期刊
MAGNETIC RESONANCE IMAGING
卷 86, 期 -, 页码 28-36出版社
ELSEVIER SCIENCE INC
DOI: 10.1016/j.mri.2021.10.012
关键词
Brain tumour segmentation; Multimodal MRI; Deep learning; Densely connected CNN
资金
- McDonnell Center for Systems Neuroscience at Washington University
- [1U54MH091657]
This study developed an automated method for brain tumour segmentation using multimodal brain scans and manual annotations, achieving high accuracy through ensemble learning and data transfer techniques even with a small dataset.
Automated brain tumour segmentation from post-operative images is a clinically relevant yet challenging problem. In this study, an automated method for segmenting brain tumour into its subregions has been developed. The dataset consists of multimodal post-operative brain scans (T1 MRI, post-Gadolinium T1 MRI, and T2FLAIR images) of 15 patients who were treated with post-operative radiation therapy, along with manual annotations of their tumour subregions. A 3D densely-connected U-net was developed for segmentation of brain tumour regions and extensive experiments were conducted to enhance model accuracy. A model was initially developed using the publicly available BraTS dataset consisting of pre-operative brain scans. This model achieved Dice Scores of 0.90, 0.83 and 0.78 for predicting whole tumour, tumour core, and enhancing tumour subregions when tested on BraTS20 blind validation dataset. The acquired knowledge from BraTS was then transferred to the local dataset. For augmentation purpose, the local dataset was registered to a dataset of MRI brain scans of healthy subjects. To improve the robustness of the model and enhance its accuracy, ensemble learning was used to combine the outputs of all the trained models. Even though the size of the dataset is very small, the final model can segment brain tumours with a high Dice Score of 0.83, 0.77 and 0.60 for whole tumour, tumour core and enhancing core respectively.
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