A comprehensive multi-domain dataset for mitotic figure detection
Aubreville, Marc; Wilm, Frauke; Stathonikos, Nikolas; Breininger, Katharina; Donovan, Taryn A; Jabari, Samir; Veta, Mitko; Ganz, Jonathan; Ammeling, Jonas; van Diest, Paul J; Klopfleisch, Robert; Bertram, Christof A
(2023) Scientific data, volume 10, issue 1
(Article)
Abstract
The prognostic value of mitotic figures in tumor tissue is well-established for many tumor types and automating this task is of high research interest. However, especially deep learning-based methods face performance deterioration in the presence of domain shifts, which may arise from different tumor types, slide preparation and digitization devices.
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We introduce the MIDOG++ dataset, an extension of the MIDOG 2021 and 2022 challenge datasets. We provide region of interest images from 503 histological specimens of seven different tumor types with variable morphology with in total labels for 11,937 mitotic figures: breast carcinoma, lung carcinoma, lymphosarcoma, neuroendocrine tumor, cutaneous mast cell tumor, cutaneous melanoma, and (sub)cutaneous soft tissue sarcoma. The specimens were processed in several laboratories utilizing diverse scanners. We evaluated the extent of the domain shift by using state-of-the-art approaches, observing notable differences in single-domain training. In a leave-one-domain-out setting, generalizability improved considerably. This mitotic figure dataset is the first that incorporates a wide domain shift based on different tumor types, laboratories, whole slide image scanners, and species.
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Keywords: Algorithms, Humans, Mitosis, Neoplasms/pathology, Prognosis, Information Systems, Education, Library and Information Sciences, Statistics and Probability, Computer Science Applications, Statistics, Probability and Uncertainty, Research Support, Non-U.S. Gov't, Dataset, Journal Article
ISSN: 2052-4463
Publisher: Nature Research
Note: Funding Information: M.A. and J.A acknowledge support from the Bavarian Institute for Digital Transformation (project ReGInA). F.W. gratefully acknowledges the financial support received by Merck Healthcare KGaA. K.B. acknowledges support by d.hip campus - Bavarian aim in form of a faculty endowment and support by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) project number 460333672–CRC 1540 Exploring Brain Mechanics (subproject X02). The authors would like to thank Markus Eckstein (UK Erlangen) for contributing tissue to the MIDOG 2022 test set and Schwarzman AMC New York for providing financing for additional staining of the MIDOG 2022 test set. We would also like to thank the Pattern Recognition Lab, Department of Computer Science, FAU Erlangen-Nürnberg for providing additional computational resources for this work. Funding Information: M.A. and J.A acknowledge support from the Bavarian Institute for Digital Transformation (project ReGInA). F.W. gratefully acknowledges the financial support received by Merck Healthcare KGaA. K.B. acknowledges support by d.hip campus - Bavarian aim in form of a faculty endowment and support by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) project number 460333672–CRC 1540 Exploring Brain Mechanics (subproject X02). The authors would like to thank Markus Eckstein (UK Erlangen) for contributing tissue to the MIDOG 2022 test set and Schwarzman AMC New York for providing financing for additional staining of the MIDOG 2022 test set. We would also like to thank the Pattern Recognition Lab, Department of Computer Science, FAU Erlangen-Nürnberg for providing additional computational resources for this work. Publisher Copyright: © 2023, The Author(s).
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