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Accurate and efficient brain tumor segmentation remains a critical challenge in neuroimaging due to the heterogeneous nature of tumor subregions and the high computational cost of volumetric inference. In this paper, we propose…
We propose a Transformer architecture for volumetric segmentation, a challenging task that requires keeping a complex balance in encoding local and global spatial cues, and preserving information along all axes of the volume. Encoder of the…
Glioma is the most common and aggressive brain tumor. Magnetic resonance imaging (MRI) plays a vital role to evaluate tumors for the arrangement of tumor surgery and the treatment of subsequent procedures. However, the manual segmentation…
We trained and applied an encoder-decoder model to semantically segment breast biopsy images into biologically meaningful tissue labels. Since conventional encoder-decoder networks cannot be applied directly on large biopsy images and the…
Deep neural networks have been widely used in medical image analysis and medical image segmentation is one of the most important tasks. U-shaped neural networks with encoder-decoder are prevailing and have succeeded greatly in various…
Transformer, which can benefit from global (long-range) information modeling using self-attention mechanisms, has been successful in natural language processing and 2D image classification recently. However, both local and global features…
Automatic 3D neuron reconstruction is critical for analysing the morphology and functionality of neurons in brain circuit activities. However, the performance of existing tracing algorithms is hinged by the low image quality. Recently, a…
The adoption of Vision Transformers (ViTs) based architectures represents a significant advancement in 3D Medical Image (MI) segmentation, surpassing traditional Convolutional Neural Network (CNN) models by enhancing global contextual…
Fully Convolutional Neural Networks (FCNNs) with contracting and expanding paths have shown prominence for the majority of medical image segmentation applications since the past decade. In FCNNs, the encoder plays an integral role by…
Automatic segmentation of brain glioma from multimodal MRI scans plays a key role in clinical trials and practice. Unfortunately, manual segmentation is very challenging, time-consuming, costly, and often inaccurate despite human expertise…
Vision Transformers (ViT)s have recently become popular due to their outstanding modeling capabilities, in particular for capturing long-range information, and scalability to dataset and model sizes which has led to state-of-the-art…
Convolutional neural networks (CNNs) achieved the state-of-the-art performance in medical image segmentation due to their ability to extract highly complex feature representations. However, it is argued in recent studies that traditional…
We propose a new deep learning method for tumour segmentation when dealing with missing imaging modalities. Instead of producing one network for each possible subset of observed modalities or using arithmetic operations to combine feature…
In unsupervised medical image registration, the predominant approaches involve the utilization of a encoder-decoder network architecture, allowing for precise prediction of dense, full-resolution displacement fields from given paired…
Segmenting biomarkers in medical images is crucial for various biotech applications. Despite advances, Transformer and CNN based methods often struggle with variations in staining and morphology, limiting feature extraction. In medical…
Deep learning applied to the reconstruction of 3D shapes has seen growing interest. A popular approach to 3D reconstruction and generation in recent years has been the CNN encoder-decoder model usually applied in voxel space. However, this…
U-Net is widely used in medical image segmentation due to its simple and flexible architecture design. To address the challenges of scale and complexity in medical tasks, several variants of U-Net have been proposed. In particular, methods…
Accurate detection and segmentation of brain tumors from magnetic resonance imaging (MRI) are essential for diagnosis, treatment planning, and clinical monitoring. While convolutional architectures such as U-Net have long been the backbone…
Identifying polyps is challenging for automatic analysis of endoscopic images in computer-aided clinical support systems. Models based on convolutional networks (CNN), transformers, and their combinations have been proposed to segment…
This paper presents a novel framework for processing volumetric medical information using Visual Transformers (ViTs). First, We extend the state-of-the-art Swin Transformer model to the 3D medical domain. Second, we propose a new approach…