Jun 13, 2016

ICGenealogy: Mapping the function of neuronal ion channels in model and experiment

BioRxiv : the Preprint Server for Biology
William F PodlaskiTim P Vogels

Abstract

Ion channel models are the building blocks of computational neuron models. Their biological fidelity is therefore crucial for the interpretability of simulations. However, the number of published models, and the lack of standardization, make the comparison of models with one another and with experimental data difficult. Here, we present a framework for the automated large-scale classification of ion channel models. Using annotated metadata and model responses to a set of voltage-clamp protocols, we assigned 2378 models of voltage- and calcium-gated ion channels coded in NEURON to 211 clusters. The IonChannelGenealogy web interface provides an interactive resource for the categorization of new and existing models and experimental recordings. It enables quantitative comparisons of simulated and/or measured ion channel kinetics, and facilitates field-wide standardization of experimentally-constrained modeling.

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Mentioned in this Paper

Calcium [EPC]
Classification
Calcium
Neurons
PDZK1 gene
Calcium Channel
Ion Channel
Clamping Activity
Neuronal
Standardization

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