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Register a new userA Joint Graph and Image Convolution Network for Automatic Brain Tumor Segmentation
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We present a joint graph convolution-image convolution neural network as our submission to the Brain Tumor Segmentation (BraTS) 2021 challenge. We model each brain as a graph composed of distinct image regions, which is initially segmented by a graph neural network (GNN). Subsequently, the tumorous volume identified by the GNN is further refined by a simple (voxel) convolutional neural network (CNN), which produces the final segmentation. This approach captures both global brain feature interactions via the graphical representation and local image details through the use of convolutional filters. We find that the GNN component by itself can effectively identify and segment the brain tumors. The addition of the CNN further improves the median performance of the model by 2 percent across all metrics evaluated. On the validation set, our joint GNN-CNN model achieves mean Dice scores of 0.89, 0.81, 0.73 and mean Hausdorff distances (95th percentile) of 6.8, 12.6, 28.2mm on the whole tumor, core tumor, and enhancing tumor, respectively.
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Segmentation of tumors in brain MRI images is a challenging task, where most recent methods demand large volumes of data with pixel-level annotations, which are generally costly to obtain. In contrast, image-level annotations, where only the presence of lesion is marked, are generally cheap, generated in far larger volumes compared to pixel-level labels, and contain less labeling noise. In the context of brain tumor segmentation, both pixel-level and image-level annotations are commonly available; thus, a natural question arises whether a segmentation procedure could take advantage of both. In the present work we: 1) propose a learning-based framework that allows simultaneous usage of both pixel- and image-level annotations in MRI images to learn a segmentation model for brain tumor; 2) study the influence of comparative amounts of pixel- and image-level annotations on the quality of brain tumor segmentation; 3) compare our approach to the traditional fully-supervised approach and show that the performance of our method in terms of segmentation quality may be competitive.
Automatic brain tumor segmentation from multi-modality Magnetic Resonance Images (MRI) using deep learning methods plays an important role in assisting the diagnosis and treatment of brain tumor. However, previous methods mostly ignore the latent relationship among different modalities. In this work, we propose a novel end-to-end Modality-Pairing learning method for brain tumor segmentation. Paralleled branches are designed to exploit different modality features and a series of layer connections are utilized to capture complex relationships and abundant information among modalities. We also use a consistency loss to minimize the prediction variance between two branches. Besides, learning rate warmup strategy is adopted to solve the problem of the training instability and early over-fitting. Lastly, we use average ensemble of multiple models and some post-processing techniques to get final results. Our method is tested on the BraTS 2020 online testing dataset, obtaining promising segmentation performance, with average dice scores of 0.891, 0.842, 0.816 for the whole tumor, tumor core and enhancing tumor, respectively. We won the second place of the BraTS 2020 Challenge for the tumor segmentation task.
Brain tumor is the most common and deadliest disease that can be found in all age groups. Generally, MRI modality is adopted for identifying and diagnosing tumors by the radiologists. The correct identification of tumor regions and its type can aid to diagnose tumors with the followup treatment plans. However, for any radiologist analysing such scans is a complex and time-consuming task. Motivated by the deep learning based computer-aided-diagnosis systems, this paper proposes multi-task attention guided encoder-decoder network (MAG-Net) to classify and segment the brain tumor regions using MRI images. The MAG-Net is trained and evaluated on the Figshare dataset that includes coronal, axial, and sagittal views with 3 types of tumors meningioma, glioma, and pituitary tumor. With exhaustive experimental trials the model achieved promising results as compared to existing state-of-the-art models, while having least number of training parameters among other state-of-the-art models.
Brain tumor segmentation plays an essential role in medical image analysis. In recent studies, deep convolution neural networks (DCNNs) are extremely powerful to tackle tumor segmentation tasks. We propose in this paper a novel training method that enhances the segmentation results by adding an additional classification branch to the network. The whole network was trained end-to-end on the Multimodal Brain Tumor Segmentation Challenge (BraTS) 2020 training dataset. On the BraTSs validation set, it achieved an average Dice score of 78.43%, 89.99%, and 84.22% respectively for the enhancing tumor, the whole tumor, and the tumor core.
Accurate segmentation of brain tumors from magnetic resonance imaging (MRI) is clinically relevant in diagnoses, prognoses and surgery treatment, which requires multiple modalities to provide complementary morphological and physiopathologic information. However, missing modality commonly occurs due to image corruption, artifacts, different acquisition protocols or allergies to certain contrast agents in clinical practice. Though existing efforts demonstrate the possibility of a unified model for all missing situations, most of them perform poorly when more than one modality is missing. In this paper, we propose a novel Adversarial Co-training Network (ACN) to solve this issue, in which a series of independent yet related models are trained dedicated to each missing situation with significantly better results. Specifically, ACN adopts a novel co-training network, which enables a coupled learning process for both full modality and missing modality to supplement each others domain and feature representations, and more importantly, to recover the `missing information of absent modalities. Then, two unsupervised modules, i.e., entropy and knowledge adversarial learning modules are proposed to minimize the domain gap while enhancing prediction reliability and encouraging the alignment of latent representations, respectively. We also adapt modality-mutual information knowledge transfer learning to ACN to retain the rich mutual information among modalities. Extensive experiments on BraTS2018 dataset show that our proposed method significantly outperforms all state-of-the-art methods under any missing situation.
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