Whole slide imaging of 102 primary diagnosed breast cancers. In this dataset one representative image from the preoperative biopsy have been manually selected and matched with one image representative from the surgically removed invasive tumour. Both biopsy and whole section are presented as one case and contain 2 HE stained slides per case. The section from the surgical resection is from one piece as default, biopsies may vary from 1-3 per slide. Breastcancer cases were consecutively selected from the laboratory information system based on diagnosis including only Invasive breast cancer (NST) and Invasive lobular carcinoma (ILC). Each slide has been evaluated in clinic by at least one senior consultant in breast pathology and controlled before extraction to this dataset by an additional independent senior breast pathologist. No neoadjuvant cases included. No male breast cancers included. The cases are anonymised and exported from the digital archive at the Department of Clinical Pathology in Linköping, Region Östergötland.
Keywords: Breast cancer, Pathology, Whole slide imaging.
Sample images
Sample images with reduced image quality. Please click to preview.
Dataset information
| Short name | BRMBR |
|---|---|
| Origin | Clinical |
| Cite as | Anna Bodén (2023) Breast data from preoperative and surgical cases doi:10.23698/aida/brmbr |
| Field | Pathology |
| Organ |
Breast |
| Age span | |
| Title | Breast data from preoperative and surgical cases |
| Author |
Anna Bodén
|
| Year | 2023 |
| DOI | doi:10.23698/aida/brmbr |
| Status | Ongoing |
| Version | 1.0.1 |
| Scans | 102 |
| Annotations | 0 |
| Size | 120.26GB |
| Resolution | x40 (one large section x20 is included) |
| Modality |
SM
|
| Scanner |
Hamamatsu NanoZoomer XR Hamamatsu NanoZoomer S360 Hamamatsu NanoZoomer S60 |
| Stain | H&E (hematoxylin and eosin) |
| Phase | |
| References |
|
| Copyright | Copyright 2023 Linköping University, Claes Lundström |
| Access |
Available under the following licenses, described in the License section below.
Controlled access
AIDA BY license
|
Annotation
No in-image annotations available.
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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cc: Anna.C.Boden@regionostergotland.se,aida-data@nbis.se
Subject: Requesting access to dataset doi:10.23698/aida/brmbr
Hi!
I work at INSTITUTION in COUNTRY, emailing from my institutional account.
I would like to access the dataset doi:10.23698/aida/brmbr, for use in ethical and legal medical diagnostics research. Could you please send me a data sharing agreement template?
Our planned use of the data can be summarized as:
BRIEF_DESCRIPTION_OF_PLANNED_ACTIVITIES
Dataset: https://datahub.aida.scilifelab.se/10.23698/aida/brmbr
Example agreement template: https://datahub.aida.scilifelab.se/sharing/templates/
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Name of research PI ("Recipient Scientist"): PI_NAME (cc here)
Title of research PI: PI_TITLE (ph d or better, in relevant field)
Name of institution: INSTITUTION_NAME
Name of department: DEPARTMENT_NAME
Institution postal address: POSTAL_ADDRESS
Name of authorized signatory: SIGNATORY_NAME (cc here)
Title of authorized signatory: SIGNATORY_TITLE
Also, I would like to ALTERNATIVELY_WOULD_NOT_LIKE_TO be included in the public record of data sharing facilitated by AIDA:
https://docs.google.com/spreadsheets/d/1fl2BwZJ4rivOKzOCy5pAnxU8N1CyoF86BTCnH-rBV04
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AIDA BY license
Copyright 2023 Linköping University, Claes Lundström
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:
Anna Bodén (2023) Breast data from preoperative and surgical cases doi:10.23698/aida/brmbr.
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.