ArticleMolecular systems biology2020
A quantitative analysis of the interplay of environment, neighborhood, and cell state in 3D spheroids.
Article in Molecular systems biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- A Barcoding Strategy for Pooled Single-Cell LA-ICP-TOFMS Analysis of Metal-Containing Therapeutics.Analytical chemistry · 2026Article
- Spotlight on challenges and novel methods in highly multiplexed tissue imaging-based spatial proteomics.Journal of translational medicine · 2026Review
- A human induced pluripotent stem cell model for the holistic study of epithelial-to-mesenchymal transitions.Nature methods · 2026Article
- Article
- Differential regulation of the proliferative and autophagic responses in murine and human pancreatic cancer cells.Autophagy reports · 2026Article
- Redefine tumor spheroids heterogeneity via PCA-coupled biophysical characterization.Scientific reports · 2025Article
- From Medical Imaging to Bioprinted Tissues: The Importance of Workflow Optimisation for Improved Cell Function.Expert reviews in molecular medicine · 2025Review
- Bridging systems biology and tissue engineering: Unleashing the full potential of complex 3DBiophysics reviews · 2024Review
- Using random forests to uncover the predictive power of distance-varying cell interactions in tumor microenvironments.PLoS computational biology · 2024Article
- Spatial Multiplexing and Omics.Nature reviews. Methods primers · 2024Article
- Lactate receptor GPR81 drives breast cancer growth and invasiveness through regulation of ECM properties and Notch ligand DLL4.BMC cancer · 2023Article
- Single-Cell and Spatial Analysis of Emergent Organoid Platforms.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Assessment of Antitumor and Antiproliferative Efficacy and Detection of Protein-Protein Interactions in Cancer Cells from 3D Tumor Spheroids.Current protocols · 2022Article
- Traject3d allows label-free identification of distinct co-occurring phenotypes within 3D culture by live imaging.Nature communications · 2022Article
- 3D-bioprinted cancer-on-a-chip: level-up organotypic in vitro models.Trends in biotechnology · 2022Review
- Article
- Intrinsic Differences in Spatiotemporal Organization and Stromal Cell Interactions Between Isogenic Lung Cancer Cells of Epithelial and Mesenchymal Phenotypes Revealed by High-Dimensional Single-Cell Analysis of Heterotypic 3D Spheroid Models.Frontiers in oncology · 2022Article
- Article
- Investigation of Different Free Image Analysis Software for High-Throughput Droplet Detection.ACS omega · 2021Article
- A deep convolutional neural network for segmentation of whole-slide pathology images identifies novel tumour cell-perivascular niche interactions that are associated with poor survival in glioblastoma.British journal of cancer · 2021Article
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Authors and funding
6 authors.
Funding
Abstract
Cells react to their microenvironment by integrating external stimuli into phenotypic decisions via an intracellular signaling network. To analyze the interplay of environment, local neighborhood, and internal cell state effects on phenotypic variability, we developed an experimental approach that enables multiplexed mass cytometric imaging analysis of up to 240 pooled spheroid microtissues. We quantified the contributions of environment, neighborhood, and intracellular state to marker variability in single cells of the spheroids. A linear model explained on average more than half of the variability of 34 markers across four cell lines and six growth conditions. The contributions of cell-intrinsic and environmental factors to marker variability are hierarchically interdependent, a finding that we propose has general implications for systems-level studies of single-cell phenotypic variability. By the overexpression of 51 signaling protein constructs in subsets of cells, we also identified proteins that have cell-intrinsic and cell-extrinsic effects. Our study deconvolves factors influencing cellular phenotype in a 3D tissue and provides a scalable experimental system, analytical principles, and rich multiplexed imaging datasets for future studies.
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