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| Main Authors: | , , , , |
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| Format: | Preprint |
| Published: |
2025
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| Subjects: | |
| Online Access: | https://arxiv.org/abs/2502.04946 |
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| _version_ | 1866912681875734528 |
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| author | Myles, Craig Um, In Hwa Marshall, Craig Harris-Birtill, David Harrison, David J. |
| author_facet | Myles, Craig Um, In Hwa Marshall, Craig Harris-Birtill, David Harrison, David J. |
| contents | Cancer remains one of the leading causes of morbidity and mortality worldwide. Comprehensive datasets that combine histopathological images with genetic and survival data across various tumour sites are essential for advancing computational pathology and personalised medicine. We present SurGen, a dataset comprising 1,020 H&E-stained whole-slide images (WSIs) from 843 colorectal cancer cases. The dataset includes detailed annotations for key genetic mutations (KRAS, NRAS, BRAF) and mismatch repair status, as well as survival data for 426 cases. We illustrate SurGen's utility with a proof-of-concept model that predicts mismatch repair status directly from WSIs, achieving a test area under the receiver operating characteristic curve of 0.8273. These preliminary results underscore the dataset's potential to facilitate research in biomarker discovery, prognostic modelling, and advanced machine learning applications in colorectal cancer and beyond. SurGen offers a valuable resource for the scientific community, enabling studies that require high-quality WSIs linked with comprehensive clinical and genetic information on colorectal cancer. Our initial findings affirm the dataset's capacity to advance diagnostic precision and foster the development of personalised treatment strategies in colorectal oncology. Data available online: https://doi.org/10.6019/S-BIAD1285. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2502_04946 |
| institution | arXiv |
| publishDate | 2025 |
| record_format | arxiv |
| spellingShingle | SurGen: 1020 H&E-stained Whole Slide Images With Survival and Genetic Markers Myles, Craig Um, In Hwa Marshall, Craig Harris-Birtill, David Harrison, David J. Computer Vision and Pattern Recognition Cancer remains one of the leading causes of morbidity and mortality worldwide. Comprehensive datasets that combine histopathological images with genetic and survival data across various tumour sites are essential for advancing computational pathology and personalised medicine. We present SurGen, a dataset comprising 1,020 H&E-stained whole-slide images (WSIs) from 843 colorectal cancer cases. The dataset includes detailed annotations for key genetic mutations (KRAS, NRAS, BRAF) and mismatch repair status, as well as survival data for 426 cases. We illustrate SurGen's utility with a proof-of-concept model that predicts mismatch repair status directly from WSIs, achieving a test area under the receiver operating characteristic curve of 0.8273. These preliminary results underscore the dataset's potential to facilitate research in biomarker discovery, prognostic modelling, and advanced machine learning applications in colorectal cancer and beyond. SurGen offers a valuable resource for the scientific community, enabling studies that require high-quality WSIs linked with comprehensive clinical and genetic information on colorectal cancer. Our initial findings affirm the dataset's capacity to advance diagnostic precision and foster the development of personalised treatment strategies in colorectal oncology. Data available online: https://doi.org/10.6019/S-BIAD1285. |
| title | SurGen: 1020 H&E-stained Whole Slide Images With Survival and Genetic Markers |
| topic | Computer Vision and Pattern Recognition |
| url | https://arxiv.org/abs/2502.04946 |