Advancing Brain Tumor Inpainting with Generative Models

Synthesizing healthy brain scans from diseased brain scans offers a potential solution to address the limitations of general-purpose algorithms, such as tissue segmentation and brain extraction algorithms, which may not effectively handle diseased images. We consider this a 3D inpainting task and investigate the adaptation of 2D inpainting methods to meet the requirements of 3D magnetic resonance imaging(MRI) data. Our contributions encompass potential modifications tailored to MRI-specific needs, and we conducted evaluations of multiple inpainting techniques using the BraTS2023 Inpainting datasets to assess their efficacy and limitations.

Two-stage Contextual Transformer-based Convolutional Neural Network for Airway Extraction from CT Images

Accurate airway extraction from computed tomography (CT) images is a critical step for planning navigation bronchoscopy and quantitative assessment of airway-related chronic obstructive pulmonary disease (COPD). The existing methods are challenging to sufficiently segment the airway, especially the high-generation airway, with the constraint of the limited label and cannot meet the clinical use in COPD. We propose a novel two-stage 3D contextual transformer-based U-Net for airway segmentation using CT images. The method consists of two stages, performing initial and refined airway segmentation. The two-stage model shares the same subnetwork with different airway masks as input. Contextual transformer block is performed both in the encoder and decoder path of the subnetwork to finish high-quality airway segmentation effectively. In the first stage, the total airway mask and CT images are provided to the subnetwork, and the intrapulmonary airway mask and corresponding CT scans to the subnetwork in the second stage. Then the predictions of the two-stage method are merged as the final prediction. Extensive experiments were performed on in-house and multiple public datasets. Quantitative and qualitative analysis demonstrate that our proposed method extracted much more branches and lengths of the tree while accomplishing state-of-the-art airway segmentation performance. The code is available at https://github.com/zhaozsq/airway_segmentation.