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Single-Cell and Spatial Analysis of Emergent Organoid Platforms

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Cancer Systems and Integrative Biology

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2660))

Abstract

Organoids have emerged as a promising advancement of the two-dimensional (2D) culture systems to improve studies in organogenesis, drug discovery, precision medicine, and regenerative medicine applications. Organoids can self-organize as three-dimensional (3D) tissues derived from stem cells and patient tissues to resemble organs. This chapter presents growth strategies, molecular screening methods, and emerging issues of the organoid platforms. Single-cell and spatial analysis resolve organoid heterogeneity to obtain information about the structural and molecular cellular states. Culture media diversity and varying lab-to-lab practices have resulted in organoid-to-organoid variability in morphology and cell compositions. An essential resource is an organoid atlas that can catalog protocols and standardize data analysis for different organoid types. Molecular profiling of individual cells in organoids and data organization of the organoid landscape will impact biomedical applications from basic science to translational use.

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Acknowledgements

A.F.C. holds a Career Award at the Scientific Interface from Burroughs Wellcome Fund and a Bernie-Marcus Early-Career Professorship. A. F. C. was supported by start-up funds from the Georgia Institute of Technology and Emory University. A.K., S.C., and M.A. contributed equally to work and are equal first co-authors on this study. Figures were created with BioRender.com.

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Authors and Affiliations

  1. Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, USA

    Aditi Kumar, Shuangyi Cai, Mayar Allam, Samuel Henderson, Melissa Ozbeyler, Lilly Saiontz & Ahmet F. Coskun

  2. George W. Woodruff School of Mechanical Engineering, Georgia Institute of Technology, Atlanta, GA, USA

    Samuel Henderson & Melissa Ozbeyler

  3. Interdisciplinary Bioengineering Graduate Program, Georgia Institute of Technology, Atlanta, GA, USA

    Ahmet F. Coskun

  4. Parker H. Petit Institute for Bioengineering and Bioscience, , Georgia Institute of Technology, Atlanta, GA, USA

    Ahmet F. Coskun

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  1. Aditi Kumar
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  2. Shuangyi Cai
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  3. Mayar Allam
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  4. Samuel Henderson
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  5. Melissa Ozbeyler
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  7. Ahmet F. Coskun
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Correspondence to Ahmet F. Coskun .

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  1. Lombardi Comprehensive Cancer Center, Georgetown University, Washington, DC, USA

    Usha N. Kasid

  2. The Hormel Institute, University of Minnesota, Austin, MN, USA

    Robert Clarke

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Kumar, A. et al. (2023). Single-Cell and Spatial Analysis of Emergent Organoid Platforms. In: Kasid, U.N., Clarke, R. (eds) Cancer Systems and Integrative Biology. Methods in Molecular Biology, vol 2660. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3163-8_22

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  • DOI: https://doi.org/10.1007/978-1-0716-3163-8_22

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