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Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients

Every year thousands of patients are diagnosed with a glioma, a type of malignant brain tumor. MRI plays an essential role in the diagnosis and treatment assessment of these patients. Neural networks show great potential to aid physicians in the medical image analysis. This study investigated the cr...

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Autores principales: Carver, Eric Nathan, Dai, Zhenzhen, Liang, Evan, Snyder, James, Wen, Ning
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7873446/
https://www.ncbi.nlm.nih.gov/pubmed/33584233
http://dx.doi.org/10.3389/fncom.2020.495075
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author Carver, Eric Nathan
Dai, Zhenzhen
Liang, Evan
Snyder, James
Wen, Ning
author_facet Carver, Eric Nathan
Dai, Zhenzhen
Liang, Evan
Snyder, James
Wen, Ning
author_sort Carver, Eric Nathan
collection PubMed
description Every year thousands of patients are diagnosed with a glioma, a type of malignant brain tumor. MRI plays an essential role in the diagnosis and treatment assessment of these patients. Neural networks show great potential to aid physicians in the medical image analysis. This study investigated the creation of synthetic brain T1-weighted (T1), post-contrast T1-weighted (T1CE), T2-weighted (T2), and T2 Fluid Attenuated Inversion Recovery (Flair) MR images. These synthetic MR (synMR) images were assessed quantitatively with four metrics. The synMR images were also assessed qualitatively by an authoring physician with notions that synMR possessed realism in its portrayal of structural boundaries but struggled to accurately depict tumor heterogeneity. Additionally, this study investigated the synMR images created by generative adversarial network (GAN) to overcome the lack of annotated medical image data in training U-Nets to segment enhancing tumor, whole tumor, and tumor core regions on gliomas. Multiple two-dimensional (2D) U-Nets were trained with original BraTS data and differing subsets of the synMR images. Dice similarity coefficient (DSC) was used as the loss function during training as well a quantitative metric. Additionally, Hausdorff Distance 95% CI (HD) was used to judge the quality of the contours created by these U-Nets. The model performance was improved in both DSC and HD when incorporating synMR in the training set. In summary, this study showed the ability to generate high quality Flair, T2, T1, and T1CE synMR images using GAN. Using synMR images showed encouraging results to improve the U-Net segmentation performance and shows potential to address the scarcity of annotated medical images.
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spelling pubmed-78734462021-02-11 Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients Carver, Eric Nathan Dai, Zhenzhen Liang, Evan Snyder, James Wen, Ning Front Comput Neurosci Neuroscience Every year thousands of patients are diagnosed with a glioma, a type of malignant brain tumor. MRI plays an essential role in the diagnosis and treatment assessment of these patients. Neural networks show great potential to aid physicians in the medical image analysis. This study investigated the creation of synthetic brain T1-weighted (T1), post-contrast T1-weighted (T1CE), T2-weighted (T2), and T2 Fluid Attenuated Inversion Recovery (Flair) MR images. These synthetic MR (synMR) images were assessed quantitatively with four metrics. The synMR images were also assessed qualitatively by an authoring physician with notions that synMR possessed realism in its portrayal of structural boundaries but struggled to accurately depict tumor heterogeneity. Additionally, this study investigated the synMR images created by generative adversarial network (GAN) to overcome the lack of annotated medical image data in training U-Nets to segment enhancing tumor, whole tumor, and tumor core regions on gliomas. Multiple two-dimensional (2D) U-Nets were trained with original BraTS data and differing subsets of the synMR images. Dice similarity coefficient (DSC) was used as the loss function during training as well a quantitative metric. Additionally, Hausdorff Distance 95% CI (HD) was used to judge the quality of the contours created by these U-Nets. The model performance was improved in both DSC and HD when incorporating synMR in the training set. In summary, this study showed the ability to generate high quality Flair, T2, T1, and T1CE synMR images using GAN. Using synMR images showed encouraging results to improve the U-Net segmentation performance and shows potential to address the scarcity of annotated medical images. Frontiers Media S.A. 2021-01-27 /pmc/articles/PMC7873446/ /pubmed/33584233 http://dx.doi.org/10.3389/fncom.2020.495075 Text en Copyright © 2021 Carver, Dai, Liang, Snyder and Wen. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Neuroscience
Carver, Eric Nathan
Dai, Zhenzhen
Liang, Evan
Snyder, James
Wen, Ning
Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients
title Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients
title_full Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients
title_fullStr Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients
title_full_unstemmed Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients
title_short Improvement of Multiparametric MR Image Segmentation by Augmenting the Data With Generative Adversarial Networks for Glioma Patients
title_sort improvement of multiparametric mr image segmentation by augmenting the data with generative adversarial networks for glioma patients
topic Neuroscience
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7873446/
https://www.ncbi.nlm.nih.gov/pubmed/33584233
http://dx.doi.org/10.3389/fncom.2020.495075
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