Encyclopedia of Computational Neuroscience

Living Edition
| Editors: Dieter Jaeger, Ranu Jung

NeuroML

  • Sharon Crook
  • Padraig Gleeson
  • Robert Cannon
  • Michael Vella
  • Angus Silver
Living reference work entry
DOI: https://doi.org/10.1007/978-1-4614-7320-6_96-1

Definition

NeuroML (Goddard et al. 2001; Crook et al. 2007; Gleeson et al. 2010) is an international, collaborative initiative to develop a declarative language for describing detailed models of neurons, neuronal networks, and neural systems.

Detailed Description

Computational modeling is an important tool in the study of the complexity of neural dynamics. However, existing simulation environments, tools for neuroanatomical analysis, and data analysis tools use a variety of data formats, making it difficult to exchange models or reproduce computational studies. The NeuroML project was initiated to address these issues. As outlined on the website at http://www.neuroml.org, the main aims of the NeuroML initiative are:
  1. 1.

    To create the specifications that define an XML language for describing the biophysical properties, anatomy, and network architecture of neuronal systems at multiple spatial scales

     
  2. 2.

    To provide greater transparency and accessibility of models, facilitating the...

Keywords

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References

  1. Cannon R, Gleeson P, Crook S, Silver RA (2013) Reducing duplication and redundancy in declarative model specifications. Front Neuroinform. doi:10.3389/conf.fninf.2013.08.00008Google Scholar
  2. Crook S, Gleeson P, Howell F, Svitak J, Silver RA (2007) MorphML: level 1 of the NeuroML standards for neuronal morphology data and model specification. Neuroinformatics 5:96–104PubMedCrossRefGoogle Scholar
  3. Gardner D, Knuth KH, Abato M, Erde SM, White T, DeBellis R, Gardner E (2001) Common data model for neuroscience data and data model exchange. J Am Med Inform Assoc 8(1):17–33PubMedCentralPubMedCrossRefGoogle Scholar
  4. Gleeson P, Crook S, Cannon RC, Hines ML, Billings GO, Farinella M, Morse TM, Davison AP, Ray S, Bhalla US, Barnes SR, Dimitrova YD, Silver RA (2010) NeuroML: a language for describing data driven models of neurons and networks with a high degree of biological detail. PLoS Comput Biol 6(6):e1000815PubMedCentralPubMedCrossRefGoogle Scholar
  5. Goddard N, Hucka M, Howell F, Cornelis H, Shankar K, Beeman D (2001) NeuroML: model description methods for collaborative modeling in neuroscience. Philos Trans R Soc Lond B Biol Sci 356:1209–1228PubMedCentralPubMedCrossRefGoogle Scholar
  6. Qi W, Crook S (2004) Tools for neuroinformatic data exchange: an XML application for neuronal morphology data. Neurocomputing 58-60C:1091–1095CrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media New York 2014

Authors and Affiliations

  • Sharon Crook
    • 1
  • Padraig Gleeson
    • 2
  • Robert Cannon
    • 3
  • Michael Vella
    • 4
  • Angus Silver
    • 2
  1. 1.School of Mathematical and Statistical Sciences & School of Life SciencesArizona State UniversityTempeUSA
  2. 2.Department of Neuroscience, Physiology and PharmacologyUniversity College LondonLondonUK
  3. 3.Textensor LimitedEdinburghUK
  4. 4.Department of Physiology, Development and NeuroscienceUniversity of CambridgeCambridgeUSA