Generating brain-wide connectome using synthetic axonal morphologies

Remy Petkantchin (), Adrien Berchet, Hanchuan Peng, Henry Markram and Lida Kanari
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Remy Petkantchin: Blue Brain Project, EPFL
Adrien Berchet: Blue Brain Project, EPFL
Hanchuan Peng: Southeast University
Henry Markram: Blue Brain Project, EPFL
Lida Kanari: Blue Brain Project, EPFL

Nature Communications, 2025, vol. 16, issue 1, 1-11

Abstract: Abstract Recent experimental advancements, including electron microscopy reconstructions, have produced detailed connectivity data for local brain regions. On the other hand, for inter-regional connectivity, large-scale imaging techniques such as MRI are best suited to provide insights. However, understanding the relationship between local and long-range connectivity is essential for studying both healthy and pathological conditions of the brain. Leveraging a dataset of whole-brain axonal reconstructions, we present a technique to predict whole-brain connectivity at single cell level for pyramidal cells in the cortex by generating detailed whole-brain axonal morphologies from sparse experimental data. The computationally generated axons accurately reproduce the local and global morphological properties of experimental reconstructions. Furthermore, the computationally synthesized axons generate large-scale inter-regional connectivity, defining the projectome and the connectome of the brain, thereby enabling the in silico experimentation of large brain regions.

Date: 2025
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DOI: 10.1038/s41467-025-62030-3

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