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Ten years of mapping gene expression in tissues

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Why This Matters

Over the past decade, spatially resolved transcriptomic technologies have revolutionized our understanding of tissue-specific gene expression, enabling precise mapping of molecular activity within biological tissues. This advancement has significant implications for developing targeted therapies and improving disease diagnosis, bridging academia and industry in innovative ways. As these technologies continue to evolve, they promise to unlock deeper insights into development and disease mechanisms, benefiting both researchers and consumers.

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NEWS AND VIEWS

21 July 2026 Ten years of mapping gene expression in tissues Spatially resolved transcriptomic technologies continue to enhance understanding of development and disease through a feedback loop involving academia and industry. By Jean Fan 0 Jean Fan Jean Fan is in the Center for Computational Biology, Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21211, USA. View author publications PubMed Google Scholar

‘Location, location, location!’ This adage highlights how the value of property is shaped by geographical context. It has relevance in biology, too: the outcomes of molecular programs that are encoded in gene expression are shaped by the context of the tissue in which a cell exists. Scientists had been looking for a way to profile gene expression at the level of the transcriptome (the entire set of RNA transcripts in a cell) while preserving the spatial resolution achievable with microscopy — in other words, a way to capture which genes are expressed, and where. One solution came in 2016 in a landmark paper in Science, in which Ståhl et al.1 introduced a technology that they called spatial transcriptomics.

doi: https://doi.org/10.1038/d41586-026-02212-1

References Ståhl, P. L. et al. Science 353, 78–82 (2016). Miller, B. F., Huang, F., Atta, L., Sahoo, A. & Fan, J. Nature Commun. 13, 2339 (2022). Marx, V. Nature Methods 18, 9–14 (2021). Moses, L. & Pachter, L. Nature Methods 19, 534–546 (2022). Jung, N. & Kim, T.-K. Exp. Mol. Med. 55, 2105–2115 (2023). Rao, A., Barkley, D., França, G. S. & Yanai, I. Nature 596, 211–220 (2021). Liu, M. et al. Nature Rev. Cancer https://doi.org/10.1038/s41568-026-00940-0 (2026). Börner, K. et al. Nature Methods 22, 845–860 (2025). Rozenblatt-Rosen, O., Stubbington, M. J. T., Regev, A. & Teichmann, S. A. Nature 550, 451–453 (2017). Priem, J., Piwowar, H. & Orr, R. Preprint at arXiv https://doi.org/10.48550/arXiv.2205.01833 (2022). Download references

Competing Interests The author declares no competing interests.

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