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Building a model of the brain: from detailed connectivity maps to network organization

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Abstract

The field of computational modeling of the brain is advancing so rapidly that now it is possible to model large scale networks representing different brain regions with a high level of biological detail in terms of numbers of neurons and synapses. For a theoretician approaching a neurobiological question, it is important to analyze the pros and cons of each of the models available. Here, we provide a tutorial review on recent models for different brain circuits, which are based on experimentally obtained connectivity maps. We discuss particularities that may be relevant to the modeler when choosing one of the reviewed models. The objective of this review is to give the reader a fair notion of the computational models covered, with emphasis on the corresponding connectivity maps, and how to use them.

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Acknowledgements

This article was produced as part of the S. Paulo Research Foundation (FAPESP) Research, Innovation and Dissemination Center for Neuromathematics (CEPID NeuroMat, Grant No. 2013/07699-0). The authors also thank FAPESP support through Grants No. 2013/25667-8 (R.F.O.P.), 2015/50122-0 and 2018/20277-0 (A.C.R.), 2016/03855-5 (N.L.K.), 2017/07688-9 (R.O.S), and 2018/09150-9 (M.G.-S.). V.L. is supported by a CAPES PhD scholarship. A.C.R. thanks financial support from the National Council of Scientific and Technological Development (CNPq), Grant No. 306251/2014-0. This study was financed in part by the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - Brasil (CAPES) - Finance Code 001.

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Authors and Affiliations

  1. Departamento de Física, FFCLRP, Universidade de São Paulo, Ribeirão Preto, SP, 14040-901, Brazil

    Renan Oliveira Shimoura, Rodrigo F. O. Pena, Vinicius Lima, Nilton L. Kamiji, Mauricio Girardi-Schappo & Antonio C. Roque

  2. Federated Department of Biological Sciences, New Jersey Institute of Technology and Rutgers University, Newark, New Jersey, NJ, USA

    Rodrigo F. O. Pena

  3. Institut de Neurosciences des Systèmes (INS, UMR 1106) Université de Aix-Marseille, Marseille, France

    Vinicius Lima

  4. Department of Physics, University of Ottawa, Ottawa, ON, K1N 6N5, Canada

    Mauricio Girardi-Schappo

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Author Contributions: ROS, RFOP, VL, NLK, MG-S and ACR: Conceived the work; ROS, RFOP, VL, NLK, MG-S and ACR: literature search; ROS, RFOP, VL, NLK, MG-S and ACR: Wrote the manuscript. All authors read and agreed to the published version of the manuscript.

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Shimoura, R.O., Pena, R.F.O., Lima, V. et al. Building a model of the brain: from detailed connectivity maps to network organization. Eur. Phys. J. Spec. Top. 230, 2887–2909 (2021). https://doi.org/10.1140/epjs/s11734-021-00152-7

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