Circulating tumor cells (CTCs) are crucial biomarkers in liquid biopsy, offering a noninvasive tool for cancer patient management. However, their identification remains particularly challenging due to their limited number and heterogeneity. Labeling samples for contrast limits the generalization of fluorescence-based methods across different hospital datasets. Analyzing single-cell images enables detailed assessment of cell morphology, subcellular structures, and phenotypic variations, often hidden in clustered images. Developing a method based on bright-field single-cell analysis could overcome these limitations. CTCs can be isolated using an unbiased workflow combining Parsortix technology, which selects cells based on size and deformability, with DEPArray technology, enabling precise visualization and selection of single cells. Traditionally, DEPArray-acquired digital images are manually analyzed, making the process time-consuming and prone to variability. In this study, we present a Deep Learning-based classification pipeline designed to distinguish CTCs from leukocytes in blood samples, aimed to enhance diagnostic accuracy and optimize clinical workflows. Our approach employs images from the bright-field channel acquired through DEPArray technology leveraging a ResNet-based CNN. To improve model generalization, we applied three types of data augmentation techniques and incorporated fluorescence (DAPI) channel images into the training phase, allowing the network to learn additional CTC-specific features. Notably, only bright-field images have been used for testing, ensuring the model's ability to identify CTCs without relying on fluorescence markers. The proposed model achieved an F1-score of 0.798, demonstrating its capability to distinguish CTCs from leukocytes. These findings highlight the potential of DL in refining CTC analysis and advancing liquid biopsy applications.
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 …
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…
German Cancer Research Center (DKFZ)（德国癌症研究中心）；Heidelberg University（海德堡大学）；University Hospital Essen (AöR)（埃森大学医院）；University Medicine Essen（埃森大学医学院）；German Cancer Consortium (DKTK)（德国癌症联盟）
With the rise in importance of personalized medicine, we trained personalized neural networks to detect tumor progression in longitudinal datasets. The model was evaluated on two datasets with a total of 64 scans from 32 patients diagnosed with glioblastoma multiforme (GBM). Contrast-enhanced T1w sequences of brain magnetic resonance imaging (MRI) images were used in this study. For each patient, we trained their own neural network using just two images from different timepoints. Our approach uses a Wasserstein-GAN (generative adversarial network), an unsupervised network architecture, to map …
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…
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 …
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…
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 …
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））
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…
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）
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）
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…
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）
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…
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 …
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…
SRM Institute of Science and Technology（SRM科学技术研究所）
Abnormal development of tissues in the body as a result of swelling and morbid enlargement is known as a tumor. They are mainly classified as Benign and Malignant. Tumour in the brain is fatal as it may be cancerous, so it can feed on healthy cells nearby and keep increasing in size. This may affect the soft tissues, nerve cells, and small blood vessels in the brain. Hence there is a need to detect and classify them during the early stages with utmost precision. There are different sizes and locations of brain tumors which makes it difficult to understand their nature. The process of detection…
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…
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）
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…
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）
NEC Laboratories America（NEC美国实验室）；NEC Corporation（NEC公司）；Hokkaido University Hospital（北海道大学医院）
We propose a method to accurately obtain the ratio of tumor cells over an entire histological slide. We use deep fully convolutional neural network models trained to detect and classify cells on images of H&E-stained tissue sections. Pathologists' labels consisting of exhaustive nuclei locations and tumor regions were used to trained the model in a supervised fashion. We show that combining two models, each working at a different magnification allows the system to capture both cell-level details and surrounding context to enable successful detection and classification of cells as either tumor-…
Automated polyp segmentation technology plays an important role in diagnosing intestinal diseases, such as tumors and precancerous lesions. Previous works have typically trained convolution-based U-Net or Transformer-based neural network architectures with labeled data. However, the available public polyp segmentation datasets are too small to train the network sufficiently, suppressing each network's potential performance. To alleviate this issue, we propose a universal data augmentation technology to synthesize more data from the existing datasets. Specifically, we paste the polyp area into …
Exploiting learning algorithms under scarce data regimes is a limitation and a reality of the medical imaging field. In an attempt to mitigate the problem, we propose a data augmentation protocol based on generative adversarial networks. We condition the networks at a pixel-level (segmentation mask) and at a global-level information (acquisition environment or lesion type). Such conditioning provides immediate access to the image-label pairs while controlling global class specific appearance of the synthesized images. To stimulate synthesis of the features relevant for the segmentation task, a…
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）
PAII Inc.（PAII公司）；Chang Gung Memorial Hospital（长庚纪念医院）；Ping An Technology（平安科技）
Clinical target volume (CTV) delineation from radiotherapy computed tomography (RTCT) images is used to define the treatment areas containing the gross tumor volume (GTV) and/or sub-clinical malignant disease for radiotherapy (RT). High intra- and inter-user variability makes this a particularly difficult task for esophageal cancer. This motivates automated solutions, which is the aim of our work. Because CTV delineation is highly context-dependent--it must encompass the GTV and regional lymph nodes (LNs) while also avoiding excessive exposure to the organs at risk (OARs)--we formulate it as a…
Dartmouth College（达特茅斯学院）；Dartmouth-Hitchcock Medical Center（达特茅斯-希区柯克医疗中心）
We present an image translation approach to generate augmented data for mitigating data imbalances in a dataset of histopathology images of colorectal polyps, adenomatous tumors that can lead to colorectal cancer if left untreated. By applying cycle-consistent generative adversarial networks (CycleGANs) to a source domain of normal colonic mucosa images, we generate synthetic colorectal polyp images that belong to diagnostically less common polyp classes. Generated images maintain the general structure of their source image but exhibit adenomatous features that can be enhanced with our propose…
3DGAUnet: 3D generative adversarial networks with a 3D U-Net based generator to achieve the accurate and effective synthesis of clinical tumor image data for pancreatic cancer
University of Nebraska-Lincoln（内布拉斯加大学林肯分校）；University of Nebraska Medical Center（内布拉斯加大学医学中心）；University of Rochester Medical Center（罗切斯特大学医学中心）
Residual Vision Transformer (ResViT) Based Self-Supervised Learning Model for Brain Tumor Classification
Center for Diabetes Technology（糖尿病技术中心）；University of Virginia（弗吉尼亚大学）；Erciyes University（埃尔齐耶斯大学）；Biocomplexity Institute and Initiative（生物复杂性研究所与倡议项目）
Automated MRI Tumor Segmentation using hybrid U-Net with Transformer and Efficient Attention
Department of Medical Sciences, Pakistan Institute of Engineering and Applied Sciences (PIEAS)（医学系，巴基斯坦工程与应用科学研究所）；Pakistan Institute of Engineering and Applied Sciences (PIEAS)（巴基斯坦工程与应用科学研究所）；Department of Physics & Applied Mathematics, Pakistan Institute of Engineering and Applied Sciences (PIEAS)（物理与应用数学系，巴基斯坦工程与应用科学研究所）；Center for Mathematical Sciences, Pakistan Institute of Engineering and Applied Sciences (PIEAS)（数学科学中心，巴基斯坦工程与应用科学研究所）；Pattern Recognition Lab, Department of Computer & Information Sciences, Pakistan Institute of Engineering & Applied Sciences（模式识别实验室，计算机与信息科学系，巴基斯坦工程与应用科学研究所）；Pakistan Institute of Engineering & Applied Sciences（巴基斯坦工程与应用科学研究所）；Artificial Intelligence Center (PAIC), Pakistan Institute of Engineering & Applied Sciences（人工智能中心（PAIC），巴基斯坦工程与应用科学研究所）
Medical image classification is one of the most critical problems in the image recognition area. One of the major challenges in this field is the scarcity of labelled training data. Additionally, there is often class imbalance in datasets as some cases are very rare to happen. As a result, accuracy in classification task is normally low. Deep Learning models, in particular, show promising results on image segmentation and classification problems, but they require very large datasets for training. Therefore, there is a need to generate more of synthetic samples from the same distribution. Previ…
Technische Universität München（慕尼黑工业大学）；Ludwig-Maximilian-University, Munich（慕尼黑大学）；Johns Hopkins University（约翰斯·霍普金斯大学）；Computer Aided Medical Procedures, Technische Universität München（慕尼黑工业大学计算机辅助医疗程序（此处按要求取到大学级别，原机构名中的部门名称保留以明确归属））；Department of Child and Adolescent Psychiatry, Psychosomatic and Psychotherapy, Ludwig-Maximilian-University, Munich（慕尼黑大学儿童青少年精神病学、心身医学与心理治疗系（此处按要求取到大学级别，原机构名中的部门名称保留以明确归属））；Computer Aided Medical Procedures, Johns Hopkins University（约翰斯·霍普金斯大学计算机辅助医疗程序（此处按要求取到大学级别，原机构名中的部门名称保留以明确归属））
In this paper we propose a novel augmentation technique that improves not only the performance of deep neural networks on clean test data, but also significantly increases their robustness to random transformations, both affine and projective. Inspired by ManiFool, the augmentation is performed by a line-search manifold-exploration method that learns affine geometric transformations that lead to the misclassification on an image, while ensuring that it remains on the same manifold as the training data. This augmentation method populates any training dataset with images that lie on the border o…
MEDDAP: Medical Dataset Enhancement via Diversified Augmentation Pipeline
School of Biomedical Engineering, University of British Columbia（不列颠哥伦比亚大学生物医学工程学院）；BC Cancer Research Institute（不列颠哥伦比亚癌症研究所）；Department of Radiology, University of British Columbia（不列颠哥伦比亚大学放射学系）；Department of Physics, University of British Columbia（不列颠哥伦比亚大学物理系）；Department of Medicine, University of British Columbia（不列颠哥伦比亚大学医学系）
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…
