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Segmentation of enhancing tumours or lesions from MRI is important for detecting new disease activity in many clinical contexts. However, accurate segmentation requires the inclusion of medical images (e.g., T1 post contrast MRI) acquired…

Radiological images such as computed tomography (CT) and X-rays render anatomy with intrinsic structures. Being able to reliably locate the same anatomical structure across varying images is a fundamental task in medical image analysis. In…

Tubular structure segmentation in medical images, e.g., segmenting vessels in CT scans, serves as a vital step in the use of computers to aid in screening early stages of related diseases. But automatic tubular structure segmentation in CT…

Renal tumors, especially renal cell carcinoma (RCC), show significant heterogeneity, posing challenges for diagnosis using radiology images such as MRI, echocardiograms, and CT scans. U-Net based deep learning techniques are emerging as a…

Semantic image segmentation plays an important role in modeling patient-specific anatomy. We propose a convolution neural network, called Kid-Net, along with a training schema to segment kidney vessels: artery, vein and collecting system.…

Abdominal organ segmentation from CT and MRI is an essential prerequisite for surgical planning and computer-aided navigation systems. It is challenging due to the high variability in the shape, size, and position of abdominal organs.…

Due to the fact that pancreas is an abdominal organ with very large variations in shape and size, automatic and accurate pancreas segmentation can be challenging for medical image analysis. In this work, we proposed a fully automated two…

Medical image analysis tasks often focus on regions or structures located in a particular location within the patient's body. Often large parts of the image may not be of interest for the image analysis task. When using deep-learning based…

Medical images like CT and MRI provide detailed information about the internal structure of the body, and identifying key anatomical structures from these images plays a crucial role in clinical workflows. Current methods treat it as a…

A major focus of clinical imaging workflow is disease diagnosis and management, leading to medical imaging datasets strongly tied to specific clinical objectives. This scenario has led to the prevailing practice of developing task-specific…

Segmentation and classification of cell nuclei in histopathology images using deep neural networks (DNNs) can save pathologists' time for diagnosing various diseases, including cancers, by automating cell counting and morphometric…

Renal pathology, as the gold standard of kidney disease diagnosis, requires doctors to analyze a series of tissue slices stained by H&E staining and special staining like Masson, PASM, and PAS, respectively. These special staining methods…

Non-hierarchical sparse attention Transformer-based models, such as Longformer and Big Bird, are popular approaches to working with long documents. There are clear benefits to these approaches compared to the original Transformer in terms…

Whole slide images (WSIs) pose fundamental computational challenges due to their gigapixel resolution and the sparse distribution of informative regions. Existing approaches often treat image patches independently or reshape them in ways…

There exist numerous diagnostic tasks in pathology. Conventional computational pathology formulates and tackles them as independent and individual image classification problems, thereby resulting in computational inefficiency and high…

Accurate segmentation of cell nuclei in histopathology images is essential for numerous biomedical research and clinical applications. However, existing cell nucleus segmentation methods only consider a single dataset (i.e., primary…

Hidden Markov models (HMMs) are characterized by an unobservable Markov chain and an observable process -- a noisy version of the hidden chain. Decoding the original signal from the noisy observations is one of the main goals in nearly all…

Self-supervised learning is emerging as an effective substitute for transfer learning from large datasets. In this work, we use kidney segmentation to explore this idea. The anatomical asymmetry of kidneys is leveraged to define an…

With the substantial diversity in population demographics, such as differences in age and body composition, the volumetric morphology of pancreas varies greatly, resulting in distinctive variations in shape and appearance. Such variations…

The state-of-the-art models for medical image segmentation are variants of U-Net and fully convolutional networks (FCN). Despite their success, these models have two limitations: (1) their optimal depth is apriori unknown, requiring…