Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applications
Depth-dependent fluence-compensation in photoacoustic (PA) imaging is paramount for accurate quantification of chromophores from deep tissues. Here we present a user-friendly toolkit named PHANTOM (PHotoacoustic ANnotation TOolkit for MATLAB) that includes a graphical interface and assists in the se...
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| Format: | Article |
| Language: | English |
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Elsevier
2025-02-01
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| Series: | Photoacoustics |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S221359792400079X |
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| author | Allison Sweeney Aayush Arora Skye A. Edwards Srivalleesha Mallidi |
| author_facet | Allison Sweeney Aayush Arora Skye A. Edwards Srivalleesha Mallidi |
| author_sort | Allison Sweeney |
| collection | DOAJ |
| description | Depth-dependent fluence-compensation in photoacoustic (PA) imaging is paramount for accurate quantification of chromophores from deep tissues. Here we present a user-friendly toolkit named PHANTOM (PHotoacoustic ANnotation TOolkit for MATLAB) that includes a graphical interface and assists in the segmentation of ultrasound-guided PA images. We modelled the light source configuration with Monte Carlo eXtreme and utilized 3D segmented tissues from ultrasound to generate fluence maps to depth compensate PA images. The methodology was used to analyze PA images of phantoms with varying blood oxygenation and results were validated with oxygen electrode measurements. Two preclinical models, a subcutaneous tumor and a calcified placenta, were imaged and fluence-compensated using the PHANTOM toolkit and the results were verified with immunohistochemistry. The PHANTOM toolkit provides scripts and auxiliary functions to enable biomedical researchers not specialized in optical imaging to apply fluence correction to PA images, enhancing accessibility of quantitative PAI for researchers in various fields. |
| format | Article |
| id | doaj-art-4bca32437489422aa02e6fd11a3de9e3 |
| institution | Kabale University |
| issn | 2213-5979 |
| language | English |
| publishDate | 2025-02-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Photoacoustics |
| spelling | doaj-art-4bca32437489422aa02e6fd11a3de9e32025-01-17T04:49:28ZengElsevierPhotoacoustics2213-59792025-02-0141100662Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applicationsAllison Sweeney0Aayush Arora1Skye A. Edwards2Srivalleesha Mallidi3Department of Biomedical Engineering, Tufts University, Medford, MA, United StatesDepartment of Biomedical Engineering, Tufts University, Medford, MA, United StatesDepartment of Biomedical Engineering, Tufts University, Medford, MA, United StatesDepartment of Biomedical Engineering, Tufts University, Medford, MA, United States; Wellman Center for Photomedicine, Massachusetts General Hospital, Boston, MA, United States; Corresponding author at: Department of Biomedical Engineering, Tufts University, Medford, MA, United States.Depth-dependent fluence-compensation in photoacoustic (PA) imaging is paramount for accurate quantification of chromophores from deep tissues. Here we present a user-friendly toolkit named PHANTOM (PHotoacoustic ANnotation TOolkit for MATLAB) that includes a graphical interface and assists in the segmentation of ultrasound-guided PA images. We modelled the light source configuration with Monte Carlo eXtreme and utilized 3D segmented tissues from ultrasound to generate fluence maps to depth compensate PA images. The methodology was used to analyze PA images of phantoms with varying blood oxygenation and results were validated with oxygen electrode measurements. Two preclinical models, a subcutaneous tumor and a calcified placenta, were imaged and fluence-compensated using the PHANTOM toolkit and the results were verified with immunohistochemistry. The PHANTOM toolkit provides scripts and auxiliary functions to enable biomedical researchers not specialized in optical imaging to apply fluence correction to PA images, enhancing accessibility of quantitative PAI for researchers in various fields.http://www.sciencedirect.com/science/article/pii/S221359792400079XPreclinical imagingDepth dependent fluence compensationToolkitOxygen saturation |
| spellingShingle | Allison Sweeney Aayush Arora Skye A. Edwards Srivalleesha Mallidi Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applications Photoacoustics Preclinical imaging Depth dependent fluence compensation Toolkit Oxygen saturation |
| title | Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applications |
| title_full | Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applications |
| title_fullStr | Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applications |
| title_full_unstemmed | Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applications |
| title_short | Ultrasound-guided photoacoustic image annotation toolkit in MATLAB (PHANTOM) for preclinical applications |
| title_sort | ultrasound guided photoacoustic image annotation toolkit in matlab phantom for preclinical applications |
| topic | Preclinical imaging Depth dependent fluence compensation Toolkit Oxygen saturation |
| url | http://www.sciencedirect.com/science/article/pii/S221359792400079X |
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