A 3-dimensional molecular cartography of human cerebral organoids revealed by double-barcoded spatial transcriptomics

Lozachmeur, G.; Bramoulle, A.; Aubert, A.; Studer, F.; Moehlin, J.; Madrange, L.; Yates, F.; Deslys, J.-P.; Mendoza-Parra, M. A.

doi:10.1101/2023.01.18.524520

bioRxiv · 10.1101/2023.01.18.524520

A 3-dimensional molecular cartography of human cerebral organoids revealed by double-barcoded spatial transcriptomics

Lozachmeur, G.·Bramoulle, A.·Aubert, A.·Studer, F.·Moehlin, J.·Madrange, L.·Yates, F.·Deslys, J.-P.·Mendoza-Parra, M. A.

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Abstract

Spatially-resolved transcriptomics is revolutionizing our understanding of complex tissues, but their current use for the exploration of a few sections is not representative of their 3-dimensional architecture. In this work we present a low-cost strategy for manufacturing molecularly double-barcoded DNA arrays, enabling large-scale spatially-resolved transcriptomics studies. We applied this technique to spatially resolve gene expression in several human brain organoids, including the reconstruction of a 3-dimensional view from multiple consecutive sections, revealing gene expression divergencies throughout the tissue.

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Lozachmeur, G., Bramoulle, A., Aubert, A., Studer, F., Moehlin, J., Madrange, L., Yates, F., Deslys, J.-P., Mendoza-Parra, M. A.. 2023-01-19. A 3-dimensional molecular cartography of human cerebral organoids revealed by double-barcoded spatial transcriptomics. https://doi.org/10.1101/2023.01.18.524520

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