Crown-Like Structures in Breast Adipose Tissue: Finding a 'Needle-in-a-Haystack' using Artificial Intelligence and Collaborative Active Learning on the Web
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arXiv
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| Autores principales: | , , , , , , , , , , |
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| Formato: | Preprint |
| Publicado: |
2024
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| _version_ | 1866909313504641024 |
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| author | Bhawsar, Praphulla MS Ramin, Cody Lenz, Petra Duggan, Máire A Harris, Alexandra R Jenkins, Brittany Cora, Renata Abubakar, Mustapha Gierach, Gretchen Saltz, Joel Almeida, Jonas S |
| author_facet | Bhawsar, Praphulla MS Ramin, Cody Lenz, Petra Duggan, Máire A Harris, Alexandra R Jenkins, Brittany Cora, Renata Abubakar, Mustapha Gierach, Gretchen Saltz, Joel Almeida, Jonas S |
| contents | Crown-like structures (CLS) in breast adipose tissue are formed as a result of macrophages clustering around necrotic adipocytes in specific patterns. As a histologic marker of local inflammation, CLS could have potential diagnostic utility as a biomarker for breast cancer risk. However, given the scale of whole slide images and the rarity of CLS (a few cells in an entire tissue sample), microscope-based manual identification is a challenge for the pathologist. In this report, we describe an artificial intelligence pipeline to solve this needle-in-a-haystack problem. We developed a zero-cost, zero-footprint web platform to enable remote operation on digital whole slide imaging data directly in the web browser, supporting collaborative annotation of the data by multiple experts. The annotated images then allow for incremental training and fine tuning of deep neural networks via active learning. The platform is reusable and requires no backend or installations, thus ensuring the data remains secure and private under the governance of the end user. Using this platform, we iteratively trained a CLS identification model, evaluating the performance after each round and adding examples to the training data to overcome failure cases. The resulting model, with an AUC of 0.90, shows promise as a first-pass screening tool to detect CLS in breast adipose tissue, considerably reducing the workload of the pathologist.
Platform available at: https://episphere.github.io/path |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2409_08275 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Crown-Like Structures in Breast Adipose Tissue: Finding a 'Needle-in-a-Haystack' using Artificial Intelligence and Collaborative Active Learning on the Web Bhawsar, Praphulla MS Ramin, Cody Lenz, Petra Duggan, Máire A Harris, Alexandra R Jenkins, Brittany Cora, Renata Abubakar, Mustapha Gierach, Gretchen Saltz, Joel Almeida, Jonas S Quantitative Methods Crown-like structures (CLS) in breast adipose tissue are formed as a result of macrophages clustering around necrotic adipocytes in specific patterns. As a histologic marker of local inflammation, CLS could have potential diagnostic utility as a biomarker for breast cancer risk. However, given the scale of whole slide images and the rarity of CLS (a few cells in an entire tissue sample), microscope-based manual identification is a challenge for the pathologist. In this report, we describe an artificial intelligence pipeline to solve this needle-in-a-haystack problem. We developed a zero-cost, zero-footprint web platform to enable remote operation on digital whole slide imaging data directly in the web browser, supporting collaborative annotation of the data by multiple experts. The annotated images then allow for incremental training and fine tuning of deep neural networks via active learning. The platform is reusable and requires no backend or installations, thus ensuring the data remains secure and private under the governance of the end user. Using this platform, we iteratively trained a CLS identification model, evaluating the performance after each round and adding examples to the training data to overcome failure cases. The resulting model, with an AUC of 0.90, shows promise as a first-pass screening tool to detect CLS in breast adipose tissue, considerably reducing the workload of the pathologist. Platform available at: https://episphere.github.io/path |
| title | Crown-Like Structures in Breast Adipose Tissue: Finding a 'Needle-in-a-Haystack' using Artificial Intelligence and Collaborative Active Learning on the Web |
| topic | Quantitative Methods |
| url | https://arxiv.org/abs/2409.08275 |