Conductance-based models and the fragmentation problem: A case study based on hippocampal CA1 pyramidal cell models and epilepsy
Jan 13, 2020
Iara Frondana, Rodrigo R.S. Carvalho, Florencia Leonardi
Epilepsy has been a central topic in computational neuroscience, and in silico models have shown to be excellent tools to integrate and evaluate findings from animal and clinical settings. Among the different languages and tools for computational modeling development, NEURON stands out as one of the most used and mature neurosimulators. However, despite the vast quantity of models developed with NEURON, a fragmentation problem is evident in the great majority of models related to the same type of cell or cell properties. This fragmentation causes a lack of interoperability between the models because of differences in parameters.
The problem is not related to the neurosimulator, which is prepared to reuse elements of other models, but related to decisions made during the model development, when it is not uncommon to adjust parameter values according to the necessities of the study. Here, this problem is presented by studying computational models related to temporal lobe epilepsy and the definitions of hippocampal CA1 pyramidal cells. The current assessment aims to highlight the implications of fragmentation for reliable modeling and the need to adopt a framework that allows a better interoperability between different models.
The whole paper is available here.
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