A study on the characteristics of materials for ex vivo phantom of diffusion tensor images

Lee, Jung-Hoon

doi:10.1007/s40042-022-00660-2

Cited by 1 publication

(1 citation statement)

References 17 publications

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“…For example, the technique of cell micropatterning utilizes specialty plate biomaterials to guide neurite outgrowth, and could be used to produce anatomically defined cultures with known connections 133 . Alternatively, artificial microstructural models could be built from predefined templates, emulating the concept of phantoms in diffusion tensor imaging (DTI) where small-scale, synthetic brain models are made using fibers of polyester, rayon, or nylon to simulate white matter tracts [134][135][136] . After scanning to obtain DTI data, axonal fiber tractography is performed and the reconstructed phantom is compared to its known ground truth.…”

Section: Network Reconstruction Toolsmentioning

confidence: 99%

From pixels to connections: exploring in vitro neuron reconstruction software for network graph generation

Hoffmann,

Cho,

Zalesky

et al. 2024

Commun Biol

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Digital reconstruction has been instrumental in deciphering how in vitro neuron architecture shapes information flow. Emerging approaches reconstruct neural systems as networks with the aim of understanding their organization through graph theory. Computational tools dedicated to this objective build models of nodes and edges based on key cellular features such as somata, axons, and dendrites. Fully automatic implementations of these tools are readily available, but they may also be purpose-built from specialized algorithms in the form of multi-step pipelines. Here we review software tools informing the construction of network models, spanning from noise reduction and segmentation to full network reconstruction. The scope and core specifications of each tool are explicitly defined to assist bench scientists in selecting the most suitable option for their microscopy dataset. Existing tools provide a foundation for complete network reconstruction, however more progress is needed in establishing morphological bases for directed/weighted connectivity and in software validation.

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