ArticleCell systems2022
Systematically quantifying morphological features reveals constraints on organoid phenotypes.
Article in Cell systems, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 22 citations in OpenAlex.
- Multimodal Biophysical Analysis of Morpho-Phenotypic and Morpho-Functional Dynamics in Normal and Cancer Spheroids within Engineered Microenvironments.Chemical & biomedical imaging · 2026Article
- Shape factor analysis as a quantitative framework for assessing spheroid and organoid morphology and invasiveness.APL bioengineering · 2026Article
- OrgLine: A versatile pipeline for organoid morphometry using detector-guided prompts.Cell reports methods · 2026Article
- Stress-relaxing granular bioprinting materials enable complex and uniform organoid self-organization.Nature materials · 2026Article
- Shape Factor Analysis as a Quantitative Framework for Assessing Spheroid and Organoid Morphology and Invasiveness.bioRxiv : the preprint server for biology · 2026Article
- Stress relaxing granular bioprinting materials enable complex and uniform organoid self-organization.bioRxiv : the preprint server for biology · 2025Article
- Digitalized organoids: integrated pipeline for high-speed 3D analysis of organoid structures using multilevel segmentation and cellular topology.Nature methods · 2025Article
- Representation of high-dimensional cell morphology and morphodynamics in 2D latent space.Physical biology · 2025Article
- Article
- VONet: A deep learning network for 3D reconstruction of organoid structures with a minimal number of confocal images.Patterns (New York, N.Y.) · 2024Article
- The logic of monsters: development and morphological diversity in stem-cell-based embryo models.Interface focus · 2024Review
- Morphological profiling for drug discovery in the era of deep learning.Briefings in bioinformatics · 2024Review
- CartoCell, a high-content pipeline for 3D image analysis, unveils cell morphology patterns in epithelia.Cell reports methods · 2023Article
- Middle-out methods for spatiotemporal tissue engineering of organoids.Nature reviews bioengineering · 2023Review
- Data science in cell imaging.Journal of cell science · 2021Review
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Authors and funding
12 authors at 4 institutions in 2 countries.
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Abstract
Organoids recapitulate complex 3D organ structures and represent a unique opportunity to probe the principles of self-organization. While we can alter an organoid's morphology by manipulating the culture conditions, the morphology of an organoid often resembles that of its original organ, suggesting that organoid morphologies are governed by a set of tissue-specific constraints. Here, we establish a framework to identify constraints on an organoid's morphological features by quantifying them from microscopy images of organoids exposed to a range of perturbations. We apply this framework to Madin-Darby canine kidney cysts and show that they obey a number of constraints taking the form of scaling relationships or caps on certain parameters. For example, we found that the number, but not size, of cells increases with increasing cyst size. We also find that these constraints vary with cyst age and can be altered by varying the culture conditions. We observed similar sets of constraints in intestinal organoids. This quantitative framework for identifying constraints on organoid morphologies may inform future efforts to engineer organoids.
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