Visualization of currents in neural models with similar behavior and different conductance densities

  1. Leandro M Alonso  Is a corresponding author
  2. Eve Marder
  1. Brandeis University, United States

Abstract

Conductance-based models of neural activity produce large amounts of data that can be hard to visualize and interpret. We introduce visualization methods to display the dynamics of the ionic currents and to display the models' response to perturbations. To visualize the currents' dynamics we compute the percent contribution of each current and display them over time using stacked-area plots. The waveform of the membrane potential and the contribution of each current change as the models are perturbed. To represent these changes over a range of the perturbation control parameter, we compute and display the distributions of these waveforms. We illustrate these procedures in six examples of bursting model neurons with similar activity but that differ as much as 3-fold in their conductance densities. These visualization methods provide heuristic insight into why individual neurons or networks with similar behavior can respond widely differently to perturbations.

Data availability

All data generated or analysed during this study are included in the manuscript and supporting files. Source data files have been provided for Figures 2 through 15.Data package available in Dryad: doi:10.5061/dryad.d0779mb

The following data sets were generated

Article and author information

Author details

  1. Leandro M Alonso

    Volen Center, Brandeis University, Waltham, United States
    For correspondence
    lalonso@brandeis.edu
    Competing interests
    No competing interests declared.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0001-8211-2855
  2. Eve Marder

    Volen Center, Brandeis University, Waltham, United States
    Competing interests
    Eve Marder, Senior editor, eLife.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0001-9632-5448

Funding

National Institutes of Health (R35 NS097343)

  • Eve Marder

Swartz Foundation (2017)

  • Leandro M Alonso

National Institutes of Health (MH046742)

  • Eve Marder

National Institutes of Health (T32 NS07292)

  • Leandro M Alonso

The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.

Reviewing Editor

  1. Frances K Skinner, Krembil Research Institute, University Health Network, Canada

Version history

  1. Received: October 9, 2018
  2. Accepted: January 29, 2019
  3. Accepted Manuscript published: January 31, 2019 (version 1)
  4. Version of Record published: February 28, 2019 (version 2)

Copyright

© 2019, Alonso & Marder

This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.

Metrics

  • 3,207
    views
  • 491
    downloads
  • 52
    citations

Views, downloads and citations are aggregated across all versions of this paper published by eLife.

Download links

A two-part list of links to download the article, or parts of the article, in various formats.

Downloads (link to download the article as PDF)

Open citations (links to open the citations from this article in various online reference manager services)

Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)

  1. Leandro M Alonso
  2. Eve Marder
(2019)
Visualization of currents in neural models with similar behavior and different conductance densities
eLife 8:e42722.
https://doi.org/10.7554/eLife.42722

Share this article

https://doi.org/10.7554/eLife.42722

Further reading

    1. Neuroscience
    Songyao Zhang, Tuo Zhang ... Tianming Liu
    Research Article

    Cortical folding is an important feature of primate brains that plays a crucial role in various cognitive and behavioral processes. Extensive research has revealed both similarities and differences in folding morphology and brain function among primates including macaque and human. The folding morphology is the basis of brain function, making cross-species studies on folding morphology important for understanding brain function and species evolution. However, prior studies on cross-species folding morphology mainly focused on partial regions of the cortex instead of the entire brain. Previously, our research defined a whole-brain landmark based on folding morphology: the gyral peak. It was found to exist stably across individuals and ages in both human and macaque brains. Shared and unique gyral peaks in human and macaque are identified in this study, and their similarities and differences in spatial distribution, anatomical morphology, and functional connectivity were also dicussed.

    1. Neuroscience
    Avani Koparkar, Timothy L Warren ... Lena Veit
    Research Article

    Complex skills like speech and dance are composed of ordered sequences of simpler elements, but the neuronal basis for the syntactic ordering of actions is poorly understood. Birdsong is a learned vocal behavior composed of syntactically ordered syllables, controlled in part by the songbird premotor nucleus HVC (proper name). Here, we test whether one of HVC’s recurrent inputs, mMAN (medial magnocellular nucleus of the anterior nidopallium), contributes to sequencing in adult male Bengalese finches (Lonchura striata domestica). Bengalese finch song includes several patterns: (1) chunks, comprising stereotyped syllable sequences; (2) branch points, where a given syllable can be followed probabilistically by multiple syllables; and (3) repeat phrases, where individual syllables are repeated variable numbers of times. We found that following bilateral lesions of mMAN, acoustic structure of syllables remained largely intact, but sequencing became more variable, as evidenced by ‘breaks’ in previously stereotyped chunks, increased uncertainty at branch points, and increased variability in repeat numbers. Our results show that mMAN contributes to the variable sequencing of vocal elements in Bengalese finch song and demonstrate the influence of recurrent projections to HVC. Furthermore, they highlight the utility of species with complex syntax in investigating neuronal control of ordered sequences.