Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhages
Abstract Cerebral microhemorrhages (CMHs) are associated with cerebrovascular disease, cognitive impairment, and normal aging. One method to study CMHs is to analyze histological sections (5–40 μm) stained with Prussian blue. Currently, users manually and subjectively identify and quantify Prussian...
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2021-05-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-021-88236-1 |
| _version_ | 1818842657283112960 |
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| author | Christian Crouzet Gwangjin Jeong Rachel H. Chae Krystal T. LoPresti Cody E. Dunn Danny F. Xie Chiagoziem Agu Chuo Fang Ane C. F. Nunes Wei Ling Lau Sehwan Kim David H. Cribbs Mark Fisher Bernard Choi |
| author_facet | Christian Crouzet Gwangjin Jeong Rachel H. Chae Krystal T. LoPresti Cody E. Dunn Danny F. Xie Chiagoziem Agu Chuo Fang Ane C. F. Nunes Wei Ling Lau Sehwan Kim David H. Cribbs Mark Fisher Bernard Choi |
| author_sort | Christian Crouzet |
| collection | DOAJ |
| description | Abstract Cerebral microhemorrhages (CMHs) are associated with cerebrovascular disease, cognitive impairment, and normal aging. One method to study CMHs is to analyze histological sections (5–40 μm) stained with Prussian blue. Currently, users manually and subjectively identify and quantify Prussian blue-stained regions of interest, which is prone to inter-individual variability and can lead to significant delays in data analysis. To improve this labor-intensive process, we developed and compared three digital pathology approaches to identify and quantify CMHs from Prussian blue-stained brain sections: (1) ratiometric analysis of RGB pixel values, (2) phasor analysis of RGB images, and (3) deep learning using a mask region-based convolutional neural network. We applied these approaches to a preclinical mouse model of inflammation-induced CMHs. One-hundred CMHs were imaged using a 20 × objective and RGB color camera. To determine the ground truth, four users independently annotated Prussian blue-labeled CMHs. The deep learning and ratiometric approaches performed better than the phasor analysis approach compared to the ground truth. The deep learning approach had the most precision of the three methods. The ratiometric approach has the most versatility and maintained accuracy, albeit with less precision. Our data suggest that implementing these methods to analyze CMH images can drastically increase the processing speed while maintaining precision and accuracy. |
| first_indexed | 2024-12-19T04:45:27Z |
| format | Article |
| id | doaj.art-21eb399e283e4d58af842595fa6c735c |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-12-19T04:45:27Z |
| publishDate | 2021-05-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-21eb399e283e4d58af842595fa6c735c2022-12-21T20:35:30ZengNature PortfolioScientific Reports2045-23222021-05-0111111010.1038/s41598-021-88236-1Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhagesChristian Crouzet0Gwangjin Jeong1Rachel H. Chae2Krystal T. LoPresti3Cody E. Dunn4Danny F. Xie5Chiagoziem Agu6Chuo Fang7Ane C. F. Nunes8Wei Ling Lau9Sehwan Kim10David H. Cribbs11Mark Fisher12Bernard Choi13Beckman Laser Institute and Medical Clinic, University of California-IrvineDepartment of Biomedical Engineering, Beckman Laser Institute Korea, Dankook UniversityMassachusetts Institute of TechnologyBeckman Laser Institute and Medical Clinic, University of California-IrvineBeckman Laser Institute and Medical Clinic, University of California-IrvineBeckman Laser Institute and Medical Clinic, University of California-IrvineAlbany State UniversityNeurology and Pathology and Laboratory Medicine, University of California-IrvineDepartment of Medicine, Division of Nephrology, University of California-IrvineDepartment of Medicine, Division of Nephrology, University of California-IrvineDepartment of Biomedical Engineering, Beckman Laser Institute Korea, Dankook UniversityInstitute for Memory Impairments and Neurological Disorders, University of California-IrvineNeurology and Pathology and Laboratory Medicine, University of California-IrvineBeckman Laser Institute and Medical Clinic, University of California-IrvineAbstract Cerebral microhemorrhages (CMHs) are associated with cerebrovascular disease, cognitive impairment, and normal aging. One method to study CMHs is to analyze histological sections (5–40 μm) stained with Prussian blue. Currently, users manually and subjectively identify and quantify Prussian blue-stained regions of interest, which is prone to inter-individual variability and can lead to significant delays in data analysis. To improve this labor-intensive process, we developed and compared three digital pathology approaches to identify and quantify CMHs from Prussian blue-stained brain sections: (1) ratiometric analysis of RGB pixel values, (2) phasor analysis of RGB images, and (3) deep learning using a mask region-based convolutional neural network. We applied these approaches to a preclinical mouse model of inflammation-induced CMHs. One-hundred CMHs were imaged using a 20 × objective and RGB color camera. To determine the ground truth, four users independently annotated Prussian blue-labeled CMHs. The deep learning and ratiometric approaches performed better than the phasor analysis approach compared to the ground truth. The deep learning approach had the most precision of the three methods. The ratiometric approach has the most versatility and maintained accuracy, albeit with less precision. Our data suggest that implementing these methods to analyze CMH images can drastically increase the processing speed while maintaining precision and accuracy.https://doi.org/10.1038/s41598-021-88236-1 |
| spellingShingle | Christian Crouzet Gwangjin Jeong Rachel H. Chae Krystal T. LoPresti Cody E. Dunn Danny F. Xie Chiagoziem Agu Chuo Fang Ane C. F. Nunes Wei Ling Lau Sehwan Kim David H. Cribbs Mark Fisher Bernard Choi Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhages Scientific Reports |
| title | Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhages |
| title_full | Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhages |
| title_fullStr | Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhages |
| title_full_unstemmed | Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhages |
| title_short | Spectroscopic and deep learning-based approaches to identify and quantify cerebral microhemorrhages |
| title_sort | spectroscopic and deep learning based approaches to identify and quantify cerebral microhemorrhages |
| url | https://doi.org/10.1038/s41598-021-88236-1 |
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