TY - JOUR A1 - Bertram, Christof A1 - Aubreville, Marc A1 - Marzahl, Christian A1 - Maier, Andreas A1 - Klopfleisch, Robert T1 - A large-scale dataset for mitotic figure assessment on whole slide images of canine cutaneous mast cell tumor JF - Scientific data N2 - We introduce a novel, large-scale dataset for microscopy cell annotations. The dataset includes 32 whole slide images (WSI) of canine cutaneous mast cell tumors, selected to include both low grade cases as well as high grade cases. The slides have been completely annotated for mitotic figures and we provide secondary annotations for neoplastic mast cells, inflammatory granulocytes, and mitotic figure look-alikes. Additionally to a blinded two-expert manual annotation with consensus, we provide an algorithm-aided dataset, where potentially missed mitotic figures were detected by a deep neural network and subsequently assessed by two human experts. We included 262,481 annotations in total, out of which 44,880 represent mitotic figures. For algorithmic validation, we used a customized RetinaNet approach, followed by a cell classification network. We find F1-Scores of 0.786 and 0.820 for the manually labelled and the algorithm-aided dataset, respectively. The dataset provides, for the first time, WSIs completely annotated for mitotic figures and thus enables assessment of mitosis detection algorithms on complete WSIs as well as region of interest detection algorithms. UR - https://doi.org/10.1038/s41597-019-0290-4 Y1 - 2019 UR - https://doi.org/10.1038/s41597-019-0290-4 UR - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:573-11838 SN - 2052-4463 VL - 6 PB - Springer CY - London ER - TY - INPR A1 - Marzahl, Christian A1 - Bertram, Christof A1 - Aubreville, Marc A1 - Petrick, Anne A1 - Weiler, Kristina A1 - Gläsel, Agnes C. A1 - Fragoso-Garcia, Marco A1 - Merz, Sophie A1 - Bartenschlager, Florian A1 - Hoppe, Judith A1 - Langenhagen, Alina A1 - Jasensky, Anne-Katherine A1 - Voigt, Jörn A1 - Klopfleisch, Robert A1 - Maier, Andreas T1 - Are Fast Labeling Methods Reliable? A Case Study of Computer-Aided Expert Annotations on Microscopy Slides UR - https://doi.org/10.48550/arXiv.2004.05838 Y1 - 2020 UR - https://doi.org/10.48550/arXiv.2004.05838 PB - arXiv CY - Ithaca ER - TY - INPR A1 - Bertram, Christof A1 - Veta, Mitko A1 - Marzahl, Christian A1 - Stathonikos, Nikolas A1 - Maier, Andreas A1 - Klopfleisch, Robert A1 - Aubreville, Marc T1 - Are pathologist-defined labels reproducible? Comparison of the TUPAC16 mitotic figure dataset with an alternative set of labels UR - https://doi.org/10.48550/arXiv.2007.05351 Y1 - 2020 UR - https://doi.org/10.48550/arXiv.2007.05351 PB - arXiv CY - Ithaca ER - TY - INPR A1 - Aubreville, Marc A1 - Ehrensperger, Kai A1 - Maier, Andreas A1 - Rosenkranz, Tobias A1 - Graf, Benjamin A1 - Puder, Henning T1 - Deep denoising for hearing aid applications UR - https://doi.org/10.48550/arXiv.1805.01198 Y1 - 2018 UR - https://doi.org/10.48550/arXiv.1805.01198 PB - arXiv CY - Ithaca ER -