Pinpoint the spatial location of specific cell types within tissues and organoids

Cell Mapping

Use Case: Pinpoint the spatial location of specific cell types within tissues and organoids

  • Map cells precisely in 3D: Use viral, transgenic or immunolabeling of cell-specific markers to readily identify distinct cell-types within organ and organ-like tissue environments.
  • Uncover anatomical insights: Use quantitative analysis on spatial positions of single cells, vessels, and tissue borders to measure multi-scale features that characterize the microenvironment, cytoarchitecture, and whole tissue.
  • Monitor pathophysiological progression: Capture the cellular response to diseased, damaged, and inflamed tissues using immune cell-specific markers.

Video S1 (Ref 10) : A 3D rendering of a D59 (FWK8) human fetal eye after whole mount immunostaining and clearing. Recoverin (RCVRN, magenta) labeling is only restricted to one specific region of the retina, temporal to the optic nerve. IBA1 (green) was used to visualize the structure of the retina. Article licensed under the terms of the Creative Commons CC-BY.

For additional publications supporting this use case refer to:

  1. Albanese et al. Scientific Reports 10, 21487 (2020) – See Figure 1e, 5h, 6a, Supplementary Videos 1-4
  2. Sweeney et al. Science Translational Medicine 13(590): eabd6434 (2021) – See Figure 1a-1d, Movie S1-S4
  3. Knights et al. EMBO Journal 40: e106061 (2021) – See Figure 1a, Extended View Figure 1a
  4. Paulsen et al. Nature 602, 268–273 (2022) – See Extended Data 4a-4b
  5. Nudell et al. Nature Methods 19, 479–485 (2022) – See Figure 3, 4g-4q, 5e-5k, Supplementary Videos 1-4
  6. Son et al. Journal of Neuroscience 42 (25) 5021-5033 (2022) – Figure 1
  7. Bedenbaugh et al. Journal of Comparative Neurology 530(16): 2835–2851 (2022) – See Figure 2, 6, Supplementary movies 1-5
  8. Shah et al. J Exp Med (2023) 220 (2): e20220618 (2022)
  9. Folorunso et al. Sci Rep 13, 9595 (2023) – See Supplementary Figure 2
  10. Wholschlegel et al. Stem Cell Reports 18(12):P2400-2417 (2023) – See Figure 1D, Video S1
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