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ICGenealogy: Mapping the Function of Neuronal Ion Channels in Model and Experiment

View ORCID ProfileWilliam F Podlaski, View ORCID ProfileAlexander Seeholzer, View ORCID ProfileLukas N Groschner, View ORCID ProfileGero Miesenböck, Rajnish Ranjan, View ORCID ProfileTim P Vogels
doi: https://doi.org/10.1101/058685
William F Podlaski
1Centre for Neural Circuits and Behaviour, University of Oxford, Oxford OX1 3SR, UK
2Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, UK
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Alexander Seeholzer
3Laboratory of Computational Neuroscience, EPF Lausanne, 1015 Lausanne, Switzerland
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Lukas N Groschner
1Centre for Neural Circuits and Behaviour, University of Oxford, Oxford OX1 3SR, UK
2Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, UK
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Gero Miesenböck
1Centre for Neural Circuits and Behaviour, University of Oxford, Oxford OX1 3SR, UK
2Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, UK
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Rajnish Ranjan
4The Blue Brain Project, EPF Lausanne, 1015 Lausanne, Switzerland
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Tim P Vogels
1Centre for Neural Circuits and Behaviour, University of Oxford, Oxford OX1 3SR, UK
2Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3QX, UK
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Summary

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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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-ND 4.0 International license.
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Posted June 16, 2016.
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ICGenealogy: Mapping the Function of Neuronal Ion Channels in Model and Experiment
William F Podlaski, Alexander Seeholzer, Lukas N Groschner, Gero Miesenböck, Rajnish Ranjan, Tim P Vogels
bioRxiv 058685; doi: https://doi.org/10.1101/058685
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ICGenealogy: Mapping the Function of Neuronal Ion Channels in Model and Experiment
William F Podlaski, Alexander Seeholzer, Lukas N Groschner, Gero Miesenböck, Rajnish Ranjan, Tim P Vogels
bioRxiv 058685; doi: https://doi.org/10.1101/058685

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