Automated brightfield morphometry of 3D organoid populations by OrganoSeg
| العنوان: | Automated brightfield morphometry of 3D organoid populations by OrganoSeg |
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| المؤلفون: | Michael A. Borten, Hans Clevers, Kevin A. Janes, Sameer S. Bajikar, Nobuo Sasaki |
| المساهمون: | Hubrecht Institute for Developmental Biology and Stem Cell Research |
| المصدر: | Scientific Reports, 8(1). Nature Publishing Group Scientific Reports Scientific Reports, Vol 8, Iss 1, Pp 1-10 (2018) |
| سنة النشر: | 2018 |
| مصطلحات موضوعية: | 0301 basic medicine, Sequencing data, Cell Culture Techniques, lcsh:Medicine, Tumor cells, Computational biology, Biology, Article, 03 medical and health sciences, Spheroids, Cellular, Organoid, Tumor Cells, Cultured, lcsh:Science, General, Multidisciplinary, Extramural, Gene ontology, Gene Expression Profiling, lcsh:R, Spheroid, Computational Biology, High-Throughput Nucleotide Sequencing, Gene expression profiling, Organoids, Multicellular organism, 030104 developmental biology, Gene Ontology, lcsh:Q, Software |
| الوصف: | Spheroid and organoid cultures are powerful in vitro models for biology, but size and shape diversity within the culture is largely ignored. To streamline morphometric profiling, we developed OrganoSeg, an open-source software that integrates segmentation, filtering, and analysis for archived brightfield images of 3D culture. OrganoSeg is more accurate and flexible than existing platforms, and we illustrate its potential by stratifying 5167 breast-cancer spheroid and 5743 colon and colorectal-cancer organoid morphologies. Organoid transcripts grouped by morphometric signature heterogeneity were enriched for biological processes not prominent in the original RNA sequencing data. OrganoSeg enables complete, objective quantification of brightfield phenotypes, which may give insight into the molecular and multicellular mechanisms of organoid regulation. |
| وصف الملف: | image/pdf |
| اللغة: | English |
| تدمد: | 2045-2322 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1d5a3a059a6227c6a1a4cd9209528b89 https://doi.org/10.1038/s41598-017-18815-8 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....1d5a3a059a6227c6a1a4cd9209528b89 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 20452322 |
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