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A general method for creating realistic reduced compartmental models from electrophysiological traces

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Reduced compartmental models, i.e. those incorporating Hodgkin-Huxley ion channels and few dendritic compartments, are frequently used in computational neuroscience both individually and as parts of networks. These models are typically hand-tuned individually and different criteria for model performance have been used by different investigators. Here, we present a general method which uses a particle swarm evolutionary algorithm to constrain the morphological, passive and active parameters of a reduced model to fit the fI curve, spontaneous spike shape, and response to negative current injection of a specific slice recording. The free passive and morphological parameters were axial resistance, membrane resistance and capacitance, soma diameter, and proximal and distal dendritic diameter and length. The free active parameters were the somatic and dendritic conductance densities of NaF, NaP, Kv2, Kv3, Kv4, KCNQ, SK, CaHVA and HCN. Using this method, we created populations of six-compartment models that specifically matched one of three rat globus pallidus (GP) neuron recordings (Figures 1, 2). A separate population of models was created to match the recordings of each of the three target neurons, and members of each population presented specific matches for the targeted recording. Thus, the population of models that were created to match the recordings of a particular neuron matched those recordings better than populations of models created to match the recordings of other neurons. Interestingly, we found that most of the average conductance densities were not significantly different between the populations of models created to match the recordings of different neurons. Additionally, we calculated the average parameter distance between populations of models with a normalized Euclidean distance measure (See equation in figure 3). Using this distance measure, the population of models created to match the recordings of a particular neuron was no closer to itself than it was to populations of models created to match the recordings of other neurons. This leads to the conclusion that the fitness spaces were well separated between matches for different neurons despite overlapping conductance parameter spaces. Overall, we find our method suitable for creating realistic reduced models of individual recordings for use in heterogeneous network simulations or hybrid experiments using dynamic clamp.

Figure 1
figure1

Sample morphology of a six-compartment model.

Figure 2
figure2

Output of the model that best matched the electrophysiological recordings of one test neuron.

Figure 3
figure3

Normalized Euclidean distance measure. The distance between every model in swarm1 (l models) and swarm2 (m models) is summed, then divided by the total number of distances calculated (l*m).

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Correspondence to Eric B Hendrickson.

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Open Access This article is published under license to BioMed Central Ltd. This is an Open Access article is distributed under the terms of the Creative Commons Attribution 2.0 International License (https://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Hendrickson, E.B., Edgerton, J.R. & Jaeger, D. A general method for creating realistic reduced compartmental models from electrophysiological traces. BMC Neurosci 9, P83 (2008) doi:10.1186/1471-2202-9-S1-P83

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Keywords

  • Globus Pallidus
  • Euclidean Distance Measure
  • Dendritic Compartment
  • Spike Shape
  • Axial Resistance