Multiscale 3D phenotyping of human cerebral organoids

Abstract Brain organoids grown from human pluripotent stem cells self-organize into cytoarchitectures resembling the developing human brain. These three-dimensional models offer an unprecedented opportunity to study human brain development and dysfunction. Characterization currently sacrifices spati...

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Autores principales:	Alexandre Albanese, Justin M. Swaney, Dae Hee Yun, Nicholas B. Evans, Jenna M. Antonucci, Silvia Velasco, Chang Ho Sohn, Paola Arlotta, Lee Gehrke, Kwanghun Chung
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/fb1882f90ac742849d2c12265a68b902
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spelling	oai:doaj.org-article:fb1882f90ac742849d2c12265a68b9022021-12-02T11:43:44ZMultiscale 3D phenotyping of human cerebral organoids10.1038/s41598-020-78130-72045-2322https://doaj.org/article/fb1882f90ac742849d2c12265a68b9022020-12-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-78130-7https://doaj.org/toc/2045-2322Abstract Brain organoids grown from human pluripotent stem cells self-organize into cytoarchitectures resembling the developing human brain. These three-dimensional models offer an unprecedented opportunity to study human brain development and dysfunction. Characterization currently sacrifices spatial information for single-cell or histological analysis leaving whole-tissue analysis mostly unexplored. Here, we present the SCOUT pipeline for automated multiscale comparative analysis of intact cerebral organoids. Our integrated technology platform can rapidly clear, label, and image intact organoids. Algorithmic- and convolutional neural network-based image analysis extract hundreds of features characterizing molecular, cellular, spatial, cytoarchitectural, and organoid-wide properties from fluorescence microscopy datasets. Comprehensive analysis of 46 intact organoids and ~ 100 million cells reveals quantitative multiscale “phenotypes" for organoid development, culture protocols and Zika virus infection. SCOUT provides a much-needed framework for comparative analysis of emerging 3D in vitro models using fluorescence microscopy.Alexandre AlbaneseJustin M. SwaneyDae Hee YunNicholas B. EvansJenna M. AntonucciSilvia VelascoChang Ho SohnPaola ArlottaLee GehrkeKwanghun ChungNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-17 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Alexandre Albanese Justin M. Swaney Dae Hee Yun Nicholas B. Evans Jenna M. Antonucci Silvia Velasco Chang Ho Sohn Paola Arlotta Lee Gehrke Kwanghun Chung Multiscale 3D phenotyping of human cerebral organoids
description	Abstract Brain organoids grown from human pluripotent stem cells self-organize into cytoarchitectures resembling the developing human brain. These three-dimensional models offer an unprecedented opportunity to study human brain development and dysfunction. Characterization currently sacrifices spatial information for single-cell or histological analysis leaving whole-tissue analysis mostly unexplored. Here, we present the SCOUT pipeline for automated multiscale comparative analysis of intact cerebral organoids. Our integrated technology platform can rapidly clear, label, and image intact organoids. Algorithmic- and convolutional neural network-based image analysis extract hundreds of features characterizing molecular, cellular, spatial, cytoarchitectural, and organoid-wide properties from fluorescence microscopy datasets. Comprehensive analysis of 46 intact organoids and ~ 100 million cells reveals quantitative multiscale “phenotypes" for organoid development, culture protocols and Zika virus infection. SCOUT provides a much-needed framework for comparative analysis of emerging 3D in vitro models using fluorescence microscopy.
format	article
author	Alexandre Albanese Justin M. Swaney Dae Hee Yun Nicholas B. Evans Jenna M. Antonucci Silvia Velasco Chang Ho Sohn Paola Arlotta Lee Gehrke Kwanghun Chung
author_facet	Alexandre Albanese Justin M. Swaney Dae Hee Yun Nicholas B. Evans Jenna M. Antonucci Silvia Velasco Chang Ho Sohn Paola Arlotta Lee Gehrke Kwanghun Chung
author_sort	Alexandre Albanese
title	Multiscale 3D phenotyping of human cerebral organoids
title_short	Multiscale 3D phenotyping of human cerebral organoids
title_full	Multiscale 3D phenotyping of human cerebral organoids
title_fullStr	Multiscale 3D phenotyping of human cerebral organoids
title_full_unstemmed	Multiscale 3D phenotyping of human cerebral organoids
title_sort	multiscale 3d phenotyping of human cerebral organoids
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/fb1882f90ac742849d2c12265a68b902
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Multiscale 3D phenotyping of human cerebral organoids

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