Publikationen

2025

Comprehensive Dataset of Coarse Tumor Annotations for The Cancer Genome Atlas Breast Invasive Carcinoma

Banerjee, S. ", Bertram, C. A., Ammeling, J., Weiss, V., Conrad, T., Klopfleisch, R., … Aubreville, M. (2025). Comprehensive Dataset of Coarse Tumor Annotations for The Cancer Genome Atlas Breast Invasive Carcinoma. In Bildverarbeitung für die Medizin 2025 (S. 260–265). Wiesbaden: Springer Fachmedien Wiesbaden. http://doi.org/10.1007/978-3-658-47422-5_56

Abstract

Automated tumor segmentation of histologic images is crucial for the development of computer-assisted diagnostic workflows aiming at accurate prognostication. We present a dataset of coarse annotations of over 1,000 highresolution breast tumor images from The cancer genome atlas breast invasive carcinoma (TCGA-BRCA) repository, each annotated with binary segmentation masks that delineate coarse tumor areas. Additionally, a subset of 20 images includes fine-grained annotations, providing precise delineation of tumor boundaries beyond the broader outlines used in coarse annotations. Initial evaluations using U-Net and DeepLabv3 models show promising segmentation performance. On a held-out, coarsely annotated test set, U-Net achieved an average intersection over union (IoU) score of 0.795, while DeepLabv3 scored 0.783. On the finely annotated subset of this test set, U-Net reached an average IoU of 0.746, with DeepLabv3 slightly outperforming at 0.765. The public availability of this dataset aims to support research in automated tumor analysis, advancing diagnostic workflows and thereby ultimately improving breast cancer management.

2025

Comprehensive Dataset of Coarse Tumor Annotations for The Cancer Genome Atlas Breast Invasive Carcinoma

Abstract

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