Whole slide pathology images from excision specimens of cutaneous basal cell carcinomas (BCC) collected at the Department of Pathology at Sahlgrenska University Hospital, Sweden. The data set contains 1832 WSIs from 479 BCCs annotated on a slide level.

Keywords: Pathology, Whole slide imaging, Weakly annotated, Basal cell carcinoma, Skin cancer.

Sample images

Sample images with reduced image quality. Please click to preview.

Dataset information

Short name BCCC
Origin Clinical
Cite as Noora Neittaanmäki, Kajsa Villiamsson, Jan Siarov, Filmon Yacob, Juulia T Suvilehto, Lisa Sjöblom, and Magnus Kjellberg (2023) Basal cell carcinoma classification doi:10.23698/aida/bccc
Field Pathology
Organ Skin
Age span -
Title Basal cell carcinoma classification
Author Noora Neittaanmäki
Kajsa Villiamsson
Jan Siarov
Filmon Yacob
Juulia T Suvilehto
Lisa Sjöblom
Magnus Kjellberg
Year 2023
DOI doi:10.23698/aida/bccc
Status Completed
Version 1.0.0
Scans 1832
Annotations 0
Size 6.16TB
Resolution x40
Modality SM
Scanner NanoZoomer S360 Hamamatsu
Stain H&E (hematoxylin and eosin)
Phase
References
  1. Yacob, F., Siarov, J., Villiamsson, K. et al. Weakly supervised detection and classification of basal cell carcinoma using graph-transformer on whole slide images. Sci Rep 13, 7555 (2023). https://doi.org/10.1038/s41598-023-33863-z
Copyright Copyright 2023 University of Gothenburg, Noora Neittaanmäki
Access

Available under the following licenses, described in the License section below.

Controlled access
Free for use in legal and ethical medical diagnostics research.

AIDA BY license
Free for use within AIDA with attribution and co-authorship.

Annotation

The data is annotated on a slide level into four aggressivity tumour subtypes: low aggressive Ia (nodular) and Ib (superficial) and more aggressive subtypes II (medium aggressive) and III (high aggressive). Of these, types Ia and Ib represent low risk and II and III high risk tumors according to WHO classilification of skin tumors (4th Edition 2018).

File formats

The dataset consists of two types of images: Histopathological slides are stored as .ndpi (size per slide 1-5.5GB). Annotations are provided as .csv files (one for main data set, one for test set)

License

Controlled access

Free for use in legal and ethical medical diagnostics research. Please contact the dataset provider for terms of access.

You are invited to send an access request email from your institutional account.

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AIDA BY license

Copyright 2023 University of Gothenburg, Noora Neittaanmäki

Permission to use, copy, modify, and/or distribute this data within Analytic Imaging Diagnostics Arena (AIDA) for the purpose of medical diagnostics research with or without fee is hereby granted, provided that the above copyright notice and this permission notice appear in all copies, and that publications resulting from the use of this data cite the following works:

Noora Neittaanmäki, Kajsa Villiamsson, Jan Siarov, Filmon Yacob, Juulia T Suvilehto, Lisa Sjöblom, and Magnus Kjellberg (2023) Basal cell carcinoma classification doi:10.23698/aida/bccc

Yacob, F., Siarov, J., Villiamsson, K. et al. Weakly supervised detection and classification of basal cell carcinoma using graph-transformer on whole slide images. Sci Rep 13, 7555 (2023). https://doi.org/10.1038/s41598-023-33863-z

THE DATA IS PROVIDED “AS IS” AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH REGARD TO THIS DATA INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT, INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR CHARACTERISTICS OF THIS DATA.