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| Main Authors: | , , , , , , , , , , |
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| Format: | Preprint |
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2024
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| Subjects: | |
| Online Access: | https://arxiv.org/abs/2403.02531 |
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| _version_ | 1866911789179994112 |
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| author | Yousefi, Bardia Khansari, Mélina Trask, Ryan Tallon, Patrick Carino, Carina Afrasiyabi, Arman Kundra, Vikas Ma, Lan Ren, Lei Farahani, Keyvan Hershman, Michelle |
| author_facet | Yousefi, Bardia Khansari, Mélina Trask, Ryan Tallon, Patrick Carino, Carina Afrasiyabi, Arman Kundra, Vikas Ma, Lan Ren, Lei Farahani, Keyvan Hershman, Michelle |
| contents | The isometric mapping method employs the shortest path algorithm to estimate the Euclidean distance between points on High dimensional (HD) manifolds. This may not be sufficient for weakly uniformed HD data as it could lead to overestimating distances between far neighboring points, resulting in inconsistencies between the intrinsic (local) and extrinsic (global) distances during the projection. To address this issue, we modify the shortest path algorithm by adding a novel constraint inspired by the Parzen-Rosenblatt (PR) window, which helps to maintain the uniformity of the constructed shortest-path graph in Isomap. Multiple imaging datasets overall of 72,236 cases, 70,000 MINST data, 1596 from multiple Chest-XRay pneumonia datasets, and three NSCLC CT/PET datasets with a total of 640 lung cancer patients, were used to benchmark and validate PR-Isomap. 431 imaging biomarkers were extracted from each modality. Our results indicate that PR-Isomap projects HD attributes into a lower-dimensional (LD) space while preserving information, visualized by the MNIST dataset indicating the maintaining local and global distances. PR-Isomap achieved the highest comparative accuracies of 80.9% (STD:5.8) for pneumonia and 78.5% (STD:4.4), 88.4% (STD:1.4), and 61.4% (STD:11.4) for three NSCLC datasets, with a confidence interval of 95% for outcome prediction. Similarly, the multivariate Cox model showed higher overall survival, measured with c-statistics and log-likelihood test, of PR-Isomap compared to other dimensionality reduction methods. Kaplan Meier survival curve also signifies the notable ability of PR-Isomap to distinguish between high-risk and low-risk patients using multimodal imaging biomarkers preserving HD imaging characteristics for precision medicine. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2403_02531 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Density-based Isometric Mapping Yousefi, Bardia Khansari, Mélina Trask, Ryan Tallon, Patrick Carino, Carina Afrasiyabi, Arman Kundra, Vikas Ma, Lan Ren, Lei Farahani, Keyvan Hershman, Michelle Machine Learning Computer Vision and Pattern Recognition The isometric mapping method employs the shortest path algorithm to estimate the Euclidean distance between points on High dimensional (HD) manifolds. This may not be sufficient for weakly uniformed HD data as it could lead to overestimating distances between far neighboring points, resulting in inconsistencies between the intrinsic (local) and extrinsic (global) distances during the projection. To address this issue, we modify the shortest path algorithm by adding a novel constraint inspired by the Parzen-Rosenblatt (PR) window, which helps to maintain the uniformity of the constructed shortest-path graph in Isomap. Multiple imaging datasets overall of 72,236 cases, 70,000 MINST data, 1596 from multiple Chest-XRay pneumonia datasets, and three NSCLC CT/PET datasets with a total of 640 lung cancer patients, were used to benchmark and validate PR-Isomap. 431 imaging biomarkers were extracted from each modality. Our results indicate that PR-Isomap projects HD attributes into a lower-dimensional (LD) space while preserving information, visualized by the MNIST dataset indicating the maintaining local and global distances. PR-Isomap achieved the highest comparative accuracies of 80.9% (STD:5.8) for pneumonia and 78.5% (STD:4.4), 88.4% (STD:1.4), and 61.4% (STD:11.4) for three NSCLC datasets, with a confidence interval of 95% for outcome prediction. Similarly, the multivariate Cox model showed higher overall survival, measured with c-statistics and log-likelihood test, of PR-Isomap compared to other dimensionality reduction methods. Kaplan Meier survival curve also signifies the notable ability of PR-Isomap to distinguish between high-risk and low-risk patients using multimodal imaging biomarkers preserving HD imaging characteristics for precision medicine. |
| title | Density-based Isometric Mapping |
| topic | Machine Learning Computer Vision and Pattern Recognition |
| url | https://arxiv.org/abs/2403.02531 |