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Segmenting medical images accurately and reliably is important for disease diagnosis and treatment. It is a challenging task because of the wide variety of objects' sizes, shapes, and scanning modalities. Recently, many convolutional neural…

Nonlinear image registration continues to be a fundamentally important tool in medical image analysis. Diagnostic tasks, image-guided surgery and radiotherapy as well as motion analysis all rely heavily on accurate intra-patient alignment.…

The need for function estimation in label-limited settings is common in the natural sciences. At the same time, prior knowledge of function values is often available in these domains. For example, data-free biophysics-based models can be…

Semi-supervised learning relaxes the need of large pixel-wise labeled datasets for image segmentation by leveraging unlabeled data. A prominent way to exploit unlabeled data is to regularize model predictions. Since the predictions of…

We introduce a multimodal deep learning framework, Prescriptive Neural Networks (PNNs), that combines ideas from optimization and machine learning, and is, to the best of our knowledge, the first prescriptive method to handle multimodal…

Semi-supervised learning has attracted much attention in medical image segmentation due to challenges in acquiring pixel-wise image annotations, which is a crucial step for building high-performance deep learning methods. Most existing…

Convolutional Neural Networks (CNNs) have shown to be powerful medical image segmentation models. In this study, we address some of the main unresolved issues regarding these models. Specifically, training of these models on small medical…

We consider the problem of segmenting a biomedical image into anatomical regions of interest. We specifically address the frequent scenario where we have no paired training data that contains images and their manual segmentations. Instead,…

The advent of deep-learning-based registration networks has addressed the time-consuming challenge in traditional iterative methods.However, the potential of current registration networks for comprehensively capturing spatial relationships…

Deep Neural Networks (DNNs) are widely used for decision making in a myriad of critical applications, ranging from medical to societal and even judicial. Given the importance of these decisions, it is crucial for us to be able to interpret…

Active learning is considered a viable solution to alleviate the contradiction between the high dependency of deep learning-based segmentation methods on annotated data and the expensive pixel-level annotation cost of medical images.…

Deep learning based image segmentation has achieved the state-of-the-art performance in many medical applications such as lesion quantification, organ detection, etc. However, most of the methods rely on supervised learning, which require a…

We address the problem of weakly-supervised semantic segmentation (WSSS) using bounding box annotations. Although object bounding boxes are good indicators to segment corresponding objects, they do not specify object boundaries, making it…

Semantic segmentation is an import task in the medical field to identify the exact extent and orientation of significant structures like organs and pathology. Deep neural networks can perform this task well by leveraging the information…

Whole abdominal organ segmentation is important in diagnosing abdomen lesions, radiotherapy, and follow-up. However, oncologists' delineating all abdominal organs from 3D volumes is time-consuming and very expensive. Deep learning-based…

Achieving precise medical image segmentation is vital for effective treatment planning and accurate disease diagnosis. Traditional fully-supervised deep learning methods, though highly precise, are heavily reliant on large volumes of…

Performing coarse-to-fine abdominal multi-organ segmentation facilitates to extract high-resolution segmentation minimizing the lost of spatial contextual information. However, current coarse-to-refine approaches require a significant…

Dataset pruning reduces the storage and training costs of deep learning by selecting an informative subset from a large dataset. However, most existing pruning methods require fully labeled data, which limits their applicability in…

Methods: Our deep learning model, called AnatomyNet, segments OARs from head and neck CT images in an end-to-end fashion, receiving whole-volume HaN CT images as input and generating masks of all OARs of interest in one shot. AnatomyNet is…

Segmentation of brain magnetic resonance images (MRI) is crucial for the analysis of the human brain and diagnosis of various brain disorders. The drawbacks of time-consuming and error-prone manual delineation procedures are aimed to be…