ArticleScientific reports2017
Multiscale image analysis reveals structural heterogeneity of the cell microenvironment in homotypic spheroids.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
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- Rapid Generation of Fusable Cell Beads for Multi-Scale Human Living Materials Assembly.Small methods · 2026Article
- Exploring metabolic dynamics of cancer metastasis through in vitro models.Discover oncology · 2026Review
- Beyond the Warburg Effect: Modeling the Dynamic and Context-Dependent Nature of Tumor Metabolism.Cancers · 2025Article
- Glycosaminoglycans Targeted by Colchicine in MCF-7 Cells.Pharmaceutics · 2025Article
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- Engineered platforms for mimicking cardiac development and drug screening.Cellular and molecular life sciences : CMLS · 2024Review
- Scaffold-based 3D cell culture models in cancer research.Journal of biomedical science · 2024Review
- Quantitative Analysis of Whole-Mount Fluorescence-Stained Tumor Spheroids in Phenotypic Drug Screens.Methods in molecular biology (Clifton, N.J.) · 2024Article
- High-throughput deconvolution of 3D organoid dynamics at cellular resolution for cancer pharmacology with Cellos.Nature communications · 2023Article
- The salt-and-pepper pattern in mouse blastocysts is compatible with signaling beyond the nearest neighbors.iScience · 2023Article
- Unbiased image segmentation assessment toolkit for quantitative differentiation of state-of-the-art algorithms and pipelines.BMC bioinformatics · 2023Article
- Recognition and reconstruction of cell differentiation patterns with deep learning.PLoS computational biology · 2023Article
- Adjusting the range of cell-cell communication enables fine-tuning of cell fate patterns from checkerboard to engulfing.Journal of mathematical biology · 2023Article
- Tissues as networks of cells: towards generative rules of complex organ development.Journal of the Royal Society, Interface · 2023Review
- Applications and Advances of Multicellular Tumor Spheroids: Challenges in Their Development and Analysis.International journal of molecular sciences · 2023Review
- Implications of Three-Dimensional Cell Culture in Cancer Therapeutic Research.Frontiers in oncology · 2022Review
- Cell3: a new vision for study of the endomembrane system in mammalian cells.Bioscience reports · 2021Review
- Single cell organization and cell cycle characterization of DNA stained multicellular tumor spheroids.Scientific reports · 2021Article
- Diversity Models and Applications of 3D Breast Tumor-on-a-Chip.Micromachines · 2021Review
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Three-dimensional multicellular aggregates such as spheroids provide reliable in vitro substitutes for tissues. Quantitative characterization of spheroids at the cellular level is fundamental. We present the first pipeline that provides three-dimensional, high-quality images of intact spheroids at cellular resolution and a comprehensive image analysis that completes traditional image segmentation by algorithms from other fields. The pipeline combines light sheet-based fluorescence microscopy of optically cleared spheroids with automated nuclei segmentation (F score: 0.88) and concepts from graph analysis and computational topology. Incorporating cell graphs and alpha shapes provided more than 30 features of individual nuclei, the cellular neighborhood and the spheroid morphology. The application of our pipeline to a set of breast carcinoma spheroids revealed two concentric layers of different cell density for more than 30,000 cells. The thickness of the outer cell layer depends on a spheroid's size and varies between 50% and 75% of its radius. In differently-sized spheroids, we detected patches of different cell densities ranging from 5 × 10
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