Persistent Identifier
|
doi:10.18419/darus-3575 |
Publication Date
|
2023-11-20 |
Title
| Ion Flow Through Neural Ion Membrane: scripts and data |
Author
| Werneck, Linda (Institute of Applied Mechanics, University of Stuttgart) - ORCID: 0009-0004-1227-6351
Yildiz, Erdost (Physical Intelligence Department, Max Planck Institute for Intelligent Systems) - ORCID: 0000-0001-8086-3524
Han, Mertcan (Physical Intelligence Department, Max Planck Institute for Intelligent Systems) - ORCID: 0000-0002-3543-5894
Keip, Marc-Andre (Institute of Applied Mechanics, University of Stuttgart) - ORCID: 0000-0002-5838-5201
Sitti, Metin (Institute for Biomedical Engineering, ETH Zurich) - ORCID: 0000-0001-8249-3854
Ortiz, Michael (Division of Engineering and Applied Science, California Institute of Technology) - ORCID: 0000-0001-5877-4824 |
Point of Contact
|
Use email button above to contact.
Keip, Marc-Andre (University of Stuttgart)
Werneck, Linda (University of Stuttgart) |
Description
| The scripts and data are related to the numerical implementation of a quantitative model for ion flow through neural ion channels and a validation of the underlying single ion channel flow model for gramicidin A channels. The model is based on the Poisson-Nernst-Planck (PNP) equations for ion transport and is described in the related publication in detail.
Gramicidin A: A PNP based model for ion flow through single ion channels is established. We validate our results with experimental data by Busath et al. [1998] (files "NaCl.xlsx" and "KCl.xlsx") for gramicidin A channels with NaCl and KCl solutions of different concentrations.
Quantitative Model: We extend the single channel model by calibrating it with whole-cell patch clamp in-house experimental data (file "DataPatchClampIV.xlsx"). We refer to the related publication for information on the experimental setup.
See comments in the scripts for further information. |
Subject
| Engineering; Medicine, Health and Life Sciences |
Keyword
| Quantitative Model of Ion Channel Flow https://www.wikidata.org/wiki/Q115902599 (Wikidata)
Electomigration https://www.wikidata.org/wiki/Q1319010 (Wikidata)
Multiscale Modeling https://www.wikidata.org/wiki/Q6935072 (Wikidata)
Ion Channel https://www.wikidata.org/wiki/Q62536 (Wikidata)
Patch Clamp https://www.wikidata.org/wiki/Q176366 (Wikidata) |
Related Publication
| Werneck, L., Han, M., Yildiz, E., Keip, M.-A., Sitti, M., & Ortiz, M. (2023). A Simple Quantitative Model of Neuromodulation, Part I: Ion Flow Through Neural Ion Channels. Journal of the Mechanics and Physics of Solids, 182:105457. doi: 10.1016/j.jmps.2023.105457 https://doi.org/10.1016/j.jmps.2023.105457 |
Language
| English |
Production Date
| 2023-03-01 |
Funding Information
| DFG: 465186293 |
Project
| SPP 2311: Robust coupling of continuum-biomechanical in silico models to establish active biological system models for later use in clinical applications - Co-design of modeling, numerics and usability (Level 0)
Multiscale Modelling of Ultrasound Neuromodulation in the Human Brain - From Neuron to Brain (Level 1) |
Depositor
| Werneck, Linda |
Deposit Date
| 2023-06-22 |
Software
| MATLAB, Version: 9.11.0.1769968 (R2022b) |
Related Material
| Busath, D. D., Thulin, C. D., Hendershot, R. W., Phillips, L. R., Maughan, P., Cole, C. D., ... & Cross, T. A. (1998). Noncontact Dipole Effects on Channel Permeation. I. Experiments with (5F-Indole)Trp13 Gramicidin A Channels. Biophysical Journal, 75(6), 2830-2844. https://doi.org/10.1016/S0006-3495(98)77726-4 |