ArticleScientific reports2020
Multiscale 3D phenotyping of human cerebral organoids.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 55 papers.
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Who cites it
55 citing papers in PubMed, 86 citations in OpenAlex.
- Organoid Intelligent Morphomics: Decoding the organoid morphome through artificial intelligence from phenotypic quantification to mechanistic insight.Bioactive materials · 2027Review
- From pixels to patterns: the AI revolution in stem cell-derived models.Nature methods · 2026Review
- Multilayered microelectrode array for monitoring electrophysiological signals of 3d neural networks in cerebral organoid.Microsystems & nanoengineering · 2026Article
- BrAIn: A comprehensive artificial intelligence-based morphology analysis system for brain organoids and neuroscience.Bioengineering & translational medicine · 2026Article
- Generation and characterization of vestibular inner ear organoids from human pluripotent stem cells.Nature protocols · 2026Review
- Glioblastoma stem cells show transcriptionally correlated spatial organization.Communications biology · 2026Article
- Artificial Intelligence in Organoid-Based Disease Modeling: A New Frontier in Precision Medicine.Biomimetics (Basel, Switzerland) · 2025Review
- Uniform volumetric single-cell processing for organ-scale molecular phenotyping.Nature biotechnology · 2025Article
- Variability vs. phenotype: Multimodal analysis of Dravet syndrome brain organoids powered by deep learning.iScience · 2025Article
- Label-Free Detection of Biochemical Changes during Cortical Organoid Maturation via Raman Spectroscopy and Machine Learning.Analytical chemistry · 2025Article
- Modeling cerebral developmentbioRxiv : the preprint server for biology · 2025Article
- Non-Invasive Quality Control of Organoid Cultures Using Mesofluidic CSTR Bioreactors and High-Content Imaging.Advanced materials technologies · 2025Article
- Advancing human health risk assessment: the role of new approach methodologies.Frontiers in toxicology · 2025Review
- Brain organoid model systems of neurodegenerative diseases: recent progress and future prospects.Frontiers in neuroscience · 2025Review
- Established and emerging new approach methodologies in neuroscience.Frontiers in neuroscience · 2025Review
- Next-Gen Therapeutics: Pioneering Drug Discovery with iPSCs, Genomics, AI, and Clinical Trials in a Dish.Annual review of pharmacology and toxicology · 2025Review
- Biofunctionalized gelatin hydrogels support development and maturation of iPSC-derived cortical organoids.Cell reports · 2024Article
- CelltypeR: A flow cytometry pipeline to characterize single cells from brain organoids.iScience · 2024Article
- Cross-site reproducibility of human cortical organoids reveals consistent cell type composition and architecture.Stem cell reports · 2024Article
- Multiscale engineering of brain organoids for disease modeling.Advanced drug delivery reviews · 2024Review
Corrections and comments
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Authors and funding
10 authors at 3 institutions in 2 countries.
Funding
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.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.