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Resources for Modeling in Computational Neuroscience

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Book cover Hippocampal Microcircuits

Part of the book series: Springer Series in Computational Neuroscience ((NEUROSCI))

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Abstract

Computational models of the nervous system help researchers discover principles of brain operation and form/function relationships. They can provide a framework for understanding empirical data and serve as an experimental platform to test concepts and intuitions. In practice, the effective use of theoretical, computational, and information theoretic approaches requires an ongoing cycle of experiments, data analysis, modeling studies, and model-generated predictions that are tested by further empirical work. This cycle requires that computational scientists be able to build on the work of others. In this chapter, we provide an overview of simulation tools and resources for creating computational models of hippocampal function. First, we outline some of the most widely used software applications for simulating models at various levels of biological detail. We also describe resources that aid in reproducibility by allowing for model sharing and reuse, for portability of models across simulation platforms, and for validation of models against experimental data.

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Acknowledgments

This work was supported in part by the National Institute on Deafness and Other Communication Disorders and the National Institute of Biomedical Imaging and Bioengineering of the National Institutes of Health under award numbers 1F31DC016811 to JB and R01MH106674 to SMC and R01EB021711 to RCG. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.

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Authors and Affiliations

  1. School of Life Sciences, Arizona State University, Tempe, AZ, USA

    Justas Birgiolas & Richard C. Gerkin

  2. School of Mathematical and Statistical Sciences, School of Life Sciences, Arizona State University, Tempe, AZ, USA

    Sharon M. Crook

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  1. Justas Birgiolas
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  2. Sharon M. Crook
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  3. Richard C. Gerkin
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Correspondence to Richard C. Gerkin .

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Editors and Affiliations

  1. School of Computer Science, University of Lincoln, Lincoln, UK

    Vassilis Cutsuridis

  2. School of Natural Sciences, Department of Computing Science and Mathematics, University of Stirling, Stirling, UK

    Bruce P. Graham

  3. Centre for Discovery Brain Sciences, University of Edinburgh, Edinburgh, UK

    Stuart Cobb

  4. Institute for Integrative Neuroanatomy, Charité – Universitätsmedizin Berlin, Berlin, Germany

    Imre Vida

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Birgiolas, J., Crook, S.M., Gerkin, R.C. (2018). Resources for Modeling in Computational Neuroscience. In: Cutsuridis, V., Graham, B., Cobb, S., Vida, I. (eds) Hippocampal Microcircuits. Springer Series in Computational Neuroscience. Springer, Cham. https://doi.org/10.1007/978-3-319-99103-0_24

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