Dataset Information

PyPNS: Multiscale Simulation of a Peripheral Nerve in Python.

ABSTRACT: Bioelectronic Medicines that modulate the activity patterns on peripheral nerves have promise as a new way of treating diverse medical conditions from epilepsy to rheumatism. Progress in the field builds upon time consuming and expensive experiments in living organisms. To reduce experimentation load and allow for a faster, more detailed analysis of peripheral nerve stimulation and recording, computational models incorporating experimental insights will be of great help. We present a peripheral nerve simulator that combines biophysical axon models and numerically solved and idealised extracellular space models in one environment. We modelled the extracellular space as a three-dimensional resistive continuum governed by the electro-quasistatic approximation of the Maxwell equations. Potential distributions were precomputed in finite element models for different media (homogeneous, nerve in saline, nerve in cuff) and imported into our simulator. Axons, on the other hand, were modelled more abstractly as one-dimensional chains of compartments. Unmyelinated fibres were based on the Hodgkin-Huxley model; for myelinated fibres, we adapted the model proposed by McIntyre et al. in 2002 to smaller diameters. To obtain realistic axon shapes, an iterative algorithm positioned fibres along the nerve with a variable tortuosity fit to imaged trajectories. We validated our model with data from the stimulated rat vagus nerve. Simulation results predicted that tortuosity alters recorded signal shapes and increases stimulation thresholds. The model we developed can easily be adapted to different nerves, and may be of use for Bioelectronic Medicine research in the future.

SUBMITTER: Lubba CH

PROVIDER: S-EPMC6394768 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature

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PyPNS: Multiscale Simulation of a Peripheral Nerve in Python.

Lubba Carl H CH Le Guen Yann Y Jarvis Sarah S Jones Nick S NS Cork Simon C SC Eftekhar Amir A Schultz Simon R SR

Neuroinformatics 20190101 1

Bioelectronic Medicines that modulate the activity patterns on peripheral nerves have promise as a new way of treating diverse medical conditions from epilepsy to rheumatism. Progress in the field builds upon time consuming and expensive experiments in living organisms. To reduce experimentation load and allow for a faster, more detailed analysis of peripheral nerve stimulation and recording, computational models incorporating experimental insights will be of great help. We present a peripheral ...[more]

PMID: 29948844

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Project description:Peripheral nerve stimulation (PNS) has become an important limitation for fast MR imaging using the latest gradient hardware. We have recently developed a simulation framework to predict PNS thresholds and stimulation locations in the body for arbitrary coil geometries to inform the gradient coil optimization process. Our approach couples electromagnetic field simulations in realistic body models to a neurodynamic model of peripheral nerve fibers. In this work, we systematically analyze the impact of key parameters on the predicted PNS thresholds to assess the robustness of the simulation results. We analyze the sensitivity of the simulated thresholds to variations of the most important simulation parameters, including parameters of the electromagnetic field simulations (dielectric tissue properties, body model size, position, spatial resolution, and coil model discretization) and parameters of the neurodynamic simulation (length of the simulated nerves, position of the nerve model relative to the extracellular potential, temporal resolution of the nerve membrane dynamics). We found that for the investigated setup, the subject-dependent parameters (e.g. tissue properties or body size) can affect PNS prediction by up to ~26% when varied in a natural range. This is in accordance with the standard deviation of ~30% reported in human subject studies. Parameters related to numerical aspects can cause significant simulation errors (>30%), if not chosen cautiously. However, these perturbations can be controlled to yield errors below 5% for all investigated parameters without an excessive increase in computation time. Our sensitivity analysis shows that patient-specific parameter fluctuations yield PNS threshold variations similar to the variations observed in experimental PNS studies. This may become useful to estimate population-average PNS thresholds and understand their standard deviation. Our analysis indicates that the simulated PNS thresholds are numerically robust, which is important for ranking different MRI gradient coil designs or assessing different PNS mitigation strategies.

Dataset Information

PyPNS: Multiscale Simulation of a Peripheral Nerve in Python.

Publications

PyPNS: Multiscale Simulation of a Peripheral Nerve in Python.

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