Céline Delloye-Bourgeois retweetledi
We are thrilled to share that our first paper from my new lab, Spateo (github.com/aristoteleo/sp…) for spatiotemporal modeling of molecular holograms, is now online in Cell: cell.com/cell/fulltext/…. Spateo is a comprehensive analytical framework for 3D whole-embryo spatiotemporal modeling. Its advanced features include:
• 3D alignment and reconstruction at the whole-mouse-embryo scale (see the animation).
• 3D spatial domain digitization and cell-cell communication analysis to understand spatial gene expression gradients and both inter- and intracellular communication.
• 3D morphometric and volumetric analyses along with 3D morphogenesis vector field modeling to quantify dynamics such as surface area, volume, and cell density across organs, and to dissect the interplay between morphogenesis factors and cell migration.
• A “Google Earth”-like browser, Spateo-viewer (viewer.spateo.aristoteleo.com and github.com/aristoteleo/sp…), for interactive and intuitive exploration of 3D spatial data.
• Additional features, such as RNA signal-based single-cell segmentation.
We are also honored that Nature “News and Views” has highlighted this work as well: nature.com/articles/d4158….
This is really an amazing outcome after two years' heroic revision process that rewrite the entire paper using a new data (doi.org/10.1101/2024.0…) for whole mouse embryos.
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