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Deep transfer learning to quantify pleural effusion severity in chest X-rays
PURPOSE: The detection of pleural effusion in chest radiography is crucial for doctors to make timely treatment decisions for patients with chronic obstructive pulmonary disease. We used the MIMIC-CXR database to develop a deep learning model to quantify pleural effusion severity in chest radiograph...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9137166/ https://www.ncbi.nlm.nih.gov/pubmed/35624426 http://dx.doi.org/10.1186/s12880-022-00827-0 |
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author | Huang, Tao Yang, Rui Shen, Longbin Feng, Aozi Li, Li He, Ningxia Li, Shuna Huang, Liying Lyu, Jun |
author_facet | Huang, Tao Yang, Rui Shen, Longbin Feng, Aozi Li, Li He, Ningxia Li, Shuna Huang, Liying Lyu, Jun |
author_sort | Huang, Tao |
collection | PubMed |
description | PURPOSE: The detection of pleural effusion in chest radiography is crucial for doctors to make timely treatment decisions for patients with chronic obstructive pulmonary disease. We used the MIMIC-CXR database to develop a deep learning model to quantify pleural effusion severity in chest radiographs. METHODS: The Medical Information Mart for Intensive Care Chest X-ray (MIMIC-CXR) dataset was divided into patients ‘with’ or ‘without’ chronic obstructive pulmonary disease (COPD). The label of pleural effusion severity was obtained from the extracted COPD radiology reports and classified into four categories: no effusion, small effusion, moderate effusion, and large effusion. A total of 200 datasets were randomly sampled to manually check each item and determine whether the tags are correct. A professional doctor re-tagged these items as a verification cohort without knowing their previous tags. The learning models include eight common network structures including Resnet, DenseNet, and GoogleNET. Three data processing methods (no sampling, downsampling, and upsampling) and two loss algorithms (focal loss and cross-entropy loss) were used for unbalanced data. The Neural Network Intelligence tool was applied to train the model. Receiver operating characteristic curves, Area under the curve, and confusion matrix were employed to evaluate the model results. Grad-CAM was used for model interpretation. RESULTS: Among the 8533 patients, 15,620 chest X-rays with clearly marked pleural effusion severity were obtained (no effusion, 5685; small effusion, 4877; moderate effusion, 3657; and large effusion, 1401). The error rate of the manual check label was 6.5%, and the error rate of the doctor’s relabeling was 11.0%. The highest accuracy rate of the optimized model was 73.07. The micro-average AUCs of the testing and validation cohorts was 0.89 and 0.90, respectively, and their macro-average AUCs were 0.86 and 0.89, respectively. The AUC of the distinguishing results of each class and the other three classes were 0.95 and 0.94, 0.76 and 0.83, 0.85 and 0.83, and 0.87 and 0.93. CONCLUSION: The deep transfer learning model can grade the severity of pleural effusion. |
format | Online Article Text |
id | pubmed-9137166 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-91371662022-05-28 Deep transfer learning to quantify pleural effusion severity in chest X-rays Huang, Tao Yang, Rui Shen, Longbin Feng, Aozi Li, Li He, Ningxia Li, Shuna Huang, Liying Lyu, Jun BMC Med Imaging Research PURPOSE: The detection of pleural effusion in chest radiography is crucial for doctors to make timely treatment decisions for patients with chronic obstructive pulmonary disease. We used the MIMIC-CXR database to develop a deep learning model to quantify pleural effusion severity in chest radiographs. METHODS: The Medical Information Mart for Intensive Care Chest X-ray (MIMIC-CXR) dataset was divided into patients ‘with’ or ‘without’ chronic obstructive pulmonary disease (COPD). The label of pleural effusion severity was obtained from the extracted COPD radiology reports and classified into four categories: no effusion, small effusion, moderate effusion, and large effusion. A total of 200 datasets were randomly sampled to manually check each item and determine whether the tags are correct. A professional doctor re-tagged these items as a verification cohort without knowing their previous tags. The learning models include eight common network structures including Resnet, DenseNet, and GoogleNET. Three data processing methods (no sampling, downsampling, and upsampling) and two loss algorithms (focal loss and cross-entropy loss) were used for unbalanced data. The Neural Network Intelligence tool was applied to train the model. Receiver operating characteristic curves, Area under the curve, and confusion matrix were employed to evaluate the model results. Grad-CAM was used for model interpretation. RESULTS: Among the 8533 patients, 15,620 chest X-rays with clearly marked pleural effusion severity were obtained (no effusion, 5685; small effusion, 4877; moderate effusion, 3657; and large effusion, 1401). The error rate of the manual check label was 6.5%, and the error rate of the doctor’s relabeling was 11.0%. The highest accuracy rate of the optimized model was 73.07. The micro-average AUCs of the testing and validation cohorts was 0.89 and 0.90, respectively, and their macro-average AUCs were 0.86 and 0.89, respectively. The AUC of the distinguishing results of each class and the other three classes were 0.95 and 0.94, 0.76 and 0.83, 0.85 and 0.83, and 0.87 and 0.93. CONCLUSION: The deep transfer learning model can grade the severity of pleural effusion. BioMed Central 2022-05-27 /pmc/articles/PMC9137166/ /pubmed/35624426 http://dx.doi.org/10.1186/s12880-022-00827-0 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Huang, Tao Yang, Rui Shen, Longbin Feng, Aozi Li, Li He, Ningxia Li, Shuna Huang, Liying Lyu, Jun Deep transfer learning to quantify pleural effusion severity in chest X-rays |
title | Deep transfer learning to quantify pleural effusion severity in chest X-rays |
title_full | Deep transfer learning to quantify pleural effusion severity in chest X-rays |
title_fullStr | Deep transfer learning to quantify pleural effusion severity in chest X-rays |
title_full_unstemmed | Deep transfer learning to quantify pleural effusion severity in chest X-rays |
title_short | Deep transfer learning to quantify pleural effusion severity in chest X-rays |
title_sort | deep transfer learning to quantify pleural effusion severity in chest x-rays |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9137166/ https://www.ncbi.nlm.nih.gov/pubmed/35624426 http://dx.doi.org/10.1186/s12880-022-00827-0 |
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