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Found 78 papers, 43 papers with code
BraTS orchestrator : Democratizing and Disseminating state-of-the-art brain tumor image analysis
The Brain Tumor Segmentation (BraTS) cluster of challenges has significantly advanced brain tumor image analysis by providing large, curated datasets and addressing clinically relevant tasks.
Beyond the LUMIR challenge: The pathway to foundational registration models
Medical image challenges have played a transformative role in advancing the field, catalyzing algorithmic innovation and establishing new performance standards across diverse clinical applications.
NOVA: A Benchmark for Anomaly Localization and Clinical Reasoning in Brain MRI
In many real-world applications, deployed models encounter inputs that differ from the data seen during training.
Analysis of the MICCAI Brain Tumor Segmentation -- Metastases (BraTS-METS) 2025 Lighthouse Challenge: Brain Metastasis Segmentation on Pre- and Post-treatment MRI
The BraTS-METS 2025 Lighthouse Challenge aims to address this critical need by establishing inter-rater and intra-rater variability in dataset annotation by generating high quality annotated datasets from four individual instances of segmentation by neuroradiologists while being recorded on video (two instances doing "from scratch" and two instances after AI pre-segmentation).
TimeFlow: Longitudinal Brain Image Registration and Aging Progression Analysis
Longitudinal brain MRI registration, a cornerstone for such analyses, has long been limited by its inability to forecast future developments, reliance on extensive, dense longitudinal data, and the need to balance registration accuracy with temporal smoothness.
Efficient Deep Learning-based Forward Solvers for Brain Tumor Growth Models
Glioblastoma, a highly aggressive brain tumor, poses major challenges due to its poor prognosis and high morbidity rates.
Efficient MedSAMs: Segment Anything in Medical Images on Laptop
Promptable segmentation foundation models have emerged as a transformative approach to addressing the diverse needs in medical images, but most existing models require expensive computing, posing a big barrier to their adoption in clinical practice.
Spatial Brain Tumor Concentration Estimation for Individualized Radiotherapy Planning
Biophysical modeling of brain tumors has emerged as a promising strategy for personalizing radiotherapy planning by estimating the otherwise hidden distribution of tumor cells within the brain.
Physics-Regularized Multi-Modal Image Assimilation for Brain Tumor Localization
Physical models in the form of partial differential equations serve as important priors for many under-constrained problems.
Learning Brain Tumor Representation in 3D High-Resolution MR Images via Interpretable State Space Models
Learning meaningful and interpretable representations from high-dimensional volumetric magnetic resonance (MR) images is essential for advancing personalized medicine.
ISLES 2024: The first longitudinal multimodal multi-center real-world dataset in (sub-)acute stroke
In contrast, our dataset is the first to offer comprehensive longitudinal stroke data, including acute CT imaging with angiography and perfusion, follow-up MRI at 2-9 days, as well as acute and longitudinal clinical data up to a three-month outcome.
ISLES'24: Improving final infarct prediction in ischemic stroke using multimodal imaging and clinical data
This work presents the ISLES'24 challenge, which addresses final post-treatment stroke infarct prediction from pre-interventional acute stroke imaging and clinical data.
Counterfactual Explanations for Medical Image Classification and Regression using Diffusion Autoencoder
Counterfactual explanations (CEs) aim to enhance the interpretability of machine learning models by illustrating how alterations in input features would affect the resulting predictions.
Mamba? Catch The Hype Or Rethink What Really Helps for Image Registration
Our findings indicate that adopting "advanced" computational elements fails to significantly improve registration accuracy.
MedEdit: Counterfactual Diffusion-based Image Editing on Brain MRI
For example, they can model the progression of specific diseases, such as stroke lesions.
BraTS-PEDs: Results of the Multi-Consortium International Pediatric Brain Tumor Segmentation Challenge 2023
Pediatric central nervous system tumors are the leading cause of cancer-related deaths in children.
Unsupervised Analysis of Alzheimer's Disease Signatures using 3D Deformable Autoencoders
With the increasing incidence of neurodegenerative diseases such as Alzheimer's Disease (AD), there is a need for further research that enhances detection and monitoring of the diseases.
The 2024 Brain Tumor Segmentation (BraTS) Challenge: Glioma Segmentation on Post-treatment MRI
Gliomas are the most common malignant primary brain tumors in adults and one of the deadliest types of cancer.
Brain Tumor Segmentation (BraTS) Challenge 2024: Meningioma Radiotherapy Planning Automated Segmentation
The 2024 Brain Tumor Segmentation Meningioma Radiotherapy (BraTS-MEN-RT) challenge aims to advance automated segmentation algorithms using the largest known multi-institutional dataset of radiotherapy planning brain MRIs with expert-annotated target labels for patients with intact or postoperative meningioma that underwent either conventional external beam radiotherapy or stereotactic radiosurgery.
Analysis of the BraTS 2023 Intracranial Meningioma Segmentation Challenge
The top ranked team had a lesion-wise median dice similarity coefficient (DSC) of 0. 976, 0. 976, and 0. 964 for enhancing tumor, tumor core, and whole tumor, respectively and a corresponding average DSC of 0. 899, 0. 904, and 0. 871, respectively.
The Brain Tumor Segmentation in Pediatrics (BraTS-PEDs) Challenge: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs)
Pediatric tumors of the central nervous system are the most common cause of cancer-related death in children.
Language Models Meet Anomaly Detection for Better Interpretability and Generalizability
This research explores the integration of language models and unsupervised anomaly detection in medical imaging, addressing two key questions: (1) Can language models enhance the interpretability of anomaly detection maps?
A Robust Ensemble Algorithm for Ischemic Stroke Lesion Segmentation: Generalizability and Clinical Utility Beyond the ISLES Challenge
We address this gap by presenting a novel ensemble algorithm derived from the 2022 Ischemic Stroke Lesion Segmentation (ISLES) challenge.
Denoising Diffusion Models for 3D Healthy Brain Tissue Inpainting
Monitoring diseases that affect the brain's structural integrity requires automated analysis of magnetic resonance (MR) images, e. g., for the evaluation of volumetric changes.
QUBIQ: Uncertainty Quantification for Biomedical Image Segmentation Challenge
The challenge focuses on the uncertainty quantification of medical image segmentation which considers the omnipresence of inter-rater variability in imaging datasets.
Diffusion Models with Implicit Guidance for Medical Anomaly Detection
Diffusion models have advanced unsupervised anomaly detection by improving the transformation of pathological images into pseudo-healthy equivalents.
A Learnable Prior Improves Inverse Tumor Growth Modeling
Biophysical modeling, particularly involving partial differential equations (PDEs), offers significant potential for tailoring disease treatment protocols to individual patients.
Towards Universal Unsupervised Anomaly Detection in Medical Imaging
Our unsupervised anomaly detection approach may enhance diagnostic accuracy in medical imaging by identifying a broader range of unknown pathologies.
H-ViT: A Hierarchical Vision Transformer for Deformable Image Registration
This paper introduces a novel top-down representation approach for deformable image registration which estimates the deformation field by capturing various short- and long-range flow features at different scale levels.
Panoptica -- instance-wise evaluation of 3D semantic and instance segmentation maps
This paper introduces panoptica, a versatile and performance-optimized package designed for computing instance-wise segmentation quality metrics from 2D and 3D segmentation maps.
Personalized Predictions of Glioblastoma Infiltration: Mathematical Models, Physics-Informed Neural Networks and Multimodal Scans
This work proposes a method that uses Physics-Informed Neural Networks (PINNs) to estimate patient-specific parameters of a reaction-diffusion PDE model of GBM growth from a single 3D structural MRI snapshot.
(Predictable) Performance Bias in Unsupervised Anomaly Detection
The empirical fairness laws discovered in our study make disparate performance in UAD models easier to estimate and aid in determining the most desirable dataset composition.
Self-pruning Graph Neural Network for Predicting Inflammatory Disease Activity in Multiple Sclerosis from Brain MR Images
We propose a two-stage MS inflammatory disease activity prediction approach.
Bias in Unsupervised Anomaly Detection in Brain MRI
This work presents a novel analysis of biases in unsupervised anomaly detection.
Denoising diffusion-based MRI to CT image translation enables automated spinal segmentation
The 3D translation outperformed the 2D approach, resulting in improved Dice scores (0. 80) and anatomically accurate segmentations in a higher resolution than the original MR image.
Metrics to Quantify Global Consistency in Synthetic Medical Images
In this work, we introduce two metrics that can measure the global consistency of synthetic images on a per-image basis.
Framing image registration as a landmark detection problem for label-noise-aware task representation (HitR)
Accurate image registration is pivotal in biomedical image analysis, where selecting suitable registration algorithms demands careful consideration.
Inter-Rater Uncertainty Quantification in Medical Image Segmentation via Rater-Specific Bayesian Neural Networks
We introduce a novel Bayesian neural network-based architecture to estimate inter-rater uncertainty in medical image segmentation.
The Brain Tumor Segmentation (BraTS-METS) Challenge 2023: Brain Metastasis Segmentation on Pre-treatment MRI
Additionally, 31 studies (139 lesions) were held out for validation, and 59 studies (218 lesions) were used for testing.
The Brain Tumor Segmentation (BraTS) Challenge 2023: Glioma Segmentation in Sub-Saharan Africa Patient Population (BraTS-Africa)
Thus, the BraTS-Africa Challenge provides a unique opportunity to include brain MRI glioma cases from SSA in global efforts through the BraTS Challenge to develop and evaluate computer-aided-diagnostic (CAD) methods for the detection and characterization of glioma in resource-limited settings, where the potential for CAD tools to transform healthcare are more likely.
The Brain Tumor Segmentation (BraTS) Challenge 2023: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs)
Pediatric tumors of the central nervous system are the most common cause of cancer-related death in children.
The Brain Tumor Segmentation (BraTS) Challenge: Local Synthesis of Healthy Brain Tissue via Inpainting
The challenge is organized as part of the ASNR-BraTS MICCAI challenge.
The Brain Tumor Segmentation (BraTS) Challenge 2023: Brain MR Image Synthesis for Tumor Segmentation (BraSyn)
In this work, we present the establishment of the Brain MR Image Synthesis Benchmark (BraSyn) in conjunction with the Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2023.
The ASNR-MICCAI Brain Tumor Segmentation (BraTS) Challenge 2023: Intracranial Meningioma
Meningiomas are the most common primary intracranial tumor in adults and can be associated with significant morbidity and mortality.
Primitive Simultaneous Optimization of Similarity Metrics for Image Registration
Even though simultaneous optimization of similarity metrics is a standard procedure in the field of semantic segmentation, surprisingly, this is much less established for image registration.
Why is the winner the best?
The "typical" lead of a winning team is a computer scientist with a doctoral degree, five years of experience in biomedical image analysis, and four years of experience in deep learning.
Single-subject Multi-contrast MRI Super-resolution via Implicit Neural Representations
Clinical routine and retrospective cohorts commonly include multi-parametric Magnetic Resonance Imaging; however, they are mostly acquired in different anisotropic 2D views due to signal-to-noise-ratio and scan-time constraints.
Semantic Latent Space Regression of Diffusion Autoencoders for Vertebral Fracture Grading
We then regress the severity of the fracture as a function of the distance to this hyperplane, calibrating the results to the Genant scale.
Reversing the Abnormal: Pseudo-Healthy Generative Networks for Anomaly Detection
To overcome these limitations, we introduce a novel unsupervised approach, called PHANES (Pseudo Healthy generative networks for ANomaly Segmentation).
ViT-AE++: Improving Vision Transformer Autoencoder for Self-supervised Medical Image Representations
In this paper, we focus on improving ViT-AE (nicknamed ViT-AE++) for a more effective representation of 2D and 3D medical images.
Approaching Peak Ground Truth
Machine learning models are typically evaluated by computing similarity with reference annotations and trained by maximizing similarity with such.
A Domain-specific Perceptual Metric via Contrastive Self-supervised Representation: Applications on Natural and Medical Images
We find that in the natural image domain, CSR behaves on par with the supervised one on several perceptual tests as a metric, and in the medical domain, CSR better quantifies perceptual similarity concerning the experts' ratings.
Where is VALDO? VAscular Lesions Detection and segmentatiOn challenge at MICCAI 2021
This challenge aimed to promote the development of methods for automated detection and segmentation of small and sparse imaging markers of cerebral small vessel disease, namely enlarged perivascular spaces (EPVS) (Task 1), cerebral microbleeds (Task 2) and lacunes of presumed vascular origin (Task 3) while leveraging weak and noisy labels.
ISLES 2022: A multi-center magnetic resonance imaging stroke lesion segmentation dataset
The test dataset will be used for model validation only and will not be released to the public.
Deep Quality Estimation: Creating Surrogate Models for Human Quality Ratings
To approximate human quality ratings on scarce expert data, we train surrogate quality estimation models.
blob loss: instance imbalance aware loss functions for semantic segmentation
\emph{Blob loss} is designed for semantic segmentation problems where detecting multiple instances matters.
Federated Learning Enables Big Data for Rare Cancer Boundary Detection
Although machine learning (ML) has shown promise in numerous domains, there are concerns about generalizability to out-of-sample data.
Interpretable Vertebral Fracture Diagnosis
Do black-box neural network models learn clinically relevant features for fracture diagnosis?
On the Pitfalls of Using the Residual Error as Anomaly Score
Many current state-of-the-art methods for anomaly localization in medical images rely on calculating a residual image between a potentially anomalous input image and its "healthy" reconstruction.
The Brain Tumor Sequence Registration (BraTS-Reg) Challenge: Establishing Correspondence Between Pre-Operative and Follow-up MRI Scans of Diffuse Glioma Patients
Registration of longitudinal brain MRI scans containing pathologies is challenging due to dramatic changes in tissue appearance.
FedCostWAvg: A new averaging for better Federated Learning
We propose a simple new aggregation strategy for federated learning that won the MICCAI Federated Tumor Segmentation Challenge 2021 (FETS), the first ever challenge on Federated Learning in the Machine Learning community.
Learn-Morph-Infer: a new way of solving the inverse problem for brain tumor modeling
Current treatment planning of patients diagnosed with a brain tumor, such as glioma, could significantly benefit by accessing the spatial distribution of tumor cell concentration.
The RSNA-ASNR-MICCAI BraTS 2021 Benchmark on Brain Tumor Segmentation and Radiogenomic Classification
The BraTS 2021 challenge celebrates its 10th anniversary and is jointly organized by the Radiological Society of North America (RSNA), the American Society of Neuroradiology (ASNR), and the Medical Image Computing and Computer Assisted Interventions (MICCAI) society.
Are we using appropriate segmentation metrics? Identifying correlates of human expert perception for CNN training beyond rolling the DICE coefficient
It is often unclear how to optimize abstract metrics, such as human expert perception, in convolutional neural network (CNN) training.
A Computed Tomography Vertebral Segmentation Dataset with Anatomical Variations and Multi-Vendor Scanner Data
With the advent of deep learning algorithms, fully automated radiological image analysis is within reach.
Imbalance-Aware Self-Supervised Learning for 3D Radiomic Representations
Radiomic representations can quantify properties of regions of interest in medical image data.
FedDis: Disentangled Federated Learning for Unsupervised Brain Pathology Segmentation
Further, we illustrate that FedDis learns a shape embedding that is orthogonal to the appearance and consistent under different intensity augmentations.
Scale-Space Autoencoders for Unsupervised Anomaly Segmentation in Brain MRI
Brain pathologies can vary greatly in size and shape, ranging from few pixels (i. e. MS lesions) to large, space-occupying tumors.
Autoencoders for Unsupervised Anomaly Segmentation in Brain MR Images: A Comparative Study
Deep unsupervised representation learning has recently led to new approaches in the field of Unsupervised Anomaly Detection (UAD) in brain MRI.
ROAM: Random Layer Mixup for Semi-Supervised Learning in Medical Imaging
Medical image segmentation is one of the major challenges addressed by machine learning methods.
Train, Learn, Expand, Repeat
High-quality labeled data is essential to successfully train supervised machine learning models.
Domain Adaptive Medical Image Segmentation via Adversarial Learning of Disease-Specific Spatial Patterns
In medical imaging, the heterogeneity of multi-centre data impedes the applicability of deep learning-based methods and results in significant performance degradation when applying models in an unseen data domain, e. g. a new centreor a new scanner.
VerSe: A Vertebrae Labelling and Segmentation Benchmark for Multi-detector CT Images
Two datasets containing a total of 374 multi-detector CT scans from 355 patients were prepared and 4505 vertebrae have individually been annotated at voxel-level by a human-machine hybrid algorithm (https://osf. io/nqjyw/, https://osf. io/t98fz/).
DiamondGAN: Unified Multi-Modal Generative Adversarial Networks for MRI Sequences Synthesis
Synthesizing MR imaging sequences is highly relevant in clinical practice, as single sequences are often missing or are of poor quality (e. g. due to motion).
The Liver Tumor Segmentation Benchmark (LiTS)
In this work, we report the set-up and results of the Liver Tumor Segmentation Benchmark (LiTS), which was organized in conjunction with the IEEE International Symposium on Biomedical Imaging (ISBI) 2017 and the International Conferences on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2017 and 2018.
Identifying the Best Machine Learning Algorithms for Brain Tumor Segmentation, Progression Assessment, and Overall Survival Prediction in the BRATS Challenge
This study assesses the state-of-the-art machine learning (ML) methods used for brain tumor image analysis in mpMRI scans, during the last seven instances of the International Brain Tumor Segmentation (BraTS) challenge, i. e., 2012-2018.
Personalized Radiotherapy Design for Glioblastoma Using Mathematical Models, Multimodal Scans and Bayesian Inference
Here we provide a Bayesian machine learning framework for the rational design of improved, personalized radiotherapy plans using mathematical modeling and patient multimodal medical scans.
Computational Engineering, Finance, and Science
Deep Autoencoding Models for Unsupervised Anomaly Segmentation in Brain MR Images
Reliably modeling normality and differentiating abnormal appearances from normal cases is a very appealing approach for detecting pathologies in medical images.
