BOrg: A Brain Organoid-Based Mitosis Dataset for Automatic Analysis of Brain Diseases
Awais, Muhammad Sahul Hameed, Mehaboobathunnisa Bhattacharya, Bidisha Reiner, Orly Slabaugh, Gregory Anwer, Rao Muhammad
Awais, Muhammad
Sahul Hameed, Mehaboobathunnisa
Bhattacharya, Bidisha
Reiner, Orly
Slabaugh, Gregory
Anwer, Rao Muhammad
Supervisor
Department
Computer Vision
Embargo End Date
Type
Conference proceeding
Date
2025
License
Language
English
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Research Projects
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Journal Issue
Abstract
Recent advances have enabled the study of human brain de-velopment using brain organoids derived from stem cells. Quantifying cellular processes like mitosis in these organoids offers insights into neurodevelopmental disorders, but the manual analysis is time-consuming, and existing datasets lack specific details for brain organoid studies. We introduce BOrg, a dataset designed to study mitotic events in the embryonic development of the brain using confocal microscopy images of brain organoids. BOrg utilizes an efficient annotation pipeline with sparse point annotations and techniques that minimize expert effort, overcoming limitations of standard deep learning approaches on sparse data. We adapt and benchmark state-of-the-art object detection and cell counting models on BOrg for detecting and analyzing mitotic cells across the prophase, metaphase, anaphase, and telophase stages. Our results demonstrate that these adapted models significantly improve mitosis analysis efficiency and accuracy for brain organoid research compared to existing methods. BOrg facilitates the development of automated tools to quantify statistics like mitosis rates, aiding mecha-nistic studies of neurodevelopmental processes and disorders. Data and code are available at BOrg's GitHub page.
Citation
M. Awais, M. S. Hameed, B. Bhattacharya, O. Reiner, G. Slabaugh and R. M. Anwer, "BOrg: A Brain Organoid-Based Mitosis Dataset for Automatic Analysis of Brain Diseases," 2025 IEEE 22nd International Symposium on Biomedical Imaging (ISBI), Houston, TX, USA, 2025, pp. 1-5, doi: 10.1109/ISBI60581.2025.10980679.
Source
Proceedings - International Symposium on Biomedical Imaging
Conference
22nd IEEE International Symposium on Biomedical Imaging, ISBI 2025
Keywords
Brain organoids, Cell counting, Cell detection
Subjects
Source
22nd IEEE International Symposium on Biomedical Imaging, ISBI 2025
Publisher
IEEE