Adult Glioma Segmentation in Sub-Saharan Africa using Transfer Learning on Stratified Finetuning Data
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arXiv
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| Auteurs principaux: | , , , , , , , |
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| Format: | Preprint |
| Publié: |
2024
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| _version_ | 1866915074824732672 |
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| author | Parida, Abhijeet Capellán-Martín, Daniel Jiang, Zhifan Tapp, Austin Liu, Xinyang Anwar, Syed Muhammad Ledesma-Carbayo, María J. Linguraru, Marius George |
| author_facet | Parida, Abhijeet Capellán-Martín, Daniel Jiang, Zhifan Tapp, Austin Liu, Xinyang Anwar, Syed Muhammad Ledesma-Carbayo, María J. Linguraru, Marius George |
| contents | Gliomas, a kind of brain tumor characterized by high mortality, present substantial diagnostic challenges in low- and middle-income countries, particularly in Sub-Saharan Africa. This paper introduces a novel approach to glioma segmentation using transfer learning to address challenges in resource-limited regions with minimal and low-quality MRI data. We leverage pre-trained deep learning models, nnU-Net and MedNeXt, and apply a stratified fine-tuning strategy using the BraTS2023-Adult-Glioma and BraTS-Africa datasets. Our method exploits radiomic analysis to create stratified training folds, model training on a large brain tumor dataset, and transfer learning to the Sub-Saharan context. A weighted model ensembling strategy and adaptive post-processing are employed to enhance segmentation accuracy. The evaluation of our proposed method on unseen validation cases on the BraTS-Africa 2024 task resulted in lesion-wise mean Dice scores of 0.870, 0.865, and 0.926, for enhancing tumor, tumor core, and whole tumor regions and was ranked first for the challenge. Our approach highlights the ability of integrated machine-learning techniques to bridge the gap between the medical imaging capabilities of resource-limited countries and established developed regions. By tailoring our methods to a target population's specific needs and constraints, we aim to enhance diagnostic capabilities in isolated environments. Our findings underscore the importance of approaches like local data integration and stratification refinement to address healthcare disparities, ensure practical applicability, and enhance impact.
A dockerized version of the BraTS-Africa 2024 winning algorithm is available at https://hub.docker.com/r/aparida12/brats-ssa-2024 . |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2412_04111 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Adult Glioma Segmentation in Sub-Saharan Africa using Transfer Learning on Stratified Finetuning Data Parida, Abhijeet Capellán-Martín, Daniel Jiang, Zhifan Tapp, Austin Liu, Xinyang Anwar, Syed Muhammad Ledesma-Carbayo, María J. Linguraru, Marius George Image and Video Processing Computer Vision and Pattern Recognition Gliomas, a kind of brain tumor characterized by high mortality, present substantial diagnostic challenges in low- and middle-income countries, particularly in Sub-Saharan Africa. This paper introduces a novel approach to glioma segmentation using transfer learning to address challenges in resource-limited regions with minimal and low-quality MRI data. We leverage pre-trained deep learning models, nnU-Net and MedNeXt, and apply a stratified fine-tuning strategy using the BraTS2023-Adult-Glioma and BraTS-Africa datasets. Our method exploits radiomic analysis to create stratified training folds, model training on a large brain tumor dataset, and transfer learning to the Sub-Saharan context. A weighted model ensembling strategy and adaptive post-processing are employed to enhance segmentation accuracy. The evaluation of our proposed method on unseen validation cases on the BraTS-Africa 2024 task resulted in lesion-wise mean Dice scores of 0.870, 0.865, and 0.926, for enhancing tumor, tumor core, and whole tumor regions and was ranked first for the challenge. Our approach highlights the ability of integrated machine-learning techniques to bridge the gap between the medical imaging capabilities of resource-limited countries and established developed regions. By tailoring our methods to a target population's specific needs and constraints, we aim to enhance diagnostic capabilities in isolated environments. Our findings underscore the importance of approaches like local data integration and stratification refinement to address healthcare disparities, ensure practical applicability, and enhance impact. A dockerized version of the BraTS-Africa 2024 winning algorithm is available at https://hub.docker.com/r/aparida12/brats-ssa-2024 . |
| title | Adult Glioma Segmentation in Sub-Saharan Africa using Transfer Learning on Stratified Finetuning Data |
| topic | Image and Video Processing Computer Vision and Pattern Recognition |
| url | https://arxiv.org/abs/2412.04111 |