Topology of the mesoscale connectome of the mouse brain

DOI10.1515/CMB-2020-0106zbMATH Open1472.92016arXiv1811.04698OpenAlexW3097546303MaRDI QIDQ2236680FDOQ2236680

Authors: Pascal Grange 

Publication date: 26 October 2021

Published in: Computational and Mathematical Biophysics (Search for Journal in Brave)

Abstract: The wiring diagram of the mouse brain has recently been mapped at a mesoscopic scale in the Allen Mouse Brain Connectivity Atlas. Axonal projections from brain regions were traced using green fluoresent proteins. The resulting data were registered to a common three-dimensional reference space. They yielded a matrix of connection strengths between 213 brain regions. Global features such as closed loops formed by connections of similar intensity can be inferred using tools from persistent homology. We map the wiring diagram of the mouse brain to a simplicial complex (filtered by connection strengths). We work out generators of the first homology group. Some regions, including nucleus accumbens, are connected to the entire brain by loops, whereas no region has non-zero connection strength to all brain regions. Thousands of loops go through the isocortex, the striatum and the thalamus. On the other hand, medulla is the only major brain compartment that contains more than 100 loops.

Full work available at URL: https://arxiv.org/abs/1811.04698

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zbMATH Keywords

computational topologyconnectomemouse neuroanatomy

Mathematics Subject Classification ID

Simplicial sets and complexes in algebraic topology (55U10) Neural networks for/in biological studies, artificial life and related topics (92B20) Computational methods for problems pertaining to biology (92-08) Computational methods for problems pertaining to algebraic topology (55-08)

Cites Work

• Javaplex: a research software package for persistent (co)homology
• Clique topology reveals intrinsic geometric structure in neural correlations
• Computational topology. An introduction
• Emergence of Scaling in Random Networks
• Computing persistent homology
• Topological persistence and simplification
• Collective dynamics of `small-world' networks
• Topology of viral evolution
• Cliques and cavities in the human connectome
• A functorial Dowker theorem and persistent homology of asymmetric networks

Cited In (2)

• Cliques and cavities in the human connectome
• Topological adventures in neuroscience

Uses Software

• javaPlex
• CliqueTop

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