Automated brightfield morphometry of 3D organoid populations by OrganoSeg

Michael A Borten, Sameer S Bajikar, Nobuo Sasaki, Hans Clevers, Kevin A Janes

Onderzoeksoutput: Bijdrage aan wetenschappelijk tijdschrift/periodieke uitgaveArtikelWetenschappelijkpeer review

Samenvatting

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.

Originele taal-2Engels
Pagina's (van-tot)5319
TijdschriftScientific Reports
Volume8
Nummer van het tijdschrift1
DOI's
StatusGepubliceerd - 28 mrt 2018

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