Cells interact with their local environment to enact global tissue function. By harnessing gene–gene covariation in cellular neighborhoods from spatial transcriptomics data, the covariance environment (COVET) niche representation and the environmental variational inference (ENVI) data integration method model phenotype–microenvironment interplay and reconstruct the spatial context of dissociated single-cell RNA sequencing datasets.
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This is a summary of: Haviv, D. et al. The covariance environment defines cellular niches for spatial inference. Nat. Biotechnol. https://doi.org/10.1038/s41587-024-02193-4 (2024)
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Capturing and modeling cellular niches from dissociated single-cell and spatial data. Nat Biotechnol (2024). https://doi.org/10.1038/s41587-024-02207-1
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DOI: https://doi.org/10.1038/s41587-024-02207-1
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