Inter-species cell detection - datasets on pulmonary hemosiderophages in equine, human and feline specimens

Marzahl C, Hill J, Stayt J, Bienzle D, Welker L, Wilm F, Voigt J, Aubreville M, Maier A, Klopfleisch R, Breininger K, Bertram CA (2022)

Publication Type: Journal article

Publication year: 2022

Journal

Book Volume: 9

Journal Issue: 1

DOI: 10.1038/s41597-022-01389-0

Abstract

Pulmonary hemorrhage (P-Hem) occurs among multiple species and can have various causes. Cytology of bronchoalveolar lavage fluid (BALF) using a 5-tier scoring system of alveolar macrophages based on their hemosiderin content is considered the most sensitive diagnostic method. We introduce a novel, fully annotated multi-species P-Hem dataset, which consists of 74 cytology whole slide images (WSIs) with equine, feline and human samples. To create this high-quality and high-quantity dataset, we developed an annotation pipeline combining human expertise with deep learning and data visualisation techniques. We applied a deep learning-based object detection approach trained on 17 expertly annotated equine WSIs, to the remaining 39 equine, 12 human and 7 feline WSIs. The resulting annotations were semi-automatically screened for errors on multiple types of specialised annotation maps and finally reviewed by a trained pathologist. Our dataset contains a total of 297,383 hemosiderophages classified into five grades. It is one of the largest publicly available WSIs datasets with respect to the number of annotations, the scanned area and the number of species covered.

Authors with CRIS profile

Involved external institutions

Technische Hochschule Ingolstadt Germany (DE) University of Guelph (U of G) Canada (CA) EUROIMMUN Medizinische Labordiagnostika AG Germany (DE) Vetpath Laboratory Services Australia (AU) LungenClinic Grosshansdorf GmbH Germany (DE) Freie Universität Berlin Germany (DE)

How to cite

APA:

Marzahl, C., Hill, J., Stayt, J., Bienzle, D., Welker, L., Wilm, F.,... Bertram, C.A. (2022). Inter-species cell detection - datasets on pulmonary hemosiderophages in equine, human and feline specimens. Scientific Data, 9(1). https://dx.doi.org/10.1038/s41597-022-01389-0

MLA:

Marzahl, Christian, et al. "Inter-species cell detection - datasets on pulmonary hemosiderophages in equine, human and feline specimens." Scientific Data 9.1 (2022).

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