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This mathematical approach could provide a useful tool for theoretical predictions on the functional features of human pyramidal neurons based on the morphology of dendritic spines.
This tool was trained with human cortical pyramidal neurons.
3DspineS was originally created by Sergio Luengo.
Luengo-Sanchez, S., Fernaud-Espinosa, I., Bielza, C., Benavides-Piccione, R., Larrañaga, P., & DeFelipe, J. (2018).
3D morphology-based clustering and simulation of human pyramidal cell dendritic spines.
PLOS Computational Biology, 14(6), e1006221. https://doi.org/10.1371/journal.pcbi.1006221
The definition of the soma is fuzzy, as there is no clear line demarcating the soma of the labeled neurons and the origin of the dendrites and axon. Thus, the morphometric analysis of the neuronal soma is highly subjective.
This software provides a mathematical definition and an automatic segmentation method to delimit the neuronal soma. We applied this method to the characterization of pyramidal cells, which are the most abundant neurons in the cerebral cortex. Thus, this software is a means of characterizing pyramidal neurons in order to objectively compare the morphometry of the somata of these neurons in different cortical areas and species.
3DSomaMS was originally created by Sergio Luengo and Luis Rodriguez-Lujan (GUI).
Luengo-Sanchez, S., Bielza, C., Benavides-Piccione, R., Fernaud-Espinosa, I., DeFelipe, J., & Larrañaga, P. (2015).
A univocal definition of the neuronal soma morphology using Gaussian mixture models.
Frontiers in Neuroanatomy, 9, 137. https://doi.org/10.3389/fnana.2015.00137
3DSynapsesSA is a tool designed to process and analyze patterns in the three-dimensional spatial distribution of cortical synapses. It brings a variety of both innovative and well-known techniques from the spatial statistics field.
This tool allows you to:
Process and visualize data from cortical synapses for error checking
Model the spatial distribution of the synapses
Replicate, via simulation, samples of cortical synapses
Compare several indicators obtained from data of different layers
3DSynapsesSA was originally created by Laura Antón-Sánchez and Luis Rodriguez-Lujan (GUI).
Generation of synthetic neurons with soma and dendrites.
Dendrite arborization simulation was originally created by Pablo Fernández González