research UK Cambridge Institute（英国癌症研究院剑桥研究所）；University of Milano-Bicocca（米兰比可卡大学）；Chubu University（中部大学）；Jikei University School of Medicine（东京慈惠会医科大学）；Kyushu University（九州大学）
Convolutional Neural Networks (CNNs) achieve excellent computer-assisted diagnosis with sufficient annotated training data. However, most medical imaging datasets are small and fragmented. In this context, Generative Adversarial Networks (GANs) can synthesize realistic/diverse additional training images to fill the data lack in the real image distribution; researchers have improved classification by augmenting data with noise-to-image (e.g., random noise samples to diverse pathological images) or image-to-image GANs (e.g., a benign image to a malignant one). Yet, no research has reported resul…
Computer-assisted diagnosis (CAD) based on deep learning has become a crucial diagnostic technology in the medical industry, effectively improving diagnosis accuracy. However, the scarcity of brain tumor Magnetic Resonance (MR) image datasets causes the low performance of deep learning algorithms. The distribution of transformed images generated by traditional data augmentation (DA) intrinsically resembles the original ones, resulting in a limited performance in terms of generalization ability. This work improves Progressive Growing of GANs with a structural similarity loss function (PGGAN-SSI…
School of Computer Science and Technology, Harbin Institute of Technology（哈尔滨工业大学计算机科学与技术学院）
Automatic brain tumor segmentation method plays an extremely important role in the whole process of brain tumor diagnosis and treatment. In this paper, we propose a multi-step cascaded network which takes the hierarchical topology of the brain tumor substructures into consideration and segments the substructures from coarse to fine .During segmentation, the result of the former step is utilized as the prior information for the next step to guide the finer segmentation process. The whole network is trained in an end-to-end fashion. Besides, to alleviate the gradient vanishing issue and reduce o…
Kavli Institute for Systems Neuroscience, NTNU（挪威科技大学卡弗里系统神经科学研究所）
Early diagnosis and accurate segmentation of brain tumors are imperative for successful treatment. Unfortunately, manual segmentation is time consuming, costly and despite extensive human expertise often inaccurate. Here, we present an MRI-based tumor segmentation framework using an autoencoder-regularized 3D-convolutional neural network. We trained the model on manually segmented structural T1, T1ce, T2, and Flair MRI images of 335 patients with tumors of variable severity, size and location. We then tested the model using independent data of 125 patients and successfully segmented brain tumo…
Mask-guided Data Augmentation for Multiparametric MRI Generation with a Rare Hepatocellular Carcinoma
Universidad Industrial de Santander（桑坦德工业大学）；University of Toulouse（图卢兹大学）；Université Paul Sabatier Toulouse 3（图卢兹第三大学（保罗·萨巴蒂埃大学））；Bicêtre University Hospital（比塞特尔大学医院）；Assistance publique des hôpitaux de Paris（巴黎公共援助医院）；Université Claude Bernard Lyon 1（里昂第一大学（克洛德·贝尔纳里昂第一大学））
Chittagong University of Engineering and Technology（吉大港工程技术大学）
In recent advancement towards computer based diagnostics system, the classification of brain tumor images is a challenging task. This paper mainly focuses on elevating the classification accuracy of brain tumor images with transfer learning based deep neural network. The classification approach is started with the image augmentation operation including rotation, zoom, hori-zontal flip, width shift, height shift, and shear to increase the diversity in image datasets. Then the general features of the input brain tumor images are extracted based on a pre-trained transfer learning method comprised…
Brain tumor segmentation is a critical task for patient's disease management. In order to automate and standardize this task, we trained multiple U-net like neural networks, mainly with deep supervision and stochastic weight averaging, on the Multimodal Brain Tumor Segmentation Challenge (BraTS) 2020 training dataset. Two independent ensembles of models from two different training pipelines were trained, and each produced a brain tumor segmentation map. These two labelmaps per patient were then merged, taking into account the performance of each ensemble for specific tumor subregions. Our perf…
Lumbar Spine Tumor Segmentation and Localization in T2 MRI Images Using AI
A. K. Choudhury School of Information Technology, University of Calcutta（加尔各答大学A.K.乔杜里信息技术学院）；Rammohan College, University of Calcutta（加尔各答大学拉莫汉学院）；Indian Statistical Institute（印度统计研究院）
In medical image diagnosis, pathology image analysis using semantic segmentation becomes important for efficient screening as a field of digital pathology. The spatial augmentation is ordinary used for semantic segmentation. Tumor images under malignant are rare and to annotate the labels of nuclei region takes much time-consuming. We require an effective use of dataset to maximize the segmentation accuracy. It is expected that some augmentation to transform generalized images influence the segmentation performance. We propose a synthetic augmentation using label-to-image translation, mapping …
University College Dublin（都柏林大学学院）；Université Paris-Est Créteil Val de Marne - Université Paris 12（巴黎东-马恩拉瓦莱大学（巴黎第十二大学））；ADAPT SFI Research Centre（ADAPT SFI研究中心）
Magnetic Resonance Imaging (MRI) is the most commonly used non-intrusive technique for medical image acquisition. Brain tumor segmentation is the process of algorithmically identifying tumors in brain MRI scans. While many approaches have been proposed in the literature for brain tumor segmentation, this paper proposes a lightweight implementation of U-Net. Apart from providing real-time segmentation of MRI scans, the proposed architecture does not need large amount of data to train the proposed lightweight U-Net. Moreover, no additional data augmentation step is required. The lightweight U-Ne…
Universitat Politècnica de Catalunya. BarcelonaTech（加泰罗尼亚理工大学）
Automation of brain tumors in 3D magnetic resonance images (MRIs) is key to assess the diagnostic and treatment of the disease. In recent years, convolutional neural networks (CNNs) have shown improved results in the task. However, high memory consumption is still a problem in 3D-CNNs. Moreover, most methods do not include uncertainty information, which is specially critical in medical diagnosis. This work proposes a 3D encoder-decoder architecture, based on V-Net \cite{vnet} which is trained with patching techniques to reduce memory consumption and decrease the effect of unbalanced data. We a…
Technical University of Kosice（科希策工业大学）；Pavol Jozef Safarik University（帕沃尔·约瑟夫·沙法里克大学）；Louis Pasteur University Hospital（路易斯·巴斯德大学医院）
The kidney cancer is one of the most common cancer types. The treatment frequently include surgical intervention. However, surgery is in this case particularly challenging due to regional anatomical relations. Organ delineation can significantly improve surgical planning and execution. In this contribution, we propose ensemble of two fully convolutional networks for segmentation of kidney, tumor, veins and arteries. While SegResNet architecture achieved better performance on tumor, the nnU-Net provided more precise segmentation for kidneys, arteries and veins. So in our proposed approach we co…
Universitat Politècnica de Catalunya. BarcelonaTech（加泰罗尼亚理工大学·巴塞罗那理工）
Automation of brain tumor segmentation in 3D magnetic resonance images (MRIs) is key to assess the diagnostic and treatment of the disease. In recent years, convolutional neural networks (CNNs) have shown improved results in the task. However, high memory consumption is still a problem in 3D-CNNs. Moreover, most methods do not include uncertainty information, which is especially critical in medical diagnosis. This work studies 3D encoder-decoder architectures trained with patch-based techniques to reduce memory consumption and decrease the effect of unbalanced data. The different trained model…
UiT The Arctic University of Norway（挪威北极大学）；University Hospital of North Norway（北挪威大学医院）
Increased levels of tumor infiltrating lymphocytes (TILs) in cancer tissue indicate favourable outcomes in many types of cancer. Manual quantification of immune cells is inaccurate and time consuming for pathologists. Our aim is to leverage a computational solution to automatically quantify TILs in whole slide images (WSIs) of standard diagnostic haematoxylin and eosin stained sections (H&E slides) from lung cancer patients. Our approach is to transfer an open source machine learning method for segmentation and classification of nuclei in H&E slides trained on public data to TIL quantification…
Synthetic Poisoning Attacks: The Impact of Poisoned MRI Image on U-Net Brain Tumor Segmentation
Duke University（杜克大学）；Hong Kong Polytechnic University（香港理工大学）；North China University of Technology（北方工业大学）；Institute of Software Chinese Academy of Sciences（中国科学院软件研究所）；Australian National University（澳大利亚国立大学）；Nanyang Technological University（南洋理工大学）；Duke Kunshan University（昆山杜克大学）
Automated ensemble method for pediatric brain tumor segmentation
Manning College of Information and Computer Sciences, University of Massachusetts Amherst（马萨诸塞大学阿默斯特分校曼宁信息与计算机科学学院）；Institute for Applied Life Sciences, University of Massachusetts Amherst（马萨诸塞大学阿默斯特分校应用生命科学研究所）；UMass Chan Medical School - Baystate Campus（马萨诸塞大学陈医学院贝塞特校区）；Baystate Medical Center（贝塞特医疗中心）
